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221 rows where experiment.library_selection = "Oligo-dT", experiment.library_strategy = "RNA-Seq" and tissue_curation_coarse = "Nervous System"

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devstage_curation_coarse 5

devstage_curation 5

technology 4

tissue_curation 3

experiment.platform 2

experiment.library_source 2

experiment.library_layout 2

tissue_curation_coarse 1

  • Nervous System · 221 ✖

experiment.library_strategy 1

  • RNA-Seq · 221 ✖

experiment.library_selection 1

  • Oligo-dT · 221 ✖
Link rowid ▼ run.accession experiment.accession sample.accession study.accession bioproject study.title study.alias study.type study.abstract study.attributes study.PMIDs sample.description sample.title sample.alias sample.centername sample.attributes GEOsample.title GEOsample.dataprocessing GEOsample.source GEOsample.treatmentprotocol GEOsample.extractprotocol GEOsample.growthprotocol GEOsample.characteristics GEOsample.accession experiment.title experiment.alias experiment.library_name experiment.design_description experiment.library_construction_protocol experiment.attributes experiment.library_strategy experiment.library_source experiment.library_selection experiment.library_layout experiment.platform experiment.instrument_model experiment.spot_descriptor experiment.study_ref run.title run.attributes run.filename run.semantic_name run.total_bases run.total_spots run.alias run.read_lengths run.base_counts run.r1_length run.r2_length run.r3_length run.r4_length run.Acount run.Ccount run.Gcount run.Tcount run.Ncount run.experiment run.pool_member submission.accession submission.srasource submission.bioprojectsource seqdetective.n_mates seqdetective.mapping_rate.mate1 seqdetective.mapping_rate.mate2 seqdetective.nofeature_rate.mate1 seqdetective.nofeature_rate.mate2 seqdetective.sparsity.mate1 seqdetective.sparsity.mate2 seqdetective.pos_strand_rate.mate1 seqdetective.pos_strand_rate.mate2 seqdetective.readlen.mate1 seqdetective.readlen.mate2 seqdetective.judgement.mate1 seqdetective.judgement.mate2 seqdetective.judgement.reason platform_family instrument_generation read_bias selection_class prep_kit sc_or_bulk tech_class technology tech_variant submission.bioprojectsource.country earliest_date devstage_curation devstage_curation_coarse tissue_curation tissue_curation_coarse
9356 9356 ERR2983452 ERX2986068 ERS2955656 ERP112513 PRJEB30097 RNA Seq of Danionine species E-MTAB-7476 Transcriptome Analysis Tissues specific transcriptomes of Danio rerio Danio albolineatus and Danio aesculapii Brain Liver and Gonads. ENA FIRST PUBLIC:2018 12 05|ENA LAST UPDATE:2018 12 05   Protocols: Organs were sampled and snap frozen in liquid nitrogen RNA was extracted using Trizol and standard silica membrane protocol Library was constructed using magnetic beads dT to enrich mRNA. post fragmentation the cDNA was synthesized using the mRNA fragments as templates with random hexamer primers. R3wB SAMEA5147911 University of Hamburg, Institute of Zoology, Molecular Animal Physiology ENA FIRST PUBLIC:2018 12 05T17:02:27Z|ENA LAST UPDATE:2018 12 05T10:01:48Z|External Id:SAMEA5147911|INSDC center name:University of Hamburg Institute of Zoology Molecular Animal Physiology|INSDC first public:2018 12 05T17:02:27Z|INSDC last update:2018 12 05T10:01:48Z|INSDC status:public|Submitter Id:E MTAB 7476:R3wB|age:3|broker name:ArrayExpress|common name:zebrafish|developmental stage:adult|genotype:wild type genotype|individual:3|organism part:brain|sample name:E MTAB 7476:R3wB|scientific name:Danio rerio|sex:female|strain:tu                 Illumina HiSeq 4000 paired end sequencing; RNA Seq of Danio9 species E MTAB 7476:R3wB p R3wB p RNA Seq of Danionine species Organs were sampled and snap frozen in liquid nitrogen RNA was extracted using Trizol and standard silica membrane protocol Library was constructed using magnetic beads dT to enrich mRNA. post fragmentation the cDNA was synthesized using the mRNA fragments as templates with random hexamer primers. Experimental Factor: organism:Danio rerio|Experimental Factor: organism part:brain RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina HiSeq 4000 <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>200</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_LABEL>F</READ_LABEL><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_LABEL>R</READ_LABEL><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>101</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR> ERP112513 Illumina HiSeq 4000 paired end sequencing; RNA Seq of Danionine species ENA FIRST PUBLIC:2018 12 05|ENA LAST UPDATE:2018 12 05 FCHNW2WBBXX_L6_HKZEBodsEAABRAAPEI-205_1.fq.gz FCHNW2WBBXX_L6_HKZEBodsEAABRAAPEI-205_2.fq.gz fastq fastq 3622698000.0 18113490.0 E MTAB 7476:FCHNW2WBBXX L6 HKZEBodsEAABRAAPEI 205 0:100 1:100 A:988454110;C:825179148;G:816134465;T:992141776;N:788501 100 100     988454110 825179148 816134465 992141776 788501 ERX2986068 ERS2955656 ERA1674470 University of Hamburg, Institute of Zoology, Molecular Animal Physiology|European Nucleotide Archive University of Hamburg, Institute of Zoology, Molecular Animal Physiology|European Nucleotide Archive 2 0.9287 0.92856 0.14723 0.14721 0.6928 0.69469 0.4956 0.49616 100 100 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   Germany 2018-12-05 Adult Adult Brain Nervous System
9360 9360 ERR2983448 ERX2986064 ERS2955652 ERP112513 PRJEB30097 RNA Seq of Danionine species E-MTAB-7476 Transcriptome Analysis Tissues specific transcriptomes of Danio rerio Danio albolineatus and Danio aesculapii Brain Liver and Gonads. ENA FIRST PUBLIC:2018 12 05|ENA LAST UPDATE:2018 12 05   Protocols: Organs were sampled and snap frozen in liquid nitrogen RNA was extracted using Trizol and standard silica membrane protocol Library was constructed using magnetic beads dT to enrich mRNA. post fragmentation the cDNA was synthesized using the mRNA fragments as templates with random hexamer primers. R1wB SAMEA5147907 University of Hamburg, Institute of Zoology, Molecular Animal Physiology ENA FIRST PUBLIC:2018 12 05T17:02:27Z|ENA LAST UPDATE:2018 12 05T10:01:48Z|External Id:SAMEA5147907|INSDC center name:University of Hamburg Institute of Zoology Molecular Animal Physiology|INSDC first public:2018 12 05T17:02:27Z|INSDC last update:2018 12 05T10:01:48Z|INSDC status:public|Submitter Id:E MTAB 7476:R1wB|age:3|broker name:ArrayExpress|common name:zebrafish|developmental stage:adult|genotype:wild type genotype|individual:1|organism part:brain|sample name:E MTAB 7476:R1wB|scientific name:Danio rerio|sex:female|strain:tu                 Illumina HiSeq 4000 paired end sequencing; RNA Seq of Danio9 species E MTAB 7476:R1wB p R1wB p RNA Seq of Danionine species Organs were sampled and snap frozen in liquid nitrogen RNA was extracted using Trizol and standard silica membrane protocol Library was constructed using magnetic beads dT to enrich mRNA. post fragmentation the cDNA was synthesized using the mRNA fragments as templates with random hexamer primers. Experimental Factor: organism:Danio rerio|Experimental Factor: organism part:brain RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina HiSeq 4000 <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>200</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_LABEL>F</READ_LABEL><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_LABEL>R</READ_LABEL><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>101</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR> ERP112513 Illumina HiSeq 4000 paired end sequencing; RNA Seq of Danionine species ENA FIRST PUBLIC:2018 12 05|ENA LAST UPDATE:2018 12 05 FCHNW2WBBXX_L6_HKZEBodsEAAARAAPEI-202_1.fq.gz FCHNW2WBBXX_L6_HKZEBodsEAAARAAPEI-202_2.fq.gz fastq fastq 3345687800.0 16728439.0 E MTAB 7476:FCHNW2WBBXX L6 HKZEBodsEAAARAAPEI 202 0:100 1:100 A:879841532;C:789462135;G:789187239;T:886468300;N:728594 100 100     879841532 789462135 789187239 886468300 728594 ERX2986064 ERS2955652 ERA1674470 University of Hamburg, Institute of Zoology, Molecular Animal Physiology|European Nucleotide Archive University of Hamburg, Institute of Zoology, Molecular Animal Physiology|European Nucleotide Archive 2 0.96514 0.96503 0.0325 0.0326 0.78967 0.79204 0.25943 0.26683 100 100 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   Germany 2018-12-05 Adult Adult Brain Nervous System
10176 10176 ERR5858457 ERX5504346 ERS6343450 ERP128749 PRJEB44676 scRNAseq of her4.3+ cells from lesioned and unlesioned zebrafish larvae spinal cord E-MTAB-10390 Transcriptome Analysis To analyse lesion induced gene regulation in progenitor cells at single cell resolution we performed single cell RNAseq on FACS isolated her4.3:GFP progenitor cells from the spinal cord at 24 hours post lesion hpl post spinal injury at 3 dpf dpf compared to age matched uninjured animals. ENA FIRST PUBLIC:2021 05 24|ENA LAST UPDATE:2021 05 24   Protocols: Trunks containing the lesion sites or equivalent site from unlesioned fish are collected and kept in PBS on ice.Incubate the trunks up to 300 in 1 mL of 1X Trypsin EDTA at 37C for 5 7 mins.Stop dissociation by adding FBS to a final concentration of 5%.Centrifuge at 200g for 7 mins.Discard Sups.Resuspend in 500 uL of PBS.Add the cell suspension into a 40 uM cell strainer.Centrifuge at 200g for 7 mins.Resuspend in the buffer for FACS PBS 5% FBS Following cell dissociation and FAC sorting samples were processed on the 10X Chromium platform using 10X Single Cell three prime v3 chemistry following the manufacturer's guidelines Following cell dissociation and FAC sorting samples were processed on the 10X Chromium platform using 10X Single Cell three prime v3 chemistry following the manufacturer's guidelines. Naive SAMEA8658904 University Of Edinburgh ENA first public:2021 05 24|ENA last update:2021 05 24|External Id:SAMEA8658904|INSDC center alias:UOE|INSDC center name:University Of Edinburgh|INSDC first public:2021 05 24T00:14:32Z|INSDC last update:2021 05 24T00:14:32Z|INSDC status:public|Submitter Id:E MTAB 10390:Naive|age:4|broker name:ArrayExpress|cell type:ependymo radial glial cell|common name:zebrafish|developmental stage:larval day 4|immunophenotype:Her4.3+ positive|organism part:spinal cord|sample name:E MTAB 10390:Naive|sex:mixed|strain:WIK                 Illumina NovaSeq 6000 paired end sequencing; scRNAseq of her4.3+ cells from lesi1d and unlesi1d zebrafish larvae spinal cord E MTAB 10390:Naive p Naive p scRNAseq of her4.3+ cells from lesioned and unlesioned zebrafish larvae spinal cord Trunks containing the lesion sites or equivalent site from unlesioned fish are collected and kept in PBS on ice.Incubate the trunks up to 300 in 1 mL of 1X Trypsin EDTA at 37C for 5 7 mins.Stop dissociation by adding FBS to a final concentration of 5%.Centrifuge at 200g for 7 mins.Discard Sups.Resuspend in 500 uL of PBS.Add the cell suspension into a 40 uM cell strainer.Centrifuge at 200g for 7 mins.Resuspend in the buffer for FACS PBS 5% FBS Following cell dissociation and FAC sorting samples were processed on the 10X Chromium platform using 10X Single Cell three prime v3 chemistry following the manufacturer's guidelines Following cell dissociation and FAC sorting samples were processed on the 10X Chromium platform using 10X Single Cell three prime v3 chemistry following the manufacturer's guidelines. Experimental Factor: injury:n1 RNA-Seq TRANSCRIPTOMIC SINGLE CELL Oligo-dT PAIRED ILLUMINA Illumina NovaSeq 6000   ERP128749 Illumina NovaSeq 6000 paired end sequencing; scRNAseq of her4.3+ cells from lesioned and unlesioned zebrafish larvae spinal cord ENA FIRST PUBLIC:2021 05 24|ENA LAST UPDATE:2021 05 24 Naive.bam bam 44972162730.0 499690697.0 E MTAB 10390:Naive 0:90 A:13658826375;C:8733304343;G:9348137569;T:13228064343;N:3830100 90       13658826375 8733304343 9348137569 13228064343 3830100 ERX5504346 ERS6343450 ERA4142789 University Of Edinburgh|European Nucleotide Archive University Of Edinburgh|European Nucleotide Archive 1 0.89428   0.32693   0.75276   0.5314   90   B   usable mapping rate illumina novaseq_era unknown poly_a unknown sc single_cell_droplet 10x   United Kingdom 2021-05-24 Larval Larval Spinal Cord Nervous System
10177 10177 ERR5858456 ERX5504345 ERS6343449 ERP128749 PRJEB44676 scRNAseq of her4.3+ cells from lesioned and unlesioned zebrafish larvae spinal cord E-MTAB-10390 Transcriptome Analysis To analyse lesion induced gene regulation in progenitor cells at single cell resolution we performed single cell RNAseq on FACS isolated her4.3:GFP progenitor cells from the spinal cord at 24 hours post lesion hpl post spinal injury at 3 dpf dpf compared to age matched uninjured animals. ENA FIRST PUBLIC:2021 05 24|ENA LAST UPDATE:2021 05 24   Protocols: Trunks containing the lesion sites or equivalent site from unlesioned fish are collected and kept in PBS on ice.Incubate the trunks up to 300 in 1 mL of 1X Trypsin EDTA at 37C for 5 7 mins.Stop dissociation by adding FBS to a final concentration of 5%.Centrifuge at 200g for 7 mins.Discard Sups.Resuspend in 500 uL of PBS.Add the cell suspension into a 40 uM cell strainer.Centrifuge at 200g for 7 mins.Resuspend in the buffer for FACS PBS 5% FBS Following cell dissociation and FAC sorting samples were processed on the 10X Chromium platform using 10X Single Cell three prime v3 chemistry following the manufacturer's guidelines Following cell dissociation and FAC sorting samples were processed on the 10X Chromium platform using 10X Single Cell three prime v3 chemistry following the manufacturer's guidelines. Lesi1d SAMEA8658903 University Of Edinburgh ENA first public:2021 05 24|ENA last update:2021 05 24|External Id:SAMEA8658903|INSDC center alias:UOE|INSDC center name:University Of Edinburgh|INSDC first public:2021 05 24T00:14:32Z|INSDC last update:2021 05 24T00:14:32Z|INSDC status:public|Submitter Id:E MTAB 10390:Lesi1d|age:4|broker name:ArrayExpress|cell type:ependymo radial glial cell|common name:zebrafish|developmental stage:larval day 4|immunophenotype:Her4.3+ positive|injury:spinal injury lesion|organism part:spinal cord|sample name:E MTAB 10390:Lesi1d|sex:mixed|strain:WIK                 Illumina NovaSeq 6000 paired end sequencing; scRNAseq of her4.3+ cells from lesi1d and unlesi1d zebrafish larvae spinal cord E MTAB 10390:Lesioned p Lesioned p scRNAseq of her4.3+ cells from lesioned and unlesioned zebrafish larvae spinal cord Trunks containing the lesion sites or equivalent site from unlesioned fish are collected and kept in PBS on ice.Incubate the trunks up to 300 in 1 mL of 1X Trypsin EDTA at 37C for 5 7 mins.Stop dissociation by adding FBS to a final concentration of 5%.Centrifuge at 200g for 7 mins.Discard Sups.Resuspend in 500 uL of PBS.Add the cell suspension into a 40 uM cell strainer.Centrifuge at 200g for 7 mins.Resuspend in the buffer for FACS PBS 5% FBS Following cell dissociation and FAC sorting samples were processed on the 10X Chromium platform using 10X Single Cell three prime v3 chemistry following the manufacturer's guidelines Following cell dissociation and FAC sorting samples were processed on the 10X Chromium platform using 10X Single Cell three prime v3 chemistry following the manufacturer's guidelines. Experimental Factor: injury:spinal injury lesion RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina NovaSeq 6000   ERP128749 Illumina NovaSeq 6000 paired end sequencing; scRNAseq of her4.3+ cells from lesioned and unlesioned zebrafish larvae spinal cord ENA FIRST PUBLIC:2021 05 24|ENA LAST UPDATE:2021 05 24 Lesioned.bam bam 49902588630.0 554473207.0 E MTAB 10390:Lesioned 0:90 A:14713351178;C:10191139050;G:10897887675;T:14095967201;N:4243526 90       14713351178 10191139050 10897887675 14095967201 4243526 ERX5504345 ERS6343449 ERA4142789 University Of Edinburgh|European Nucleotide Archive University Of Edinburgh|European Nucleotide Archive 1 0.91197   0.29137   0.7568   0.56523   90   B   usable mapping rate illumina novaseq_era unknown poly_a unknown sc single_cell_droplet 10x   United Kingdom 2021-05-24 Larval Larval Spinal Cord Nervous System
10237 10237 ERR7131169 ERX6698608 ERS8070397 ERP132560 PRJEB48218 Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E-MTAB-11083 Transcriptome Analysis To investigate the effects of rabies infection on neuronal gene expression we compared gene profiles of rabies infected and non infected GABAergic neurons in the Zebrafish olfactory bulb. ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07   Protocols: EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. F8 Nega SAMEA10418613 Friedrich Miescher Institute for Biomedical Research ENA first public:2021 12 01|ENA last update:2021 12 01|External Id:SAMEA10418613|INSDC center alias:Friedrich Miescher Institute for Biomedical Research|INSDC center name:Friedrich Miescher Institute for Biomedical Research|INSDC first public:2021 12 01T00:23:59Z|INSDC last update:2021 12 01T00:23:59Z|INSDC status:public|Submitter Id:E MTAB 11083:F8 Nega|age:9|broker name:ArrayExpress|cell type:GABAergic neuron|common name:zebrafish|developmental stage:adult|fraction:mCherry /GFP |genotype:Tg[gad1b:Gal4 UAS:TVA mCherry]|individual:pool 8|organism part:olfactory bulb|sample name:E MTAB 11083:F8 Nega|sex:mixed|stimulus:injected with EnvA RV GFP|strain:Ab x Tu x TL x WIK                 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E MTAB 11083:F8 Nega s F8 Nega s Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. Experimental Factor: fraction:mCherry /GFP RNA-Seq TRANSCRIPTOMIC Oligo-dT SINGLE ILLUMINA Illumina HiSeq 2500   ERP132560 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07 2874F22-1_210715_D00404_0538_BCD91CANXX_TCGACGTC-CTAAGCCT_L006_R1_001.fastq.gz fastq 658093749.0 12903799.0 E MTAB 11083:2874F22 1 210715 D00404 0538 BCD91CANXX TCGACGTC CTAAGCCT L006 0:51 1:0 A:173355262;C:152464129;G:147489024;T:184739885;N:45449 51 0     173355262 152464129 147489024 184739885 45449 ERX6698608 ERS8070397 ERA6757553 Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive 1 0.78328   0.15147   0.71289   0.53671   51   B   usable mapping rate illumina hiseq_era unknown poly_a nextera sc single_cell_plate smartseq   Switzerland 2021-12-01 Adult Adult Brain Nervous System
10238 10238 ERR7131170 ERX6698608 ERS8070397 ERP132560 PRJEB48218 Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E-MTAB-11083 Transcriptome Analysis To investigate the effects of rabies infection on neuronal gene expression we compared gene profiles of rabies infected and non infected GABAergic neurons in the Zebrafish olfactory bulb. ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07   Protocols: EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. F8 Nega SAMEA10418613 Friedrich Miescher Institute for Biomedical Research ENA first public:2021 12 01|ENA last update:2021 12 01|External Id:SAMEA10418613|INSDC center alias:Friedrich Miescher Institute for Biomedical Research|INSDC center name:Friedrich Miescher Institute for Biomedical Research|INSDC first public:2021 12 01T00:23:59Z|INSDC last update:2021 12 01T00:23:59Z|INSDC status:public|Submitter Id:E MTAB 11083:F8 Nega|age:9|broker name:ArrayExpress|cell type:GABAergic neuron|common name:zebrafish|developmental stage:adult|fraction:mCherry /GFP |genotype:Tg[gad1b:Gal4 UAS:TVA mCherry]|individual:pool 8|organism part:olfactory bulb|sample name:E MTAB 11083:F8 Nega|sex:mixed|stimulus:injected with EnvA RV GFP|strain:Ab x Tu x TL x WIK                 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E MTAB 11083:F8 Nega s F8 Nega s Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. Experimental Factor: fraction:mCherry /GFP RNA-Seq TRANSCRIPTOMIC Oligo-dT SINGLE ILLUMINA Illumina HiSeq 2500   ERP132560 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07 2874F22-2_210715_D00404_0538_BCD91CANXX_TCGACGTC-CTAAGCCT_L007_R1_001.fastq.gz fastq 661103769.0 12962819.0 E MTAB 11083:2874F22 2 210715 D00404 0538 BCD91CANXX TCGACGTC CTAAGCCT L007 0:51 1:0 A:174223249;C:153223284;G:148276805;T:185335092;N:45339 51 0     174223249 153223284 148276805 185335092 45339 ERX6698608 ERS8070397 ERA6757553 Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive 1 0.78539   0.15054   0.70897   0.5322   51   B   usable mapping rate illumina hiseq_era unknown poly_a nextera sc single_cell_plate smartseq   Switzerland 2021-12-01 Adult Adult Brain Nervous System
10239 10239 ERR7131167 ERX6698607 ERS8070396 ERP132560 PRJEB48218 Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E-MTAB-11083 Transcriptome Analysis To investigate the effects of rabies infection on neuronal gene expression we compared gene profiles of rabies infected and non infected GABAergic neurons in the Zebrafish olfactory bulb. ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07   Protocols: EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. F8 mCherry GFP SAMEA10418612 Friedrich Miescher Institute for Biomedical Research ENA first public:2021 12 01|ENA last update:2021 12 01|External Id:SAMEA10418612|INSDC center alias:Friedrich Miescher Institute for Biomedical Research|INSDC center name:Friedrich Miescher Institute for Biomedical Research|INSDC first public:2021 12 01T00:23:59Z|INSDC last update:2021 12 01T00:23:59Z|INSDC status:public|Submitter Id:E MTAB 11083:F8 mCherry GFP|age:9|broker name:ArrayExpress|cell type:GABAergic neuron|common name:zebrafish|developmental stage:adult|fraction:mCherry+/GFP+|genotype:Tg[gad1b:Gal4 UAS:TVA mCherry]|individual:pool 8|organism part:olfactory bulb|sample name:E MTAB 11083:F8 mCherry GFP|sex:mixed|stimulus:injected with EnvA RV GFP|strain:Ab x Tu x TL x WIK                 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E MTAB 11083:F8 mCherry GFP s F8 mCherry GFP s Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. Experimental Factor: fraction:mCherry+/GFP+ RNA-Seq TRANSCRIPTOMIC Oligo-dT SINGLE ILLUMINA Illumina HiSeq 2500   ERP132560 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07 2874F24-1_210715_D00404_0538_BCD91CANXX_TCGACGTC-TCTCTCCG_L006_R1_001.fastq.gz fastq 693183636.0 13591836.0 E MTAB 11083:2874F24 1 210715 D00404 0538 BCD91CANXX TCGACGTC TCTCTCCG L006 0:51 1:0 A:183977687;C:159275153;G:153149826;T:196732022;N:48948 51 0     183977687 159275153 153149826 196732022 48948 ERX6698607 ERS8070396 ERA6757553 Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive 1 0.68942   0.15593   0.75828   0.51858   51   B   usable mapping rate illumina hiseq_era unknown poly_a nextera sc single_cell_plate smartseq   Switzerland 2021-12-01 Adult Adult Brain Nervous System
10240 10240 ERR7131168 ERX6698607 ERS8070396 ERP132560 PRJEB48218 Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E-MTAB-11083 Transcriptome Analysis To investigate the effects of rabies infection on neuronal gene expression we compared gene profiles of rabies infected and non infected GABAergic neurons in the Zebrafish olfactory bulb. ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07   Protocols: EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. F8 mCherry GFP SAMEA10418612 Friedrich Miescher Institute for Biomedical Research ENA first public:2021 12 01|ENA last update:2021 12 01|External Id:SAMEA10418612|INSDC center alias:Friedrich Miescher Institute for Biomedical Research|INSDC center name:Friedrich Miescher Institute for Biomedical Research|INSDC first public:2021 12 01T00:23:59Z|INSDC last update:2021 12 01T00:23:59Z|INSDC status:public|Submitter Id:E MTAB 11083:F8 mCherry GFP|age:9|broker name:ArrayExpress|cell type:GABAergic neuron|common name:zebrafish|developmental stage:adult|fraction:mCherry+/GFP+|genotype:Tg[gad1b:Gal4 UAS:TVA mCherry]|individual:pool 8|organism part:olfactory bulb|sample name:E MTAB 11083:F8 mCherry GFP|sex:mixed|stimulus:injected with EnvA RV GFP|strain:Ab x Tu x TL x WIK                 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E MTAB 11083:F8 mCherry GFP s F8 mCherry GFP s Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. Experimental Factor: fraction:mCherry+/GFP+ RNA-Seq TRANSCRIPTOMIC Oligo-dT SINGLE ILLUMINA Illumina HiSeq 2500   ERP132560 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07 2874F24-2_210715_D00404_0538_BCD91CANXX_TCGACGTC-TCTCTCCG_L007_R1_001.fastq.gz fastq 696648678.0 13659778.0 E MTAB 11083:2874F24 2 210715 D00404 0538 BCD91CANXX TCGACGTC TCTCTCCG L007 0:51 1:0 A:184971832;C:160126524;G:154012023;T:197490098;N:48201 51 0     184971832 160126524 154012023 197490098 48201 ERX6698607 ERS8070396 ERA6757553 Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive 1 0.6906   0.15634   0.75909   0.51346   51   B   usable mapping rate illumina hiseq_era unknown poly_a nextera sc single_cell_plate smartseq   Switzerland 2021-12-01 Adult Adult Brain Nervous System
10241 10241 ERR7131165 ERX6698606 ERS8070395 ERP132560 PRJEB48218 Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E-MTAB-11083 Transcriptome Analysis To investigate the effects of rabies infection on neuronal gene expression we compared gene profiles of rabies infected and non infected GABAergic neurons in the Zebrafish olfactory bulb. ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07   Protocols: EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. F8 mCherry SAMEA10418611 Friedrich Miescher Institute for Biomedical Research ENA first public:2021 12 01|ENA last update:2021 12 01|External Id:SAMEA10418611|INSDC center alias:Friedrich Miescher Institute for Biomedical Research|INSDC center name:Friedrich Miescher Institute for Biomedical Research|INSDC first public:2021 12 01T00:23:59Z|INSDC last update:2021 12 01T00:23:59Z|INSDC status:public|Submitter Id:E MTAB 11083:F8 mCherry|age:9|broker name:ArrayExpress|cell type:GABAergic neuron|common name:zebrafish|developmental stage:adult|fraction:mCherry+/GFP |genotype:Tg[gad1b:Gal4 UAS:TVA mCherry]|individual:pool 8|organism part:olfactory bulb|sample name:E MTAB 11083:F8 mCherry|sex:mixed|stimulus:injected with EnvA RV GFP|strain:Ab x Tu x TL x WIK                 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E MTAB 11083:F8 mCherry s F8 mCherry s Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. Experimental Factor: fraction:mCherry+/GFP RNA-Seq TRANSCRIPTOMIC Oligo-dT SINGLE ILLUMINA Illumina HiSeq 2500   ERP132560 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07 2874F23-1_210715_D00404_0538_BCD91CANXX_TCGACGTC-CGTCTAAT_L006_R1_001.fastq.gz fastq 667760646.0 13093346.0 E MTAB 11083:2874F23 1 210715 D00404 0538 BCD91CANXX TCGACGTC CGTCTAAT L006 0:51 1:0 A:179948739;C:150541918;G:145038845;T:192184092;N:47052 51 0     179948739 150541918 145038845 192184092 47052 ERX6698606 ERS8070395 ERA6757553 Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive 1 0.71661   0.19774   0.74576   0.52117   51   B   usable mapping rate illumina hiseq_era unknown poly_a nextera sc single_cell_plate smartseq   Switzerland 2021-12-01 Adult Adult Brain Nervous System
10242 10242 ERR7131166 ERX6698606 ERS8070395 ERP132560 PRJEB48218 Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E-MTAB-11083 Transcriptome Analysis To investigate the effects of rabies infection on neuronal gene expression we compared gene profiles of rabies infected and non infected GABAergic neurons in the Zebrafish olfactory bulb. ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07   Protocols: EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. F8 mCherry SAMEA10418611 Friedrich Miescher Institute for Biomedical Research ENA first public:2021 12 01|ENA last update:2021 12 01|External Id:SAMEA10418611|INSDC center alias:Friedrich Miescher Institute for Biomedical Research|INSDC center name:Friedrich Miescher Institute for Biomedical Research|INSDC first public:2021 12 01T00:23:59Z|INSDC last update:2021 12 01T00:23:59Z|INSDC status:public|Submitter Id:E MTAB 11083:F8 mCherry|age:9|broker name:ArrayExpress|cell type:GABAergic neuron|common name:zebrafish|developmental stage:adult|fraction:mCherry+/GFP |genotype:Tg[gad1b:Gal4 UAS:TVA mCherry]|individual:pool 8|organism part:olfactory bulb|sample name:E MTAB 11083:F8 mCherry|sex:mixed|stimulus:injected with EnvA RV GFP|strain:Ab x Tu x TL x WIK                 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E MTAB 11083:F8 mCherry s F8 mCherry s Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. Experimental Factor: fraction:mCherry+/GFP RNA-Seq TRANSCRIPTOMIC Oligo-dT SINGLE ILLUMINA Illumina HiSeq 2500   ERP132560 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07 2874F23-2_210715_D00404_0538_BCD91CANXX_TCGACGTC-CGTCTAAT_L007_R1_001.fastq.gz fastq 670970484.0 13156284.0 E MTAB 11083:2874F23 2 210715 D00404 0538 BCD91CANXX TCGACGTC CGTCTAAT L007 0:51 1:0 A:180906557;C:151329492;G:145816347;T:192872804;N:45284 51 0     180906557 151329492 145816347 192872804 45284 ERX6698606 ERS8070395 ERA6757553 Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive 1 0.71682   0.19902   0.74517   0.52618   51   B   usable mapping rate illumina hiseq_era unknown poly_a nextera sc single_cell_plate smartseq   Switzerland 2021-12-01 Adult Adult Brain Nervous System
10243 10243 ERR7131163 ERX6698605 ERS8070394 ERP132560 PRJEB48218 Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E-MTAB-11083 Transcriptome Analysis To investigate the effects of rabies infection on neuronal gene expression we compared gene profiles of rabies infected and non infected GABAergic neurons in the Zebrafish olfactory bulb. ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07   Protocols: EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. F7 Nega SAMEA10418610 Friedrich Miescher Institute for Biomedical Research ENA first public:2021 12 01|ENA last update:2021 12 01|External Id:SAMEA10418610|INSDC center alias:Friedrich Miescher Institute for Biomedical Research|INSDC center name:Friedrich Miescher Institute for Biomedical Research|INSDC first public:2021 12 01T00:23:59Z|INSDC last update:2021 12 01T00:23:59Z|INSDC status:public|Submitter Id:E MTAB 11083:F7 Nega|age:9|broker name:ArrayExpress|cell type:GABAergic neuron|common name:zebrafish|developmental stage:adult|fraction:mCherry /GFP |genotype:Tg[gad1b:Gal4 UAS:TVA mCherry]|individual:pool 7|organism part:olfactory bulb|sample name:E MTAB 11083:F7 Nega|sex:mixed|stimulus:injected with EnvA RV GFP|strain:Ab x Tu x TL x WIK                 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E MTAB 11083:F7 Nega s F7 Nega s Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. Experimental Factor: fraction:mCherry /GFP RNA-Seq TRANSCRIPTOMIC Oligo-dT SINGLE ILLUMINA Illumina HiSeq 2500   ERP132560 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07 2874F19-1_210715_D00404_0538_BCD91CANXX_TCGACGTC-GTAAGGAG_L006_R1_001.fastq.gz fastq 652205238.0 12788338.0 E MTAB 11083:2874F19 1 210715 D00404 0538 BCD91CANXX TCGACGTC GTAAGGAG L006 0:51 1:0 A:173730405;C:149044598;G:145436777;T:183946928;N:46530 51 0     173730405 149044598 145436777 183946928 46530 ERX6698605 ERS8070394 ERA6757553 Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive 1 0.80595   0.17309   0.71003   0.53696   51   B   usable mapping rate illumina hiseq_era unknown poly_a nextera sc single_cell_plate smartseq   Switzerland 2021-12-01 Adult Adult Brain Nervous System
10244 10244 ERR7131164 ERX6698605 ERS8070394 ERP132560 PRJEB48218 Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E-MTAB-11083 Transcriptome Analysis To investigate the effects of rabies infection on neuronal gene expression we compared gene profiles of rabies infected and non infected GABAergic neurons in the Zebrafish olfactory bulb. ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07   Protocols: EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. F7 Nega SAMEA10418610 Friedrich Miescher Institute for Biomedical Research ENA first public:2021 12 01|ENA last update:2021 12 01|External Id:SAMEA10418610|INSDC center alias:Friedrich Miescher Institute for Biomedical Research|INSDC center name:Friedrich Miescher Institute for Biomedical Research|INSDC first public:2021 12 01T00:23:59Z|INSDC last update:2021 12 01T00:23:59Z|INSDC status:public|Submitter Id:E MTAB 11083:F7 Nega|age:9|broker name:ArrayExpress|cell type:GABAergic neuron|common name:zebrafish|developmental stage:adult|fraction:mCherry /GFP |genotype:Tg[gad1b:Gal4 UAS:TVA mCherry]|individual:pool 7|organism part:olfactory bulb|sample name:E MTAB 11083:F7 Nega|sex:mixed|stimulus:injected with EnvA RV GFP|strain:Ab x Tu x TL x WIK                 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E MTAB 11083:F7 Nega s F7 Nega s Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. Experimental Factor: fraction:mCherry /GFP RNA-Seq TRANSCRIPTOMIC Oligo-dT SINGLE ILLUMINA Illumina HiSeq 2500   ERP132560 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07 2874F19-2_210715_D00404_0538_BCD91CANXX_TCGACGTC-GTAAGGAG_L007_R1_001.fastq.gz fastq 655593423.0 12854773.0 E MTAB 11083:2874F19 2 210715 D00404 0538 BCD91CANXX TCGACGTC GTAAGGAG L007 0:51 1:0 A:174715119;C:149844974;G:146250446;T:184737535;N:45349 51 0     174715119 149844974 146250446 184737535 45349 ERX6698605 ERS8070394 ERA6757553 Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive 1 0.80585   0.17497   0.71078   0.53767   51   B   usable mapping rate illumina hiseq_era unknown poly_a nextera sc single_cell_plate smartseq   Switzerland 2021-12-01 Adult Adult Brain Nervous System
10245 10245 ERR7131161 ERX6698604 ERS8070393 ERP132560 PRJEB48218 Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E-MTAB-11083 Transcriptome Analysis To investigate the effects of rabies infection on neuronal gene expression we compared gene profiles of rabies infected and non infected GABAergic neurons in the Zebrafish olfactory bulb. ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07   Protocols: EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. F7 mCherry GFP SAMEA10418609 Friedrich Miescher Institute for Biomedical Research ENA first public:2021 12 01|ENA last update:2021 12 01|External Id:SAMEA10418609|INSDC center alias:Friedrich Miescher Institute for Biomedical Research|INSDC center name:Friedrich Miescher Institute for Biomedical Research|INSDC first public:2021 12 01T00:23:59Z|INSDC last update:2021 12 01T00:23:59Z|INSDC status:public|Submitter Id:E MTAB 11083:F7 mCherry GFP|age:9|broker name:ArrayExpress|cell type:GABAergic neuron|common name:zebrafish|developmental stage:adult|fraction:mCherry+/GFP+|genotype:Tg[gad1b:Gal4 UAS:TVA mCherry]|individual:pool 7|organism part:olfactory bulb|sample name:E MTAB 11083:F7 mCherry GFP|sex:mixed|stimulus:injected with EnvA RV GFP|strain:Ab x Tu x TL x WIK                 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E MTAB 11083:F7 mCherry GFP s F7 mCherry GFP s Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. Experimental Factor: fraction:mCherry+/GFP+ RNA-Seq TRANSCRIPTOMIC Oligo-dT SINGLE ILLUMINA Illumina HiSeq 2500   ERP132560 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07 2874F21-1_210715_D00404_0538_BCD91CANXX_TCGACGTC-AAGGAGTA_L006_R1_001.fastq.gz fastq 661067151.0 12962101.0 E MTAB 11083:2874F21 1 210715 D00404 0538 BCD91CANXX TCGACGTC AAGGAGTA L006 0:51 1:0 A:168281419;C:157701209;G:153487197;T:181550252;N:47074 51 0     168281419 157701209 153487197 181550252 47074 ERX6698604 ERS8070393 ERA6757553 Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive 1 0.39074   0.11592   0.82615   0.5252   51   B   usable mapping rate illumina hiseq_era unknown poly_a nextera sc single_cell_plate smartseq   Switzerland 2021-12-01 Adult Adult Brain Nervous System
10246 10246 ERR7131162 ERX6698604 ERS8070393 ERP132560 PRJEB48218 Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E-MTAB-11083 Transcriptome Analysis To investigate the effects of rabies infection on neuronal gene expression we compared gene profiles of rabies infected and non infected GABAergic neurons in the Zebrafish olfactory bulb. ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07   Protocols: EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. F7 mCherry GFP SAMEA10418609 Friedrich Miescher Institute for Biomedical Research ENA first public:2021 12 01|ENA last update:2021 12 01|External Id:SAMEA10418609|INSDC center alias:Friedrich Miescher Institute for Biomedical Research|INSDC center name:Friedrich Miescher Institute for Biomedical Research|INSDC first public:2021 12 01T00:23:59Z|INSDC last update:2021 12 01T00:23:59Z|INSDC status:public|Submitter Id:E MTAB 11083:F7 mCherry GFP|age:9|broker name:ArrayExpress|cell type:GABAergic neuron|common name:zebrafish|developmental stage:adult|fraction:mCherry+/GFP+|genotype:Tg[gad1b:Gal4 UAS:TVA mCherry]|individual:pool 7|organism part:olfactory bulb|sample name:E MTAB 11083:F7 mCherry GFP|sex:mixed|stimulus:injected with EnvA RV GFP|strain:Ab x Tu x TL x WIK                 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E MTAB 11083:F7 mCherry GFP s F7 mCherry GFP s Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. Experimental Factor: fraction:mCherry+/GFP+ RNA-Seq TRANSCRIPTOMIC Oligo-dT SINGLE ILLUMINA Illumina HiSeq 2500   ERP132560 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07 2874F21-2_210715_D00404_0538_BCD91CANXX_TCGACGTC-AAGGAGTA_L007_R1_001.fastq.gz fastq 665709018.0 13053118.0 E MTAB 11083:2874F21 2 210715 D00404 0538 BCD91CANXX TCGACGTC AAGGAGTA L007 0:51 1:0 A:169539998;C:158884603;G:154624803;T:182614264;N:45350 51 0     169539998 158884603 154624803 182614264 45350 ERX6698604 ERS8070393 ERA6757553 Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive 1 0.38966   0.1152   0.8258   0.53305   51   B   usable mapping rate illumina hiseq_era unknown poly_a nextera sc single_cell_plate smartseq   Switzerland 2021-12-01 Adult Adult Brain Nervous System
10247 10247 ERR7131159 ERX6698603 ERS8070392 ERP132560 PRJEB48218 Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E-MTAB-11083 Transcriptome Analysis To investigate the effects of rabies infection on neuronal gene expression we compared gene profiles of rabies infected and non infected GABAergic neurons in the Zebrafish olfactory bulb. ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07   Protocols: EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. F7 mCherry SAMEA10418608 Friedrich Miescher Institute for Biomedical Research ENA first public:2021 12 01|ENA last update:2021 12 01|External Id:SAMEA10418608|INSDC center alias:Friedrich Miescher Institute for Biomedical Research|INSDC center name:Friedrich Miescher Institute for Biomedical Research|INSDC first public:2021 12 01T00:23:59Z|INSDC last update:2021 12 01T00:23:59Z|INSDC status:public|Submitter Id:E MTAB 11083:F7 mCherry|age:9|broker name:ArrayExpress|cell type:GABAergic neuron|common name:zebrafish|developmental stage:adult|fraction:mCherry+/GFP |genotype:Tg[gad1b:Gal4 UAS:TVA mCherry]|individual:pool 7|organism part:olfactory bulb|sample name:E MTAB 11083:F7 mCherry|sex:mixed|stimulus:injected with EnvA RV GFP|strain:Ab x Tu x TL x WIK                 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E MTAB 11083:F7 mCherry s F7 mCherry s Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. Experimental Factor: fraction:mCherry+/GFP RNA-Seq TRANSCRIPTOMIC Oligo-dT SINGLE ILLUMINA Illumina HiSeq 2500   ERP132560 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07 2874F20-1_210715_D00404_0538_BCD91CANXX_TCGACGTC-ACTGCATA_L006_R1_001.fastq.gz fastq 657813402.0 12898302.0 E MTAB 11083:2874F20 1 210715 D00404 0538 BCD91CANXX TCGACGTC ACTGCATA L006 0:51 1:0 A:175873489;C:149476129;G:143987770;T:188429588;N:46426 51 0     175873489 149476129 143987770 188429588 46426 ERX6698603 ERS8070392 ERA6757553 Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive 1 0.70507   0.2048   0.75923   0.52828   51   B   usable mapping rate illumina hiseq_era unknown poly_a nextera sc single_cell_plate smartseq   Switzerland 2021-12-01 Adult Adult Brain Nervous System
10248 10248 ERR7131160 ERX6698603 ERS8070392 ERP132560 PRJEB48218 Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E-MTAB-11083 Transcriptome Analysis To investigate the effects of rabies infection on neuronal gene expression we compared gene profiles of rabies infected and non infected GABAergic neurons in the Zebrafish olfactory bulb. ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07   Protocols: EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. F7 mCherry SAMEA10418608 Friedrich Miescher Institute for Biomedical Research ENA first public:2021 12 01|ENA last update:2021 12 01|External Id:SAMEA10418608|INSDC center alias:Friedrich Miescher Institute for Biomedical Research|INSDC center name:Friedrich Miescher Institute for Biomedical Research|INSDC first public:2021 12 01T00:23:59Z|INSDC last update:2021 12 01T00:23:59Z|INSDC status:public|Submitter Id:E MTAB 11083:F7 mCherry|age:9|broker name:ArrayExpress|cell type:GABAergic neuron|common name:zebrafish|developmental stage:adult|fraction:mCherry+/GFP |genotype:Tg[gad1b:Gal4 UAS:TVA mCherry]|individual:pool 7|organism part:olfactory bulb|sample name:E MTAB 11083:F7 mCherry|sex:mixed|stimulus:injected with EnvA RV GFP|strain:Ab x Tu x TL x WIK                 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E MTAB 11083:F7 mCherry s F7 mCherry s Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. Experimental Factor: fraction:mCherry+/GFP RNA-Seq TRANSCRIPTOMIC Oligo-dT SINGLE ILLUMINA Illumina HiSeq 2500   ERP132560 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07 2874F20-2_210715_D00404_0538_BCD91CANXX_TCGACGTC-ACTGCATA_L007_R1_001.fastq.gz fastq 660303426.0 12947126.0 E MTAB 11083:2874F20 2 210715 D00404 0538 BCD91CANXX TCGACGTC ACTGCATA L007 0:51 1:0 A:176607119;C:150065781;G:144613110;T:188972809;N:44607 51 0     176607119 150065781 144613110 188972809 44607 ERX6698603 ERS8070392 ERA6757553 Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive 1 0.70705   0.20314   0.75852   0.52949   51   B   usable mapping rate illumina hiseq_era unknown poly_a nextera sc single_cell_plate smartseq   Switzerland 2021-12-01 Adult Adult Brain Nervous System
10249 10249 ERR7131157 ERX6698602 ERS8070391 ERP132560 PRJEB48218 Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E-MTAB-11083 Transcriptome Analysis To investigate the effects of rabies infection on neuronal gene expression we compared gene profiles of rabies infected and non infected GABAergic neurons in the Zebrafish olfactory bulb. ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07   Protocols: EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. F6 Nega SAMEA10418607 Friedrich Miescher Institute for Biomedical Research ENA first public:2021 12 01|ENA last update:2021 12 01|External Id:SAMEA10418607|INSDC center alias:Friedrich Miescher Institute for Biomedical Research|INSDC center name:Friedrich Miescher Institute for Biomedical Research|INSDC first public:2021 12 01T00:23:59Z|INSDC last update:2021 12 01T00:23:59Z|INSDC status:public|Submitter Id:E MTAB 11083:F6 Nega|age:9|broker name:ArrayExpress|cell type:GABAergic neuron|common name:zebrafish|developmental stage:adult|fraction:mCherry /GFP |genotype:Tg[gad1b:Gal4 UAS:TVA mCherry]|individual:pool 6|organism part:olfactory bulb|sample name:E MTAB 11083:F6 Nega|sex:mixed|stimulus:injected with EnvA RV GFP|strain:Ab x Tu x TL x WIK                 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E MTAB 11083:F6 Nega s F6 Nega s Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. Experimental Factor: fraction:mCherry /GFP RNA-Seq TRANSCRIPTOMIC Oligo-dT SINGLE ILLUMINA Illumina HiSeq 2500   ERP132560 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07 2874F16-1_210715_D00404_0538_BCD91CANXX_TGCAGCTA-TCTCTCCG_L006_R1_001.fastq.gz fastq 669627450.0 13129950.0 E MTAB 11083:2874F16 1 210715 D00404 0538 BCD91CANXX TGCAGCTA TCTCTCCG L006 0:51 1:0 A:177483937;C:154097051;G:148063012;T:189935690;N:47760 51 0     177483937 154097051 148063012 189935690 47760 ERX6698602 ERS8070391 ERA6757553 Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive 1 0.77183   0.16001   0.71467   0.53352   51   B   usable mapping rate illumina hiseq_era unknown poly_a nextera sc single_cell_plate smartseq   Switzerland 2021-12-01 Adult Adult Brain Nervous System
10250 10250 ERR7131158 ERX6698602 ERS8070391 ERP132560 PRJEB48218 Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E-MTAB-11083 Transcriptome Analysis To investigate the effects of rabies infection on neuronal gene expression we compared gene profiles of rabies infected and non infected GABAergic neurons in the Zebrafish olfactory bulb. ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07   Protocols: EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. F6 Nega SAMEA10418607 Friedrich Miescher Institute for Biomedical Research ENA first public:2021 12 01|ENA last update:2021 12 01|External Id:SAMEA10418607|INSDC center alias:Friedrich Miescher Institute for Biomedical Research|INSDC center name:Friedrich Miescher Institute for Biomedical Research|INSDC first public:2021 12 01T00:23:59Z|INSDC last update:2021 12 01T00:23:59Z|INSDC status:public|Submitter Id:E MTAB 11083:F6 Nega|age:9|broker name:ArrayExpress|cell type:GABAergic neuron|common name:zebrafish|developmental stage:adult|fraction:mCherry /GFP |genotype:Tg[gad1b:Gal4 UAS:TVA mCherry]|individual:pool 6|organism part:olfactory bulb|sample name:E MTAB 11083:F6 Nega|sex:mixed|stimulus:injected with EnvA RV GFP|strain:Ab x Tu x TL x WIK                 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E MTAB 11083:F6 Nega s F6 Nega s Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. Experimental Factor: fraction:mCherry /GFP RNA-Seq TRANSCRIPTOMIC Oligo-dT SINGLE ILLUMINA Illumina HiSeq 2500   ERP132560 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07 2874F16-2_210715_D00404_0538_BCD91CANXX_TGCAGCTA-TCTCTCCG_L007_R1_001.fastq.gz fastq 671615073.0 13168923.0 E MTAB 11083:2874F16 2 210715 D00404 0538 BCD91CANXX TGCAGCTA TCTCTCCG L007 0:51 1:0 A:178109157;C:154619024;G:148595207;T:190246469;N:45216 51 0     178109157 154619024 148595207 190246469 45216 ERX6698602 ERS8070391 ERA6757553 Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive 1 0.77284   0.15963   0.71569   0.53038   51   B   usable mapping rate illumina hiseq_era unknown poly_a nextera sc single_cell_plate smartseq   Switzerland 2021-12-01 Adult Adult Brain Nervous System
10251 10251 ERR7131155 ERX6698601 ERS8070390 ERP132560 PRJEB48218 Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E-MTAB-11083 Transcriptome Analysis To investigate the effects of rabies infection on neuronal gene expression we compared gene profiles of rabies infected and non infected GABAergic neurons in the Zebrafish olfactory bulb. ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07   Protocols: EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. F6 mCherry GFP SAMEA10418606 Friedrich Miescher Institute for Biomedical Research ENA first public:2021 12 01|ENA last update:2021 12 01|External Id:SAMEA10418606|INSDC center alias:Friedrich Miescher Institute for Biomedical Research|INSDC center name:Friedrich Miescher Institute for Biomedical Research|INSDC first public:2021 12 01T00:23:59Z|INSDC last update:2021 12 01T00:23:59Z|INSDC status:public|Submitter Id:E MTAB 11083:F6 mCherry GFP|age:9|broker name:ArrayExpress|cell type:GABAergic neuron|common name:zebrafish|developmental stage:adult|fraction:mCherry+/GFP+|genotype:Tg[gad1b:Gal4 UAS:TVA mCherry]|individual:pool 6|organism part:olfactory bulb|sample name:E MTAB 11083:F6 mCherry GFP|sex:mixed|stimulus:injected with EnvA RV GFP|strain:Ab x Tu x TL x WIK                 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E MTAB 11083:F6 mCherry GFP s F6 mCherry GFP s Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. Experimental Factor: fraction:mCherry+/GFP+ RNA-Seq TRANSCRIPTOMIC Oligo-dT SINGLE ILLUMINA Illumina HiSeq 2500   ERP132560 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07 2874F18-1_210715_D00404_0538_BCD91CANXX_TCGACGTC-TATCCTCT_L006_R1_001.fastq.gz fastq 667663542.0 13091442.0 E MTAB 11083:2874F18 1 210715 D00404 0538 BCD91CANXX TCGACGTC TATCCTCT L006 0:51 1:0 A:177646483;C:152747528;G:146388226;T:190833951;N:47354 51 0     177646483 152747528 146388226 190833951 47354 ERX6698601 ERS8070390 ERA6757553 Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive 1 0.67964   0.18123   0.77193   0.53313   51   B   usable mapping rate illumina hiseq_era unknown poly_a nextera sc single_cell_plate smartseq   Switzerland 2021-12-01 Adult Adult Brain Nervous System
10252 10252 ERR7131156 ERX6698601 ERS8070390 ERP132560 PRJEB48218 Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E-MTAB-11083 Transcriptome Analysis To investigate the effects of rabies infection on neuronal gene expression we compared gene profiles of rabies infected and non infected GABAergic neurons in the Zebrafish olfactory bulb. ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07   Protocols: EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. F6 mCherry GFP SAMEA10418606 Friedrich Miescher Institute for Biomedical Research ENA first public:2021 12 01|ENA last update:2021 12 01|External Id:SAMEA10418606|INSDC center alias:Friedrich Miescher Institute for Biomedical Research|INSDC center name:Friedrich Miescher Institute for Biomedical Research|INSDC first public:2021 12 01T00:23:59Z|INSDC last update:2021 12 01T00:23:59Z|INSDC status:public|Submitter Id:E MTAB 11083:F6 mCherry GFP|age:9|broker name:ArrayExpress|cell type:GABAergic neuron|common name:zebrafish|developmental stage:adult|fraction:mCherry+/GFP+|genotype:Tg[gad1b:Gal4 UAS:TVA mCherry]|individual:pool 6|organism part:olfactory bulb|sample name:E MTAB 11083:F6 mCherry GFP|sex:mixed|stimulus:injected with EnvA RV GFP|strain:Ab x Tu x TL x WIK                 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E MTAB 11083:F6 mCherry GFP s F6 mCherry GFP s Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. Experimental Factor: fraction:mCherry+/GFP+ RNA-Seq TRANSCRIPTOMIC Oligo-dT SINGLE ILLUMINA Illumina HiSeq 2500   ERP132560 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07 2874F18-2_210715_D00404_0538_BCD91CANXX_TCGACGTC-TATCCTCT_L007_R1_001.fastq.gz fastq 670170141.0 13140591.0 E MTAB 11083:2874F18 2 210715 D00404 0538 BCD91CANXX TCGACGTC TATCCTCT L007 0:51 1:0 A:178425395;C:153363855;G:147033779;T:191300976;N:46136 51 0     178425395 153363855 147033779 191300976 46136 ERX6698601 ERS8070390 ERA6757553 Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive 1 0.67922   0.18101   0.77141   0.53601   51   B   usable mapping rate illumina hiseq_era unknown poly_a nextera sc single_cell_plate smartseq   Switzerland 2021-12-01 Adult Adult Brain Nervous System
10253 10253 ERR7131153 ERX6698600 ERS8070389 ERP132560 PRJEB48218 Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E-MTAB-11083 Transcriptome Analysis To investigate the effects of rabies infection on neuronal gene expression we compared gene profiles of rabies infected and non infected GABAergic neurons in the Zebrafish olfactory bulb. ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07   Protocols: EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. F6 mCherry SAMEA10418605 Friedrich Miescher Institute for Biomedical Research ENA first public:2021 12 01|ENA last update:2021 12 01|External Id:SAMEA10418605|INSDC center alias:Friedrich Miescher Institute for Biomedical Research|INSDC center name:Friedrich Miescher Institute for Biomedical Research|INSDC first public:2021 12 01T00:23:59Z|INSDC last update:2021 12 01T00:23:59Z|INSDC status:public|Submitter Id:E MTAB 11083:F6 mCherry|age:9|broker name:ArrayExpress|cell type:GABAergic neuron|common name:zebrafish|developmental stage:adult|fraction:mCherry+/GFP |genotype:Tg[gad1b:Gal4 UAS:TVA mCherry]|individual:pool 6|organism part:olfactory bulb|sample name:E MTAB 11083:F6 mCherry|sex:mixed|stimulus:injected with EnvA RV GFP|strain:Ab x Tu x TL x WIK                 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E MTAB 11083:F6 mCherry s F6 mCherry s Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. Experimental Factor: fraction:mCherry+/GFP RNA-Seq TRANSCRIPTOMIC Oligo-dT SINGLE ILLUMINA Illumina HiSeq 2500   ERP132560 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07 2874F17-1_210715_D00404_0538_BCD91CANXX_TCGACGTC-CTCTCTAT_L006_R1_001.fastq.gz fastq 677617008.0 13286608.0 E MTAB 11083:2874F17 1 210715 D00404 0538 BCD91CANXX TCGACGTC CTCTCTAT L006 0:51 1:0 A:181785899;C:152797687;G:147070676;T:195914808;N:47938 51 0     181785899 152797687 147070676 195914808 47938 ERX6698600 ERS8070389 ERA6757553 Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive 1 0.68298   0.1953   0.76292   0.5395   51   B   usable mapping rate illumina hiseq_era unknown poly_a nextera sc single_cell_plate smartseq   Switzerland 2021-12-01 Adult Adult Brain Nervous System
10254 10254 ERR7131154 ERX6698600 ERS8070389 ERP132560 PRJEB48218 Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E-MTAB-11083 Transcriptome Analysis To investigate the effects of rabies infection on neuronal gene expression we compared gene profiles of rabies infected and non infected GABAergic neurons in the Zebrafish olfactory bulb. ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07   Protocols: EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. F6 mCherry SAMEA10418605 Friedrich Miescher Institute for Biomedical Research ENA first public:2021 12 01|ENA last update:2021 12 01|External Id:SAMEA10418605|INSDC center alias:Friedrich Miescher Institute for Biomedical Research|INSDC center name:Friedrich Miescher Institute for Biomedical Research|INSDC first public:2021 12 01T00:23:59Z|INSDC last update:2021 12 01T00:23:59Z|INSDC status:public|Submitter Id:E MTAB 11083:F6 mCherry|age:9|broker name:ArrayExpress|cell type:GABAergic neuron|common name:zebrafish|developmental stage:adult|fraction:mCherry+/GFP |genotype:Tg[gad1b:Gal4 UAS:TVA mCherry]|individual:pool 6|organism part:olfactory bulb|sample name:E MTAB 11083:F6 mCherry|sex:mixed|stimulus:injected with EnvA RV GFP|strain:Ab x Tu x TL x WIK                 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E MTAB 11083:F6 mCherry s F6 mCherry s Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. Experimental Factor: fraction:mCherry+/GFP RNA-Seq TRANSCRIPTOMIC Oligo-dT SINGLE ILLUMINA Illumina HiSeq 2500   ERP132560 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07 2874F17-2_210715_D00404_0538_BCD91CANXX_TCGACGTC-CTCTCTAT_L007_R1_001.fastq.gz fastq 679922973.0 13331823.0 E MTAB 11083:2874F17 2 210715 D00404 0538 BCD91CANXX TCGACGTC CTCTCTAT L007 0:51 1:0 A:182567819;C:153380607;G:147589890;T:196337722;N:46935 51 0     182567819 153380607 147589890 196337722 46935 ERX6698600 ERS8070389 ERA6757553 Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive 1 0.68391   0.19726   0.76299   0.54099   51   B   usable mapping rate illumina hiseq_era unknown poly_a nextera sc single_cell_plate smartseq   Switzerland 2021-12-01 Adult Adult Brain Nervous System
10255 10255 ERR7131151 ERX6698599 ERS8070388 ERP132560 PRJEB48218 Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E-MTAB-11083 Transcriptome Analysis To investigate the effects of rabies infection on neuronal gene expression we compared gene profiles of rabies infected and non infected GABAergic neurons in the Zebrafish olfactory bulb. ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07   Protocols: EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. F5 Nega SAMEA10418604 Friedrich Miescher Institute for Biomedical Research ENA first public:2021 12 01|ENA last update:2021 12 01|External Id:SAMEA10418604|INSDC center alias:Friedrich Miescher Institute for Biomedical Research|INSDC center name:Friedrich Miescher Institute for Biomedical Research|INSDC first public:2021 12 01T00:23:59Z|INSDC last update:2021 12 01T00:23:59Z|INSDC status:public|Submitter Id:E MTAB 11083:F5 Nega|age:9|broker name:ArrayExpress|cell type:GABAergic neuron|common name:zebrafish|developmental stage:adult|fraction:mCherry /GFP |genotype:Tg[gad1b:Gal4 UAS:TVA mCherry]|individual:pool 5|organism part:olfactory bulb|sample name:E MTAB 11083:F5 Nega|sex:mixed|stimulus:injected with EnvA RV GFP|strain:Ab x Tu x TL x WIK                 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E MTAB 11083:F5 Nega s F5 Nega s Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. Experimental Factor: fraction:mCherry /GFP RNA-Seq TRANSCRIPTOMIC Oligo-dT SINGLE ILLUMINA Illumina HiSeq 2500   ERP132560 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07 2874F13-1_210715_D00404_0538_BCD91CANXX_TGCAGCTA-AAGGAGTA_L006_R1_001.fastq.gz fastq 620316315.0 12163065.0 E MTAB 11083:2874F13 1 210715 D00404 0538 BCD91CANXX TGCAGCTA AAGGAGTA L006 0:51 1:0 A:165967355;C:141072216;G:136931219;T:176301963;N:43562 51 0     165967355 141072216 136931219 176301963 43562 ERX6698599 ERS8070388 ERA6757553 Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive 1 0.78924   0.17457   0.71934   0.53563   51   B   usable mapping rate illumina hiseq_era unknown poly_a nextera sc single_cell_plate smartseq   Switzerland 2021-12-01 Adult Adult Brain Nervous System
10256 10256 ERR7131152 ERX6698599 ERS8070388 ERP132560 PRJEB48218 Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E-MTAB-11083 Transcriptome Analysis To investigate the effects of rabies infection on neuronal gene expression we compared gene profiles of rabies infected and non infected GABAergic neurons in the Zebrafish olfactory bulb. ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07   Protocols: EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. F5 Nega SAMEA10418604 Friedrich Miescher Institute for Biomedical Research ENA first public:2021 12 01|ENA last update:2021 12 01|External Id:SAMEA10418604|INSDC center alias:Friedrich Miescher Institute for Biomedical Research|INSDC center name:Friedrich Miescher Institute for Biomedical Research|INSDC first public:2021 12 01T00:23:59Z|INSDC last update:2021 12 01T00:23:59Z|INSDC status:public|Submitter Id:E MTAB 11083:F5 Nega|age:9|broker name:ArrayExpress|cell type:GABAergic neuron|common name:zebrafish|developmental stage:adult|fraction:mCherry /GFP |genotype:Tg[gad1b:Gal4 UAS:TVA mCherry]|individual:pool 5|organism part:olfactory bulb|sample name:E MTAB 11083:F5 Nega|sex:mixed|stimulus:injected with EnvA RV GFP|strain:Ab x Tu x TL x WIK                 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E MTAB 11083:F5 Nega s F5 Nega s Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. Experimental Factor: fraction:mCherry /GFP RNA-Seq TRANSCRIPTOMIC Oligo-dT SINGLE ILLUMINA Illumina HiSeq 2500   ERP132560 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07 2874F13-2_210715_D00404_0538_BCD91CANXX_TGCAGCTA-AAGGAGTA_L007_R1_001.fastq.gz fastq 623905338.0 12233438.0 E MTAB 11083:2874F13 2 210715 D00404 0538 BCD91CANXX TGCAGCTA AAGGAGTA L007 0:51 1:0 A:166996253;C:141937637;G:137825206;T:177103504;N:42738 51 0     166996253 141937637 137825206 177103504 42738 ERX6698599 ERS8070388 ERA6757553 Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive 1 0.78975   0.17387   0.72153   0.54149   51   B   usable mapping rate illumina hiseq_era unknown poly_a nextera sc single_cell_plate smartseq   Switzerland 2021-12-01 Adult Adult Brain Nervous System
10257 10257 ERR7131149 ERX6698598 ERS8070387 ERP132560 PRJEB48218 Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E-MTAB-11083 Transcriptome Analysis To investigate the effects of rabies infection on neuronal gene expression we compared gene profiles of rabies infected and non infected GABAergic neurons in the Zebrafish olfactory bulb. ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07   Protocols: EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. F5 mCherry GFP SAMEA10418603 Friedrich Miescher Institute for Biomedical Research ENA first public:2021 12 01|ENA last update:2021 12 01|External Id:SAMEA10418603|INSDC center alias:Friedrich Miescher Institute for Biomedical Research|INSDC center name:Friedrich Miescher Institute for Biomedical Research|INSDC first public:2021 12 01T00:23:59Z|INSDC last update:2021 12 01T00:23:59Z|INSDC status:public|Submitter Id:E MTAB 11083:F5 mCherry GFP|age:9|broker name:ArrayExpress|cell type:GABAergic neuron|common name:zebrafish|developmental stage:adult|fraction:mCherry+/GFP+|genotype:Tg[gad1b:Gal4 UAS:TVA mCherry]|individual:pool 5|organism part:olfactory bulb|sample name:E MTAB 11083:F5 mCherry GFP|sex:mixed|stimulus:injected with EnvA RV GFP|strain:Ab x Tu x TL x WIK                 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E MTAB 11083:F5 mCherry GFP s F5 mCherry GFP s Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. Experimental Factor: fraction:mCherry+/GFP+ RNA-Seq TRANSCRIPTOMIC Oligo-dT SINGLE ILLUMINA Illumina HiSeq 2500   ERP132560 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07 2874F15-1_210715_D00404_0538_BCD91CANXX_TGCAGCTA-CGTCTAAT_L006_R1_001.fastq.gz fastq 670154841.0 13140291.0 E MTAB 11083:2874F15 1 210715 D00404 0538 BCD91CANXX TGCAGCTA CGTCTAAT L006 0:51 1:0 A:182457480;C:149175456;G:144548173;T:193927470;N:46262 51 0     182457480 149175456 144548173 193927470 46262 ERX6698598 ERS8070387 ERA6757553 Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive 1 0.71875   0.18671   0.76047   0.52398   51   B   usable mapping rate illumina hiseq_era unknown poly_a nextera sc single_cell_plate smartseq   Switzerland 2021-12-01 Adult Adult Brain Nervous System
10258 10258 ERR7131150 ERX6698598 ERS8070387 ERP132560 PRJEB48218 Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E-MTAB-11083 Transcriptome Analysis To investigate the effects of rabies infection on neuronal gene expression we compared gene profiles of rabies infected and non infected GABAergic neurons in the Zebrafish olfactory bulb. ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07   Protocols: EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. F5 mCherry GFP SAMEA10418603 Friedrich Miescher Institute for Biomedical Research ENA first public:2021 12 01|ENA last update:2021 12 01|External Id:SAMEA10418603|INSDC center alias:Friedrich Miescher Institute for Biomedical Research|INSDC center name:Friedrich Miescher Institute for Biomedical Research|INSDC first public:2021 12 01T00:23:59Z|INSDC last update:2021 12 01T00:23:59Z|INSDC status:public|Submitter Id:E MTAB 11083:F5 mCherry GFP|age:9|broker name:ArrayExpress|cell type:GABAergic neuron|common name:zebrafish|developmental stage:adult|fraction:mCherry+/GFP+|genotype:Tg[gad1b:Gal4 UAS:TVA mCherry]|individual:pool 5|organism part:olfactory bulb|sample name:E MTAB 11083:F5 mCherry GFP|sex:mixed|stimulus:injected with EnvA RV GFP|strain:Ab x Tu x TL x WIK                 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E MTAB 11083:F5 mCherry GFP s F5 mCherry GFP s Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. Experimental Factor: fraction:mCherry+/GFP+ RNA-Seq TRANSCRIPTOMIC Oligo-dT SINGLE ILLUMINA Illumina HiSeq 2500   ERP132560 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07 2874F15-2_210715_D00404_0538_BCD91CANXX_TGCAGCTA-CGTCTAAT_L007_R1_001.fastq.gz fastq 674202048.0 13219648.0 E MTAB 11083:2874F15 2 210715 D00404 0538 BCD91CANXX TGCAGCTA CGTCTAAT L007 0:51 1:0 A:183639511;C:150168226;G:145502071;T:194847755;N:44485 51 0     183639511 150168226 145502071 194847755 44485 ERX6698598 ERS8070387 ERA6757553 Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive 1 0.72111   0.18813   0.76378   0.5258   51   B   usable mapping rate illumina hiseq_era unknown poly_a nextera sc single_cell_plate smartseq   Switzerland 2021-12-01 Adult Adult Brain Nervous System
10259 10259 ERR7131147 ERX6698597 ERS8070386 ERP132560 PRJEB48218 Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E-MTAB-11083 Transcriptome Analysis To investigate the effects of rabies infection on neuronal gene expression we compared gene profiles of rabies infected and non infected GABAergic neurons in the Zebrafish olfactory bulb. ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07   Protocols: EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. F5 mCherry SAMEA10418602 Friedrich Miescher Institute for Biomedical Research ENA first public:2021 12 01|ENA last update:2021 12 01|External Id:SAMEA10418602|INSDC center alias:Friedrich Miescher Institute for Biomedical Research|INSDC center name:Friedrich Miescher Institute for Biomedical Research|INSDC first public:2021 12 01T00:23:59Z|INSDC last update:2021 12 01T00:23:59Z|INSDC status:public|Submitter Id:E MTAB 11083:F5 mCherry|age:9|broker name:ArrayExpress|cell type:GABAergic neuron|common name:zebrafish|developmental stage:adult|fraction:mCherry+/GFP |genotype:Tg[gad1b:Gal4 UAS:TVA mCherry]|individual:pool 5|organism part:olfactory bulb|sample name:E MTAB 11083:F5 mCherry|sex:mixed|stimulus:injected with EnvA RV GFP|strain:Ab x Tu x TL x WIK                 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E MTAB 11083:F5 mCherry s F5 mCherry s Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. Experimental Factor: fraction:mCherry+/GFP RNA-Seq TRANSCRIPTOMIC Oligo-dT SINGLE ILLUMINA Illumina HiSeq 2500   ERP132560 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07 2874F14-1_210715_D00404_0538_BCD91CANXX_TGCAGCTA-CTAAGCCT_L006_R1_001.fastq.gz fastq 615458259.0 12067809.0 E MTAB 11083:2874F14 1 210715 D00404 0538 BCD91CANXX TGCAGCTA CTAAGCCT L006 0:51 1:0 A:165108582;C:139178883;G:134070672;T:177059757;N:40365 51 0     165108582 139178883 134070672 177059757 40365 ERX6698597 ERS8070386 ERA6757553 Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive 1 0.69017   0.1977   0.77193   0.53352   51   B   usable mapping rate illumina hiseq_era unknown poly_a nextera sc single_cell_plate smartseq   Switzerland 2021-12-01 Adult Adult Brain Nervous System
10260 10260 ERR7131148 ERX6698597 ERS8070386 ERP132560 PRJEB48218 Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E-MTAB-11083 Transcriptome Analysis To investigate the effects of rabies infection on neuronal gene expression we compared gene profiles of rabies infected and non infected GABAergic neurons in the Zebrafish olfactory bulb. ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07   Protocols: EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. F5 mCherry SAMEA10418602 Friedrich Miescher Institute for Biomedical Research ENA first public:2021 12 01|ENA last update:2021 12 01|External Id:SAMEA10418602|INSDC center alias:Friedrich Miescher Institute for Biomedical Research|INSDC center name:Friedrich Miescher Institute for Biomedical Research|INSDC first public:2021 12 01T00:23:59Z|INSDC last update:2021 12 01T00:23:59Z|INSDC status:public|Submitter Id:E MTAB 11083:F5 mCherry|age:9|broker name:ArrayExpress|cell type:GABAergic neuron|common name:zebrafish|developmental stage:adult|fraction:mCherry+/GFP |genotype:Tg[gad1b:Gal4 UAS:TVA mCherry]|individual:pool 5|organism part:olfactory bulb|sample name:E MTAB 11083:F5 mCherry|sex:mixed|stimulus:injected with EnvA RV GFP|strain:Ab x Tu x TL x WIK                 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E MTAB 11083:F5 mCherry s F5 mCherry s Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. Experimental Factor: fraction:mCherry+/GFP RNA-Seq TRANSCRIPTOMIC Oligo-dT SINGLE ILLUMINA Illumina HiSeq 2500   ERP132560 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07 2874F14-2_210715_D00404_0538_BCD91CANXX_TGCAGCTA-CTAAGCCT_L007_R1_001.fastq.gz fastq 619061613.0 12138463.0 E MTAB 11083:2874F14 2 210715 D00404 0538 BCD91CANXX TGCAGCTA CTAAGCCT L007 0:51 1:0 A:166167516;C:140058774;G:134972850;T:177822733;N:39740 51 0     166167516 140058774 134972850 177822733 39740 ERX6698597 ERS8070386 ERA6757553 Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive 1 0.69118   0.20019   0.7707   0.52174   51   B   usable mapping rate illumina hiseq_era unknown poly_a nextera sc single_cell_plate smartseq   Switzerland 2021-12-01 Adult Adult Brain Nervous System
10261 10261 ERR7131145 ERX6698596 ERS8070385 ERP132560 PRJEB48218 Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E-MTAB-11083 Transcriptome Analysis To investigate the effects of rabies infection on neuronal gene expression we compared gene profiles of rabies infected and non infected GABAergic neurons in the Zebrafish olfactory bulb. ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07   Protocols: EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. F4 Nega SAMEA10418601 Friedrich Miescher Institute for Biomedical Research ENA first public:2021 12 01|ENA last update:2021 12 01|External Id:SAMEA10418601|INSDC center alias:Friedrich Miescher Institute for Biomedical Research|INSDC center name:Friedrich Miescher Institute for Biomedical Research|INSDC first public:2021 12 01T00:23:59Z|INSDC last update:2021 12 01T00:23:59Z|INSDC status:public|Submitter Id:E MTAB 11083:F4 Nega|age:9|broker name:ArrayExpress|cell type:GABAergic neuron|common name:zebrafish|developmental stage:adult|fraction:mCherry /GFP |genotype:Tg[gad1b:Gal4 UAS:TVA mCherry]|individual:pool 4|organism part:olfactory bulb|sample name:E MTAB 11083:F4 Nega|sex:mixed|stimulus:injected with EnvA RV GFP|strain:Ab x Tu x TL x WIK                 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E MTAB 11083:F4 Nega s F4 Nega s Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. Experimental Factor: fraction:mCherry /GFP RNA-Seq TRANSCRIPTOMIC Oligo-dT SINGLE ILLUMINA Illumina HiSeq 2500   ERP132560 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07 2874F10-1_210715_D00404_0538_BCD91CANXX_TGCAGCTA-TATCCTCT_L006_R1_001.fastq.gz fastq 652536687.0 12794837.0 E MTAB 11083:2874F10 1 210715 D00404 0538 BCD91CANXX TGCAGCTA TATCCTCT L006 0:51 1:0 A:178033231;C:144661707;G:139876661;T:189921085;N:44003 51 0     178033231 144661707 139876661 189921085 44003 ERX6698596 ERS8070385 ERA6757553 Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive 1 0.76201   0.2508   0.71299   0.53379   51   B   usable mapping rate illumina hiseq_era unknown poly_a nextera sc single_cell_plate smartseq   Switzerland 2021-12-01 Adult Adult Brain Nervous System
10262 10262 ERR7131146 ERX6698596 ERS8070385 ERP132560 PRJEB48218 Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E-MTAB-11083 Transcriptome Analysis To investigate the effects of rabies infection on neuronal gene expression we compared gene profiles of rabies infected and non infected GABAergic neurons in the Zebrafish olfactory bulb. ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07   Protocols: EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. F4 Nega SAMEA10418601 Friedrich Miescher Institute for Biomedical Research ENA first public:2021 12 01|ENA last update:2021 12 01|External Id:SAMEA10418601|INSDC center alias:Friedrich Miescher Institute for Biomedical Research|INSDC center name:Friedrich Miescher Institute for Biomedical Research|INSDC first public:2021 12 01T00:23:59Z|INSDC last update:2021 12 01T00:23:59Z|INSDC status:public|Submitter Id:E MTAB 11083:F4 Nega|age:9|broker name:ArrayExpress|cell type:GABAergic neuron|common name:zebrafish|developmental stage:adult|fraction:mCherry /GFP |genotype:Tg[gad1b:Gal4 UAS:TVA mCherry]|individual:pool 4|organism part:olfactory bulb|sample name:E MTAB 11083:F4 Nega|sex:mixed|stimulus:injected with EnvA RV GFP|strain:Ab x Tu x TL x WIK                 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E MTAB 11083:F4 Nega s F4 Nega s Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. Experimental Factor: fraction:mCherry /GFP RNA-Seq TRANSCRIPTOMIC Oligo-dT SINGLE ILLUMINA Illumina HiSeq 2500   ERP132560 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07 2874F10-2_210715_D00404_0538_BCD91CANXX_TGCAGCTA-TATCCTCT_L007_R1_001.fastq.gz fastq 655278957.0 12848607.0 E MTAB 11083:2874F10 2 210715 D00404 0538 BCD91CANXX TGCAGCTA TATCCTCT L007 0:51 1:0 A:178938002;C:145332613;G:140527756;T:190437189;N:43397 51 0     178938002 145332613 140527756 190437189 43397 ERX6698596 ERS8070385 ERA6757553 Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive 1 0.76188   0.25356   0.71344   0.53081   51   B   usable mapping rate illumina hiseq_era unknown poly_a nextera sc single_cell_plate smartseq   Switzerland 2021-12-01 Adult Adult Brain Nervous System
10263 10263 ERR7131143 ERX6698595 ERS8070384 ERP132560 PRJEB48218 Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E-MTAB-11083 Transcriptome Analysis To investigate the effects of rabies infection on neuronal gene expression we compared gene profiles of rabies infected and non infected GABAergic neurons in the Zebrafish olfactory bulb. ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07   Protocols: EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. F4 mCherry GFP SAMEA10418600 Friedrich Miescher Institute for Biomedical Research ENA first public:2021 12 01|ENA last update:2021 12 01|External Id:SAMEA10418600|INSDC center alias:Friedrich Miescher Institute for Biomedical Research|INSDC center name:Friedrich Miescher Institute for Biomedical Research|INSDC first public:2021 12 01T00:23:59Z|INSDC last update:2021 12 01T00:23:59Z|INSDC status:public|Submitter Id:E MTAB 11083:F4 mCherry GFP|age:9|broker name:ArrayExpress|cell type:GABAergic neuron|common name:zebrafish|developmental stage:adult|fraction:mCherry+/GFP+|genotype:Tg[gad1b:Gal4 UAS:TVA mCherry]|individual:pool 4|organism part:olfactory bulb|sample name:E MTAB 11083:F4 mCherry GFP|sex:mixed|stimulus:injected with EnvA RV GFP|strain:Ab x Tu x TL x WIK                 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E MTAB 11083:F4 mCherry GFP s F4 mCherry GFP s Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. Experimental Factor: fraction:mCherry+/GFP+ RNA-Seq TRANSCRIPTOMIC Oligo-dT SINGLE ILLUMINA Illumina HiSeq 2500   ERP132560 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07 2874F12-1_210715_D00404_0538_BCD91CANXX_TGCAGCTA-ACTGCATA_L006_R1_001.fastq.gz fastq 297921855.0 5841605.0 E MTAB 11083:2874F12 1 210715 D00404 0538 BCD91CANXX TGCAGCTA ACTGCATA L006 0:51 1:0 A:82400724;C:65517496;G:64603058;T:85384480;N:16097 51 0     82400724 65517496 64603058 85384480 16097 ERX6698595 ERS8070384 ERA6757553 Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive 1 0.72496   0.20794   0.81223   0.52529   51   B   usable mapping rate illumina hiseq_era unknown poly_a nextera sc single_cell_plate smartseq   Switzerland 2021-12-01 Adult Adult Brain Nervous System
10264 10264 ERR7131144 ERX6698595 ERS8070384 ERP132560 PRJEB48218 Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E-MTAB-11083 Transcriptome Analysis To investigate the effects of rabies infection on neuronal gene expression we compared gene profiles of rabies infected and non infected GABAergic neurons in the Zebrafish olfactory bulb. ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07   Protocols: EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. F4 mCherry GFP SAMEA10418600 Friedrich Miescher Institute for Biomedical Research ENA first public:2021 12 01|ENA last update:2021 12 01|External Id:SAMEA10418600|INSDC center alias:Friedrich Miescher Institute for Biomedical Research|INSDC center name:Friedrich Miescher Institute for Biomedical Research|INSDC first public:2021 12 01T00:23:59Z|INSDC last update:2021 12 01T00:23:59Z|INSDC status:public|Submitter Id:E MTAB 11083:F4 mCherry GFP|age:9|broker name:ArrayExpress|cell type:GABAergic neuron|common name:zebrafish|developmental stage:adult|fraction:mCherry+/GFP+|genotype:Tg[gad1b:Gal4 UAS:TVA mCherry]|individual:pool 4|organism part:olfactory bulb|sample name:E MTAB 11083:F4 mCherry GFP|sex:mixed|stimulus:injected with EnvA RV GFP|strain:Ab x Tu x TL x WIK                 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E MTAB 11083:F4 mCherry GFP s F4 mCherry GFP s Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. Experimental Factor: fraction:mCherry+/GFP+ RNA-Seq TRANSCRIPTOMIC Oligo-dT SINGLE ILLUMINA Illumina HiSeq 2500   ERP132560 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07 2874F12-2_210715_D00404_0538_BCD91CANXX_TGCAGCTA-ACTGCATA_L007_R1_001.fastq.gz fastq 309412971.0 6066921.0 E MTAB 11083:2874F12 2 210715 D00404 0538 BCD91CANXX TGCAGCTA ACTGCATA L007 0:51 1:0 A:85531271;C:68164437;G:67129209;T:88573210;N:14844 51 0     85531271 68164437 67129209 88573210 14844 ERX6698595 ERS8070384 ERA6757553 Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive 1 0.7245   0.20724   0.80468   0.52791   51   B   usable mapping rate illumina hiseq_era unknown poly_a nextera sc single_cell_plate smartseq   Switzerland 2021-12-01 Adult Adult Brain Nervous System
10265 10265 ERR7131141 ERX6698594 ERS8070383 ERP132560 PRJEB48218 Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E-MTAB-11083 Transcriptome Analysis To investigate the effects of rabies infection on neuronal gene expression we compared gene profiles of rabies infected and non infected GABAergic neurons in the Zebrafish olfactory bulb. ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07   Protocols: EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. F4 mCherry SAMEA10418599 Friedrich Miescher Institute for Biomedical Research ENA first public:2021 12 01|ENA last update:2021 12 01|External Id:SAMEA10418599|INSDC center alias:Friedrich Miescher Institute for Biomedical Research|INSDC center name:Friedrich Miescher Institute for Biomedical Research|INSDC first public:2021 12 01T00:23:59Z|INSDC last update:2021 12 01T00:23:59Z|INSDC status:public|Submitter Id:E MTAB 11083:F4 mCherry|age:9|broker name:ArrayExpress|cell type:GABAergic neuron|common name:zebrafish|developmental stage:adult|fraction:mCherry+/GFP |genotype:Tg[gad1b:Gal4 UAS:TVA mCherry]|individual:pool 4|organism part:olfactory bulb|sample name:E MTAB 11083:F4 mCherry|sex:mixed|stimulus:injected with EnvA RV GFP|strain:Ab x Tu x TL x WIK                 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E MTAB 11083:F4 mCherry s F4 mCherry s Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. Experimental Factor: fraction:mCherry+/GFP RNA-Seq TRANSCRIPTOMIC Oligo-dT SINGLE ILLUMINA Illumina HiSeq 2500   ERP132560 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07 2874F11-1_210715_D00404_0538_BCD91CANXX_TGCAGCTA-GTAAGGAG_L006_R1_001.fastq.gz fastq 672319791.0 13182741.0 E MTAB 11083:2874F11 1 210715 D00404 0538 BCD91CANXX TGCAGCTA GTAAGGAG L006 0:51 1:0 A:181508034;C:150928549;G:146124085;T:193711358;N:47765 51 0     181508034 150928549 146124085 193711358 47765 ERX6698594 ERS8070383 ERA6757553 Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive 1 0.71726   0.19842   0.74986   0.53363   51   B   usable mapping rate illumina hiseq_era unknown poly_a nextera sc single_cell_plate smartseq   Switzerland 2021-12-01 Adult Adult Brain Nervous System
10266 10266 ERR7131142 ERX6698594 ERS8070383 ERP132560 PRJEB48218 Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E-MTAB-11083 Transcriptome Analysis To investigate the effects of rabies infection on neuronal gene expression we compared gene profiles of rabies infected and non infected GABAergic neurons in the Zebrafish olfactory bulb. ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07   Protocols: EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. F4 mCherry SAMEA10418599 Friedrich Miescher Institute for Biomedical Research ENA first public:2021 12 01|ENA last update:2021 12 01|External Id:SAMEA10418599|INSDC center alias:Friedrich Miescher Institute for Biomedical Research|INSDC center name:Friedrich Miescher Institute for Biomedical Research|INSDC first public:2021 12 01T00:23:59Z|INSDC last update:2021 12 01T00:23:59Z|INSDC status:public|Submitter Id:E MTAB 11083:F4 mCherry|age:9|broker name:ArrayExpress|cell type:GABAergic neuron|common name:zebrafish|developmental stage:adult|fraction:mCherry+/GFP |genotype:Tg[gad1b:Gal4 UAS:TVA mCherry]|individual:pool 4|organism part:olfactory bulb|sample name:E MTAB 11083:F4 mCherry|sex:mixed|stimulus:injected with EnvA RV GFP|strain:Ab x Tu x TL x WIK                 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E MTAB 11083:F4 mCherry s F4 mCherry s Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. Experimental Factor: fraction:mCherry+/GFP RNA-Seq TRANSCRIPTOMIC Oligo-dT SINGLE ILLUMINA Illumina HiSeq 2500   ERP132560 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07 2874F11-2_210715_D00404_0538_BCD91CANXX_TGCAGCTA-GTAAGGAG_L007_R1_001.fastq.gz fastq 675486075.0 13244825.0 E MTAB 11083:2874F11 2 210715 D00404 0538 BCD91CANXX TGCAGCTA GTAAGGAG L007 0:51 1:0 A:182462261;C:151688554;G:146902713;T:194385945;N:46602 51 0     182462261 151688554 146902713 194385945 46602 ERX6698594 ERS8070383 ERA6757553 Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive 1 0.71745   0.19727   0.74805   0.53092   51   B   usable mapping rate illumina hiseq_era unknown poly_a nextera sc single_cell_plate smartseq   Switzerland 2021-12-01 Adult Adult Brain Nervous System
10267 10267 ERR7131139 ERX6698593 ERS8070382 ERP132560 PRJEB48218 Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E-MTAB-11083 Transcriptome Analysis To investigate the effects of rabies infection on neuronal gene expression we compared gene profiles of rabies infected and non infected GABAergic neurons in the Zebrafish olfactory bulb. ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07   Protocols: EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. F3 Nega SAMEA10418598 Friedrich Miescher Institute for Biomedical Research ENA first public:2021 12 01|ENA last update:2021 12 01|External Id:SAMEA10418598|INSDC center alias:Friedrich Miescher Institute for Biomedical Research|INSDC center name:Friedrich Miescher Institute for Biomedical Research|INSDC first public:2021 12 01T00:23:59Z|INSDC last update:2021 12 01T00:23:59Z|INSDC status:public|Submitter Id:E MTAB 11083:F3 Nega|age:9|broker name:ArrayExpress|cell type:GABAergic neuron|common name:zebrafish|developmental stage:adult|fraction:mCherry /GFP |genotype:Tg[gad1b:Gal4 UAS:TVA mCherry]|individual:pool 3|organism part:olfactory bulb|sample name:E MTAB 11083:F3 Nega|sex:mixed|stimulus:injected with EnvA RV GFP|strain:Ab x Tu x TL x WIK                 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E MTAB 11083:F3 Nega s F3 Nega s Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. Experimental Factor: fraction:mCherry /GFP RNA-Seq TRANSCRIPTOMIC Oligo-dT SINGLE ILLUMINA Illumina HiSeq 2500   ERP132560 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07 2874F7-1_210715_D00404_0538_BCD91CANXX_CGATCAGT-CGTCTAAT_L006_R1_001.fastq.gz fastq 630093627.0 12354777.0 E MTAB 11083:2874F7 1 210715 D00404 0538 BCD91CANXX CGATCAGT CGTCTAAT L006 0:51 1:0 A:165132739;C:146179836;G:142796880;T:175940613;N:43559 51 0     165132739 146179836 142796880 175940613 43559 ERX6698593 ERS8070382 ERA6757553 Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive 1 0.81672   0.15219   0.71277   0.52461   51   B   usable mapping rate illumina hiseq_era unknown poly_a nextera sc single_cell_plate smartseq   Switzerland 2021-12-01 Adult Adult Brain Nervous System
10268 10268 ERR7131140 ERX6698593 ERS8070382 ERP132560 PRJEB48218 Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E-MTAB-11083 Transcriptome Analysis To investigate the effects of rabies infection on neuronal gene expression we compared gene profiles of rabies infected and non infected GABAergic neurons in the Zebrafish olfactory bulb. ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07   Protocols: EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. F3 Nega SAMEA10418598 Friedrich Miescher Institute for Biomedical Research ENA first public:2021 12 01|ENA last update:2021 12 01|External Id:SAMEA10418598|INSDC center alias:Friedrich Miescher Institute for Biomedical Research|INSDC center name:Friedrich Miescher Institute for Biomedical Research|INSDC first public:2021 12 01T00:23:59Z|INSDC last update:2021 12 01T00:23:59Z|INSDC status:public|Submitter Id:E MTAB 11083:F3 Nega|age:9|broker name:ArrayExpress|cell type:GABAergic neuron|common name:zebrafish|developmental stage:adult|fraction:mCherry /GFP |genotype:Tg[gad1b:Gal4 UAS:TVA mCherry]|individual:pool 3|organism part:olfactory bulb|sample name:E MTAB 11083:F3 Nega|sex:mixed|stimulus:injected with EnvA RV GFP|strain:Ab x Tu x TL x WIK                 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E MTAB 11083:F3 Nega s F3 Nega s Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. Experimental Factor: fraction:mCherry /GFP RNA-Seq TRANSCRIPTOMIC Oligo-dT SINGLE ILLUMINA Illumina HiSeq 2500   ERP132560 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07 2874F7-2_210715_D00404_0538_BCD91CANXX_CGATCAGT-CGTCTAAT_L007_R1_001.fastq.gz fastq 632305242.0 12398142.0 E MTAB 11083:2874F7 2 210715 D00404 0538 BCD91CANXX CGATCAGT CGTCTAAT L007 0:51 1:0 A:165832174;C:146751895;G:143384539;T:176293313;N:43321 51 0     165832174 146751895 143384539 176293313 43321 ERX6698593 ERS8070382 ERA6757553 Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive 1 0.81791   0.15444   0.7151   0.52585   51   B   usable mapping rate illumina hiseq_era unknown poly_a nextera sc single_cell_plate smartseq   Switzerland 2021-12-01 Adult Adult Brain Nervous System
10269 10269 ERR7131137 ERX6698592 ERS8070381 ERP132560 PRJEB48218 Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E-MTAB-11083 Transcriptome Analysis To investigate the effects of rabies infection on neuronal gene expression we compared gene profiles of rabies infected and non infected GABAergic neurons in the Zebrafish olfactory bulb. ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07   Protocols: EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. F3 mCherry GFP SAMEA10418597 Friedrich Miescher Institute for Biomedical Research ENA first public:2021 12 01|ENA last update:2021 12 01|External Id:SAMEA10418597|INSDC center alias:Friedrich Miescher Institute for Biomedical Research|INSDC center name:Friedrich Miescher Institute for Biomedical Research|INSDC first public:2021 12 01T00:23:59Z|INSDC last update:2021 12 01T00:23:59Z|INSDC status:public|Submitter Id:E MTAB 11083:F3 mCherry GFP|age:9|broker name:ArrayExpress|cell type:GABAergic neuron|common name:zebrafish|developmental stage:adult|fraction:mCherry+/GFP+|genotype:Tg[gad1b:Gal4 UAS:TVA mCherry]|individual:pool 3|organism part:olfactory bulb|sample name:E MTAB 11083:F3 mCherry GFP|sex:mixed|stimulus:injected with EnvA RV GFP|strain:Ab x Tu x TL x WIK                 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E MTAB 11083:F3 mCherry GFP s F3 mCherry GFP s Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. Experimental Factor: fraction:mCherry+/GFP+ RNA-Seq TRANSCRIPTOMIC Oligo-dT SINGLE ILLUMINA Illumina HiSeq 2500   ERP132560 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07 2874F9-1_210715_D00404_0538_BCD91CANXX_TGCAGCTA-CTCTCTAT_L006_R1_001.fastq.gz fastq 660379620.0 12948620.0 E MTAB 11083:2874F9 1 210715 D00404 0538 BCD91CANXX TGCAGCTA CTCTCTAT L006 0:51 1:0 A:178482695;C:147417787;G:143797476;T:190635173;N:46489 51 0     178482695 147417787 143797476 190635173 46489 ERX6698592 ERS8070381 ERA6757553 Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive 1 0.65635   0.17778   0.76899   0.52957   51   B   usable mapping rate illumina hiseq_era unknown poly_a nextera sc single_cell_plate smartseq   Switzerland 2021-12-01 Adult Adult Brain Nervous System
10270 10270 ERR7131138 ERX6698592 ERS8070381 ERP132560 PRJEB48218 Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E-MTAB-11083 Transcriptome Analysis To investigate the effects of rabies infection on neuronal gene expression we compared gene profiles of rabies infected and non infected GABAergic neurons in the Zebrafish olfactory bulb. ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07   Protocols: EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. F3 mCherry GFP SAMEA10418597 Friedrich Miescher Institute for Biomedical Research ENA first public:2021 12 01|ENA last update:2021 12 01|External Id:SAMEA10418597|INSDC center alias:Friedrich Miescher Institute for Biomedical Research|INSDC center name:Friedrich Miescher Institute for Biomedical Research|INSDC first public:2021 12 01T00:23:59Z|INSDC last update:2021 12 01T00:23:59Z|INSDC status:public|Submitter Id:E MTAB 11083:F3 mCherry GFP|age:9|broker name:ArrayExpress|cell type:GABAergic neuron|common name:zebrafish|developmental stage:adult|fraction:mCherry+/GFP+|genotype:Tg[gad1b:Gal4 UAS:TVA mCherry]|individual:pool 3|organism part:olfactory bulb|sample name:E MTAB 11083:F3 mCherry GFP|sex:mixed|stimulus:injected with EnvA RV GFP|strain:Ab x Tu x TL x WIK                 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E MTAB 11083:F3 mCherry GFP s F3 mCherry GFP s Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. Experimental Factor: fraction:mCherry+/GFP+ RNA-Seq TRANSCRIPTOMIC Oligo-dT SINGLE ILLUMINA Illumina HiSeq 2500   ERP132560 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07 2874F9-2_210715_D00404_0538_BCD91CANXX_TGCAGCTA-CTCTCTAT_L007_R1_001.fastq.gz fastq 662411307.0 12988457.0 E MTAB 11083:2874F9 2 210715 D00404 0538 BCD91CANXX TGCAGCTA CTCTCTAT L007 0:51 1:0 A:179158323;C:147942300;G:144319925;T:190945370;N:45389 51 0     179158323 147942300 144319925 190945370 45389 ERX6698592 ERS8070381 ERA6757553 Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive 1 0.65813   0.17896   0.77076   0.52835   51   B   usable mapping rate illumina hiseq_era unknown poly_a nextera sc single_cell_plate smartseq   Switzerland 2021-12-01 Adult Adult Brain Nervous System
10271 10271 ERR7131135 ERX6698591 ERS8070380 ERP132560 PRJEB48218 Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E-MTAB-11083 Transcriptome Analysis To investigate the effects of rabies infection on neuronal gene expression we compared gene profiles of rabies infected and non infected GABAergic neurons in the Zebrafish olfactory bulb. ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07   Protocols: EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. F3 mCherry SAMEA10418596 Friedrich Miescher Institute for Biomedical Research ENA first public:2021 12 01|ENA last update:2021 12 01|External Id:SAMEA10418596|INSDC center alias:Friedrich Miescher Institute for Biomedical Research|INSDC center name:Friedrich Miescher Institute for Biomedical Research|INSDC first public:2021 12 01T00:23:59Z|INSDC last update:2021 12 01T00:23:59Z|INSDC status:public|Submitter Id:E MTAB 11083:F3 mCherry|age:9|broker name:ArrayExpress|cell type:GABAergic neuron|common name:zebrafish|developmental stage:adult|fraction:mCherry+/GFP |genotype:Tg[gad1b:Gal4 UAS:TVA mCherry]|individual:pool 3|organism part:olfactory bulb|sample name:E MTAB 11083:F3 mCherry|sex:mixed|stimulus:injected with EnvA RV GFP|strain:Ab x Tu x TL x WIK                 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E MTAB 11083:F3 mCherry s F3 mCherry s Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. Experimental Factor: fraction:mCherry+/GFP RNA-Seq TRANSCRIPTOMIC Oligo-dT SINGLE ILLUMINA Illumina HiSeq 2500   ERP132560 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07 2874F8-1_210715_D00404_0538_BCD91CANXX_CGATCAGT-TCTCTCCG_L006_R1_001.fastq.gz fastq 698608353.0 13698203.0 E MTAB 11083:2874F8 1 210715 D00404 0538 BCD91CANXX CGATCAGT TCTCTCCG L006 0:51 1:0 A:188718612;C:156814081;G:151125083;T:201901570;N:49007 51 0     188718612 156814081 151125083 201901570 49007 ERX6698591 ERS8070380 ERA6757553 Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive 1 0.70185   0.21547   0.75588   0.53853   51   B   usable mapping rate illumina hiseq_era unknown poly_a nextera sc single_cell_plate smartseq   Switzerland 2021-12-01 Adult Adult Brain Nervous System
10272 10272 ERR7131136 ERX6698591 ERS8070380 ERP132560 PRJEB48218 Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E-MTAB-11083 Transcriptome Analysis To investigate the effects of rabies infection on neuronal gene expression we compared gene profiles of rabies infected and non infected GABAergic neurons in the Zebrafish olfactory bulb. ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07   Protocols: EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. F3 mCherry SAMEA10418596 Friedrich Miescher Institute for Biomedical Research ENA first public:2021 12 01|ENA last update:2021 12 01|External Id:SAMEA10418596|INSDC center alias:Friedrich Miescher Institute for Biomedical Research|INSDC center name:Friedrich Miescher Institute for Biomedical Research|INSDC first public:2021 12 01T00:23:59Z|INSDC last update:2021 12 01T00:23:59Z|INSDC status:public|Submitter Id:E MTAB 11083:F3 mCherry|age:9|broker name:ArrayExpress|cell type:GABAergic neuron|common name:zebrafish|developmental stage:adult|fraction:mCherry+/GFP |genotype:Tg[gad1b:Gal4 UAS:TVA mCherry]|individual:pool 3|organism part:olfactory bulb|sample name:E MTAB 11083:F3 mCherry|sex:mixed|stimulus:injected with EnvA RV GFP|strain:Ab x Tu x TL x WIK                 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E MTAB 11083:F3 mCherry s F3 mCherry s Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. Experimental Factor: fraction:mCherry+/GFP RNA-Seq TRANSCRIPTOMIC Oligo-dT SINGLE ILLUMINA Illumina HiSeq 2500   ERP132560 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07 2874F8-2_210715_D00404_0538_BCD91CANXX_CGATCAGT-TCTCTCCG_L007_R1_001.fastq.gz fastq 699869175.0 13722925.0 E MTAB 11083:2874F8 2 210715 D00404 0538 BCD91CANXX CGATCAGT TCTCTCCG L007 0:51 1:0 A:189192315;C:157176897;G:151498983;T:201952867;N:48113 51 0     189192315 157176897 151498983 201952867 48113 ERX6698591 ERS8070380 ERA6757553 Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive 1 0.70221   0.21684   0.75621   0.53787   51   B   usable mapping rate illumina hiseq_era unknown poly_a nextera sc single_cell_plate smartseq   Switzerland 2021-12-01 Adult Adult Brain Nervous System
10273 10273 ERR7131133 ERX6698590 ERS8070379 ERP132560 PRJEB48218 Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E-MTAB-11083 Transcriptome Analysis To investigate the effects of rabies infection on neuronal gene expression we compared gene profiles of rabies infected and non infected GABAergic neurons in the Zebrafish olfactory bulb. ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07   Protocols: EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. F2 Nega SAMEA10418595 Friedrich Miescher Institute for Biomedical Research ENA first public:2021 12 01|ENA last update:2021 12 01|External Id:SAMEA10418595|INSDC center alias:Friedrich Miescher Institute for Biomedical Research|INSDC center name:Friedrich Miescher Institute for Biomedical Research|INSDC first public:2021 12 01T00:23:59Z|INSDC last update:2021 12 01T00:23:59Z|INSDC status:public|Submitter Id:E MTAB 11083:F2 Nega|age:9|broker name:ArrayExpress|cell type:GABAergic neuron|common name:zebrafish|developmental stage:adult|fraction:mCherry /GFP |genotype:Tg[gad1b:Gal4 UAS:TVA mCherry]|individual:pool 2|organism part:olfactory bulb|sample name:E MTAB 11083:F2 Nega|sex:mixed|stimulus:injected with EnvA RV GFP|strain:Ab x Tu x TL x WIK                 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E MTAB 11083:F2 Nega s F2 Nega s Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. Experimental Factor: fraction:mCherry /GFP RNA-Seq TRANSCRIPTOMIC Oligo-dT SINGLE ILLUMINA Illumina HiSeq 2500   ERP132560 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07 2874F4-1_210715_D00404_0538_BCD91CANXX_CGATCAGT-ACTGCATA_L006_R1_001.fastq.gz fastq 573812985.0 11251235.0 E MTAB 11083:2874F4 1 210715 D00404 0538 BCD91CANXX CGATCAGT ACTGCATA L006 0:51 1:0 A:150716404;C:132203167;G:129732968;T:161120057;N:40389 51 0     150716404 132203167 129732968 161120057 40389 ERX6698590 ERS8070379 ERA6757553 Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive 1 0.81899   0.17302   0.72281   0.54315   51   B   usable mapping rate illumina hiseq_era unknown poly_a nextera sc single_cell_plate smartseq   Switzerland 2021-12-01 Adult Adult Brain Nervous System
10274 10274 ERR7131134 ERX6698590 ERS8070379 ERP132560 PRJEB48218 Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E-MTAB-11083 Transcriptome Analysis To investigate the effects of rabies infection on neuronal gene expression we compared gene profiles of rabies infected and non infected GABAergic neurons in the Zebrafish olfactory bulb. ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07   Protocols: EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. F2 Nega SAMEA10418595 Friedrich Miescher Institute for Biomedical Research ENA first public:2021 12 01|ENA last update:2021 12 01|External Id:SAMEA10418595|INSDC center alias:Friedrich Miescher Institute for Biomedical Research|INSDC center name:Friedrich Miescher Institute for Biomedical Research|INSDC first public:2021 12 01T00:23:59Z|INSDC last update:2021 12 01T00:23:59Z|INSDC status:public|Submitter Id:E MTAB 11083:F2 Nega|age:9|broker name:ArrayExpress|cell type:GABAergic neuron|common name:zebrafish|developmental stage:adult|fraction:mCherry /GFP |genotype:Tg[gad1b:Gal4 UAS:TVA mCherry]|individual:pool 2|organism part:olfactory bulb|sample name:E MTAB 11083:F2 Nega|sex:mixed|stimulus:injected with EnvA RV GFP|strain:Ab x Tu x TL x WIK                 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E MTAB 11083:F2 Nega s F2 Nega s Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. Experimental Factor: fraction:mCherry /GFP RNA-Seq TRANSCRIPTOMIC Oligo-dT SINGLE ILLUMINA Illumina HiSeq 2500   ERP132560 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07 2874F4-2_210715_D00404_0538_BCD91CANXX_CGATCAGT-ACTGCATA_L007_R1_001.fastq.gz fastq 576184587.0 11297737.0 E MTAB 11083:2874F4 2 210715 D00404 0538 BCD91CANXX CGATCAGT ACTGCATA L007 0:51 1:0 A:151387408;C:132788210;G:130392043;T:161577529;N:39397 51 0     151387408 132788210 130392043 161577529 39397 ERX6698590 ERS8070379 ERA6757553 Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive 1 0.81999   0.17082   0.72196   0.54505   51   B   usable mapping rate illumina hiseq_era unknown poly_a nextera sc single_cell_plate smartseq   Switzerland 2021-12-01 Adult Adult Brain Nervous System
10275 10275 ERR7131131 ERX6698589 ERS8070378 ERP132560 PRJEB48218 Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E-MTAB-11083 Transcriptome Analysis To investigate the effects of rabies infection on neuronal gene expression we compared gene profiles of rabies infected and non infected GABAergic neurons in the Zebrafish olfactory bulb. ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07   Protocols: EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. F2 mCherry GFP SAMEA10418594 Friedrich Miescher Institute for Biomedical Research ENA first public:2021 12 01|ENA last update:2021 12 01|External Id:SAMEA10418594|INSDC center alias:Friedrich Miescher Institute for Biomedical Research|INSDC center name:Friedrich Miescher Institute for Biomedical Research|INSDC first public:2021 12 01T00:23:59Z|INSDC last update:2021 12 01T00:23:59Z|INSDC status:public|Submitter Id:E MTAB 11083:F2 mCherry GFP|age:9|broker name:ArrayExpress|cell type:GABAergic neuron|common name:zebrafish|developmental stage:adult|fraction:mCherry+/GFP+|genotype:Tg[gad1b:Gal4 UAS:TVA mCherry]|individual:pool 2|organism part:olfactory bulb|sample name:E MTAB 11083:F2 mCherry GFP|sex:mixed|stimulus:injected with EnvA RV GFP|strain:Ab x Tu x TL x WIK                 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E MTAB 11083:F2 mCherry GFP s F2 mCherry GFP s Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. Experimental Factor: fraction:mCherry+/GFP+ RNA-Seq TRANSCRIPTOMIC Oligo-dT SINGLE ILLUMINA Illumina HiSeq 2500   ERP132560 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07 2874F6-1_210715_D00404_0538_BCD91CANXX_CGATCAGT-CTAAGCCT_L006_R1_001.fastq.gz fastq 654811032.0 12839432.0 E MTAB 11083:2874F6 1 210715 D00404 0538 BCD91CANXX CGATCAGT CTAAGCCT L006 0:51 1:0 A:177403486;C:146202733;G:142207545;T:188951373;N:45895 51 0     177403486 146202733 142207545 188951373 45895 ERX6698589 ERS8070378 ERA6757553 Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive 1 0.67854   0.21407   0.76104   0.52713   51   B   usable mapping rate illumina hiseq_era unknown poly_a nextera sc single_cell_plate smartseq   Switzerland 2021-12-01 Adult Adult Brain Nervous System
10276 10276 ERR7131132 ERX6698589 ERS8070378 ERP132560 PRJEB48218 Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E-MTAB-11083 Transcriptome Analysis To investigate the effects of rabies infection on neuronal gene expression we compared gene profiles of rabies infected and non infected GABAergic neurons in the Zebrafish olfactory bulb. ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07   Protocols: EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. F2 mCherry GFP SAMEA10418594 Friedrich Miescher Institute for Biomedical Research ENA first public:2021 12 01|ENA last update:2021 12 01|External Id:SAMEA10418594|INSDC center alias:Friedrich Miescher Institute for Biomedical Research|INSDC center name:Friedrich Miescher Institute for Biomedical Research|INSDC first public:2021 12 01T00:23:59Z|INSDC last update:2021 12 01T00:23:59Z|INSDC status:public|Submitter Id:E MTAB 11083:F2 mCherry GFP|age:9|broker name:ArrayExpress|cell type:GABAergic neuron|common name:zebrafish|developmental stage:adult|fraction:mCherry+/GFP+|genotype:Tg[gad1b:Gal4 UAS:TVA mCherry]|individual:pool 2|organism part:olfactory bulb|sample name:E MTAB 11083:F2 mCherry GFP|sex:mixed|stimulus:injected with EnvA RV GFP|strain:Ab x Tu x TL x WIK                 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E MTAB 11083:F2 mCherry GFP s F2 mCherry GFP s Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. Experimental Factor: fraction:mCherry+/GFP+ RNA-Seq TRANSCRIPTOMIC Oligo-dT SINGLE ILLUMINA Illumina HiSeq 2500   ERP132560 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07 2874F6-2_210715_D00404_0538_BCD91CANXX_CGATCAGT-CTAAGCCT_L007_R1_001.fastq.gz fastq 656911926.0 12880626.0 E MTAB 11083:2874F6 2 210715 D00404 0538 BCD91CANXX CGATCAGT CTAAGCCT L007 0:51 1:0 A:178119212;C:146730132;G:142725348;T:189293212;N:44022 51 0     178119212 146730132 142725348 189293212 44022 ERX6698589 ERS8070378 ERA6757553 Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive 1 0.68162   0.21431   0.761   0.5071   51   B   usable mapping rate illumina hiseq_era unknown poly_a nextera sc single_cell_plate smartseq   Switzerland 2021-12-01 Adult Adult Brain Nervous System
10277 10277 ERR7131129 ERX6698588 ERS8070377 ERP132560 PRJEB48218 Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E-MTAB-11083 Transcriptome Analysis To investigate the effects of rabies infection on neuronal gene expression we compared gene profiles of rabies infected and non infected GABAergic neurons in the Zebrafish olfactory bulb. ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07   Protocols: EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. F2 mCherry SAMEA10418593 Friedrich Miescher Institute for Biomedical Research ENA first public:2021 12 01|ENA last update:2021 12 01|External Id:SAMEA10418593|INSDC center alias:Friedrich Miescher Institute for Biomedical Research|INSDC center name:Friedrich Miescher Institute for Biomedical Research|INSDC first public:2021 12 01T00:23:59Z|INSDC last update:2021 12 01T00:23:59Z|INSDC status:public|Submitter Id:E MTAB 11083:F2 mCherry|age:9|broker name:ArrayExpress|cell type:GABAergic neuron|common name:zebrafish|developmental stage:adult|fraction:mCherry+/GFP |genotype:Tg[gad1b:Gal4 UAS:TVA mCherry]|individual:pool 2|organism part:olfactory bulb|sample name:E MTAB 11083:F2 mCherry|sex:mixed|stimulus:injected with EnvA RV GFP|strain:Ab x Tu x TL x WIK                 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E MTAB 11083:F2 mCherry s F2 mCherry s Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. Experimental Factor: fraction:mCherry+/GFP RNA-Seq TRANSCRIPTOMIC Oligo-dT SINGLE ILLUMINA Illumina HiSeq 2500   ERP132560 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07 2874F5-1_210715_D00404_0538_BCD91CANXX_CGATCAGT-AAGGAGTA_L006_R1_001.fastq.gz fastq 607851558.0 11918658.0 E MTAB 11083:2874F5 1 210715 D00404 0538 BCD91CANXX CGATCAGT AAGGAGTA L006 0:51 1:0 A:164814138;C:136071648;G:132945950;T:173976881;N:42941 51 0     164814138 136071648 132945950 173976881 42941 ERX6698588 ERS8070377 ERA6757553 Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive 1 0.78967   0.18905   0.73241   0.52347   51   B   usable mapping rate illumina hiseq_era unknown poly_a nextera sc single_cell_plate smartseq   Switzerland 2021-12-01 Adult Adult Brain Nervous System
10278 10278 ERR7131130 ERX6698588 ERS8070377 ERP132560 PRJEB48218 Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E-MTAB-11083 Transcriptome Analysis To investigate the effects of rabies infection on neuronal gene expression we compared gene profiles of rabies infected and non infected GABAergic neurons in the Zebrafish olfactory bulb. ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07   Protocols: EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. F2 mCherry SAMEA10418593 Friedrich Miescher Institute for Biomedical Research ENA first public:2021 12 01|ENA last update:2021 12 01|External Id:SAMEA10418593|INSDC center alias:Friedrich Miescher Institute for Biomedical Research|INSDC center name:Friedrich Miescher Institute for Biomedical Research|INSDC first public:2021 12 01T00:23:59Z|INSDC last update:2021 12 01T00:23:59Z|INSDC status:public|Submitter Id:E MTAB 11083:F2 mCherry|age:9|broker name:ArrayExpress|cell type:GABAergic neuron|common name:zebrafish|developmental stage:adult|fraction:mCherry+/GFP |genotype:Tg[gad1b:Gal4 UAS:TVA mCherry]|individual:pool 2|organism part:olfactory bulb|sample name:E MTAB 11083:F2 mCherry|sex:mixed|stimulus:injected with EnvA RV GFP|strain:Ab x Tu x TL x WIK                 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E MTAB 11083:F2 mCherry s F2 mCherry s Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. Experimental Factor: fraction:mCherry+/GFP RNA-Seq TRANSCRIPTOMIC Oligo-dT SINGLE ILLUMINA Illumina HiSeq 2500   ERP132560 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07 2874F5-2_210715_D00404_0538_BCD91CANXX_CGATCAGT-AAGGAGTA_L007_R1_001.fastq.gz fastq 610931805.0 11979055.0 E MTAB 11083:2874F5 2 210715 D00404 0538 BCD91CANXX CGATCAGT AAGGAGTA L007 0:51 1:0 A:165714775;C:136822925;G:133684294;T:174667814;N:41997 51 0     165714775 136822925 133684294 174667814 41997 ERX6698588 ERS8070377 ERA6757553 Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive 1 0.78869   0.18885   0.73156   0.51691   51   B   usable mapping rate illumina hiseq_era unknown poly_a nextera sc single_cell_plate smartseq   Switzerland 2021-12-01 Adult Adult Brain Nervous System
10279 10279 ERR7131127 ERX6698587 ERS8070376 ERP132560 PRJEB48218 Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E-MTAB-11083 Transcriptome Analysis To investigate the effects of rabies infection on neuronal gene expression we compared gene profiles of rabies infected and non infected GABAergic neurons in the Zebrafish olfactory bulb. ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07   Protocols: EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. F1 Nega SAMEA10418592 Friedrich Miescher Institute for Biomedical Research ENA first public:2021 12 01|ENA last update:2021 12 01|External Id:SAMEA10418592|INSDC center alias:Friedrich Miescher Institute for Biomedical Research|INSDC center name:Friedrich Miescher Institute for Biomedical Research|INSDC first public:2021 12 01T00:23:59Z|INSDC last update:2021 12 01T00:23:59Z|INSDC status:public|Submitter Id:E MTAB 11083:F1 Nega|age:9|broker name:ArrayExpress|cell type:GABAergic neuron|common name:zebrafish|developmental stage:adult|fraction:mCherry /GFP |genotype:Tg[gad1b:Gal4 UAS:TVA mCherry]|individual:pool 1|organism part:olfactory bulb|sample name:E MTAB 11083:F1 Nega|sex:mixed|stimulus:injected with EnvA RV GFP|strain:Ab x Tu x TL x WIK                 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E MTAB 11083:F1 Nega s F1 Nega s Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. Experimental Factor: fraction:mCherry /GFP RNA-Seq TRANSCRIPTOMIC Oligo-dT SINGLE ILLUMINA Illumina HiSeq 2500   ERP132560 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07 2874F1-1_210715_D00404_0538_BCD91CANXX_CGATCAGT-CTCTCTAT_L006_R1_001.fastq.gz fastq 619561872.0 12148272.0 E MTAB 11083:2874F1 1 210715 D00404 0538 BCD91CANXX CGATCAGT CTCTCTAT L006 0:51 1:0 A:164385545;C:141746313;G:138163219;T:175223323;N:43472 51 0     164385545 141746313 138163219 175223323 43472 ERX6698587 ERS8070376 ERA6757553 Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive 1 0.80258   0.17703   0.72614   0.53483   51   B   usable mapping rate illumina hiseq_era unknown poly_a nextera sc single_cell_plate smartseq   Switzerland 2021-12-01 Adult Adult Brain Nervous System
10280 10280 ERR7131128 ERX6698587 ERS8070376 ERP132560 PRJEB48218 Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E-MTAB-11083 Transcriptome Analysis To investigate the effects of rabies infection on neuronal gene expression we compared gene profiles of rabies infected and non infected GABAergic neurons in the Zebrafish olfactory bulb. ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07   Protocols: EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. F1 Nega SAMEA10418592 Friedrich Miescher Institute for Biomedical Research ENA first public:2021 12 01|ENA last update:2021 12 01|External Id:SAMEA10418592|INSDC center alias:Friedrich Miescher Institute for Biomedical Research|INSDC center name:Friedrich Miescher Institute for Biomedical Research|INSDC first public:2021 12 01T00:23:59Z|INSDC last update:2021 12 01T00:23:59Z|INSDC status:public|Submitter Id:E MTAB 11083:F1 Nega|age:9|broker name:ArrayExpress|cell type:GABAergic neuron|common name:zebrafish|developmental stage:adult|fraction:mCherry /GFP |genotype:Tg[gad1b:Gal4 UAS:TVA mCherry]|individual:pool 1|organism part:olfactory bulb|sample name:E MTAB 11083:F1 Nega|sex:mixed|stimulus:injected with EnvA RV GFP|strain:Ab x Tu x TL x WIK                 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E MTAB 11083:F1 Nega s F1 Nega s Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. Experimental Factor: fraction:mCherry /GFP RNA-Seq TRANSCRIPTOMIC Oligo-dT SINGLE ILLUMINA Illumina HiSeq 2500   ERP132560 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07 2874F1-2_210715_D00404_0538_BCD91CANXX_CGATCAGT-CTCTCTAT_L007_R1_001.fastq.gz fastq 621481971.0 12185921.0 E MTAB 11083:2874F1 2 210715 D00404 0538 BCD91CANXX CGATCAGT CTCTCTAT L007 0:51 1:0 A:165030774;C:142231469;G:138651078;T:175527080;N:41570 51 0     165030774 142231469 138651078 175527080 41570 ERX6698587 ERS8070376 ERA6757553 Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive 1 0.80248   0.17699   0.726   0.53711   51   B   usable mapping rate illumina hiseq_era unknown poly_a nextera sc single_cell_plate smartseq   Switzerland 2021-12-01 Adult Adult Brain Nervous System
10281 10281 ERR7131125 ERX6698586 ERS8070375 ERP132560 PRJEB48218 Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E-MTAB-11083 Transcriptome Analysis To investigate the effects of rabies infection on neuronal gene expression we compared gene profiles of rabies infected and non infected GABAergic neurons in the Zebrafish olfactory bulb. ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07   Protocols: EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. F1 mCherry GFP SAMEA10418591 Friedrich Miescher Institute for Biomedical Research ENA first public:2021 12 01|ENA last update:2021 12 01|External Id:SAMEA10418591|INSDC center alias:Friedrich Miescher Institute for Biomedical Research|INSDC center name:Friedrich Miescher Institute for Biomedical Research|INSDC first public:2021 12 01T00:23:59Z|INSDC last update:2021 12 01T00:23:59Z|INSDC status:public|Submitter Id:E MTAB 11083:F1 mCherry GFP|age:9|broker name:ArrayExpress|cell type:GABAergic neuron|common name:zebrafish|developmental stage:adult|fraction:mCherry+/GFP+|genotype:Tg[gad1b:Gal4 UAS:TVA mCherry]|individual:pool 1|organism part:olfactory bulb|sample name:E MTAB 11083:F1 mCherry GFP|sex:mixed|stimulus:injected with EnvA RV GFP|strain:Ab x Tu x TL x WIK                 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E MTAB 11083:F1 mCherry GFP s F1 mCherry GFP s Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. Experimental Factor: fraction:mCherry+/GFP+ RNA-Seq TRANSCRIPTOMIC Oligo-dT SINGLE ILLUMINA Illumina HiSeq 2500   ERP132560 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07 2874F3-1_210715_D00404_0538_BCD91CANXX_CGATCAGT-GTAAGGAG_L006_R1_001.fastq.gz fastq 651189369.0 12768419.0 E MTAB 11083:2874F3 1 210715 D00404 0538 BCD91CANXX CGATCAGT GTAAGGAG L006 0:51 1:0 A:176398415;C:145659111;G:142137610;T:186948280;N:45953 51 0     176398415 145659111 142137610 186948280 45953 ERX6698586 ERS8070375 ERA6757553 Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive 1 0.69561   0.18489   0.75345   0.52316   51   B   usable mapping rate illumina hiseq_era unknown poly_a nextera sc single_cell_plate smartseq   Switzerland 2021-12-01 Adult Adult Brain Nervous System
10282 10282 ERR7131126 ERX6698586 ERS8070375 ERP132560 PRJEB48218 Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E-MTAB-11083 Transcriptome Analysis To investigate the effects of rabies infection on neuronal gene expression we compared gene profiles of rabies infected and non infected GABAergic neurons in the Zebrafish olfactory bulb. ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07   Protocols: EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. F1 mCherry GFP SAMEA10418591 Friedrich Miescher Institute for Biomedical Research ENA first public:2021 12 01|ENA last update:2021 12 01|External Id:SAMEA10418591|INSDC center alias:Friedrich Miescher Institute for Biomedical Research|INSDC center name:Friedrich Miescher Institute for Biomedical Research|INSDC first public:2021 12 01T00:23:59Z|INSDC last update:2021 12 01T00:23:59Z|INSDC status:public|Submitter Id:E MTAB 11083:F1 mCherry GFP|age:9|broker name:ArrayExpress|cell type:GABAergic neuron|common name:zebrafish|developmental stage:adult|fraction:mCherry+/GFP+|genotype:Tg[gad1b:Gal4 UAS:TVA mCherry]|individual:pool 1|organism part:olfactory bulb|sample name:E MTAB 11083:F1 mCherry GFP|sex:mixed|stimulus:injected with EnvA RV GFP|strain:Ab x Tu x TL x WIK                 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E MTAB 11083:F1 mCherry GFP s F1 mCherry GFP s Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. Experimental Factor: fraction:mCherry+/GFP+ RNA-Seq TRANSCRIPTOMIC Oligo-dT SINGLE ILLUMINA Illumina HiSeq 2500   ERP132560 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07 2874F3-2_210715_D00404_0538_BCD91CANXX_CGATCAGT-GTAAGGAG_L007_R1_001.fastq.gz fastq 653398944.0 12811744.0 E MTAB 11083:2874F3 2 210715 D00404 0538 BCD91CANXX CGATCAGT GTAAGGAG L007 0:51 1:0 A:177139734;C:146171766;G:142707146;T:187335475;N:44823 51 0     177139734 146171766 142707146 187335475 44823 ERX6698586 ERS8070375 ERA6757553 Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive 1 0.69496   0.18414   0.75375   0.52317   51   B   usable mapping rate illumina hiseq_era unknown poly_a nextera sc single_cell_plate smartseq   Switzerland 2021-12-01 Adult Adult Brain Nervous System
10283 10283 ERR7131123 ERX6698585 ERS8070374 ERP132560 PRJEB48218 Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E-MTAB-11083 Transcriptome Analysis To investigate the effects of rabies infection on neuronal gene expression we compared gene profiles of rabies infected and non infected GABAergic neurons in the Zebrafish olfactory bulb. ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07   Protocols: EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. F1 mCherry SAMEA10418590 Friedrich Miescher Institute for Biomedical Research ENA first public:2021 12 01|ENA last update:2021 12 01|External Id:SAMEA10418590|INSDC center alias:Friedrich Miescher Institute for Biomedical Research|INSDC center name:Friedrich Miescher Institute for Biomedical Research|INSDC first public:2021 12 01T00:23:59Z|INSDC last update:2021 12 01T00:23:59Z|INSDC status:public|Submitter Id:E MTAB 11083:F1 mCherry|age:9|broker name:ArrayExpress|cell type:GABAergic neuron|common name:zebrafish|developmental stage:adult|fraction:mCherry+/GFP |genotype:Tg[gad1b:Gal4 UAS:TVA mCherry]|individual:pool 1|organism part:olfactory bulb|sample name:E MTAB 11083:F1 mCherry|sex:mixed|stimulus:injected with EnvA RV GFP|strain:Ab x Tu x TL x WIK                 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E MTAB 11083:F1 mCherry s F1 mCherry s Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. Experimental Factor: fraction:mCherry+/GFP RNA-Seq TRANSCRIPTOMIC Oligo-dT SINGLE ILLUMINA Illumina HiSeq 2500   ERP132560 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07 2874F2-1_210715_D00404_0538_BCD91CANXX_CGATCAGT-TATCCTCT_L006_R1_001.fastq.gz fastq 613574319.0 12030869.0 E MTAB 11083:2874F2 1 210715 D00404 0538 BCD91CANXX CGATCAGT TATCCTCT L006 0:51 1:0 A:164891629;C:138401759;G:135818073;T:174419828;N:43030 51 0     164891629 138401759 135818073 174419828 43030 ERX6698585 ERS8070374 ERA6757553 Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive 1 0.79499   0.21674   0.73359   0.52207   51   B   usable mapping rate illumina hiseq_era unknown poly_a nextera sc single_cell_plate smartseq   Switzerland 2021-12-01 Adult Adult Brain Nervous System
10284 10284 ERR7131124 ERX6698585 ERS8070374 ERP132560 PRJEB48218 Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E-MTAB-11083 Transcriptome Analysis To investigate the effects of rabies infection on neuronal gene expression we compared gene profiles of rabies infected and non infected GABAergic neurons in the Zebrafish olfactory bulb. ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07   Protocols: EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. F1 mCherry SAMEA10418590 Friedrich Miescher Institute for Biomedical Research ENA first public:2021 12 01|ENA last update:2021 12 01|External Id:SAMEA10418590|INSDC center alias:Friedrich Miescher Institute for Biomedical Research|INSDC center name:Friedrich Miescher Institute for Biomedical Research|INSDC first public:2021 12 01T00:23:59Z|INSDC last update:2021 12 01T00:23:59Z|INSDC status:public|Submitter Id:E MTAB 11083:F1 mCherry|age:9|broker name:ArrayExpress|cell type:GABAergic neuron|common name:zebrafish|developmental stage:adult|fraction:mCherry+/GFP |genotype:Tg[gad1b:Gal4 UAS:TVA mCherry]|individual:pool 1|organism part:olfactory bulb|sample name:E MTAB 11083:F1 mCherry|sex:mixed|stimulus:injected with EnvA RV GFP|strain:Ab x Tu x TL x WIK                 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E MTAB 11083:F1 mCherry s F1 mCherry s Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. Experimental Factor: fraction:mCherry+/GFP RNA-Seq TRANSCRIPTOMIC Oligo-dT SINGLE ILLUMINA Illumina HiSeq 2500   ERP132560 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07 2874F2-2_210715_D00404_0538_BCD91CANXX_CGATCAGT-TATCCTCT_L007_R1_001.fastq.gz fastq 615666798.0 12071898.0 E MTAB 11083:2874F2 2 210715 D00404 0538 BCD91CANXX CGATCAGT TATCCTCT L007 0:51 1:0 A:165536502;C:138952758;G:136375193;T:174760659;N:41686 51 0     165536502 138952758 136375193 174760659 41686 ERX6698585 ERS8070374 ERA6757553 Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive 1 0.7941   0.21645   0.73494   0.50761   51   B   usable mapping rate illumina hiseq_era unknown poly_a nextera sc single_cell_plate smartseq   Switzerland 2021-12-01 Adult Adult Brain Nervous System
11046 11046 ERR10476843 ERX9997186 ERS13672511 ERP138527 PRJEB53713 Time course whole brain transcriptome and methylome profiles of early life high GC exposed zebrafish f79d57b2-1e93-4ca0-8fda-fd881a2a0c1e Other Whole brain transcriptome mRNA profiles of zebrafish which exposed to elavated glucocorticoid GC optogenetically at 6 13 120 dpf dpf and post predatory stress looming dots stress at xxx dpf. All subjective adults at 120 dpf were female. Tubingen strain was used as wildtype control and brains from transgenic line Tgstar:bPAC 2A tdTomatouoe300 +/ and / were sequenced on Illumina NovaSeq6000 by TRON gGmbH Mainz Germany. Paired end TruSeq Stranded mRNA libraries Illumina CA USA were constructed and over 20M of 50 bp reads/sample were sequenced. Oxford Nanopore sequencing was used for DNA methylation identification. These data were generated for the study by Choi et al. 2024. https://www.biorxiv.org/content/10.1101/2023.02.13.528363v4 ENA FIRST PUBLIC:2024 02 06|ENA LAST UPDATE:2024 02 06   star:bPAC / whole brain pooled 3 brains star:bPAC / whole brain day120+LD stress SAMEA111562655 Living Systems Institute, University of Exeter INSDC center name:Living Systems Institute University of Exeter|Submitter Id:star neg LD 2|collection date:2019 12|common name:zebrafish|dev stage:120 dpf|geographic location country and/or sea:Germany|sample name:star neg LD 2|scientific name:Danio rerio|sex:female|strain:Tübingen|tissue type:brain                 Illumina NovaSeq 6000 paired end sequencing ena EXPERIMENT TAB 09 11 2022 11:52:59:198 283105 Sample 0256 122 FR NSP TR1 SL1 1     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina NovaSeq 6000   ERP138527 Illumina NovaSeq 6000 paired end sequencing ENA FIRST PUBLIC:2024 02 06|ENA LAST UPDATE:2024 02 06 0256_122_FR_NSP_TR1_SL1_S51_L001_R1_001-pooled.fastq.gz 0256_122_FR_NSP_TR1_SL1_S51_L001_R2_001-pooled.fastq.gz fastq fastq 3396097242.0 33295071.0 ena RUN TAB 09 11 2022 11:52:59:199 283106 0:51 1:51 A:937395652;C:754621322;G:762999709;T:941041776;N:38783 51 51     937395652 754621322 762999709 941041776 38783 ERX9997186 ERS13672511 ERA18581410 living systems institute, university of exeter|European Nucleotide Archive living systems institute, university of exeter|European Nucleotide Archive                       B B biological fallback assumption illumina novaseq_era full_length poly_a trueseq bulk unknown unknown   United Kingdom 2024-02-06 Adult Adult Brain Nervous System
11047 11047 ERR10476807 ERX9997150 ERS13672475 ERP138527 PRJEB53713 Time course whole brain transcriptome and methylome profiles of early life high GC exposed zebrafish f79d57b2-1e93-4ca0-8fda-fd881a2a0c1e Other Whole brain transcriptome mRNA profiles of zebrafish which exposed to elavated glucocorticoid GC optogenetically at 6 13 120 dpf dpf and post predatory stress looming dots stress at xxx dpf. All subjective adults at 120 dpf were female. Tubingen strain was used as wildtype control and brains from transgenic line Tgstar:bPAC 2A tdTomatouoe300 +/ and / were sequenced on Illumina NovaSeq6000 by TRON gGmbH Mainz Germany. Paired end TruSeq Stranded mRNA libraries Illumina CA USA were constructed and over 20M of 50 bp reads/sample were sequenced. Oxford Nanopore sequencing was used for DNA methylation identification. These data were generated for the study by Choi et al. 2024. https://www.biorxiv.org/content/10.1101/2023.02.13.528363v4 ENA FIRST PUBLIC:2024 02 06|ENA LAST UPDATE:2024 02 06   star:bPAC+/ whole brain pooled 15 brains star:bPAC+/ whole brain day6 SAMEA111562619 Living Systems Institute, University of Exeter INSDC center name:Living Systems Institute University of Exeter|Submitter Id:star pos d6 1|collection date:2019 12|common name:zebrafish|dev stage:6 dpf|geographic location country and/or sea:Germany|sample name:star pos d6 1|scientific name:Danio rerio|sex:N/A|strain:Tübingen|tissue type:brain                 Illumina NovaSeq 6000 paired end sequencing ena EXPERIMENT TAB 09 11 2022 11:52:59:183 283033 Sample 0256 076 FR NSP TR1 SL1 1     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina NovaSeq 6000   ERP138527 Illumina NovaSeq 6000 paired end sequencing ENA FIRST PUBLIC:2024 02 06|ENA LAST UPDATE:2024 02 06 0256_076_FR_NSP_TR1_SL1_S7_L001_R1_001-pooled.fastq.gz 0256_076_FR_NSP_TR1_SL1_S7_L001_R2_001-pooled.fastq.gz fastq fastq 2974117224.0 29158012.0 ena RUN TAB 09 11 2022 11:52:59:183 283034 0:51 1:51 A:816102587;C:662715848;G:672777315;T:822487687;N:33787 51 51     816102587 662715848 672777315 822487687 33787 ERX9997150 ERS13672475 ERA18581410 living systems institute, university of exeter|European Nucleotide Archive living systems institute, university of exeter|European Nucleotide Archive                       B B biological fallback assumption illumina novaseq_era full_length poly_a trueseq bulk unknown unknown   United Kingdom 2024-02-06 Larval Larval Brain Nervous System
11048 11048 ERR10476845 ERX9997188 ERS13672513 ERP138527 PRJEB53713 Time course whole brain transcriptome and methylome profiles of early life high GC exposed zebrafish f79d57b2-1e93-4ca0-8fda-fd881a2a0c1e Other Whole brain transcriptome mRNA profiles of zebrafish which exposed to elavated glucocorticoid GC optogenetically at 6 13 120 dpf dpf and post predatory stress looming dots stress at xxx dpf. All subjective adults at 120 dpf were female. Tubingen strain was used as wildtype control and brains from transgenic line Tgstar:bPAC 2A tdTomatouoe300 +/ and / were sequenced on Illumina NovaSeq6000 by TRON gGmbH Mainz Germany. Paired end TruSeq Stranded mRNA libraries Illumina CA USA were constructed and over 20M of 50 bp reads/sample were sequenced. Oxford Nanopore sequencing was used for DNA methylation identification. These data were generated for the study by Choi et al. 2024. https://www.biorxiv.org/content/10.1101/2023.02.13.528363v4 ENA FIRST PUBLIC:2024 02 06|ENA LAST UPDATE:2024 02 06   star:bPAC / whole brain pooled 3 brains star:bPAC / whole brain day120+LD stress SAMEA111562657 Living Systems Institute, University of Exeter INSDC center name:Living Systems Institute University of Exeter|Submitter Id:star neg LD 4|collection date:2019 12|common name:zebrafish|dev stage:120 dpf|geographic location country and/or sea:Germany|sample name:star neg LD 4|scientific name:Danio rerio|sex:female|strain:Tübingen|tissue type:brain                 Illumina NovaSeq 6000 paired end sequencing ena EXPERIMENT TAB 09 11 2022 11:52:59:199 283109 Sample 0256 124 FR NSP TR1 SL1 1     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina NovaSeq 6000   ERP138527 Illumina NovaSeq 6000 paired end sequencing ENA FIRST PUBLIC:2024 02 06|ENA LAST UPDATE:2024 02 06 0256_124_FR_NSP_TR1_SL1_S53_L001_R1_001-pooled.fastq.gz 0256_124_FR_NSP_TR1_SL1_S53_L001_R2_001-pooled.fastq.gz fastq fastq 2964111330.0 29059915.0 ena RUN TAB 09 11 2022 11:52:59:199 283110 0:51 1:51 A:822335161;C:651614200;G:667534457;T:822593427;N:34085 51 51     822335161 651614200 667534457 822593427 34085 ERX9997188 ERS13672513 ERA18581410 living systems institute, university of exeter|European Nucleotide Archive living systems institute, university of exeter|European Nucleotide Archive                       B B biological fallback assumption illumina novaseq_era full_length poly_a trueseq bulk unknown unknown   United Kingdom 2024-02-06 Adult Adult Brain Nervous System
11049 11049 ERR10476819 ERX9997162 ERS13672487 ERP138527 PRJEB53713 Time course whole brain transcriptome and methylome profiles of early life high GC exposed zebrafish f79d57b2-1e93-4ca0-8fda-fd881a2a0c1e Other Whole brain transcriptome mRNA profiles of zebrafish which exposed to elavated glucocorticoid GC optogenetically at 6 13 120 dpf dpf and post predatory stress looming dots stress at xxx dpf. All subjective adults at 120 dpf were female. Tubingen strain was used as wildtype control and brains from transgenic line Tgstar:bPAC 2A tdTomatouoe300 +/ and / were sequenced on Illumina NovaSeq6000 by TRON gGmbH Mainz Germany. Paired end TruSeq Stranded mRNA libraries Illumina CA USA were constructed and over 20M of 50 bp reads/sample were sequenced. Oxford Nanopore sequencing was used for DNA methylation identification. These data were generated for the study by Choi et al. 2024. https://www.biorxiv.org/content/10.1101/2023.02.13.528363v4 ENA FIRST PUBLIC:2024 02 06|ENA LAST UPDATE:2024 02 06   star:bPAC+/ whole brain pooled 3 brains star:bPAC+/ whole brain day120 SAMEA111562631 Living Systems Institute, University of Exeter INSDC center name:Living Systems Institute University of Exeter|Submitter Id:star pos d120 3|collection date:2019 12|common name:zebrafish|dev stage:120 dpf|geographic location country and/or sea:Germany|sample name:star pos d120 3|scientific name:Danio rerio|sex:female|strain:Tübingen|tissue type:brain                 Illumina NovaSeq 6000 paired end sequencing ena EXPERIMENT TAB 09 11 2022 11:52:59:188 283057 Sample 0256 093 FR NSP TR1 SL1 1     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina NovaSeq 6000   ERP138527 Illumina NovaSeq 6000 paired end sequencing ENA FIRST PUBLIC:2024 02 06|ENA LAST UPDATE:2024 02 06 0256_093_FR_NSP_TR1_SL1_S24_L001_R1_001-pooled.fastq.gz 0256_093_FR_NSP_TR1_SL1_S24_L001_R2_001-pooled.fastq.gz fastq fastq 3376444086.0 33102393.0 ena RUN TAB 09 11 2022 11:52:59:188 283058 0:51 1:51 A:938993037;C:741979766;G:744362740;T:951069922;N:38621 51 51     938993037 741979766 744362740 951069922 38621 ERX9997162 ERS13672487 ERA18581410 living systems institute, university of exeter|European Nucleotide Archive living systems institute, university of exeter|European Nucleotide Archive                       B B biological fallback assumption illumina novaseq_era full_length poly_a trueseq bulk unknown unknown   United Kingdom 2024-02-06 Adult Adult Brain Nervous System
11050 11050 ERR10476814 ERX9997157 ERS13672482 ERP138527 PRJEB53713 Time course whole brain transcriptome and methylome profiles of early life high GC exposed zebrafish f79d57b2-1e93-4ca0-8fda-fd881a2a0c1e Other Whole brain transcriptome mRNA profiles of zebrafish which exposed to elavated glucocorticoid GC optogenetically at 6 13 120 dpf dpf and post predatory stress looming dots stress at xxx dpf. All subjective adults at 120 dpf were female. Tubingen strain was used as wildtype control and brains from transgenic line Tgstar:bPAC 2A tdTomatouoe300 +/ and / were sequenced on Illumina NovaSeq6000 by TRON gGmbH Mainz Germany. Paired end TruSeq Stranded mRNA libraries Illumina CA USA were constructed and over 20M of 50 bp reads/sample were sequenced. Oxford Nanopore sequencing was used for DNA methylation identification. These data were generated for the study by Choi et al. 2024. https://www.biorxiv.org/content/10.1101/2023.02.13.528363v4 ENA FIRST PUBLIC:2024 02 06|ENA LAST UPDATE:2024 02 06   star:bPAC+/ whole brain pooled 15 brains star:bPAC+/ whole brain day13 SAMEA111562626 Living Systems Institute, University of Exeter INSDC center name:Living Systems Institute University of Exeter|Submitter Id:star pos d13 3|collection date:2019 12|common name:zebrafish|dev stage:13 dpf|geographic location country and/or sea:Germany|sample name:star pos d13 3|scientific name:Danio rerio|sex:N/A|strain:Tübingen|tissue type:brain                 Illumina NovaSeq 6000 paired end sequencing ena EXPERIMENT TAB 09 11 2022 11:52:59:186 283047 Sample 0256 083 FR NSP TR2 SL1 1     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina NovaSeq 6000   ERP138527 Illumina NovaSeq 6000 paired end sequencing ENA FIRST PUBLIC:2024 02 06|ENA LAST UPDATE:2024 02 06 0256_083_FR_NSP_TR2_SL1_S14_L001_R1_001-pooled.fastq.gz 0256_083_FR_NSP_TR2_SL1_S14_L001_R2_001-pooled.fastq.gz fastq fastq 5492667156.0 53849678.0 ena RUN TAB 09 11 2022 11:52:59:186 283048 0:51 1:51 A:1546610275;C:1178241230;G:1195797489;T:1571955787;N:62375 51 51     1546610275 1178241230 1195797489 1571955787 62375 ERX9997157 ERS13672482 ERA18581410 living systems institute, university of exeter|European Nucleotide Archive living systems institute, university of exeter|European Nucleotide Archive                       B B biological fallback assumption illumina novaseq_era full_length poly_a trueseq bulk unknown unknown   United Kingdom 2024-02-06 Larval Larval Brain Nervous System
11051 11051 ERR10476829 ERX9997172 ERS13672497 ERP138527 PRJEB53713 Time course whole brain transcriptome and methylome profiles of early life high GC exposed zebrafish f79d57b2-1e93-4ca0-8fda-fd881a2a0c1e Other Whole brain transcriptome mRNA profiles of zebrafish which exposed to elavated glucocorticoid GC optogenetically at 6 13 120 dpf dpf and post predatory stress looming dots stress at xxx dpf. All subjective adults at 120 dpf were female. Tubingen strain was used as wildtype control and brains from transgenic line Tgstar:bPAC 2A tdTomatouoe300 +/ and / were sequenced on Illumina NovaSeq6000 by TRON gGmbH Mainz Germany. Paired end TruSeq Stranded mRNA libraries Illumina CA USA were constructed and over 20M of 50 bp reads/sample were sequenced. Oxford Nanopore sequencing was used for DNA methylation identification. These data were generated for the study by Choi et al. 2024. https://www.biorxiv.org/content/10.1101/2023.02.13.528363v4 ENA FIRST PUBLIC:2024 02 06|ENA LAST UPDATE:2024 02 06   star:bPAC / whole brain pooled 15 brains star:bPAC / whole brain day6 SAMEA111562641 Living Systems Institute, University of Exeter INSDC center name:Living Systems Institute University of Exeter|Submitter Id:star neg d6 3|collection date:2019 12|common name:zebrafish|dev stage:6 dpf|geographic location country and/or sea:Germany|sample name:star neg d6 3|scientific name:Danio rerio|sex:N/A|strain:Tübingen|tissue type:brain                 Illumina NovaSeq 6000 paired end sequencing ena EXPERIMENT TAB 09 11 2022 11:52:59:192 283077 Sample 0256 103 FR NSP TR1 SL1 1     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina NovaSeq 6000   ERP138527 Illumina NovaSeq 6000 paired end sequencing ENA FIRST PUBLIC:2024 02 06|ENA LAST UPDATE:2024 02 06 0256_103_FR_NSP_TR1_SL1_S32_L001_R1_001-pooled.fastq.gz 0256_103_FR_NSP_TR1_SL1_S32_L001_R2_001-pooled.fastq.gz fastq fastq 3120070248.0 30588924.0 ena RUN TAB 09 11 2022 11:52:59:193 283078 0:51 1:51 A:846274026;C:707353227;G:707836608;T:858570820;N:35567 51 51     846274026 707353227 707836608 858570820 35567 ERX9997172 ERS13672497 ERA18581410 living systems institute, university of exeter|European Nucleotide Archive living systems institute, university of exeter|European Nucleotide Archive                       B B biological fallback assumption illumina novaseq_era full_length poly_a trueseq bulk unknown unknown   United Kingdom 2024-02-06 Larval Larval Brain Nervous System
11052 11052 ERR10476798 ERX9997141 ERS13672466 ERP138527 PRJEB53713 Time course whole brain transcriptome and methylome profiles of early life high GC exposed zebrafish f79d57b2-1e93-4ca0-8fda-fd881a2a0c1e Other Whole brain transcriptome mRNA profiles of zebrafish which exposed to elavated glucocorticoid GC optogenetically at 6 13 120 dpf dpf and post predatory stress looming dots stress at xxx dpf. All subjective adults at 120 dpf were female. Tubingen strain was used as wildtype control and brains from transgenic line Tgstar:bPAC 2A tdTomatouoe300 +/ and / were sequenced on Illumina NovaSeq6000 by TRON gGmbH Mainz Germany. Paired end TruSeq Stranded mRNA libraries Illumina CA USA were constructed and over 20M of 50 bp reads/sample were sequenced. Oxford Nanopore sequencing was used for DNA methylation identification. These data were generated for the study by Choi et al. 2024. https://www.biorxiv.org/content/10.1101/2023.02.13.528363v4 ENA FIRST PUBLIC:2024 02 06|ENA LAST UPDATE:2024 02 06   wildtype whole brain pooled 3 brains wildtype whole brain day120 SAMEA111562610 Living Systems Institute, University of Exeter INSDC center name:Living Systems Institute University of Exeter|Submitter Id:tu wt d120 2|collection date:2019 12|common name:zebrafish|dev stage:120 dpf|geographic location country and/or sea:Germany|sample name:tu wt d120 2|scientific name:Danio rerio|sex:female|strain:Tübingen|tissue type:brain                 Illumina NovaSeq 6000 paired end sequencing ena EXPERIMENT TAB 09 11 2022 11:52:59:179 283015 Sample 0256 017 FR NSP TR1 SL1 1     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina NovaSeq 6000   ERP138527 Illumina NovaSeq 6000 paired end sequencing ENA FIRST PUBLIC:2024 02 06|ENA LAST UPDATE:2024 02 06 0256_017_FR_NSP_TR1_SL1_S28_L001_R1_001-pooled.fastq.gz 0256_017_FR_NSP_TR1_SL1_S28_L001_R2_001-pooled.fastq.gz fastq fastq 2721824508.0 26684554.0 ena RUN TAB 09 11 2022 11:52:59:179 283016 0:51 1:51 A:743316669;C:608895552;G:628493804;T:741025191;N:93292 51 51     743316669 608895552 628493804 741025191 93292 ERX9997141 ERS13672466 ERA18581410 living systems institute, university of exeter|European Nucleotide Archive living systems institute, university of exeter|European Nucleotide Archive                       B B biological fallback assumption illumina novaseq_era full_length poly_a trueseq bulk unknown unknown   United Kingdom 2024-02-06 Adult Adult Brain Nervous System
11053 11053 ERR10476796 ERX9997139 ERS13672464 ERP138527 PRJEB53713 Time course whole brain transcriptome and methylome profiles of early life high GC exposed zebrafish f79d57b2-1e93-4ca0-8fda-fd881a2a0c1e Other Whole brain transcriptome mRNA profiles of zebrafish which exposed to elavated glucocorticoid GC optogenetically at 6 13 120 dpf dpf and post predatory stress looming dots stress at xxx dpf. All subjective adults at 120 dpf were female. Tubingen strain was used as wildtype control and brains from transgenic line Tgstar:bPAC 2A tdTomatouoe300 +/ and / were sequenced on Illumina NovaSeq6000 by TRON gGmbH Mainz Germany. Paired end TruSeq Stranded mRNA libraries Illumina CA USA were constructed and over 20M of 50 bp reads/sample were sequenced. Oxford Nanopore sequencing was used for DNA methylation identification. These data were generated for the study by Choi et al. 2024. https://www.biorxiv.org/content/10.1101/2023.02.13.528363v4 ENA FIRST PUBLIC:2024 02 06|ENA LAST UPDATE:2024 02 06   wildtype whole brain pooled 15 brains wildtype whole brain day13 SAMEA111562608 Living Systems Institute, University of Exeter INSDC center name:Living Systems Institute University of Exeter|Submitter Id:tu wt d13 5|collection date:2019 12|common name:zebrafish|dev stage:13 dpf|geographic location country and/or sea:Germany|sample name:tu wt d13 5|scientific name:Danio rerio|sex:N/A|strain:Tübingen|tissue type:brain                 Illumina NovaSeq 6000 paired end sequencing ena EXPERIMENT TAB 09 11 2022 11:52:59:178 283011 Sample 0256 010 FR NSP TR1 SL1 1     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina NovaSeq 6000   ERP138527 Illumina NovaSeq 6000 paired end sequencing ENA FIRST PUBLIC:2024 02 06|ENA LAST UPDATE:2024 02 06 0256_010_FR_NSP_TR1_SL1_S21_L001_R1_001-pooled.fastq.gz 0256_010_FR_NSP_TR1_SL1_S21_L001_R2_001-pooled.fastq.gz fastq fastq 2969687772.0 29114586.0 ena RUN TAB 09 11 2022 11:52:59:179 283012 0:51 1:51 A:762435544;C:713336460;G:731717998;T:762096042;N:101728 51 51     762435544 713336460 731717998 762096042 101728 ERX9997139 ERS13672464 ERA18581410 living systems institute, university of exeter|European Nucleotide Archive living systems institute, university of exeter|European Nucleotide Archive                       B B biological fallback assumption illumina novaseq_era full_length poly_a trueseq bulk unknown unknown   United Kingdom 2024-02-06 Larval Larval Brain Nervous System
11054 11054 ERR10476824 ERX9997167 ERS13672492 ERP138527 PRJEB53713 Time course whole brain transcriptome and methylome profiles of early life high GC exposed zebrafish f79d57b2-1e93-4ca0-8fda-fd881a2a0c1e Other Whole brain transcriptome mRNA profiles of zebrafish which exposed to elavated glucocorticoid GC optogenetically at 6 13 120 dpf dpf and post predatory stress looming dots stress at xxx dpf. All subjective adults at 120 dpf were female. Tubingen strain was used as wildtype control and brains from transgenic line Tgstar:bPAC 2A tdTomatouoe300 +/ and / were sequenced on Illumina NovaSeq6000 by TRON gGmbH Mainz Germany. Paired end TruSeq Stranded mRNA libraries Illumina CA USA were constructed and over 20M of 50 bp reads/sample were sequenced. Oxford Nanopore sequencing was used for DNA methylation identification. These data were generated for the study by Choi et al. 2024. https://www.biorxiv.org/content/10.1101/2023.02.13.528363v4 ENA FIRST PUBLIC:2024 02 06|ENA LAST UPDATE:2024 02 06   star:bPAC+/ whole brain pooled 3 brains star:bPAC+/ whole brain day120+LD stress SAMEA111562636 Living Systems Institute, University of Exeter INSDC center name:Living Systems Institute University of Exeter|Submitter Id:star pos LD 3|collection date:2019 12|common name:zebrafish|dev stage:120 dpf|geographic location country and/or sea:Germany|sample name:star pos LD 3|scientific name:Danio rerio|sex:female|strain:Tübingen|tissue type:brain                 Illumina NovaSeq 6000 paired end sequencing ena EXPERIMENT TAB 09 11 2022 11:52:59:190 283067 Sample 0256 098 FR NSP TR1 SL1 1     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina NovaSeq 6000   ERP138527 Illumina NovaSeq 6000 paired end sequencing ENA FIRST PUBLIC:2024 02 06|ENA LAST UPDATE:2024 02 06 0256_098_FR_NSP_TR1_SL1_S25_L001_R1_001-pooled.fastq.gz 0256_098_FR_NSP_TR1_SL1_S25_L001_R2_001-pooled.fastq.gz fastq fastq 2446755498.0 23987799.0 ena RUN TAB 09 11 2022 11:52:59:190 283068 0:51 1:51 A:690730956;C:529182577;G:529532770;T:697255685;N:53510 51 51     690730956 529182577 529532770 697255685 53510 ERX9997167 ERS13672492 ERA18581410 living systems institute, university of exeter|European Nucleotide Archive living systems institute, university of exeter|European Nucleotide Archive                       B B biological fallback assumption illumina novaseq_era full_length poly_a trueseq bulk unknown unknown   United Kingdom 2024-02-06 Adult Adult Brain Nervous System
11055 11055 ERR10476836 ERX9997179 ERS13672504 ERP138527 PRJEB53713 Time course whole brain transcriptome and methylome profiles of early life high GC exposed zebrafish f79d57b2-1e93-4ca0-8fda-fd881a2a0c1e Other Whole brain transcriptome mRNA profiles of zebrafish which exposed to elavated glucocorticoid GC optogenetically at 6 13 120 dpf dpf and post predatory stress looming dots stress at xxx dpf. All subjective adults at 120 dpf were female. Tubingen strain was used as wildtype control and brains from transgenic line Tgstar:bPAC 2A tdTomatouoe300 +/ and / were sequenced on Illumina NovaSeq6000 by TRON gGmbH Mainz Germany. Paired end TruSeq Stranded mRNA libraries Illumina CA USA were constructed and over 20M of 50 bp reads/sample were sequenced. Oxford Nanopore sequencing was used for DNA methylation identification. These data were generated for the study by Choi et al. 2024. https://www.biorxiv.org/content/10.1101/2023.02.13.528363v4 ENA FIRST PUBLIC:2024 02 06|ENA LAST UPDATE:2024 02 06   star:bPAC / whole brain pooled 15 brains star:bPAC / whole brain day13 SAMEA111562648 Living Systems Institute, University of Exeter INSDC center name:Living Systems Institute University of Exeter|Submitter Id:star neg d13 5|collection date:2019 12|common name:zebrafish|dev stage:13 dpf|geographic location country and/or sea:Germany|sample name:star neg d13 5|scientific name:Danio rerio|sex:N/A|strain:Tübingen|tissue type:brain                 Illumina NovaSeq 6000 paired end sequencing ena EXPERIMENT TAB 09 11 2022 11:52:59:195 283091 Sample 0256 110 FR NSP TR2 SL1 1     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina NovaSeq 6000   ERP138527 Illumina NovaSeq 6000 paired end sequencing ENA FIRST PUBLIC:2024 02 06|ENA LAST UPDATE:2024 02 06 0256_110_FR_NSP_TR2_SL1_S39_L001_R1_001-pooled.fastq.gz 0256_110_FR_NSP_TR2_SL1_S39_L001_R2_001-pooled.fastq.gz fastq fastq 2758547160.0 27044580.0 ena RUN TAB 09 11 2022 11:52:59:196 283092 0:51 1:51 A:732517446;C:640766914;G:643632251;T:741598802;N:31747 51 51     732517446 640766914 643632251 741598802 31747 ERX9997179 ERS13672504 ERA18581410 living systems institute, university of exeter|European Nucleotide Archive living systems institute, university of exeter|European Nucleotide Archive                       B B biological fallback assumption illumina novaseq_era full_length poly_a trueseq bulk unknown unknown   United Kingdom 2024-02-06 Larval Larval Brain Nervous System
11056 11056 ERR10476808 ERX9997151 ERS13672476 ERP138527 PRJEB53713 Time course whole brain transcriptome and methylome profiles of early life high GC exposed zebrafish f79d57b2-1e93-4ca0-8fda-fd881a2a0c1e Other Whole brain transcriptome mRNA profiles of zebrafish which exposed to elavated glucocorticoid GC optogenetically at 6 13 120 dpf dpf and post predatory stress looming dots stress at xxx dpf. All subjective adults at 120 dpf were female. Tubingen strain was used as wildtype control and brains from transgenic line Tgstar:bPAC 2A tdTomatouoe300 +/ and / were sequenced on Illumina NovaSeq6000 by TRON gGmbH Mainz Germany. Paired end TruSeq Stranded mRNA libraries Illumina CA USA were constructed and over 20M of 50 bp reads/sample were sequenced. Oxford Nanopore sequencing was used for DNA methylation identification. These data were generated for the study by Choi et al. 2024. https://www.biorxiv.org/content/10.1101/2023.02.13.528363v4 ENA FIRST PUBLIC:2024 02 06|ENA LAST UPDATE:2024 02 06   star:bPAC+/ whole brain pooled 15 brains star:bPAC+/ whole brain day6 SAMEA111562620 Living Systems Institute, University of Exeter INSDC center name:Living Systems Institute University of Exeter|Submitter Id:star pos d6 2|collection date:2019 12|common name:zebrafish|dev stage:6 dpf|geographic location country and/or sea:Germany|sample name:star pos d6 2|scientific name:Danio rerio|sex:N/A|strain:Tübingen|tissue type:brain                 Illumina NovaSeq 6000 paired end sequencing ena EXPERIMENT TAB 09 11 2022 11:52:59:184 283035 Sample 0256 077 FR NSP TR1 SL1 1     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina NovaSeq 6000   ERP138527 Illumina NovaSeq 6000 paired end sequencing ENA FIRST PUBLIC:2024 02 06|ENA LAST UPDATE:2024 02 06 0256_077_FR_NSP_TR1_SL1_S8_L001_R1_001-pooled.fastq.gz 0256_077_FR_NSP_TR1_SL1_S8_L001_R2_001-pooled.fastq.gz fastq fastq 3595088328.0 35245964.0 ena RUN TAB 09 11 2022 11:52:59:184 283036 0:51 1:51 A:985480827;C:803117311;G:811895458;T:994553698;N:41034 51 51     985480827 803117311 811895458 994553698 41034 ERX9997151 ERS13672476 ERA18581410 living systems institute, university of exeter|European Nucleotide Archive living systems institute, university of exeter|European Nucleotide Archive                       B B biological fallback assumption illumina novaseq_era full_length poly_a trueseq bulk unknown unknown   United Kingdom 2024-02-06 Larval Larval Brain Nervous System
11057 11057 ERR10476818 ERX9997161 ERS13672486 ERP138527 PRJEB53713 Time course whole brain transcriptome and methylome profiles of early life high GC exposed zebrafish f79d57b2-1e93-4ca0-8fda-fd881a2a0c1e Other Whole brain transcriptome mRNA profiles of zebrafish which exposed to elavated glucocorticoid GC optogenetically at 6 13 120 dpf dpf and post predatory stress looming dots stress at xxx dpf. All subjective adults at 120 dpf were female. Tubingen strain was used as wildtype control and brains from transgenic line Tgstar:bPAC 2A tdTomatouoe300 +/ and / were sequenced on Illumina NovaSeq6000 by TRON gGmbH Mainz Germany. Paired end TruSeq Stranded mRNA libraries Illumina CA USA were constructed and over 20M of 50 bp reads/sample were sequenced. Oxford Nanopore sequencing was used for DNA methylation identification. These data were generated for the study by Choi et al. 2024. https://www.biorxiv.org/content/10.1101/2023.02.13.528363v4 ENA FIRST PUBLIC:2024 02 06|ENA LAST UPDATE:2024 02 06   star:bPAC+/ whole brain pooled 3 brains star:bPAC+/ whole brain day120 SAMEA111562630 Living Systems Institute, University of Exeter INSDC center name:Living Systems Institute University of Exeter|Submitter Id:star pos d120 2|collection date:2019 12|common name:zebrafish|dev stage:120 dpf|geographic location country and/or sea:Germany|sample name:star pos d120 2|scientific name:Danio rerio|sex:female|strain:Tübingen|tissue type:brain                 Illumina NovaSeq 6000 paired end sequencing ena EXPERIMENT TAB 09 11 2022 11:52:59:188 283055 Sample 0256 092 FR NSP TR1 SL1 1     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina NovaSeq 6000   ERP138527 Illumina NovaSeq 6000 paired end sequencing ENA FIRST PUBLIC:2024 02 06|ENA LAST UPDATE:2024 02 06 0256_092_FR_NSP_TR1_SL1_S23_L001_R1_001-pooled.fastq.gz 0256_092_FR_NSP_TR1_SL1_S23_L001_R2_001-pooled.fastq.gz fastq fastq 2928003330.0 28705915.0 ena RUN TAB 09 11 2022 11:52:59:188 283056 0:51 1:51 A:808470746;C:646721298;G:658265207;T:814512506;N:33573 51 51     808470746 646721298 658265207 814512506 33573 ERX9997161 ERS13672486 ERA18581410 living systems institute, university of exeter|European Nucleotide Archive living systems institute, university of exeter|European Nucleotide Archive                       B B biological fallback assumption illumina novaseq_era full_length poly_a trueseq bulk unknown unknown   United Kingdom 2024-02-06 Adult Adult Brain Nervous System
11058 11058 ERR10476827 ERX9997170 ERS13672495 ERP138527 PRJEB53713 Time course whole brain transcriptome and methylome profiles of early life high GC exposed zebrafish f79d57b2-1e93-4ca0-8fda-fd881a2a0c1e Other Whole brain transcriptome mRNA profiles of zebrafish which exposed to elavated glucocorticoid GC optogenetically at 6 13 120 dpf dpf and post predatory stress looming dots stress at xxx dpf. All subjective adults at 120 dpf were female. Tubingen strain was used as wildtype control and brains from transgenic line Tgstar:bPAC 2A tdTomatouoe300 +/ and / were sequenced on Illumina NovaSeq6000 by TRON gGmbH Mainz Germany. Paired end TruSeq Stranded mRNA libraries Illumina CA USA were constructed and over 20M of 50 bp reads/sample were sequenced. Oxford Nanopore sequencing was used for DNA methylation identification. These data were generated for the study by Choi et al. 2024. https://www.biorxiv.org/content/10.1101/2023.02.13.528363v4 ENA FIRST PUBLIC:2024 02 06|ENA LAST UPDATE:2024 02 06   star:bPAC / whole brain pooled 15 brains star:bPAC / whole brain day6 SAMEA111562639 Living Systems Institute, University of Exeter INSDC center name:Living Systems Institute University of Exeter|Submitter Id:star neg d6 1|collection date:2019 12|common name:zebrafish|dev stage:6 dpf|geographic location country and/or sea:Germany|sample name:star neg d6 1|scientific name:Danio rerio|sex:N/A|strain:Tübingen|tissue type:brain                 Illumina NovaSeq 6000 paired end sequencing ena EXPERIMENT TAB 09 11 2022 11:52:59:192 283073 Sample 0256 101 FR NSP TR1 SL1 1     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina NovaSeq 6000   ERP138527 Illumina NovaSeq 6000 paired end sequencing ENA FIRST PUBLIC:2024 02 06|ENA LAST UPDATE:2024 02 06 0256_101_FR_NSP_TR1_SL1_S30_L001_R1_001-pooled.fastq.gz 0256_101_FR_NSP_TR1_SL1_S30_L001_R2_001-pooled.fastq.gz fastq fastq 3504125952.0 34354176.0 ena RUN TAB 09 11 2022 11:52:59:192 283074 0:51 1:51 A:947138693;C:797358353;G:798903844;T:960685108;N:39954 51 51     947138693 797358353 798903844 960685108 39954 ERX9997170 ERS13672495 ERA18581410 living systems institute, university of exeter|European Nucleotide Archive living systems institute, university of exeter|European Nucleotide Archive                       B B biological fallback assumption illumina novaseq_era full_length poly_a trueseq bulk unknown unknown   United Kingdom 2024-02-06 Larval Larval Brain Nervous System
11059 11059 ERR10476801 ERX9997144 ERS13672469 ERP138527 PRJEB53713 Time course whole brain transcriptome and methylome profiles of early life high GC exposed zebrafish f79d57b2-1e93-4ca0-8fda-fd881a2a0c1e Other Whole brain transcriptome mRNA profiles of zebrafish which exposed to elavated glucocorticoid GC optogenetically at 6 13 120 dpf dpf and post predatory stress looming dots stress at xxx dpf. All subjective adults at 120 dpf were female. Tubingen strain was used as wildtype control and brains from transgenic line Tgstar:bPAC 2A tdTomatouoe300 +/ and / were sequenced on Illumina NovaSeq6000 by TRON gGmbH Mainz Germany. Paired end TruSeq Stranded mRNA libraries Illumina CA USA were constructed and over 20M of 50 bp reads/sample were sequenced. Oxford Nanopore sequencing was used for DNA methylation identification. These data were generated for the study by Choi et al. 2024. https://www.biorxiv.org/content/10.1101/2023.02.13.528363v4 ENA FIRST PUBLIC:2024 02 06|ENA LAST UPDATE:2024 02 06   wildtype whole brain pooled 3 brains wildtype whole brain day120 SAMEA111562613 Living Systems Institute, University of Exeter INSDC center name:Living Systems Institute University of Exeter|Submitter Id:tu wt d120 5|collection date:2019 12|common name:zebrafish|dev stage:120 dpf|geographic location country and/or sea:Germany|sample name:tu wt d120 5|scientific name:Danio rerio|sex:female|strain:Tübingen|tissue type:brain                 Illumina NovaSeq 6000 paired end sequencing ena EXPERIMENT TAB 09 11 2022 11:52:59:181 283021 Sample 0256 020 FR NSP TR1 SL1 1     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina NovaSeq 6000   ERP138527 Illumina NovaSeq 6000 paired end sequencing ENA FIRST PUBLIC:2024 02 06|ENA LAST UPDATE:2024 02 06 0256_020_FR_NSP_TR1_SL1_S31_L001_R1_001-pooled.fastq.gz 0256_020_FR_NSP_TR1_SL1_S31_L001_R2_001-pooled.fastq.gz fastq fastq 3216177708.0 31531154.0 ena RUN TAB 09 11 2022 11:52:59:181 283022 0:51 1:51 A:880463840;C:718401986;G:738221226;T:878980905;N:109751 51 51     880463840 718401986 738221226 878980905 109751 ERX9997144 ERS13672469 ERA18581410 living systems institute, university of exeter|European Nucleotide Archive living systems institute, university of exeter|European Nucleotide Archive                       B B biological fallback assumption illumina novaseq_era full_length poly_a trueseq bulk unknown unknown   United Kingdom 2024-02-06 Adult Adult Brain Nervous System
11060 11060 ERR10476794 ERX9997137 ERS13672462 ERP138527 PRJEB53713 Time course whole brain transcriptome and methylome profiles of early life high GC exposed zebrafish f79d57b2-1e93-4ca0-8fda-fd881a2a0c1e Other Whole brain transcriptome mRNA profiles of zebrafish which exposed to elavated glucocorticoid GC optogenetically at 6 13 120 dpf dpf and post predatory stress looming dots stress at xxx dpf. All subjective adults at 120 dpf were female. Tubingen strain was used as wildtype control and brains from transgenic line Tgstar:bPAC 2A tdTomatouoe300 +/ and / were sequenced on Illumina NovaSeq6000 by TRON gGmbH Mainz Germany. Paired end TruSeq Stranded mRNA libraries Illumina CA USA were constructed and over 20M of 50 bp reads/sample were sequenced. Oxford Nanopore sequencing was used for DNA methylation identification. These data were generated for the study by Choi et al. 2024. https://www.biorxiv.org/content/10.1101/2023.02.13.528363v4 ENA FIRST PUBLIC:2024 02 06|ENA LAST UPDATE:2024 02 06   wildtype whole brain pooled 15 brains wildtype whole brain day13 SAMEA111562606 Living Systems Institute, University of Exeter INSDC center name:Living Systems Institute University of Exeter|Submitter Id:tu wt d13 3|collection date:2019 12|common name:zebrafish|dev stage:13 dpf|geographic location country and/or sea:Germany|sample name:tu wt d13 3|scientific name:Danio rerio|sex:N/A|strain:Tübingen|tissue type:brain                 Illumina NovaSeq 6000 paired end sequencing ena EXPERIMENT TAB 09 11 2022 11:52:59:178 283007 Sample 0256 008 FR NSP TR1 SL1 1     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina NovaSeq 6000   ERP138527 Illumina NovaSeq 6000 paired end sequencing ENA FIRST PUBLIC:2024 02 06|ENA LAST UPDATE:2024 02 06 0256_008_FR_NSP_TR1_SL1_S1_L001_R1_001-pooled.fastq.gz 0256_008_FR_NSP_TR1_SL1_S1_L001_R2_001-pooled.fastq.gz fastq fastq 2659023618.0 26068859.0 ena RUN TAB 09 11 2022 11:52:59:178 283008 0:51 1:51 A:670947753;C:637136773;G:677570266;T:673338670;N:30156 51 51     670947753 637136773 677570266 673338670 30156 ERX9997137 ERS13672462 ERA18581410 living systems institute, university of exeter|European Nucleotide Archive living systems institute, university of exeter|European Nucleotide Archive                       B B biological fallback assumption illumina novaseq_era full_length poly_a trueseq bulk unknown unknown   United Kingdom 2024-02-06 Larval Larval Brain Nervous System
11061 11061 ERR10476833 ERX9997176 ERS13672501 ERP138527 PRJEB53713 Time course whole brain transcriptome and methylome profiles of early life high GC exposed zebrafish f79d57b2-1e93-4ca0-8fda-fd881a2a0c1e Other Whole brain transcriptome mRNA profiles of zebrafish which exposed to elavated glucocorticoid GC optogenetically at 6 13 120 dpf dpf and post predatory stress looming dots stress at xxx dpf. All subjective adults at 120 dpf were female. Tubingen strain was used as wildtype control and brains from transgenic line Tgstar:bPAC 2A tdTomatouoe300 +/ and / were sequenced on Illumina NovaSeq6000 by TRON gGmbH Mainz Germany. Paired end TruSeq Stranded mRNA libraries Illumina CA USA were constructed and over 20M of 50 bp reads/sample were sequenced. Oxford Nanopore sequencing was used for DNA methylation identification. These data were generated for the study by Choi et al. 2024. https://www.biorxiv.org/content/10.1101/2023.02.13.528363v4 ENA FIRST PUBLIC:2024 02 06|ENA LAST UPDATE:2024 02 06   star:bPAC / whole brain pooled 15 brains star:bPAC / whole brain day13 SAMEA111562645 Living Systems Institute, University of Exeter INSDC center name:Living Systems Institute University of Exeter|Submitter Id:star neg d13 2|collection date:2019 12|common name:zebrafish|dev stage:13 dpf|geographic location country and/or sea:Germany|sample name:star neg d13 2|scientific name:Danio rerio|sex:N/A|strain:Tübingen|tissue type:brain                 Illumina NovaSeq 6000 paired end sequencing ena EXPERIMENT TAB 09 11 2022 11:52:59:194 283085 Sample 0256 107 FR NSP TR2 SL1 1     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina NovaSeq 6000   ERP138527 Illumina NovaSeq 6000 paired end sequencing ENA FIRST PUBLIC:2024 02 06|ENA LAST UPDATE:2024 02 06 0256_107_FR_NSP_TR2_SL1_S36_L001_R1_001-pooled.fastq.gz 0256_107_FR_NSP_TR2_SL1_S36_L001_R2_001-pooled.fastq.gz fastq fastq 3282322362.0 32179631.0 ena RUN TAB 09 11 2022 11:52:59:194 283086 0:51 1:51 A:898607442;C:734331926;G:739939203;T:909406172;N:37619 51 51     898607442 734331926 739939203 909406172 37619 ERX9997176 ERS13672501 ERA18581410 living systems institute, university of exeter|European Nucleotide Archive living systems institute, university of exeter|European Nucleotide Archive                       B B biological fallback assumption illumina novaseq_era full_length poly_a trueseq bulk unknown unknown   United Kingdom 2024-02-06 Larval Larval Brain Nervous System
11062 11062 ERR10476817 ERX9997160 ERS13672485 ERP138527 PRJEB53713 Time course whole brain transcriptome and methylome profiles of early life high GC exposed zebrafish f79d57b2-1e93-4ca0-8fda-fd881a2a0c1e Other Whole brain transcriptome mRNA profiles of zebrafish which exposed to elavated glucocorticoid GC optogenetically at 6 13 120 dpf dpf and post predatory stress looming dots stress at xxx dpf. All subjective adults at 120 dpf were female. Tubingen strain was used as wildtype control and brains from transgenic line Tgstar:bPAC 2A tdTomatouoe300 +/ and / were sequenced on Illumina NovaSeq6000 by TRON gGmbH Mainz Germany. Paired end TruSeq Stranded mRNA libraries Illumina CA USA were constructed and over 20M of 50 bp reads/sample were sequenced. Oxford Nanopore sequencing was used for DNA methylation identification. These data were generated for the study by Choi et al. 2024. https://www.biorxiv.org/content/10.1101/2023.02.13.528363v4 ENA FIRST PUBLIC:2024 02 06|ENA LAST UPDATE:2024 02 06   star:bPAC+/ whole brain pooled 3 brains star:bPAC+/ whole brain day120 SAMEA111562629 Living Systems Institute, University of Exeter INSDC center name:Living Systems Institute University of Exeter|Submitter Id:star pos d120 1|collection date:2019 12|common name:zebrafish|dev stage:120 dpf|geographic location country and/or sea:Germany|sample name:star pos d120 1|scientific name:Danio rerio|sex:female|strain:Tübingen|tissue type:brain                 Illumina NovaSeq 6000 paired end sequencing ena EXPERIMENT TAB 09 11 2022 11:52:59:187 283053 Sample 0256 091 FR NSP TR1 SL1 1     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina NovaSeq 6000   ERP138527 Illumina NovaSeq 6000 paired end sequencing ENA FIRST PUBLIC:2024 02 06|ENA LAST UPDATE:2024 02 06 0256_091_FR_NSP_TR1_SL1_S22_L001_R1_001-pooled.fastq.gz 0256_091_FR_NSP_TR1_SL1_S22_L001_R2_001-pooled.fastq.gz fastq fastq 3195884706.0 31332203.0 ena RUN TAB 09 11 2022 11:52:59:188 283054 0:51 1:51 A:874879226;C:712315108;G:728957349;T:879696554;N:36469 51 51     874879226 712315108 728957349 879696554 36469 ERX9997160 ERS13672485 ERA18581410 living systems institute, university of exeter|European Nucleotide Archive living systems institute, university of exeter|European Nucleotide Archive                       B B biological fallback assumption illumina novaseq_era full_length poly_a trueseq bulk unknown unknown   United Kingdom 2024-02-06 Adult Adult Brain Nervous System
11063 11063 ERR10476828 ERX9997171 ERS13672496 ERP138527 PRJEB53713 Time course whole brain transcriptome and methylome profiles of early life high GC exposed zebrafish f79d57b2-1e93-4ca0-8fda-fd881a2a0c1e Other Whole brain transcriptome mRNA profiles of zebrafish which exposed to elavated glucocorticoid GC optogenetically at 6 13 120 dpf dpf and post predatory stress looming dots stress at xxx dpf. All subjective adults at 120 dpf were female. Tubingen strain was used as wildtype control and brains from transgenic line Tgstar:bPAC 2A tdTomatouoe300 +/ and / were sequenced on Illumina NovaSeq6000 by TRON gGmbH Mainz Germany. Paired end TruSeq Stranded mRNA libraries Illumina CA USA were constructed and over 20M of 50 bp reads/sample were sequenced. Oxford Nanopore sequencing was used for DNA methylation identification. These data were generated for the study by Choi et al. 2024. https://www.biorxiv.org/content/10.1101/2023.02.13.528363v4 ENA FIRST PUBLIC:2024 02 06|ENA LAST UPDATE:2024 02 06   star:bPAC / whole brain pooled 15 brains star:bPAC / whole brain day6 SAMEA111562640 Living Systems Institute, University of Exeter INSDC center name:Living Systems Institute University of Exeter|Submitter Id:star neg d6 2|collection date:2019 12|common name:zebrafish|dev stage:6 dpf|geographic location country and/or sea:Germany|sample name:star neg d6 2|scientific name:Danio rerio|sex:N/A|strain:Tübingen|tissue type:brain                 Illumina NovaSeq 6000 paired end sequencing ena EXPERIMENT TAB 09 11 2022 11:52:59:192 283075 Sample 0256 102 FR NSP TR1 SL1 1     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina NovaSeq 6000   ERP138527 Illumina NovaSeq 6000 paired end sequencing ENA FIRST PUBLIC:2024 02 06|ENA LAST UPDATE:2024 02 06 0256_102_FR_NSP_TR1_SL1_S31_L001_R1_001-pooled.fastq.gz 0256_102_FR_NSP_TR1_SL1_S31_L001_R2_001-pooled.fastq.gz fastq fastq 3969901404.0 38920602.0 ena RUN TAB 09 11 2022 11:52:59:192 283076 0:51 1:51 A:1079447747;C:894502841;G:908706945;T:1087198510;N:45361 51 51     1079447747 894502841 908706945 1087198510 45361 ERX9997171 ERS13672496 ERA18581410 living systems institute, university of exeter|European Nucleotide Archive living systems institute, university of exeter|European Nucleotide Archive                       B B biological fallback assumption illumina novaseq_era full_length poly_a trueseq bulk unknown unknown   United Kingdom 2024-02-06 Larval Larval Brain Nervous System
11064 11064 ERR10476821 ERX9997164 ERS13672489 ERP138527 PRJEB53713 Time course whole brain transcriptome and methylome profiles of early life high GC exposed zebrafish f79d57b2-1e93-4ca0-8fda-fd881a2a0c1e Other Whole brain transcriptome mRNA profiles of zebrafish which exposed to elavated glucocorticoid GC optogenetically at 6 13 120 dpf dpf and post predatory stress looming dots stress at xxx dpf. All subjective adults at 120 dpf were female. Tubingen strain was used as wildtype control and brains from transgenic line Tgstar:bPAC 2A tdTomatouoe300 +/ and / were sequenced on Illumina NovaSeq6000 by TRON gGmbH Mainz Germany. Paired end TruSeq Stranded mRNA libraries Illumina CA USA were constructed and over 20M of 50 bp reads/sample were sequenced. Oxford Nanopore sequencing was used for DNA methylation identification. These data were generated for the study by Choi et al. 2024. https://www.biorxiv.org/content/10.1101/2023.02.13.528363v4 ENA FIRST PUBLIC:2024 02 06|ENA LAST UPDATE:2024 02 06   star:bPAC+/ whole brain pooled 3 brains star:bPAC+/ whole brain day120 SAMEA111562633 Living Systems Institute, University of Exeter INSDC center name:Living Systems Institute University of Exeter|Submitter Id:star pos d120 5|collection date:2019 12|common name:zebrafish|dev stage:120 dpf|geographic location country and/or sea:Germany|sample name:star pos d120 5|scientific name:Danio rerio|sex:female|strain:Tübingen|tissue type:brain                 Illumina NovaSeq 6000 paired end sequencing ena EXPERIMENT TAB 09 11 2022 11:52:59:189 283061 Sample 0256 095 FR NSP TR1 SL1 1     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina NovaSeq 6000   ERP138527 Illumina NovaSeq 6000 paired end sequencing ENA FIRST PUBLIC:2024 02 06|ENA LAST UPDATE:2024 02 06 0256_095_FR_NSP_TR1_SL1_S26_L001_R1_001-pooled.fastq.gz 0256_095_FR_NSP_TR1_SL1_S26_L001_R2_001-pooled.fastq.gz fastq fastq 3213304572.0 31502986.0 ena RUN TAB 09 11 2022 11:52:59:189 283062 0:51 1:51 A:891513837;C:705036538;G:716947743;T:899770077;N:36377 51 51     891513837 705036538 716947743 899770077 36377 ERX9997164 ERS13672489 ERA18581410 living systems institute, university of exeter|European Nucleotide Archive living systems institute, university of exeter|European Nucleotide Archive                       B B biological fallback assumption illumina novaseq_era full_length poly_a trueseq bulk unknown unknown   United Kingdom 2024-02-06 Adult Adult Brain Nervous System
11065 11065 ERR10476823 ERX9997166 ERS13672491 ERP138527 PRJEB53713 Time course whole brain transcriptome and methylome profiles of early life high GC exposed zebrafish f79d57b2-1e93-4ca0-8fda-fd881a2a0c1e Other Whole brain transcriptome mRNA profiles of zebrafish which exposed to elavated glucocorticoid GC optogenetically at 6 13 120 dpf dpf and post predatory stress looming dots stress at xxx dpf. All subjective adults at 120 dpf were female. Tubingen strain was used as wildtype control and brains from transgenic line Tgstar:bPAC 2A tdTomatouoe300 +/ and / were sequenced on Illumina NovaSeq6000 by TRON gGmbH Mainz Germany. Paired end TruSeq Stranded mRNA libraries Illumina CA USA were constructed and over 20M of 50 bp reads/sample were sequenced. Oxford Nanopore sequencing was used for DNA methylation identification. These data were generated for the study by Choi et al. 2024. https://www.biorxiv.org/content/10.1101/2023.02.13.528363v4 ENA FIRST PUBLIC:2024 02 06|ENA LAST UPDATE:2024 02 06   star:bPAC+/ whole brain pooled 3 brains star:bPAC+/ whole brain day120+LD stress SAMEA111562635 Living Systems Institute, University of Exeter INSDC center name:Living Systems Institute University of Exeter|Submitter Id:star pos LD 2|collection date:2019 12|common name:zebrafish|dev stage:120 dpf|geographic location country and/or sea:Germany|sample name:star pos LD 2|scientific name:Danio rerio|sex:female|strain:Tübingen|tissue type:brain                 Illumina NovaSeq 6000 paired end sequencing ena EXPERIMENT TAB 09 11 2022 11:52:59:190 283065 Sample 0256 097 FR NSP TR1 SL1 1     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina NovaSeq 6000   ERP138527 Illumina NovaSeq 6000 paired end sequencing ENA FIRST PUBLIC:2024 02 06|ENA LAST UPDATE:2024 02 06 0256_097_FR_NSP_TR1_SL1_S24_L001_R1_001-pooled.fastq.gz 0256_097_FR_NSP_TR1_SL1_S24_L001_R2_001-pooled.fastq.gz fastq fastq 2641036224.0 25892512.0 ena RUN TAB 09 11 2022 11:52:59:190 283066 0:51 1:51 A:757894363;C:555348260;G:569783120;T:757953770;N:56711 51 51     757894363 555348260 569783120 757953770 56711 ERX9997166 ERS13672491 ERA18581410 living systems institute, university of exeter|European Nucleotide Archive living systems institute, university of exeter|European Nucleotide Archive                       B B biological fallback assumption illumina novaseq_era full_length poly_a trueseq bulk unknown unknown   United Kingdom 2024-02-06 Adult Adult Brain Nervous System
11066 11066 ERR10476806 ERX9997149 ERS13672474 ERP138527 PRJEB53713 Time course whole brain transcriptome and methylome profiles of early life high GC exposed zebrafish f79d57b2-1e93-4ca0-8fda-fd881a2a0c1e Other Whole brain transcriptome mRNA profiles of zebrafish which exposed to elavated glucocorticoid GC optogenetically at 6 13 120 dpf dpf and post predatory stress looming dots stress at xxx dpf. All subjective adults at 120 dpf were female. Tubingen strain was used as wildtype control and brains from transgenic line Tgstar:bPAC 2A tdTomatouoe300 +/ and / were sequenced on Illumina NovaSeq6000 by TRON gGmbH Mainz Germany. Paired end TruSeq Stranded mRNA libraries Illumina CA USA were constructed and over 20M of 50 bp reads/sample were sequenced. Oxford Nanopore sequencing was used for DNA methylation identification. These data were generated for the study by Choi et al. 2024. https://www.biorxiv.org/content/10.1101/2023.02.13.528363v4 ENA FIRST PUBLIC:2024 02 06|ENA LAST UPDATE:2024 02 06   wildtype whole brain pooled 3 brains wildtype whole brain day120+LD stress SAMEA111562618 Living Systems Institute, University of Exeter INSDC center name:Living Systems Institute University of Exeter|Submitter Id:tu wt LD 5|collection date:2019 12|common name:zebrafish|dev stage:120 dpf|geographic location country and/or sea:Germany|sample name:tu wt LD 5|scientific name:Danio rerio|sex:female|strain:Tübingen|tissue type:brain                 Illumina NovaSeq 6000 paired end sequencing ena EXPERIMENT TAB 09 11 2022 11:52:59:183 283031 Sample 0256 025 FR NSP TR1 SL1 1     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina NovaSeq 6000   ERP138527 Illumina NovaSeq 6000 paired end sequencing ENA FIRST PUBLIC:2024 02 06|ENA LAST UPDATE:2024 02 06 0256_025_FR_NSP_TR1_SL1_S13_L001_R1_001-pooled.fastq.gz 0256_025_FR_NSP_TR1_SL1_S13_L001_R2_001-pooled.fastq.gz fastq fastq 3305999418.0 32411759.0 ena RUN TAB 09 11 2022 11:52:59:183 283032 0:51 1:51 A:895024301;C:741182319;G:782231299;T:887499120;N:62379 51 51     895024301 741182319 782231299 887499120 62379 ERX9997149 ERS13672474 ERA18581410 living systems institute, university of exeter|European Nucleotide Archive living systems institute, university of exeter|European Nucleotide Archive                       B B biological fallback assumption illumina novaseq_era full_length poly_a trueseq bulk unknown unknown   United Kingdom 2024-02-06 Adult Adult Brain Nervous System
11067 11067 ERR10476846 ERX9997189 ERS13672514 ERP138527 PRJEB53713 Time course whole brain transcriptome and methylome profiles of early life high GC exposed zebrafish f79d57b2-1e93-4ca0-8fda-fd881a2a0c1e Other Whole brain transcriptome mRNA profiles of zebrafish which exposed to elavated glucocorticoid GC optogenetically at 6 13 120 dpf dpf and post predatory stress looming dots stress at xxx dpf. All subjective adults at 120 dpf were female. Tubingen strain was used as wildtype control and brains from transgenic line Tgstar:bPAC 2A tdTomatouoe300 +/ and / were sequenced on Illumina NovaSeq6000 by TRON gGmbH Mainz Germany. Paired end TruSeq Stranded mRNA libraries Illumina CA USA were constructed and over 20M of 50 bp reads/sample were sequenced. Oxford Nanopore sequencing was used for DNA methylation identification. These data were generated for the study by Choi et al. 2024. https://www.biorxiv.org/content/10.1101/2023.02.13.528363v4 ENA FIRST PUBLIC:2024 02 06|ENA LAST UPDATE:2024 02 06   star:bPAC / whole brain pooled 3 brains star:bPAC / whole brain day120+LD stress SAMEA111562658 Living Systems Institute, University of Exeter INSDC center name:Living Systems Institute University of Exeter|Submitter Id:star neg LD 5|collection date:2019 12|common name:zebrafish|dev stage:120 dpf|geographic location country and/or sea:Germany|sample name:star neg LD 5|scientific name:Danio rerio|sex:female|strain:Tübingen|tissue type:brain                 Illumina NovaSeq 6000 paired end sequencing ena EXPERIMENT TAB 09 11 2022 11:52:59:200 283111 Sample 0256 125 FR NSP TR1 SL1 1     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina NovaSeq 6000   ERP138527 Illumina NovaSeq 6000 paired end sequencing ENA FIRST PUBLIC:2024 02 06|ENA LAST UPDATE:2024 02 06 0256_125_FR_NSP_TR1_SL1_S54_L001_R1_001-pooled.fastq.gz 0256_125_FR_NSP_TR1_SL1_S54_L001_R2_001-pooled.fastq.gz fastq fastq 3282595008.0 32182304.0 ena RUN TAB 09 11 2022 11:52:59:200 283112 0:51 1:51 A:911207196;C:721152291;G:734350131;T:915848066;N:37324 51 51     911207196 721152291 734350131 915848066 37324 ERX9997189 ERS13672514 ERA18581410 living systems institute, university of exeter|European Nucleotide Archive living systems institute, university of exeter|European Nucleotide Archive                       B B biological fallback assumption illumina novaseq_era full_length poly_a trueseq bulk unknown unknown   United Kingdom 2024-02-06 Adult Adult Brain Nervous System
11068 11068 ERR10476790 ERX9997133 ERS13672458 ERP138527 PRJEB53713 Time course whole brain transcriptome and methylome profiles of early life high GC exposed zebrafish f79d57b2-1e93-4ca0-8fda-fd881a2a0c1e Other Whole brain transcriptome mRNA profiles of zebrafish which exposed to elavated glucocorticoid GC optogenetically at 6 13 120 dpf dpf and post predatory stress looming dots stress at xxx dpf. All subjective adults at 120 dpf were female. Tubingen strain was used as wildtype control and brains from transgenic line Tgstar:bPAC 2A tdTomatouoe300 +/ and / were sequenced on Illumina NovaSeq6000 by TRON gGmbH Mainz Germany. Paired end TruSeq Stranded mRNA libraries Illumina CA USA were constructed and over 20M of 50 bp reads/sample were sequenced. Oxford Nanopore sequencing was used for DNA methylation identification. These data were generated for the study by Choi et al. 2024. https://www.biorxiv.org/content/10.1101/2023.02.13.528363v4 ENA FIRST PUBLIC:2024 02 06|ENA LAST UPDATE:2024 02 06   wildtype whole brain pooled 15 brains wildtype whole brain day6 SAMEA111562602 Living Systems Institute, University of Exeter INSDC center name:Living Systems Institute University of Exeter|Submitter Id:tu wt d6 4|collection date:2019 12|common name:zebrafish|dev stage:6 dpf|geographic location country and/or sea:Germany|sample name:tu wt d6 4|scientific name:Danio rerio|sex:N/A|strain:Tübingen|tissue type:brain                 Illumina NovaSeq 6000 paired end sequencing ena EXPERIMENT TAB 09 11 2022 11:52:59:176 282999 Sample 0256 004 FR NSP TR1 SL1 1     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina NovaSeq 6000   ERP138527 Illumina NovaSeq 6000 paired end sequencing ENA FIRST PUBLIC:2024 02 06|ENA LAST UPDATE:2024 02 06 0256_004_FR_NSP_TR1_SL1_S16_L001_R1_001-pooled.fastq.gz 0256_004_FR_NSP_TR1_SL1_S16_L001_R2_001-pooled.fastq.gz fastq fastq 2693489520.0 26406760.0 ena RUN TAB 09 11 2022 11:52:59:176 283000 0:51 1:51 A:701762127;C:639663261;G:643729664;T:708242984;N:91484 51 51     701762127 639663261 643729664 708242984 91484 ERX9997133 ERS13672458 ERA18581410 living systems institute, university of exeter|European Nucleotide Archive living systems institute, university of exeter|European Nucleotide Archive                       B B biological fallback assumption illumina novaseq_era full_length poly_a trueseq bulk unknown unknown   United Kingdom 2024-02-06 Larval Larval Brain Nervous System
11069 11069 ERR10476797 ERX9997140 ERS13672465 ERP138527 PRJEB53713 Time course whole brain transcriptome and methylome profiles of early life high GC exposed zebrafish f79d57b2-1e93-4ca0-8fda-fd881a2a0c1e Other Whole brain transcriptome mRNA profiles of zebrafish which exposed to elavated glucocorticoid GC optogenetically at 6 13 120 dpf dpf and post predatory stress looming dots stress at xxx dpf. All subjective adults at 120 dpf were female. Tubingen strain was used as wildtype control and brains from transgenic line Tgstar:bPAC 2A tdTomatouoe300 +/ and / were sequenced on Illumina NovaSeq6000 by TRON gGmbH Mainz Germany. Paired end TruSeq Stranded mRNA libraries Illumina CA USA were constructed and over 20M of 50 bp reads/sample were sequenced. Oxford Nanopore sequencing was used for DNA methylation identification. These data were generated for the study by Choi et al. 2024. https://www.biorxiv.org/content/10.1101/2023.02.13.528363v4 ENA FIRST PUBLIC:2024 02 06|ENA LAST UPDATE:2024 02 06   wildtype whole brain pooled 3 brains wildtype whole brain day120 SAMEA111562609 Living Systems Institute, University of Exeter INSDC center name:Living Systems Institute University of Exeter|Submitter Id:tu wt d120 1|collection date:2019 12|common name:zebrafish|dev stage:120 dpf|geographic location country and/or sea:Germany|sample name:tu wt d120 1|scientific name:Danio rerio|sex:female|strain:Tübingen|tissue type:brain                 Illumina NovaSeq 6000 paired end sequencing ena EXPERIMENT TAB 09 11 2022 11:52:59:179 283013 Sample 0256 016 FR NSP TR1 SL1 1     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina NovaSeq 6000   ERP138527 Illumina NovaSeq 6000 paired end sequencing ENA FIRST PUBLIC:2024 02 06|ENA LAST UPDATE:2024 02 06 0256_016_FR_NSP_TR1_SL1_S27_L001_R1_001-pooled.fastq.gz 0256_016_FR_NSP_TR1_SL1_S27_L001_R2_001-pooled.fastq.gz fastq fastq 3238524072.0 31750236.0 ena RUN TAB 09 11 2022 11:52:59:179 283014 0:51 1:51 A:879431740;C:727298145;G:750466237;T:881218913;N:109037 51 51     879431740 727298145 750466237 881218913 109037 ERX9997140 ERS13672465 ERA18581410 living systems institute, university of exeter|European Nucleotide Archive living systems institute, university of exeter|European Nucleotide Archive                       B B biological fallback assumption illumina novaseq_era full_length poly_a trueseq bulk unknown unknown   United Kingdom 2024-02-06 Adult Adult Brain Nervous System
11070 11070 ERR10476791 ERX9997134 ERS13672459 ERP138527 PRJEB53713 Time course whole brain transcriptome and methylome profiles of early life high GC exposed zebrafish f79d57b2-1e93-4ca0-8fda-fd881a2a0c1e Other Whole brain transcriptome mRNA profiles of zebrafish which exposed to elavated glucocorticoid GC optogenetically at 6 13 120 dpf dpf and post predatory stress looming dots stress at xxx dpf. All subjective adults at 120 dpf were female. Tubingen strain was used as wildtype control and brains from transgenic line Tgstar:bPAC 2A tdTomatouoe300 +/ and / were sequenced on Illumina NovaSeq6000 by TRON gGmbH Mainz Germany. Paired end TruSeq Stranded mRNA libraries Illumina CA USA were constructed and over 20M of 50 bp reads/sample were sequenced. Oxford Nanopore sequencing was used for DNA methylation identification. These data were generated for the study by Choi et al. 2024. https://www.biorxiv.org/content/10.1101/2023.02.13.528363v4 ENA FIRST PUBLIC:2024 02 06|ENA LAST UPDATE:2024 02 06   wildtype whole brain pooled 15 brains wildtype whole brain day6 SAMEA111562603 Living Systems Institute, University of Exeter INSDC center name:Living Systems Institute University of Exeter|Submitter Id:tu wt d6 5|collection date:2019 12|common name:zebrafish|dev stage:6 dpf|geographic location country and/or sea:Germany|sample name:tu wt d6 5|scientific name:Danio rerio|sex:N/A|strain:Tübingen|tissue type:brain                 Illumina NovaSeq 6000 paired end sequencing ena EXPERIMENT TAB 09 11 2022 11:52:59:176 283001 Sample 0256 005 FR NSP TR1 SL1 1     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina NovaSeq 6000   ERP138527 Illumina NovaSeq 6000 paired end sequencing ENA FIRST PUBLIC:2024 02 06|ENA LAST UPDATE:2024 02 06 0256_005_FR_NSP_TR1_SL1_S17_L001_R1_001-pooled.fastq.gz 0256_005_FR_NSP_TR1_SL1_S17_L001_R2_001-pooled.fastq.gz fastq fastq 2904430620.0 28474810.0 ena RUN TAB 09 11 2022 11:52:59:176 283002 0:51 1:51 A:777892611;C:666758312;G:672026589;T:787654140;N:98968 51 51     777892611 666758312 672026589 787654140 98968 ERX9997134 ERS13672459 ERA18581410 living systems institute, university of exeter|European Nucleotide Archive living systems institute, university of exeter|European Nucleotide Archive                       B B biological fallback assumption illumina novaseq_era full_length poly_a trueseq bulk unknown unknown   United Kingdom 2024-02-06 Larval Larval Brain Nervous System
11071 11071 ERR10476837 ERX9997180 ERS13672505 ERP138527 PRJEB53713 Time course whole brain transcriptome and methylome profiles of early life high GC exposed zebrafish f79d57b2-1e93-4ca0-8fda-fd881a2a0c1e Other Whole brain transcriptome mRNA profiles of zebrafish which exposed to elavated glucocorticoid GC optogenetically at 6 13 120 dpf dpf and post predatory stress looming dots stress at xxx dpf. All subjective adults at 120 dpf were female. Tubingen strain was used as wildtype control and brains from transgenic line Tgstar:bPAC 2A tdTomatouoe300 +/ and / were sequenced on Illumina NovaSeq6000 by TRON gGmbH Mainz Germany. Paired end TruSeq Stranded mRNA libraries Illumina CA USA were constructed and over 20M of 50 bp reads/sample were sequenced. Oxford Nanopore sequencing was used for DNA methylation identification. These data were generated for the study by Choi et al. 2024. https://www.biorxiv.org/content/10.1101/2023.02.13.528363v4 ENA FIRST PUBLIC:2024 02 06|ENA LAST UPDATE:2024 02 06   star:bPAC / whole brain pooled 3 brains star:bPAC / whole brain day120 SAMEA111562649 Living Systems Institute, University of Exeter INSDC center name:Living Systems Institute University of Exeter|Submitter Id:star neg d120 1|collection date:2019 12|common name:zebrafish|dev stage:120 dpf|geographic location country and/or sea:Germany|sample name:star neg d120 1|scientific name:Danio rerio|sex:female|strain:Tübingen|tissue type:brain                 Illumina NovaSeq 6000 paired end sequencing ena EXPERIMENT TAB 09 11 2022 11:52:59:196 283093 Sample 0256 116 FR NSP TR1 SL1 1     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina NovaSeq 6000   ERP138527 Illumina NovaSeq 6000 paired end sequencing ENA FIRST PUBLIC:2024 02 06|ENA LAST UPDATE:2024 02 06 0256_116_FR_NSP_TR1_SL1_S45_L001_R1_001-pooled.fastq.gz 0256_116_FR_NSP_TR1_SL1_S45_L001_R2_001-pooled.fastq.gz fastq fastq 3223186638.0 31599869.0 ena RUN TAB 09 11 2022 11:52:59:196 283094 0:51 1:51 A:887593868;C:714750043;G:727286570;T:893518987;N:37170 51 51     887593868 714750043 727286570 893518987 37170 ERX9997180 ERS13672505 ERA18581410 living systems institute, university of exeter|European Nucleotide Archive living systems institute, university of exeter|European Nucleotide Archive                       B B biological fallback assumption illumina novaseq_era full_length poly_a trueseq bulk unknown unknown   United Kingdom 2024-02-06 Adult Adult Brain Nervous System
11072 11072 ERR10476844 ERX9997187 ERS13672512 ERP138527 PRJEB53713 Time course whole brain transcriptome and methylome profiles of early life high GC exposed zebrafish f79d57b2-1e93-4ca0-8fda-fd881a2a0c1e Other Whole brain transcriptome mRNA profiles of zebrafish which exposed to elavated glucocorticoid GC optogenetically at 6 13 120 dpf dpf and post predatory stress looming dots stress at xxx dpf. All subjective adults at 120 dpf were female. Tubingen strain was used as wildtype control and brains from transgenic line Tgstar:bPAC 2A tdTomatouoe300 +/ and / were sequenced on Illumina NovaSeq6000 by TRON gGmbH Mainz Germany. Paired end TruSeq Stranded mRNA libraries Illumina CA USA were constructed and over 20M of 50 bp reads/sample were sequenced. Oxford Nanopore sequencing was used for DNA methylation identification. These data were generated for the study by Choi et al. 2024. https://www.biorxiv.org/content/10.1101/2023.02.13.528363v4 ENA FIRST PUBLIC:2024 02 06|ENA LAST UPDATE:2024 02 06   star:bPAC / whole brain pooled 3 brains star:bPAC / whole brain day120+LD stress SAMEA111562656 Living Systems Institute, University of Exeter INSDC center name:Living Systems Institute University of Exeter|Submitter Id:star neg LD 3|collection date:2019 12|common name:zebrafish|dev stage:120 dpf|geographic location country and/or sea:Germany|sample name:star neg LD 3|scientific name:Danio rerio|sex:female|strain:Tübingen|tissue type:brain                 Illumina NovaSeq 6000 paired end sequencing ena EXPERIMENT TAB 09 11 2022 11:52:59:199 283107 Sample 0256 123 FR NSP TR1 SL2 1     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina NovaSeq 6000   ERP138527 Illumina NovaSeq 6000 paired end sequencing ENA FIRST PUBLIC:2024 02 06|ENA LAST UPDATE:2024 02 06 0256_123_FR_NSP_TR1_SL2_S52_L001_R1_001-pooled.fastq.gz 0256_123_FR_NSP_TR1_SL2_S52_L001_R2_001-pooled.fastq.gz fastq fastq 3363995598.0 32980349.0 ena RUN TAB 09 11 2022 11:52:59:199 283108 0:51 1:51 A:911801682;C:754249392;G:775610326;T:922295915;N:38283 51 51     911801682 754249392 775610326 922295915 38283 ERX9997187 ERS13672512 ERA18581410 living systems institute, university of exeter|European Nucleotide Archive living systems institute, university of exeter|European Nucleotide Archive                       B B biological fallback assumption illumina novaseq_era full_length poly_a trueseq bulk unknown unknown   United Kingdom 2024-02-06 Adult Adult Brain Nervous System
11073 11073 ERR10476841 ERX9997184 ERS13672509 ERP138527 PRJEB53713 Time course whole brain transcriptome and methylome profiles of early life high GC exposed zebrafish f79d57b2-1e93-4ca0-8fda-fd881a2a0c1e Other Whole brain transcriptome mRNA profiles of zebrafish which exposed to elavated glucocorticoid GC optogenetically at 6 13 120 dpf dpf and post predatory stress looming dots stress at xxx dpf. All subjective adults at 120 dpf were female. Tubingen strain was used as wildtype control and brains from transgenic line Tgstar:bPAC 2A tdTomatouoe300 +/ and / were sequenced on Illumina NovaSeq6000 by TRON gGmbH Mainz Germany. Paired end TruSeq Stranded mRNA libraries Illumina CA USA were constructed and over 20M of 50 bp reads/sample were sequenced. Oxford Nanopore sequencing was used for DNA methylation identification. These data were generated for the study by Choi et al. 2024. https://www.biorxiv.org/content/10.1101/2023.02.13.528363v4 ENA FIRST PUBLIC:2024 02 06|ENA LAST UPDATE:2024 02 06   star:bPAC / whole brain pooled 3 brains star:bPAC / whole brain day120 SAMEA111562653 Living Systems Institute, University of Exeter INSDC center name:Living Systems Institute University of Exeter|Submitter Id:star neg d120 5|collection date:2019 12|common name:zebrafish|dev stage:120 dpf|geographic location country and/or sea:Germany|sample name:star neg d120 5|scientific name:Danio rerio|sex:female|strain:Tübingen|tissue type:brain                 Illumina NovaSeq 6000 paired end sequencing ena EXPERIMENT TAB 09 11 2022 11:52:59:198 283101 Sample 0256 120 FR NSP TR1 SL1 1     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina NovaSeq 6000   ERP138527 Illumina NovaSeq 6000 paired end sequencing ENA FIRST PUBLIC:2024 02 06|ENA LAST UPDATE:2024 02 06 0256_120_FR_NSP_TR1_SL1_S49_L001_R1_001-pooled.fastq.gz 0256_120_FR_NSP_TR1_SL1_S49_L001_R2_001-pooled.fastq.gz fastq fastq 3183097374.0 31206837.0 ena RUN TAB 09 11 2022 11:52:59:198 283102 0:51 1:51 A:877463150;C:706812545;G:717353252;T:881432047;N:36380 51 51     877463150 706812545 717353252 881432047 36380 ERX9997184 ERS13672509 ERA18581410 living systems institute, university of exeter|European Nucleotide Archive living systems institute, university of exeter|European Nucleotide Archive                       B B biological fallback assumption illumina novaseq_era full_length poly_a trueseq bulk unknown unknown   United Kingdom 2024-02-06 Adult Adult Brain Nervous System
11074 11074 ERR10476788 ERX9997131 ERS13672456 ERP138527 PRJEB53713 Time course whole brain transcriptome and methylome profiles of early life high GC exposed zebrafish f79d57b2-1e93-4ca0-8fda-fd881a2a0c1e Other Whole brain transcriptome mRNA profiles of zebrafish which exposed to elavated glucocorticoid GC optogenetically at 6 13 120 dpf dpf and post predatory stress looming dots stress at xxx dpf. All subjective adults at 120 dpf were female. Tubingen strain was used as wildtype control and brains from transgenic line Tgstar:bPAC 2A tdTomatouoe300 +/ and / were sequenced on Illumina NovaSeq6000 by TRON gGmbH Mainz Germany. Paired end TruSeq Stranded mRNA libraries Illumina CA USA were constructed and over 20M of 50 bp reads/sample were sequenced. Oxford Nanopore sequencing was used for DNA methylation identification. These data were generated for the study by Choi et al. 2024. https://www.biorxiv.org/content/10.1101/2023.02.13.528363v4 ENA FIRST PUBLIC:2024 02 06|ENA LAST UPDATE:2024 02 06   wildtype whole brain pooled 15 brains wildtype whole brain day6 SAMEA111562600 Living Systems Institute, University of Exeter INSDC center name:Living Systems Institute University of Exeter|Submitter Id:tu wt d6 2|collection date:2019 12|common name:zebrafish|dev stage:6 dpf|geographic location country and/or sea:Germany|sample name:tu wt d6 2|scientific name:Danio rerio|sex:N/A|strain:Tübingen|tissue type:brain                 Illumina NovaSeq 6000 paired end sequencing ena EXPERIMENT TAB 09 11 2022 11:52:59:175 282995 Sample 0256 002 FR NSP TR1 SL1 1     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina NovaSeq 6000   ERP138527 Illumina NovaSeq 6000 paired end sequencing ENA FIRST PUBLIC:2024 02 06|ENA LAST UPDATE:2024 02 06 0256_002_FR_NSP_TR1_SL1_S14_L001_R1_001-pooled.fastq.gz 0256_002_FR_NSP_TR1_SL1_S14_L001_R2_001-pooled.fastq.gz fastq fastq 2385303456.0 23385328.0 ena RUN TAB 09 11 2022 11:52:59:175 282996 0:51 1:51 A:620601269;C:567608030;G:568555174;T:628457831;N:81152 51 51     620601269 567608030 568555174 628457831 81152 ERX9997131 ERS13672456 ERA18581410 living systems institute, university of exeter|European Nucleotide Archive living systems institute, university of exeter|European Nucleotide Archive                       B B biological fallback assumption illumina novaseq_era full_length poly_a trueseq bulk unknown unknown   United Kingdom 2024-02-06 Larval Larval Brain Nervous System
11075 11075 ERR10476825 ERX9997168 ERS13672493 ERP138527 PRJEB53713 Time course whole brain transcriptome and methylome profiles of early life high GC exposed zebrafish f79d57b2-1e93-4ca0-8fda-fd881a2a0c1e Other Whole brain transcriptome mRNA profiles of zebrafish which exposed to elavated glucocorticoid GC optogenetically at 6 13 120 dpf dpf and post predatory stress looming dots stress at xxx dpf. All subjective adults at 120 dpf were female. Tubingen strain was used as wildtype control and brains from transgenic line Tgstar:bPAC 2A tdTomatouoe300 +/ and / were sequenced on Illumina NovaSeq6000 by TRON gGmbH Mainz Germany. Paired end TruSeq Stranded mRNA libraries Illumina CA USA were constructed and over 20M of 50 bp reads/sample were sequenced. Oxford Nanopore sequencing was used for DNA methylation identification. These data were generated for the study by Choi et al. 2024. https://www.biorxiv.org/content/10.1101/2023.02.13.528363v4 ENA FIRST PUBLIC:2024 02 06|ENA LAST UPDATE:2024 02 06   star:bPAC+/ whole brain pooled 3 brains star:bPAC+/ whole brain day120+LD stress SAMEA111562637 Living Systems Institute, University of Exeter INSDC center name:Living Systems Institute University of Exeter|Submitter Id:star pos LD 4|collection date:2019 12|common name:zebrafish|dev stage:120 dpf|geographic location country and/or sea:Germany|sample name:star pos LD 4|scientific name:Danio rerio|sex:female|strain:Tübingen|tissue type:brain                 Illumina NovaSeq 6000 paired end sequencing ena EXPERIMENT TAB 09 11 2022 11:52:59:191 283069 Sample 0256 099 FR NSP TR1 SL1 1     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina NovaSeq 6000   ERP138527 Illumina NovaSeq 6000 paired end sequencing ENA FIRST PUBLIC:2024 02 06|ENA LAST UPDATE:2024 02 06 0256_099_FR_NSP_TR1_SL1_S28_L001_R1_001-pooled.fastq.gz 0256_099_FR_NSP_TR1_SL1_S28_L001_R2_001-pooled.fastq.gz fastq fastq 3076257270.0 30159385.0 ena RUN TAB 09 11 2022 11:52:59:191 283070 0:51 1:51 A:873464149;C:655660863;G:671402896;T:875694442;N:34920 51 51     873464149 655660863 671402896 875694442 34920 ERX9997168 ERS13672493 ERA18581410 living systems institute, university of exeter|European Nucleotide Archive living systems institute, university of exeter|European Nucleotide Archive                       B B biological fallback assumption illumina novaseq_era full_length poly_a trueseq bulk unknown unknown   United Kingdom 2024-02-06 Adult Adult Brain Nervous System
11076 11076 ERR10476842 ERX9997185 ERS13672510 ERP138527 PRJEB53713 Time course whole brain transcriptome and methylome profiles of early life high GC exposed zebrafish f79d57b2-1e93-4ca0-8fda-fd881a2a0c1e Other Whole brain transcriptome mRNA profiles of zebrafish which exposed to elavated glucocorticoid GC optogenetically at 6 13 120 dpf dpf and post predatory stress looming dots stress at xxx dpf. All subjective adults at 120 dpf were female. Tubingen strain was used as wildtype control and brains from transgenic line Tgstar:bPAC 2A tdTomatouoe300 +/ and / were sequenced on Illumina NovaSeq6000 by TRON gGmbH Mainz Germany. Paired end TruSeq Stranded mRNA libraries Illumina CA USA were constructed and over 20M of 50 bp reads/sample were sequenced. Oxford Nanopore sequencing was used for DNA methylation identification. These data were generated for the study by Choi et al. 2024. https://www.biorxiv.org/content/10.1101/2023.02.13.528363v4 ENA FIRST PUBLIC:2024 02 06|ENA LAST UPDATE:2024 02 06   star:bPAC / whole brain pooled 3 brains star:bPAC / whole brain day120+LD stress SAMEA111562654 Living Systems Institute, University of Exeter INSDC center name:Living Systems Institute University of Exeter|Submitter Id:star neg LD 1|collection date:2019 12|common name:zebrafish|dev stage:120 dpf|geographic location country and/or sea:Germany|sample name:star neg LD 1|scientific name:Danio rerio|sex:female|strain:Tübingen|tissue type:brain                 Illumina NovaSeq 6000 paired end sequencing ena EXPERIMENT TAB 09 11 2022 11:52:59:198 283103 Sample 0256 121 FR NSP TR1 SL1 1     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina NovaSeq 6000   ERP138527 Illumina NovaSeq 6000 paired end sequencing ENA FIRST PUBLIC:2024 02 06|ENA LAST UPDATE:2024 02 06 0256_121_FR_NSP_TR1_SL1_S50_L001_R1_001-pooled.fastq.gz 0256_121_FR_NSP_TR1_SL1_S50_L001_R2_001-pooled.fastq.gz fastq fastq 2812259034.0 27571167.0 ena RUN TAB 09 11 2022 11:52:59:198 283104 0:51 1:51 A:777159410;C:623161405;G:635673358;T:776232920;N:31941 51 51     777159410 623161405 635673358 776232920 31941 ERX9997185 ERS13672510 ERA18581410 living systems institute, university of exeter|European Nucleotide Archive living systems institute, university of exeter|European Nucleotide Archive                       B B biological fallback assumption illumina novaseq_era full_length poly_a trueseq bulk unknown unknown   United Kingdom 2024-02-06 Adult Adult Brain Nervous System
11077 11077 ERR10476816 ERX9997159 ERS13672484 ERP138527 PRJEB53713 Time course whole brain transcriptome and methylome profiles of early life high GC exposed zebrafish f79d57b2-1e93-4ca0-8fda-fd881a2a0c1e Other Whole brain transcriptome mRNA profiles of zebrafish which exposed to elavated glucocorticoid GC optogenetically at 6 13 120 dpf dpf and post predatory stress looming dots stress at xxx dpf. All subjective adults at 120 dpf were female. Tubingen strain was used as wildtype control and brains from transgenic line Tgstar:bPAC 2A tdTomatouoe300 +/ and / were sequenced on Illumina NovaSeq6000 by TRON gGmbH Mainz Germany. Paired end TruSeq Stranded mRNA libraries Illumina CA USA were constructed and over 20M of 50 bp reads/sample were sequenced. Oxford Nanopore sequencing was used for DNA methylation identification. These data were generated for the study by Choi et al. 2024. https://www.biorxiv.org/content/10.1101/2023.02.13.528363v4 ENA FIRST PUBLIC:2024 02 06|ENA LAST UPDATE:2024 02 06   star:bPAC+/ whole brain pooled 15 brains star:bPAC+/ whole brain day13 SAMEA111562628 Living Systems Institute, University of Exeter INSDC center name:Living Systems Institute University of Exeter|Submitter Id:star pos d13 5|collection date:2019 12|common name:zebrafish|dev stage:13 dpf|geographic location country and/or sea:Germany|sample name:star pos d13 5|scientific name:Danio rerio|sex:N/A|strain:Tübingen|tissue type:brain                 Illumina NovaSeq 6000 paired end sequencing ena EXPERIMENT TAB 09 11 2022 11:52:59:187 283051 Sample 0256 085 FR NSP TRP SL1 1     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina NovaSeq 6000   ERP138527 Illumina NovaSeq 6000 paired end sequencing ENA FIRST PUBLIC:2024 02 06|ENA LAST UPDATE:2024 02 06 0256_085_FR_NSP_TRP_SL1_S16_L001_R1_001-pooled.fastq.gz 0256_085_FR_NSP_TRP_SL1_S16_L001_R2_001-pooled.fastq.gz fastq fastq 3264856596.0 32008398.0 ena RUN TAB 09 11 2022 11:52:59:187 283052 0:51 1:51 A:908889213;C:708892816;G:727180747;T:919857088;N:36732 51 51     908889213 708892816 727180747 919857088 36732 ERX9997159 ERS13672484 ERA18581410 living systems institute, university of exeter|European Nucleotide Archive living systems institute, university of exeter|European Nucleotide Archive                       B B biological fallback assumption illumina novaseq_era full_length poly_a trueseq bulk unknown unknown   United Kingdom 2024-02-06 Larval Larval Brain Nervous System
11078 11078 ERR10476813 ERX9997156 ERS13672481 ERP138527 PRJEB53713 Time course whole brain transcriptome and methylome profiles of early life high GC exposed zebrafish f79d57b2-1e93-4ca0-8fda-fd881a2a0c1e Other Whole brain transcriptome mRNA profiles of zebrafish which exposed to elavated glucocorticoid GC optogenetically at 6 13 120 dpf dpf and post predatory stress looming dots stress at xxx dpf. All subjective adults at 120 dpf were female. Tubingen strain was used as wildtype control and brains from transgenic line Tgstar:bPAC 2A tdTomatouoe300 +/ and / were sequenced on Illumina NovaSeq6000 by TRON gGmbH Mainz Germany. Paired end TruSeq Stranded mRNA libraries Illumina CA USA were constructed and over 20M of 50 bp reads/sample were sequenced. Oxford Nanopore sequencing was used for DNA methylation identification. These data were generated for the study by Choi et al. 2024. https://www.biorxiv.org/content/10.1101/2023.02.13.528363v4 ENA FIRST PUBLIC:2024 02 06|ENA LAST UPDATE:2024 02 06   star:bPAC+/ whole brain pooled 15 brains star:bPAC+/ whole brain day13 SAMEA111562625 Living Systems Institute, University of Exeter INSDC center name:Living Systems Institute University of Exeter|Submitter Id:star pos d13 2|collection date:2019 12|common name:zebrafish|dev stage:13 dpf|geographic location country and/or sea:Germany|sample name:star pos d13 2|scientific name:Danio rerio|sex:N/A|strain:Tübingen|tissue type:brain                 Illumina NovaSeq 6000 paired end sequencing ena EXPERIMENT TAB 09 11 2022 11:52:59:186 283045 Sample 0256 082 FR NSP TR2 SL1 1     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina NovaSeq 6000   ERP138527 Illumina NovaSeq 6000 paired end sequencing ENA FIRST PUBLIC:2024 02 06|ENA LAST UPDATE:2024 02 06 0256_082_FR_NSP_TR2_SL1_S13_L001_R1_001-pooled.fastq.gz 0256_082_FR_NSP_TR2_SL1_S13_L001_R2_001-pooled.fastq.gz fastq fastq 3037654248.0 29780924.0 ena RUN TAB 09 11 2022 11:52:59:186 283046 0:51 1:51 A:859112641;C:645943863;G:660257800;T:872305592;N:34352 51 51     859112641 645943863 660257800 872305592 34352 ERX9997156 ERS13672481 ERA18581410 living systems institute, university of exeter|European Nucleotide Archive living systems institute, university of exeter|European Nucleotide Archive                       B B biological fallback assumption illumina novaseq_era full_length poly_a trueseq bulk unknown unknown   United Kingdom 2024-02-06 Larval Larval Brain Nervous System
11079 11079 ERR10476832 ERX9997175 ERS13672500 ERP138527 PRJEB53713 Time course whole brain transcriptome and methylome profiles of early life high GC exposed zebrafish f79d57b2-1e93-4ca0-8fda-fd881a2a0c1e Other Whole brain transcriptome mRNA profiles of zebrafish which exposed to elavated glucocorticoid GC optogenetically at 6 13 120 dpf dpf and post predatory stress looming dots stress at xxx dpf. All subjective adults at 120 dpf were female. Tubingen strain was used as wildtype control and brains from transgenic line Tgstar:bPAC 2A tdTomatouoe300 +/ and / were sequenced on Illumina NovaSeq6000 by TRON gGmbH Mainz Germany. Paired end TruSeq Stranded mRNA libraries Illumina CA USA were constructed and over 20M of 50 bp reads/sample were sequenced. Oxford Nanopore sequencing was used for DNA methylation identification. These data were generated for the study by Choi et al. 2024. https://www.biorxiv.org/content/10.1101/2023.02.13.528363v4 ENA FIRST PUBLIC:2024 02 06|ENA LAST UPDATE:2024 02 06   star:bPAC / whole brain pooled 15 brains star:bPAC / whole brain day13 SAMEA111562644 Living Systems Institute, University of Exeter INSDC center name:Living Systems Institute University of Exeter|Submitter Id:star neg d13 1|collection date:2019 12|common name:zebrafish|dev stage:13 dpf|geographic location country and/or sea:Germany|sample name:star neg d13 1|scientific name:Danio rerio|sex:N/A|strain:Tübingen|tissue type:brain                 Illumina NovaSeq 6000 paired end sequencing ena EXPERIMENT TAB 09 11 2022 11:52:59:194 283083 Sample 0256 106 FR NSP TR1 SL1 1     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina NovaSeq 6000   ERP138527 Illumina NovaSeq 6000 paired end sequencing ENA FIRST PUBLIC:2024 02 06|ENA LAST UPDATE:2024 02 06 0256_106_FR_NSP_TR1_SL1_S35_L001_R1_001-pooled.fastq.gz 0256_106_FR_NSP_TR1_SL1_S35_L001_R2_001-pooled.fastq.gz fastq fastq 2761703040.0 27075520.0 ena RUN TAB 09 11 2022 11:52:59:194 283084 0:51 1:51 A:761065450;C:610246142;G:622228689;T:768131440;N:31319 51 51     761065450 610246142 622228689 768131440 31319 ERX9997175 ERS13672500 ERA18581410 living systems institute, university of exeter|European Nucleotide Archive living systems institute, university of exeter|European Nucleotide Archive                       B B biological fallback assumption illumina novaseq_era full_length poly_a trueseq bulk unknown unknown   United Kingdom 2024-02-06 Larval Larval Brain Nervous System
11080 11080 ERR10476810 ERX9997153 ERS13672478 ERP138527 PRJEB53713 Time course whole brain transcriptome and methylome profiles of early life high GC exposed zebrafish f79d57b2-1e93-4ca0-8fda-fd881a2a0c1e Other Whole brain transcriptome mRNA profiles of zebrafish which exposed to elavated glucocorticoid GC optogenetically at 6 13 120 dpf dpf and post predatory stress looming dots stress at xxx dpf. All subjective adults at 120 dpf were female. Tubingen strain was used as wildtype control and brains from transgenic line Tgstar:bPAC 2A tdTomatouoe300 +/ and / were sequenced on Illumina NovaSeq6000 by TRON gGmbH Mainz Germany. Paired end TruSeq Stranded mRNA libraries Illumina CA USA were constructed and over 20M of 50 bp reads/sample were sequenced. Oxford Nanopore sequencing was used for DNA methylation identification. These data were generated for the study by Choi et al. 2024. https://www.biorxiv.org/content/10.1101/2023.02.13.528363v4 ENA FIRST PUBLIC:2024 02 06|ENA LAST UPDATE:2024 02 06   star:bPAC+/ whole brain pooled 15 brains star:bPAC+/ whole brain day6 SAMEA111562622 Living Systems Institute, University of Exeter INSDC center name:Living Systems Institute University of Exeter|Submitter Id:star pos d6 4|collection date:2019 12|common name:zebrafish|dev stage:6 dpf|geographic location country and/or sea:Germany|sample name:star pos d6 4|scientific name:Danio rerio|sex:N/A|strain:Tübingen|tissue type:brain                 Illumina NovaSeq 6000 paired end sequencing ena EXPERIMENT TAB 09 11 2022 11:52:59:184 283039 Sample 0256 079 FR NSP TR1 SL1 1     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina NovaSeq 6000   ERP138527 Illumina NovaSeq 6000 paired end sequencing ENA FIRST PUBLIC:2024 02 06|ENA LAST UPDATE:2024 02 06 0256_079_FR_NSP_TR1_SL1_S10_L001_R1_001-pooled.fastq.gz 0256_079_FR_NSP_TR1_SL1_S10_L001_R2_001-pooled.fastq.gz fastq fastq 2745379674.0 26915487.0 ena RUN TAB 09 11 2022 11:52:59:185 283040 0:51 1:51 A:762974242;C:602287296;G:611894421;T:768192503;N:31212 51 51     762974242 602287296 611894421 768192503 31212 ERX9997153 ERS13672478 ERA18581410 living systems institute, university of exeter|European Nucleotide Archive living systems institute, university of exeter|European Nucleotide Archive                       B B biological fallback assumption illumina novaseq_era full_length poly_a trueseq bulk unknown unknown   United Kingdom 2024-02-06 Larval Larval Brain Nervous System
11081 11081 ERR10476811 ERX9997154 ERS13672479 ERP138527 PRJEB53713 Time course whole brain transcriptome and methylome profiles of early life high GC exposed zebrafish f79d57b2-1e93-4ca0-8fda-fd881a2a0c1e Other Whole brain transcriptome mRNA profiles of zebrafish which exposed to elavated glucocorticoid GC optogenetically at 6 13 120 dpf dpf and post predatory stress looming dots stress at xxx dpf. All subjective adults at 120 dpf were female. Tubingen strain was used as wildtype control and brains from transgenic line Tgstar:bPAC 2A tdTomatouoe300 +/ and / were sequenced on Illumina NovaSeq6000 by TRON gGmbH Mainz Germany. Paired end TruSeq Stranded mRNA libraries Illumina CA USA were constructed and over 20M of 50 bp reads/sample were sequenced. Oxford Nanopore sequencing was used for DNA methylation identification. These data were generated for the study by Choi et al. 2024. https://www.biorxiv.org/content/10.1101/2023.02.13.528363v4 ENA FIRST PUBLIC:2024 02 06|ENA LAST UPDATE:2024 02 06   star:bPAC+/ whole brain pooled 15 brains star:bPAC+/ whole brain day6 SAMEA111562623 Living Systems Institute, University of Exeter INSDC center name:Living Systems Institute University of Exeter|Submitter Id:star pos d6 5|collection date:2019 12|common name:zebrafish|dev stage:6 dpf|geographic location country and/or sea:Germany|sample name:star pos d6 5|scientific name:Danio rerio|sex:N/A|strain:Tübingen|tissue type:brain                 Illumina NovaSeq 6000 paired end sequencing ena EXPERIMENT TAB 09 11 2022 11:52:59:185 283041 Sample 0256 080 FR NSP TR1 SL1 1     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina NovaSeq 6000   ERP138527 Illumina NovaSeq 6000 paired end sequencing ENA FIRST PUBLIC:2024 02 06|ENA LAST UPDATE:2024 02 06 0256_080_FR_NSP_TR1_SL1_S11_L001_R1_001-pooled.fastq.gz 0256_080_FR_NSP_TR1_SL1_S11_L001_R2_001-pooled.fastq.gz fastq fastq 3212151870.0 31491685.0 ena RUN TAB 09 11 2022 11:52:59:185 283042 0:51 1:51 A:890500591;C:706313900;G:715518225;T:899782352;N:36802 51 51     890500591 706313900 715518225 899782352 36802 ERX9997154 ERS13672479 ERA18581410 living systems institute, university of exeter|European Nucleotide Archive living systems institute, university of exeter|European Nucleotide Archive                       B B biological fallback assumption illumina novaseq_era full_length poly_a trueseq bulk unknown unknown   United Kingdom 2024-02-06 Larval Larval Brain Nervous System
11082 11082 ERR10476826 ERX9997169 ERS13672494 ERP138527 PRJEB53713 Time course whole brain transcriptome and methylome profiles of early life high GC exposed zebrafish f79d57b2-1e93-4ca0-8fda-fd881a2a0c1e Other Whole brain transcriptome mRNA profiles of zebrafish which exposed to elavated glucocorticoid GC optogenetically at 6 13 120 dpf dpf and post predatory stress looming dots stress at xxx dpf. All subjective adults at 120 dpf were female. Tubingen strain was used as wildtype control and brains from transgenic line Tgstar:bPAC 2A tdTomatouoe300 +/ and / were sequenced on Illumina NovaSeq6000 by TRON gGmbH Mainz Germany. Paired end TruSeq Stranded mRNA libraries Illumina CA USA were constructed and over 20M of 50 bp reads/sample were sequenced. Oxford Nanopore sequencing was used for DNA methylation identification. These data were generated for the study by Choi et al. 2024. https://www.biorxiv.org/content/10.1101/2023.02.13.528363v4 ENA FIRST PUBLIC:2024 02 06|ENA LAST UPDATE:2024 02 06   star:bPAC+/ whole brain pooled 3 brains star:bPAC+/ whole brain day120+LD stress SAMEA111562638 Living Systems Institute, University of Exeter INSDC center name:Living Systems Institute University of Exeter|Submitter Id:star pos LD 5|collection date:2019 12|common name:zebrafish|dev stage:120 dpf|geographic location country and/or sea:Germany|sample name:star pos LD 5|scientific name:Danio rerio|sex:female|strain:Tübingen|tissue type:brain                 Illumina NovaSeq 6000 paired end sequencing ena EXPERIMENT TAB 09 11 2022 11:52:59:191 283071 Sample 0256 100 FR NSP TR1 SL1 1     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina NovaSeq 6000   ERP138527 Illumina NovaSeq 6000 paired end sequencing ENA FIRST PUBLIC:2024 02 06|ENA LAST UPDATE:2024 02 06 0256_100_FR_NSP_TR1_SL1_S29_L001_R1_001-pooled.fastq.gz 0256_100_FR_NSP_TR1_SL1_S29_L001_R2_001-pooled.fastq.gz fastq fastq 3578369100.0 35082050.0 ena RUN TAB 09 11 2022 11:52:59:191 283072 0:51 1:51 A:1020283131;C:761534114;G:768445361;T:1028065987;N:40507 51 51     1020283131 761534114 768445361 1028065987 40507 ERX9997169 ERS13672494 ERA18581410 living systems institute, university of exeter|European Nucleotide Archive living systems institute, university of exeter|European Nucleotide Archive                       B B biological fallback assumption illumina novaseq_era full_length poly_a trueseq bulk unknown unknown   United Kingdom 2024-02-06 Adult Adult Brain Nervous System
11083 11083 ERR10476802 ERX9997145 ERS13672470 ERP138527 PRJEB53713 Time course whole brain transcriptome and methylome profiles of early life high GC exposed zebrafish f79d57b2-1e93-4ca0-8fda-fd881a2a0c1e Other Whole brain transcriptome mRNA profiles of zebrafish which exposed to elavated glucocorticoid GC optogenetically at 6 13 120 dpf dpf and post predatory stress looming dots stress at xxx dpf. All subjective adults at 120 dpf were female. Tubingen strain was used as wildtype control and brains from transgenic line Tgstar:bPAC 2A tdTomatouoe300 +/ and / were sequenced on Illumina NovaSeq6000 by TRON gGmbH Mainz Germany. Paired end TruSeq Stranded mRNA libraries Illumina CA USA were constructed and over 20M of 50 bp reads/sample were sequenced. Oxford Nanopore sequencing was used for DNA methylation identification. These data were generated for the study by Choi et al. 2024. https://www.biorxiv.org/content/10.1101/2023.02.13.528363v4 ENA FIRST PUBLIC:2024 02 06|ENA LAST UPDATE:2024 02 06   wildtype whole brain pooled 3 brains wildtype whole brain day120+LD stress SAMEA111562614 Living Systems Institute, University of Exeter INSDC center name:Living Systems Institute University of Exeter|Submitter Id:tu wt LD 1|collection date:2019 12|common name:zebrafish|dev stage:120 dpf|geographic location country and/or sea:Germany|sample name:tu wt LD 1|scientific name:Danio rerio|sex:female|strain:Tübingen|tissue type:brain                 Illumina NovaSeq 6000 paired end sequencing ena EXPERIMENT TAB 09 11 2022 11:52:59:181 283023 Sample 0256 021 FR NSP TR1 SL1 1     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina NovaSeq 6000   ERP138527 Illumina NovaSeq 6000 paired end sequencing ENA FIRST PUBLIC:2024 02 06|ENA LAST UPDATE:2024 02 06 0256_021_FR_NSP_TR1_SL1_S32_L001_R1_001-pooled.fastq.gz 0256_021_FR_NSP_TR1_SL1_S32_L001_R2_001-pooled.fastq.gz fastq fastq 2990267394.0 29316347.0 ena RUN TAB 09 11 2022 11:52:59:181 283024 0:51 1:51 A:821947579;C:664213850;G:685635879;T:818367947;N:102139 51 51     821947579 664213850 685635879 818367947 102139 ERX9997145 ERS13672470 ERA18581410 living systems institute, university of exeter|European Nucleotide Archive living systems institute, university of exeter|European Nucleotide Archive                       B B biological fallback assumption illumina novaseq_era full_length poly_a trueseq bulk unknown unknown   United Kingdom 2024-02-06 Adult Adult Brain Nervous System
11084 11084 ERR10476799 ERX9997142 ERS13672467 ERP138527 PRJEB53713 Time course whole brain transcriptome and methylome profiles of early life high GC exposed zebrafish f79d57b2-1e93-4ca0-8fda-fd881a2a0c1e Other Whole brain transcriptome mRNA profiles of zebrafish which exposed to elavated glucocorticoid GC optogenetically at 6 13 120 dpf dpf and post predatory stress looming dots stress at xxx dpf. All subjective adults at 120 dpf were female. Tubingen strain was used as wildtype control and brains from transgenic line Tgstar:bPAC 2A tdTomatouoe300 +/ and / were sequenced on Illumina NovaSeq6000 by TRON gGmbH Mainz Germany. Paired end TruSeq Stranded mRNA libraries Illumina CA USA were constructed and over 20M of 50 bp reads/sample were sequenced. Oxford Nanopore sequencing was used for DNA methylation identification. These data were generated for the study by Choi et al. 2024. https://www.biorxiv.org/content/10.1101/2023.02.13.528363v4 ENA FIRST PUBLIC:2024 02 06|ENA LAST UPDATE:2024 02 06   wildtype whole brain pooled 3 brains wildtype whole brain day120 SAMEA111562611 Living Systems Institute, University of Exeter INSDC center name:Living Systems Institute University of Exeter|Submitter Id:tu wt d120 3|collection date:2019 12|common name:zebrafish|dev stage:120 dpf|geographic location country and/or sea:Germany|sample name:tu wt d120 3|scientific name:Danio rerio|sex:female|strain:Tübingen|tissue type:brain                 Illumina NovaSeq 6000 paired end sequencing ena EXPERIMENT TAB 09 11 2022 11:52:59:180 283017 Sample 0256 018 FR NSP TR1 SL1 1     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina NovaSeq 6000   ERP138527 Illumina NovaSeq 6000 paired end sequencing ENA FIRST PUBLIC:2024 02 06|ENA LAST UPDATE:2024 02 06 0256_018_FR_NSP_TR1_SL1_S29_L001_R1_001-pooled.fastq.gz 0256_018_FR_NSP_TR1_SL1_S29_L001_R2_001-pooled.fastq.gz fastq fastq 2807137614.0 27520957.0 ena RUN TAB 09 11 2022 11:52:59:180 283018 0:51 1:51 A:773248982;C:621078395;G:638119915;T:774593844;N:96478 51 51     773248982 621078395 638119915 774593844 96478 ERX9997142 ERS13672467 ERA18581410 living systems institute, university of exeter|European Nucleotide Archive living systems institute, university of exeter|European Nucleotide Archive                       B B biological fallback assumption illumina novaseq_era full_length poly_a trueseq bulk unknown unknown   United Kingdom 2024-02-06 Adult Adult Brain Nervous System
11085 11085 ERR10476809 ERX9997152 ERS13672477 ERP138527 PRJEB53713 Time course whole brain transcriptome and methylome profiles of early life high GC exposed zebrafish f79d57b2-1e93-4ca0-8fda-fd881a2a0c1e Other Whole brain transcriptome mRNA profiles of zebrafish which exposed to elavated glucocorticoid GC optogenetically at 6 13 120 dpf dpf and post predatory stress looming dots stress at xxx dpf. All subjective adults at 120 dpf were female. Tubingen strain was used as wildtype control and brains from transgenic line Tgstar:bPAC 2A tdTomatouoe300 +/ and / were sequenced on Illumina NovaSeq6000 by TRON gGmbH Mainz Germany. Paired end TruSeq Stranded mRNA libraries Illumina CA USA were constructed and over 20M of 50 bp reads/sample were sequenced. Oxford Nanopore sequencing was used for DNA methylation identification. These data were generated for the study by Choi et al. 2024. https://www.biorxiv.org/content/10.1101/2023.02.13.528363v4 ENA FIRST PUBLIC:2024 02 06|ENA LAST UPDATE:2024 02 06   star:bPAC+/ whole brain pooled 15 brains star:bPAC+/ whole brain day6 SAMEA111562621 Living Systems Institute, University of Exeter INSDC center name:Living Systems Institute University of Exeter|Submitter Id:star pos d6 3|collection date:2019 12|common name:zebrafish|dev stage:6 dpf|geographic location country and/or sea:Germany|sample name:star pos d6 3|scientific name:Danio rerio|sex:N/A|strain:Tübingen|tissue type:brain                 Illumina NovaSeq 6000 paired end sequencing ena EXPERIMENT TAB 09 11 2022 11:52:59:184 283037 Sample 0256 078 FR NSP TR1 SL1 1     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina NovaSeq 6000   ERP138527 Illumina NovaSeq 6000 paired end sequencing ENA FIRST PUBLIC:2024 02 06|ENA LAST UPDATE:2024 02 06 0256_078_FR_NSP_TR1_SL1_S9_L001_R1_001-pooled.fastq.gz 0256_078_FR_NSP_TR1_SL1_S9_L001_R2_001-pooled.fastq.gz fastq fastq 3412655106.0 33457403.0 ena RUN TAB 09 11 2022 11:52:59:184 283038 0:51 1:51 A:942783320;C:753155142;G:767154692;T:949522969;N:38983 51 51     942783320 753155142 767154692 949522969 38983 ERX9997152 ERS13672477 ERA18581410 living systems institute, university of exeter|European Nucleotide Archive living systems institute, university of exeter|European Nucleotide Archive                       B B biological fallback assumption illumina novaseq_era full_length poly_a trueseq bulk unknown unknown   United Kingdom 2024-02-06 Larval Larval Brain Nervous System
11086 11086 ERR10476789 ERX9997132 ERS13672457 ERP138527 PRJEB53713 Time course whole brain transcriptome and methylome profiles of early life high GC exposed zebrafish f79d57b2-1e93-4ca0-8fda-fd881a2a0c1e Other Whole brain transcriptome mRNA profiles of zebrafish which exposed to elavated glucocorticoid GC optogenetically at 6 13 120 dpf dpf and post predatory stress looming dots stress at xxx dpf. All subjective adults at 120 dpf were female. Tubingen strain was used as wildtype control and brains from transgenic line Tgstar:bPAC 2A tdTomatouoe300 +/ and / were sequenced on Illumina NovaSeq6000 by TRON gGmbH Mainz Germany. Paired end TruSeq Stranded mRNA libraries Illumina CA USA were constructed and over 20M of 50 bp reads/sample were sequenced. Oxford Nanopore sequencing was used for DNA methylation identification. These data were generated for the study by Choi et al. 2024. https://www.biorxiv.org/content/10.1101/2023.02.13.528363v4 ENA FIRST PUBLIC:2024 02 06|ENA LAST UPDATE:2024 02 06   wildtype whole brain pooled 15 brains wildtype whole brain day6 SAMEA111562601 Living Systems Institute, University of Exeter INSDC center name:Living Systems Institute University of Exeter|Submitter Id:tu wt d6 3|collection date:2019 12|common name:zebrafish|dev stage:6 dpf|geographic location country and/or sea:Germany|sample name:tu wt d6 3|scientific name:Danio rerio|sex:N/A|strain:Tübingen|tissue type:brain                 Illumina NovaSeq 6000 paired end sequencing ena EXPERIMENT TAB 09 11 2022 11:52:59:175 282997 Sample 0256 003 FR NSP TR1 SL1 1     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina NovaSeq 6000   ERP138527 Illumina NovaSeq 6000 paired end sequencing ENA FIRST PUBLIC:2024 02 06|ENA LAST UPDATE:2024 02 06 0256_003_FR_NSP_TR1_SL1_S15_L001_R1_001-pooled.fastq.gz 0256_003_FR_NSP_TR1_SL1_S15_L001_R2_001-pooled.fastq.gz fastq fastq 2999816634.0 29409967.0 ena RUN TAB 09 11 2022 11:52:59:176 282998 0:51 1:51 A:771170539;C:720448182;G:729961101;T:778133283;N:103529 51 51     771170539 720448182 729961101 778133283 103529 ERX9997132 ERS13672457 ERA18581410 living systems institute, university of exeter|European Nucleotide Archive living systems institute, university of exeter|European Nucleotide Archive                       B B biological fallback assumption illumina novaseq_era full_length poly_a trueseq bulk unknown unknown   United Kingdom 2024-02-06 Larval Larval Brain Nervous System
11087 11087 ERR10476830 ERX9997173 ERS13672498 ERP138527 PRJEB53713 Time course whole brain transcriptome and methylome profiles of early life high GC exposed zebrafish f79d57b2-1e93-4ca0-8fda-fd881a2a0c1e Other Whole brain transcriptome mRNA profiles of zebrafish which exposed to elavated glucocorticoid GC optogenetically at 6 13 120 dpf dpf and post predatory stress looming dots stress at xxx dpf. All subjective adults at 120 dpf were female. Tubingen strain was used as wildtype control and brains from transgenic line Tgstar:bPAC 2A tdTomatouoe300 +/ and / were sequenced on Illumina NovaSeq6000 by TRON gGmbH Mainz Germany. Paired end TruSeq Stranded mRNA libraries Illumina CA USA were constructed and over 20M of 50 bp reads/sample were sequenced. Oxford Nanopore sequencing was used for DNA methylation identification. These data were generated for the study by Choi et al. 2024. https://www.biorxiv.org/content/10.1101/2023.02.13.528363v4 ENA FIRST PUBLIC:2024 02 06|ENA LAST UPDATE:2024 02 06   star:bPAC / whole brain pooled 15 brains star:bPAC / whole brain day6 SAMEA111562642 Living Systems Institute, University of Exeter INSDC center name:Living Systems Institute University of Exeter|Submitter Id:star neg d6 4|collection date:2019 12|common name:zebrafish|dev stage:6 dpf|geographic location country and/or sea:Germany|sample name:star neg d6 4|scientific name:Danio rerio|sex:N/A|strain:Tübingen|tissue type:brain                 Illumina NovaSeq 6000 paired end sequencing ena EXPERIMENT TAB 09 11 2022 11:52:59:193 283079 Sample 0256 104 FR NSP TR1 SL1 1     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina NovaSeq 6000   ERP138527 Illumina NovaSeq 6000 paired end sequencing ENA FIRST PUBLIC:2024 02 06|ENA LAST UPDATE:2024 02 06 0256_104_FR_NSP_TR1_SL1_S33_L001_R1_001-pooled.fastq.gz 0256_104_FR_NSP_TR1_SL1_S33_L001_R2_001-pooled.fastq.gz fastq fastq 2943756210.0 28860355.0 ena RUN TAB 09 11 2022 11:52:59:193 283080 0:51 1:51 A:806343784;C:657990854;G:663721905;T:815666113;N:33554 51 51     806343784 657990854 663721905 815666113 33554 ERX9997173 ERS13672498 ERA18581410 living systems institute, university of exeter|European Nucleotide Archive living systems institute, university of exeter|European Nucleotide Archive                       B B biological fallback assumption illumina novaseq_era full_length poly_a trueseq bulk unknown unknown   United Kingdom 2024-02-06 Larval Larval Brain Nervous System
11088 11088 ERR10476835 ERX9997178 ERS13672503 ERP138527 PRJEB53713 Time course whole brain transcriptome and methylome profiles of early life high GC exposed zebrafish f79d57b2-1e93-4ca0-8fda-fd881a2a0c1e Other Whole brain transcriptome mRNA profiles of zebrafish which exposed to elavated glucocorticoid GC optogenetically at 6 13 120 dpf dpf and post predatory stress looming dots stress at xxx dpf. All subjective adults at 120 dpf were female. Tubingen strain was used as wildtype control and brains from transgenic line Tgstar:bPAC 2A tdTomatouoe300 +/ and / were sequenced on Illumina NovaSeq6000 by TRON gGmbH Mainz Germany. Paired end TruSeq Stranded mRNA libraries Illumina CA USA were constructed and over 20M of 50 bp reads/sample were sequenced. Oxford Nanopore sequencing was used for DNA methylation identification. These data were generated for the study by Choi et al. 2024. https://www.biorxiv.org/content/10.1101/2023.02.13.528363v4 ENA FIRST PUBLIC:2024 02 06|ENA LAST UPDATE:2024 02 06   star:bPAC / whole brain pooled 15 brains star:bPAC / whole brain day13 SAMEA111562647 Living Systems Institute, University of Exeter INSDC center name:Living Systems Institute University of Exeter|Submitter Id:star neg d13 4|collection date:2019 12|common name:zebrafish|dev stage:13 dpf|geographic location country and/or sea:Germany|sample name:star neg d13 4|scientific name:Danio rerio|sex:N/A|strain:Tübingen|tissue type:brain                 Illumina NovaSeq 6000 paired end sequencing ena EXPERIMENT TAB 09 11 2022 11:52:59:195 283089 Sample 0256 109 FR NSP TR2 SL1 1     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina NovaSeq 6000   ERP138527 Illumina NovaSeq 6000 paired end sequencing ENA FIRST PUBLIC:2024 02 06|ENA LAST UPDATE:2024 02 06 0256_109_FR_NSP_TR2_SL1_S38_L001_R1_001-pooled.fastq.gz 0256_109_FR_NSP_TR2_SL1_S38_L001_R2_001-pooled.fastq.gz fastq fastq 3406677396.0 33398798.0 ena RUN TAB 09 11 2022 11:52:59:195 283090 0:51 1:51 A:928579532;C:768636951;G:771636154;T:937786376;N:38383 51 51     928579532 768636951 771636154 937786376 38383 ERX9997178 ERS13672503 ERA18581410 living systems institute, university of exeter|European Nucleotide Archive living systems institute, university of exeter|European Nucleotide Archive                       B B biological fallback assumption illumina novaseq_era full_length poly_a trueseq bulk unknown unknown   United Kingdom 2024-02-06 Larval Larval Brain Nervous System
11089 11089 ERR10476820 ERX9997163 ERS13672488 ERP138527 PRJEB53713 Time course whole brain transcriptome and methylome profiles of early life high GC exposed zebrafish f79d57b2-1e93-4ca0-8fda-fd881a2a0c1e Other Whole brain transcriptome mRNA profiles of zebrafish which exposed to elavated glucocorticoid GC optogenetically at 6 13 120 dpf dpf and post predatory stress looming dots stress at xxx dpf. All subjective adults at 120 dpf were female. Tubingen strain was used as wildtype control and brains from transgenic line Tgstar:bPAC 2A tdTomatouoe300 +/ and / were sequenced on Illumina NovaSeq6000 by TRON gGmbH Mainz Germany. Paired end TruSeq Stranded mRNA libraries Illumina CA USA were constructed and over 20M of 50 bp reads/sample were sequenced. Oxford Nanopore sequencing was used for DNA methylation identification. These data were generated for the study by Choi et al. 2024. https://www.biorxiv.org/content/10.1101/2023.02.13.528363v4 ENA FIRST PUBLIC:2024 02 06|ENA LAST UPDATE:2024 02 06   star:bPAC+/ whole brain pooled 3 brains star:bPAC+/ whole brain day120 SAMEA111562632 Living Systems Institute, University of Exeter INSDC center name:Living Systems Institute University of Exeter|Submitter Id:star pos d120 4|collection date:2019 12|common name:zebrafish|dev stage:120 dpf|geographic location country and/or sea:Germany|sample name:star pos d120 4|scientific name:Danio rerio|sex:female|strain:Tübingen|tissue type:brain                 Illumina NovaSeq 6000 paired end sequencing ena EXPERIMENT TAB 09 11 2022 11:52:59:189 283059 Sample 0256 094 FR NSP TR1 SL1 1     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina NovaSeq 6000   ERP138527 Illumina NovaSeq 6000 paired end sequencing ENA FIRST PUBLIC:2024 02 06|ENA LAST UPDATE:2024 02 06 0256_094_FR_NSP_TR1_SL1_S25_L001_R1_001-pooled.fastq.gz 0256_094_FR_NSP_TR1_SL1_S25_L001_R2_001-pooled.fastq.gz fastq fastq 3067693350.0 30075425.0 ena RUN TAB 09 11 2022 11:52:59:189 283060 0:51 1:51 A:855716246;C:671014617;G:674396566;T:866531062;N:34859 51 51     855716246 671014617 674396566 866531062 34859 ERX9997163 ERS13672488 ERA18581410 living systems institute, university of exeter|European Nucleotide Archive living systems institute, university of exeter|European Nucleotide Archive                       B B biological fallback assumption illumina novaseq_era full_length poly_a trueseq bulk unknown unknown   United Kingdom 2024-02-06 Adult Adult Brain Nervous System
11090 11090 ERR10476787 ERX9997130 ERS13672455 ERP138527 PRJEB53713 Time course whole brain transcriptome and methylome profiles of early life high GC exposed zebrafish f79d57b2-1e93-4ca0-8fda-fd881a2a0c1e Other Whole brain transcriptome mRNA profiles of zebrafish which exposed to elavated glucocorticoid GC optogenetically at 6 13 120 dpf dpf and post predatory stress looming dots stress at xxx dpf. All subjective adults at 120 dpf were female. Tubingen strain was used as wildtype control and brains from transgenic line Tgstar:bPAC 2A tdTomatouoe300 +/ and / were sequenced on Illumina NovaSeq6000 by TRON gGmbH Mainz Germany. Paired end TruSeq Stranded mRNA libraries Illumina CA USA were constructed and over 20M of 50 bp reads/sample were sequenced. Oxford Nanopore sequencing was used for DNA methylation identification. These data were generated for the study by Choi et al. 2024. https://www.biorxiv.org/content/10.1101/2023.02.13.528363v4 ENA FIRST PUBLIC:2024 02 06|ENA LAST UPDATE:2024 02 06   wildtype whole brain pooled 15 brains wildtype whole brain day6 SAMEA111562599 Living Systems Institute, University of Exeter INSDC center name:Living Systems Institute University of Exeter|Submitter Id:tu wt d6 1|collection date:2019 12|common name:zebrafish|dev stage:6 dpf|geographic location country and/or sea:Germany|sample name:tu wt d6 1|scientific name:Danio rerio|sex:N/A|strain:Tübingen|tissue type:brain                 Illumina NovaSeq 6000 paired end sequencing ena EXPERIMENT TAB 09 11 2022 11:52:59:174 282993 Sample 0256 001 FR NSP TR1 SL1 1     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina NovaSeq 6000   ERP138527 Illumina NovaSeq 6000 paired end sequencing ENA FIRST PUBLIC:2024 02 06|ENA LAST UPDATE:2024 02 06 0256_001_FR_NSP_TR1_SL1_S13_L001_R1_001-pooled.fastq.gz 0256_001_FR_NSP_TR1_SL1_S13_L001_R2_001-pooled.fastq.gz fastq fastq 2739613002.0 26858951.0 ena RUN TAB 09 11 2022 11:52:59:174 282994 0:51 1:51 A:716316048;C:647929778;G:649844718;T:725429229;N:93229 51 51     716316048 647929778 649844718 725429229 93229 ERX9997130 ERS13672455 ERA18581410 living systems institute, university of exeter|European Nucleotide Archive living systems institute, university of exeter|European Nucleotide Archive                       B B biological fallback assumption illumina novaseq_era full_length poly_a trueseq bulk unknown unknown   United Kingdom 2024-02-06 Larval Larval Brain Nervous System
11091 11091 ERR10476812 ERX9997155 ERS13672480 ERP138527 PRJEB53713 Time course whole brain transcriptome and methylome profiles of early life high GC exposed zebrafish f79d57b2-1e93-4ca0-8fda-fd881a2a0c1e Other Whole brain transcriptome mRNA profiles of zebrafish which exposed to elavated glucocorticoid GC optogenetically at 6 13 120 dpf dpf and post predatory stress looming dots stress at xxx dpf. All subjective adults at 120 dpf were female. Tubingen strain was used as wildtype control and brains from transgenic line Tgstar:bPAC 2A tdTomatouoe300 +/ and / were sequenced on Illumina NovaSeq6000 by TRON gGmbH Mainz Germany. Paired end TruSeq Stranded mRNA libraries Illumina CA USA were constructed and over 20M of 50 bp reads/sample were sequenced. Oxford Nanopore sequencing was used for DNA methylation identification. These data were generated for the study by Choi et al. 2024. https://www.biorxiv.org/content/10.1101/2023.02.13.528363v4 ENA FIRST PUBLIC:2024 02 06|ENA LAST UPDATE:2024 02 06   star:bPAC+/ whole brain pooled 15 brains star:bPAC+/ whole brain day13 SAMEA111562624 Living Systems Institute, University of Exeter INSDC center name:Living Systems Institute University of Exeter|Submitter Id:star pos d13 1|collection date:2019 12|common name:zebrafish|dev stage:13 dpf|geographic location country and/or sea:Germany|sample name:star pos d13 1|scientific name:Danio rerio|sex:N/A|strain:Tübingen|tissue type:brain                 Illumina NovaSeq 6000 paired end sequencing ena EXPERIMENT TAB 09 11 2022 11:52:59:185 283043 Sample 0256 081 FR NSP TR2 SL1 1     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina NovaSeq 6000   ERP138527 Illumina NovaSeq 6000 paired end sequencing ENA FIRST PUBLIC:2024 02 06|ENA LAST UPDATE:2024 02 06 0256_081_FR_NSP_TR2_SL1_S12_L001_R1_001-pooled.fastq.gz 0256_081_FR_NSP_TR2_SL1_S12_L001_R2_001-pooled.fastq.gz fastq fastq 2976324300.0 29179650.0 ena RUN TAB 09 11 2022 11:52:59:185 283044 0:51 1:51 A:831817738;C:637392987;G:662609648;T:844470228;N:33699 51 51     831817738 637392987 662609648 844470228 33699 ERX9997155 ERS13672480 ERA18581410 living systems institute, university of exeter|European Nucleotide Archive living systems institute, university of exeter|European Nucleotide Archive                       B B biological fallback assumption illumina novaseq_era full_length poly_a trueseq bulk unknown unknown   United Kingdom 2024-02-06 Larval Larval Brain Nervous System
11092 11092 ERR10476800 ERX9997143 ERS13672468 ERP138527 PRJEB53713 Time course whole brain transcriptome and methylome profiles of early life high GC exposed zebrafish f79d57b2-1e93-4ca0-8fda-fd881a2a0c1e Other Whole brain transcriptome mRNA profiles of zebrafish which exposed to elavated glucocorticoid GC optogenetically at 6 13 120 dpf dpf and post predatory stress looming dots stress at xxx dpf. All subjective adults at 120 dpf were female. Tubingen strain was used as wildtype control and brains from transgenic line Tgstar:bPAC 2A tdTomatouoe300 +/ and / were sequenced on Illumina NovaSeq6000 by TRON gGmbH Mainz Germany. Paired end TruSeq Stranded mRNA libraries Illumina CA USA were constructed and over 20M of 50 bp reads/sample were sequenced. Oxford Nanopore sequencing was used for DNA methylation identification. These data were generated for the study by Choi et al. 2024. https://www.biorxiv.org/content/10.1101/2023.02.13.528363v4 ENA FIRST PUBLIC:2024 02 06|ENA LAST UPDATE:2024 02 06   wildtype whole brain pooled 3 brains wildtype whole brain day120 SAMEA111562612 Living Systems Institute, University of Exeter INSDC center name:Living Systems Institute University of Exeter|Submitter Id:tu wt d120 4|collection date:2019 12|common name:zebrafish|dev stage:120 dpf|geographic location country and/or sea:Germany|sample name:tu wt d120 4|scientific name:Danio rerio|sex:female|strain:Tübingen|tissue type:brain                 Illumina NovaSeq 6000 paired end sequencing ena EXPERIMENT TAB 09 11 2022 11:52:59:180 283019 Sample 0256 019 FR NSP TR1 SL1 1     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina NovaSeq 6000   ERP138527 Illumina NovaSeq 6000 paired end sequencing ENA FIRST PUBLIC:2024 02 06|ENA LAST UPDATE:2024 02 06 0256_019_FR_NSP_TR1_SL1_S30_L001_R1_001-pooled.fastq.gz 0256_019_FR_NSP_TR1_SL1_S30_L001_R2_001-pooled.fastq.gz fastq fastq 2911008498.0 28539299.0 ena RUN TAB 09 11 2022 11:52:59:180 283020 0:51 1:51 A:795092837;C:651247701;G:672040156;T:792529007;N:98797 51 51     795092837 651247701 672040156 792529007 98797 ERX9997143 ERS13672468 ERA18581410 living systems institute, university of exeter|European Nucleotide Archive living systems institute, university of exeter|European Nucleotide Archive                       B B biological fallback assumption illumina novaseq_era full_length poly_a trueseq bulk unknown unknown   United Kingdom 2024-02-06 Adult Adult Brain Nervous System
11093 11093 ERR10476840 ERX9997183 ERS13672508 ERP138527 PRJEB53713 Time course whole brain transcriptome and methylome profiles of early life high GC exposed zebrafish f79d57b2-1e93-4ca0-8fda-fd881a2a0c1e Other Whole brain transcriptome mRNA profiles of zebrafish which exposed to elavated glucocorticoid GC optogenetically at 6 13 120 dpf dpf and post predatory stress looming dots stress at xxx dpf. All subjective adults at 120 dpf were female. Tubingen strain was used as wildtype control and brains from transgenic line Tgstar:bPAC 2A tdTomatouoe300 +/ and / were sequenced on Illumina NovaSeq6000 by TRON gGmbH Mainz Germany. Paired end TruSeq Stranded mRNA libraries Illumina CA USA were constructed and over 20M of 50 bp reads/sample were sequenced. Oxford Nanopore sequencing was used for DNA methylation identification. These data were generated for the study by Choi et al. 2024. https://www.biorxiv.org/content/10.1101/2023.02.13.528363v4 ENA FIRST PUBLIC:2024 02 06|ENA LAST UPDATE:2024 02 06   star:bPAC / whole brain pooled 3 brains star:bPAC / whole brain day120 SAMEA111562652 Living Systems Institute, University of Exeter INSDC center name:Living Systems Institute University of Exeter|Submitter Id:star neg d120 4|collection date:2019 12|common name:zebrafish|dev stage:120 dpf|geographic location country and/or sea:Germany|sample name:star neg d120 4|scientific name:Danio rerio|sex:female|strain:Tübingen|tissue type:brain                 Illumina NovaSeq 6000 paired end sequencing ena EXPERIMENT TAB 09 11 2022 11:52:59:197 283099 Sample 0256 119 FR NSP TR1 SL1 1     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina NovaSeq 6000   ERP138527 Illumina NovaSeq 6000 paired end sequencing ENA FIRST PUBLIC:2024 02 06|ENA LAST UPDATE:2024 02 06 0256_119_FR_NSP_TR1_SL1_S48_L001_R1_001-pooled.fastq.gz 0256_119_FR_NSP_TR1_SL1_S48_L001_R2_001-pooled.fastq.gz fastq fastq 3396382740.0 33297870.0 ena RUN TAB 09 11 2022 11:52:59:197 283100 0:51 1:51 A:937800414;C:753433067;G:760774470;T:944336000;N:38789 51 51     937800414 753433067 760774470 944336000 38789 ERX9997183 ERS13672508 ERA18581410 living systems institute, university of exeter|European Nucleotide Archive living systems institute, university of exeter|European Nucleotide Archive                       B B biological fallback assumption illumina novaseq_era full_length poly_a trueseq bulk unknown unknown   United Kingdom 2024-02-06 Adult Adult Brain Nervous System

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CREATE TABLE run_metadata("run.accession" VARCHAR, "experiment.accession" VARCHAR, "sample.accession" VARCHAR, "study.accession" VARCHAR, bioproject VARCHAR, "study.title" VARCHAR, "study.alias" VARCHAR, "study.type" VARCHAR, "study.abstract" VARCHAR, "study.attributes" VARCHAR, "study.PMIDs" VARCHAR, "sample.description" VARCHAR, "sample.title" VARCHAR, "sample.alias" VARCHAR, "sample.centername" VARCHAR, "sample.attributes" VARCHAR, "GEOsample.title" VARCHAR, "GEOsample.dataprocessing" VARCHAR, "GEOsample.source" VARCHAR, "GEOsample.treatmentprotocol" VARCHAR, "GEOsample.extractprotocol" VARCHAR, "GEOsample.growthprotocol" VARCHAR, "GEOsample.characteristics" VARCHAR, "GEOsample.accession" VARCHAR, "experiment.title" VARCHAR, "experiment.alias" VARCHAR, "experiment.library_name" VARCHAR, "experiment.design_description" VARCHAR, "experiment.library_construction_protocol" VARCHAR, "experiment.attributes" VARCHAR, "experiment.library_strategy" VARCHAR, "experiment.library_source" VARCHAR, "experiment.library_selection" VARCHAR, "experiment.library_layout" VARCHAR, "experiment.platform" VARCHAR, "experiment.instrument_model" VARCHAR, "experiment.spot_descriptor" VARCHAR, "experiment.study_ref" VARCHAR, "run.title" VARCHAR, "run.attributes" VARCHAR, "run.filename" VARCHAR, "run.semantic_name" VARCHAR, "run.total_bases" DOUBLE, "run.total_spots" DOUBLE, "run.alias" VARCHAR, "run.read_lengths" VARCHAR, "run.base_counts" VARCHAR, "run.r1_length" BIGINT, "run.r2_length" BIGINT, "run.r3_length" BIGINT, "run.r4_length" BIGINT, "run.Acount" BIGINT, "run.Ccount" BIGINT, "run.Gcount" BIGINT, "run.Tcount" BIGINT, "run.Ncount" BIGINT, "run.experiment" VARCHAR, "run.pool_member" VARCHAR, "submission.accession" VARCHAR, "submission.srasource" VARCHAR, "submission.bioprojectsource" VARCHAR, "seqdetective.n_mates" BIGINT, "seqdetective.mapping_rate.mate1" DOUBLE, "seqdetective.mapping_rate.mate2" DOUBLE, "seqdetective.nofeature_rate.mate1" DOUBLE, "seqdetective.nofeature_rate.mate2" DOUBLE, "seqdetective.sparsity.mate1" DOUBLE, "seqdetective.sparsity.mate2" DOUBLE, "seqdetective.pos_strand_rate.mate1" DOUBLE, "seqdetective.pos_strand_rate.mate2" DOUBLE, "seqdetective.readlen.mate1" BIGINT, "seqdetective.readlen.mate2" BIGINT, "seqdetective.judgement.mate1" VARCHAR, "seqdetective.judgement.mate2" VARCHAR, "seqdetective.judgement.reason" VARCHAR, platform_family VARCHAR, instrument_generation VARCHAR, read_bias VARCHAR, selection_class VARCHAR, prep_kit VARCHAR, sc_or_bulk VARCHAR, tech_class VARCHAR, technology VARCHAR, tech_variant VARCHAR, "submission.bioprojectsource.country" VARCHAR, earliest_date DATE, devstage_curation VARCHAR, devstage_curation_coarse VARCHAR, tissue_curation VARCHAR, tissue_curation_coarse VARCHAR);;
CREATE INDEX idx_run_bioproject ON run_metadata(bioproject);;
CREATE INDEX idx_run_run_accession ON run_metadata("run.accession");;