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731 rows where experiment.library_strategy = "RNA-Seq" and tissue_curation = "Head"

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devstage_curation 8

technology 6

experiment.library_selection 6

devstage_curation_coarse 5

experiment.platform 2

experiment.library_source 2

experiment.library_layout 2

tissue_curation_coarse 1

tissue_curation 1

  • Head · 731 ✖

experiment.library_strategy 1

  • RNA-Seq · 731 ✖
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
7950 7950 ERR015567 ERX005930 ERS000089 ERP000263 PRJEB2208 Zebrafish gene three prime end pull down for genome annotation E-MTAB-308 Transcriptome Analysis       RNA extracted from male adult zebrafish head   SAMEA708835 SC ENA FIRST PUBLIC:2010 02 26T10:44:13Z|ENA LAST UPDATE:2018 03 08T15:51:30Z|External Id:SAMEA708835|INSDC center name:SC|INSDC first public:2010 02 26T10:44:13Z|INSDC last update:2018 03 08T15:51:30Z|INSDC status:public|Submitter Id:ZF male head sample1|common name:zebrafish|sample name:ZF male head sample1|scientific name:Danio rerio|sex:male|strain:Tuebingen                 Illumina Genome Analyzer II paired end sequencing; Zebrafish gene 3 prime end pull down for genome annotation E MTAB 308:Illumina Genome Analyzer II sequencing of adult Zebrafish male head dpf three prime pull down paired end 250 to 300 bp insert Zebrafish adult male head mRNA three prime end Zebrafish gene three prime end pull down for genome annotation 20 ug of total RNA was fragmented using RNA Fragmentation Reagent Ambion for 5 minutes at 70 C and ethanol precipitated with glycogen and LiCl. RNA was annealed to the oligo stBPM1polyT22 biotin GGCCAGTCCTGGAGTTTTTTTTTTTTTTTTTTTTTTVN and bound to streptavidin magnetic beads. post washing by pull down on a magnet the bound RNA was reverse transcribed with SuperScript II Invitrogen and a second strand synthesised with DNA polymerase I Promega and RNase H NEB. post further washing the double strand cDNA was released from the beads with BpmI NEB. The cDNA was recovered with the QIAgen PCR Purification Kit and made into a standard Illumina library following the manufacturer's protocol with a fragment size of 250 to 300 bp. Experimental Factor: DEVELOPMENTAL STAGE:adult|Experimental Factor: ORGANISM PART:head|Experimental Factor: SEX:male RNA-Seq TRANSCRIPTOMIC other PAIRED ILLUMINA Illumina Genome Analyzer II   ERP000263 Illumina Genome Analyzer II paired end sequencing; Zebrafish gene three prime end pull down for genome annotation ENA FIRST PUBLIC:2010 08 19|ENA LAST UPDATE:2018 11 16 3444_7.srf srf 1384012896.0 9105348.0 E MTAB 308:Illumina Genome Analyzer II sequencing of adult Zebrafish male head dpf three prime pull down paired end 250 to 300 bp insert 0:76 1:76 A:369912216;C:306963547;G:292249178;T:392053840;N:22834115 76 76     369912216 306963547 292249178 392053840 22834115 ERX005930 ERS000089 ERA010603 SC|Wellcome Trust Sanger Institute SC|Wellcome Trust Sanger Institute 2 0.95932 0.96084 0.20719 0.21321 0.73959 0.74763 0.47227 0.48033 76 76 B B biological fallback assumption illumina early_illumina 3prime other unknown bulk unknown unknown   United Kingdom 2010-02-26 Adult Adult Head Nervous System
10407 10407 ERR9077202 ERX8620336 ERS10857224 ERP135966 PRJEB51339 RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae E-MTAB-11505 Transcriptome Analysis Transcriptome analysis of the heads of 6 dpf sv2a / sv2a+/ and sv2a+/+ zebrafish larvae to provide insights into the neuropathological processes underlying the observed epileptic phenotype in sv2a / zebrafish larvae. ENA FIRST PUBLIC:2022 04 21|ENA LAST UPDATE:2022 04 21   Protocols: 6 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled per sample. Total RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. TruSeq RNA Seq sample preparation kit was used to prepare sequencing library of mRNA in accordance with the manufacturer guidelines. Sv2aWT5S8 SAMEA13254181 Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg ENA first public:2022 04 21|ENA last update:2022 04 21|External Id:SAMEA13254181|INSDC center alias:Laboratory for Molecular Biodiscovery KU Leuven Campus Gasthuisberg|INSDC center name:Laboratory for Molecular Biodiscovery KU Leuven Campus Gasthuisberg|INSDC first public:2022 04 21T00:32:07Z|INSDC last update:2022 04 21T00:32:07Z|INSDC status:public|Submitter Id:E MTAB 11505:Sv2aWT5S8|age:6|broker name:ArrayExpress|common name:zebrafish|developmental stage:larval stage|genotype:sv2a+/+|individual:pool of 10 heads|organism part:head|sample name:E MTAB 11505:Sv2aWT5S8|sex:not available|strain:AB                 NextSeq 500 sequencing; RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae E MTAB 11505:Sv2aWT5S8 s Sv2aWT5S8 s RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae 6 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled per sample. Total RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. TruSeq RNA Seq sample preparation kit was used to prepare sequencing library of mRNA in accordance with the manufacturer guidelines. Experimental Factor: genotype:sv2a+/+ RNA-Seq TRANSCRIPTOMIC PolyA SINGLE ILLUMINA NextSeq 500   ERP135966 NextSeq 500 sequencing; RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae ENA FIRST PUBLIC:2022 04 21|ENA LAST UPDATE:2022 04 21 sv2aWT5S8L001-1.fastq.gz fastq 652046291.0 8633105.0 E MTAB 11505:sv2aWT5S8L001 0:75.53 1:0 A:159570243;C:156420495;G:154853315;T:181073030;N:129208 75 0     159570243 156420495 154853315 181073030 129208 ERX8620336 ERS10857224 ERA9644804 Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg|European Nucleotide Archive Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg|European Nucleotide Archive 1 0.95245   0.1148   0.65756   0.47011   75   B   usable mapping rate illumina nextseq unknown poly_a trueseq bulk unknown unknown   Belgium 2022-04-21 Larval Larval Head Nervous System
10408 10408 ERR9077203 ERX8620336 ERS10857224 ERP135966 PRJEB51339 RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae E-MTAB-11505 Transcriptome Analysis Transcriptome analysis of the heads of 6 dpf sv2a / sv2a+/ and sv2a+/+ zebrafish larvae to provide insights into the neuropathological processes underlying the observed epileptic phenotype in sv2a / zebrafish larvae. ENA FIRST PUBLIC:2022 04 21|ENA LAST UPDATE:2022 04 21   Protocols: 6 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled per sample. Total RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. TruSeq RNA Seq sample preparation kit was used to prepare sequencing library of mRNA in accordance with the manufacturer guidelines. Sv2aWT5S8 SAMEA13254181 Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg ENA first public:2022 04 21|ENA last update:2022 04 21|External Id:SAMEA13254181|INSDC center alias:Laboratory for Molecular Biodiscovery KU Leuven Campus Gasthuisberg|INSDC center name:Laboratory for Molecular Biodiscovery KU Leuven Campus Gasthuisberg|INSDC first public:2022 04 21T00:32:07Z|INSDC last update:2022 04 21T00:32:07Z|INSDC status:public|Submitter Id:E MTAB 11505:Sv2aWT5S8|age:6|broker name:ArrayExpress|common name:zebrafish|developmental stage:larval stage|genotype:sv2a+/+|individual:pool of 10 heads|organism part:head|sample name:E MTAB 11505:Sv2aWT5S8|sex:not available|strain:AB                 NextSeq 500 sequencing; RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae E MTAB 11505:Sv2aWT5S8 s Sv2aWT5S8 s RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae 6 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled per sample. Total RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. TruSeq RNA Seq sample preparation kit was used to prepare sequencing library of mRNA in accordance with the manufacturer guidelines. Experimental Factor: genotype:sv2a+/+ RNA-Seq TRANSCRIPTOMIC PolyA SINGLE ILLUMINA NextSeq 500   ERP135966 NextSeq 500 sequencing; RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae ENA FIRST PUBLIC:2022 04 21|ENA LAST UPDATE:2022 04 21 sv2aWT5S8L002-1.fastq.gz fastq 653840525.0 8656886.0 E MTAB 11505:sv2aWT5S8L002 0:75.53 1:0 A:159902458;C:156826842;G:155509070;T:181475104;N:127051 75 0     159902458 156826842 155509070 181475104 127051 ERX8620336 ERS10857224 ERA9644804 Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg|European Nucleotide Archive Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg|European Nucleotide Archive 1 0.95226   0.1156   0.65792   0.4667   76   B   usable mapping rate illumina nextseq unknown poly_a trueseq bulk unknown unknown   Belgium 2022-04-21 Larval Larval Head Nervous System
10409 10409 ERR9077204 ERX8620336 ERS10857224 ERP135966 PRJEB51339 RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae E-MTAB-11505 Transcriptome Analysis Transcriptome analysis of the heads of 6 dpf sv2a / sv2a+/ and sv2a+/+ zebrafish larvae to provide insights into the neuropathological processes underlying the observed epileptic phenotype in sv2a / zebrafish larvae. ENA FIRST PUBLIC:2022 04 21|ENA LAST UPDATE:2022 04 21   Protocols: 6 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled per sample. Total RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. TruSeq RNA Seq sample preparation kit was used to prepare sequencing library of mRNA in accordance with the manufacturer guidelines. Sv2aWT5S8 SAMEA13254181 Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg ENA first public:2022 04 21|ENA last update:2022 04 21|External Id:SAMEA13254181|INSDC center alias:Laboratory for Molecular Biodiscovery KU Leuven Campus Gasthuisberg|INSDC center name:Laboratory for Molecular Biodiscovery KU Leuven Campus Gasthuisberg|INSDC first public:2022 04 21T00:32:07Z|INSDC last update:2022 04 21T00:32:07Z|INSDC status:public|Submitter Id:E MTAB 11505:Sv2aWT5S8|age:6|broker name:ArrayExpress|common name:zebrafish|developmental stage:larval stage|genotype:sv2a+/+|individual:pool of 10 heads|organism part:head|sample name:E MTAB 11505:Sv2aWT5S8|sex:not available|strain:AB                 NextSeq 500 sequencing; RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae E MTAB 11505:Sv2aWT5S8 s Sv2aWT5S8 s RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae 6 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled per sample. Total RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. TruSeq RNA Seq sample preparation kit was used to prepare sequencing library of mRNA in accordance with the manufacturer guidelines. Experimental Factor: genotype:sv2a+/+ RNA-Seq TRANSCRIPTOMIC PolyA SINGLE ILLUMINA NextSeq 500   ERP135966 NextSeq 500 sequencing; RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae ENA FIRST PUBLIC:2022 04 21|ENA LAST UPDATE:2022 04 21 sv2aWT5S8L003-1.fastq.gz fastq 659584196.0 8732885.0 E MTAB 11505:sv2aWT5S8L003 0:75.53 1:0 A:161257146;C:158299734;G:156793443;T:183128972;N:104901 75 0     161257146 158299734 156793443 183128972 104901 ERX8620336 ERS10857224 ERA9644804 Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg|European Nucleotide Archive Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg|European Nucleotide Archive 1 0.95298   0.11485   0.65798   0.46853   76   B   usable mapping rate illumina nextseq unknown poly_a trueseq bulk unknown unknown   Belgium 2022-04-21 Larval Larval Head Nervous System
10410 10410 ERR9077205 ERX8620336 ERS10857224 ERP135966 PRJEB51339 RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae E-MTAB-11505 Transcriptome Analysis Transcriptome analysis of the heads of 6 dpf sv2a / sv2a+/ and sv2a+/+ zebrafish larvae to provide insights into the neuropathological processes underlying the observed epileptic phenotype in sv2a / zebrafish larvae. ENA FIRST PUBLIC:2022 04 21|ENA LAST UPDATE:2022 04 21   Protocols: 6 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled per sample. Total RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. TruSeq RNA Seq sample preparation kit was used to prepare sequencing library of mRNA in accordance with the manufacturer guidelines. Sv2aWT5S8 SAMEA13254181 Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg ENA first public:2022 04 21|ENA last update:2022 04 21|External Id:SAMEA13254181|INSDC center alias:Laboratory for Molecular Biodiscovery KU Leuven Campus Gasthuisberg|INSDC center name:Laboratory for Molecular Biodiscovery KU Leuven Campus Gasthuisberg|INSDC first public:2022 04 21T00:32:07Z|INSDC last update:2022 04 21T00:32:07Z|INSDC status:public|Submitter Id:E MTAB 11505:Sv2aWT5S8|age:6|broker name:ArrayExpress|common name:zebrafish|developmental stage:larval stage|genotype:sv2a+/+|individual:pool of 10 heads|organism part:head|sample name:E MTAB 11505:Sv2aWT5S8|sex:not available|strain:AB                 NextSeq 500 sequencing; RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae E MTAB 11505:Sv2aWT5S8 s Sv2aWT5S8 s RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae 6 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled per sample. Total RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. TruSeq RNA Seq sample preparation kit was used to prepare sequencing library of mRNA in accordance with the manufacturer guidelines. Experimental Factor: genotype:sv2a+/+ RNA-Seq TRANSCRIPTOMIC PolyA SINGLE ILLUMINA NextSeq 500   ERP135966 NextSeq 500 sequencing; RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae ENA FIRST PUBLIC:2022 04 21|ENA LAST UPDATE:2022 04 21 sv2aWT5S8L004-1.fastq.gz fastq 666627746.0 8826123.0 E MTAB 11505:sv2aWT5S8L004 0:75.53 1:0 A:162975131;C:159937258;G:158506242;T:185106149;N:102966 75 0     162975131 159937258 158506242 185106149 102966 ERX8620336 ERS10857224 ERA9644804 Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg|European Nucleotide Archive Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg|European Nucleotide Archive 1 0.9531   0.11425   0.65736   0.47309   76   B   usable mapping rate illumina nextseq unknown poly_a trueseq bulk unknown unknown   Belgium 2022-04-21 Larval Larval Head Nervous System
10411 10411 ERR9077198 ERX8620335 ERS10857223 ERP135966 PRJEB51339 RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae E-MTAB-11505 Transcriptome Analysis Transcriptome analysis of the heads of 6 dpf sv2a / sv2a+/ and sv2a+/+ zebrafish larvae to provide insights into the neuropathological processes underlying the observed epileptic phenotype in sv2a / zebrafish larvae. ENA FIRST PUBLIC:2022 04 21|ENA LAST UPDATE:2022 04 21   Protocols: 6 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled per sample. Total RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. TruSeq RNA Seq sample preparation kit was used to prepare sequencing library of mRNA in accordance with the manufacturer guidelines. Sv2aWT4S7 SAMEA13254180 Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg ENA first public:2022 04 21|ENA last update:2022 04 21|External Id:SAMEA13254180|INSDC center alias:Laboratory for Molecular Biodiscovery KU Leuven Campus Gasthuisberg|INSDC center name:Laboratory for Molecular Biodiscovery KU Leuven Campus Gasthuisberg|INSDC first public:2022 04 21T00:32:07Z|INSDC last update:2022 04 21T00:32:07Z|INSDC status:public|Submitter Id:E MTAB 11505:Sv2aWT4S7|age:6|broker name:ArrayExpress|common name:zebrafish|developmental stage:larval stage|genotype:sv2a+/+|individual:pool of 10 heads|organism part:head|sample name:E MTAB 11505:Sv2aWT4S7|sex:not available|strain:AB                 NextSeq 500 sequencing; RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae E MTAB 11505:Sv2aWT4S7 s Sv2aWT4S7 s RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae 6 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled per sample. Total RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. TruSeq RNA Seq sample preparation kit was used to prepare sequencing library of mRNA in accordance with the manufacturer guidelines. Experimental Factor: genotype:sv2a+/+ RNA-Seq TRANSCRIPTOMIC PolyA SINGLE ILLUMINA NextSeq 500   ERP135966 NextSeq 500 sequencing; RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae ENA FIRST PUBLIC:2022 04 21|ENA LAST UPDATE:2022 04 21 sv2aWT4S7L001-1.fastq.gz fastq 683751258.0 9051795.0 E MTAB 11505:sv2aWT4S7L001 0:75.54 1:0 A:162889923;C:167127644;G:164779384;T:188822907;N:131400 75 0     162889923 167127644 164779384 188822907 131400 ERX8620335 ERS10857223 ERA9644804 Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg|European Nucleotide Archive Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg|European Nucleotide Archive 1 0.95739   0.0959   0.6606   0.46826   75   B   usable mapping rate illumina nextseq unknown poly_a trueseq bulk unknown unknown   Belgium 2022-04-21 Larval Larval Head Nervous System
10412 10412 ERR9077199 ERX8620335 ERS10857223 ERP135966 PRJEB51339 RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae E-MTAB-11505 Transcriptome Analysis Transcriptome analysis of the heads of 6 dpf sv2a / sv2a+/ and sv2a+/+ zebrafish larvae to provide insights into the neuropathological processes underlying the observed epileptic phenotype in sv2a / zebrafish larvae. ENA FIRST PUBLIC:2022 04 21|ENA LAST UPDATE:2022 04 21   Protocols: 6 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled per sample. Total RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. TruSeq RNA Seq sample preparation kit was used to prepare sequencing library of mRNA in accordance with the manufacturer guidelines. Sv2aWT4S7 SAMEA13254180 Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg ENA first public:2022 04 21|ENA last update:2022 04 21|External Id:SAMEA13254180|INSDC center alias:Laboratory for Molecular Biodiscovery KU Leuven Campus Gasthuisberg|INSDC center name:Laboratory for Molecular Biodiscovery KU Leuven Campus Gasthuisberg|INSDC first public:2022 04 21T00:32:07Z|INSDC last update:2022 04 21T00:32:07Z|INSDC status:public|Submitter Id:E MTAB 11505:Sv2aWT4S7|age:6|broker name:ArrayExpress|common name:zebrafish|developmental stage:larval stage|genotype:sv2a+/+|individual:pool of 10 heads|organism part:head|sample name:E MTAB 11505:Sv2aWT4S7|sex:not available|strain:AB                 NextSeq 500 sequencing; RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae E MTAB 11505:Sv2aWT4S7 s Sv2aWT4S7 s RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae 6 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled per sample. Total RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. TruSeq RNA Seq sample preparation kit was used to prepare sequencing library of mRNA in accordance with the manufacturer guidelines. Experimental Factor: genotype:sv2a+/+ RNA-Seq TRANSCRIPTOMIC PolyA SINGLE ILLUMINA NextSeq 500   ERP135966 NextSeq 500 sequencing; RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae ENA FIRST PUBLIC:2022 04 21|ENA LAST UPDATE:2022 04 21 sv2aWT4S7L002-1.fastq.gz fastq 684187711.0 9057591.0 E MTAB 11505:sv2aWT4S7L002 0:75.54 1:0 A:162923879;C:167246213;G:165071145;T:188818774;N:127700 75 0     162923879 167246213 165071145 188818774 127700 ERX8620335 ERS10857223 ERA9644804 Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg|European Nucleotide Archive Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg|European Nucleotide Archive 1 0.95724   0.0959   0.66036   0.47026   76   B   usable mapping rate illumina nextseq unknown poly_a trueseq bulk unknown unknown   Belgium 2022-04-21 Larval Larval Head Nervous System
10413 10413 ERR9077200 ERX8620335 ERS10857223 ERP135966 PRJEB51339 RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae E-MTAB-11505 Transcriptome Analysis Transcriptome analysis of the heads of 6 dpf sv2a / sv2a+/ and sv2a+/+ zebrafish larvae to provide insights into the neuropathological processes underlying the observed epileptic phenotype in sv2a / zebrafish larvae. ENA FIRST PUBLIC:2022 04 21|ENA LAST UPDATE:2022 04 21   Protocols: 6 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled per sample. Total RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. TruSeq RNA Seq sample preparation kit was used to prepare sequencing library of mRNA in accordance with the manufacturer guidelines. Sv2aWT4S7 SAMEA13254180 Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg ENA first public:2022 04 21|ENA last update:2022 04 21|External Id:SAMEA13254180|INSDC center alias:Laboratory for Molecular Biodiscovery KU Leuven Campus Gasthuisberg|INSDC center name:Laboratory for Molecular Biodiscovery KU Leuven Campus Gasthuisberg|INSDC first public:2022 04 21T00:32:07Z|INSDC last update:2022 04 21T00:32:07Z|INSDC status:public|Submitter Id:E MTAB 11505:Sv2aWT4S7|age:6|broker name:ArrayExpress|common name:zebrafish|developmental stage:larval stage|genotype:sv2a+/+|individual:pool of 10 heads|organism part:head|sample name:E MTAB 11505:Sv2aWT4S7|sex:not available|strain:AB                 NextSeq 500 sequencing; RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae E MTAB 11505:Sv2aWT4S7 s Sv2aWT4S7 s RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae 6 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled per sample. Total RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. TruSeq RNA Seq sample preparation kit was used to prepare sequencing library of mRNA in accordance with the manufacturer guidelines. Experimental Factor: genotype:sv2a+/+ RNA-Seq TRANSCRIPTOMIC PolyA SINGLE ILLUMINA NextSeq 500   ERP135966 NextSeq 500 sequencing; RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae ENA FIRST PUBLIC:2022 04 21|ENA LAST UPDATE:2022 04 21 sv2aWT4S7L003-1.fastq.gz fastq 692320213.0 9165132.0 E MTAB 11505:sv2aWT4S7L003 0:75.54 1:0 A:164772792;C:169329920;G:166952052;T:191164422;N:101027 75 0     164772792 169329920 166952052 191164422 101027 ERX8620335 ERS10857223 ERA9644804 Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg|European Nucleotide Archive Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg|European Nucleotide Archive 1 0.95786   0.09701   0.66131   0.47564   76   B   usable mapping rate illumina nextseq unknown poly_a trueseq bulk unknown unknown   Belgium 2022-04-21 Larval Larval Head Nervous System
10414 10414 ERR9077201 ERX8620335 ERS10857223 ERP135966 PRJEB51339 RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae E-MTAB-11505 Transcriptome Analysis Transcriptome analysis of the heads of 6 dpf sv2a / sv2a+/ and sv2a+/+ zebrafish larvae to provide insights into the neuropathological processes underlying the observed epileptic phenotype in sv2a / zebrafish larvae. ENA FIRST PUBLIC:2022 04 21|ENA LAST UPDATE:2022 04 21   Protocols: 6 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled per sample. Total RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. TruSeq RNA Seq sample preparation kit was used to prepare sequencing library of mRNA in accordance with the manufacturer guidelines. Sv2aWT4S7 SAMEA13254180 Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg ENA first public:2022 04 21|ENA last update:2022 04 21|External Id:SAMEA13254180|INSDC center alias:Laboratory for Molecular Biodiscovery KU Leuven Campus Gasthuisberg|INSDC center name:Laboratory for Molecular Biodiscovery KU Leuven Campus Gasthuisberg|INSDC first public:2022 04 21T00:32:07Z|INSDC last update:2022 04 21T00:32:07Z|INSDC status:public|Submitter Id:E MTAB 11505:Sv2aWT4S7|age:6|broker name:ArrayExpress|common name:zebrafish|developmental stage:larval stage|genotype:sv2a+/+|individual:pool of 10 heads|organism part:head|sample name:E MTAB 11505:Sv2aWT4S7|sex:not available|strain:AB                 NextSeq 500 sequencing; RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae E MTAB 11505:Sv2aWT4S7 s Sv2aWT4S7 s RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae 6 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled per sample. Total RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. TruSeq RNA Seq sample preparation kit was used to prepare sequencing library of mRNA in accordance with the manufacturer guidelines. Experimental Factor: genotype:sv2a+/+ RNA-Seq TRANSCRIPTOMIC PolyA SINGLE ILLUMINA NextSeq 500   ERP135966 NextSeq 500 sequencing; RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae ENA FIRST PUBLIC:2022 04 21|ENA LAST UPDATE:2022 04 21 sv2aWT4S7L004-1.fastq.gz fastq 697047881.0 9227702.0 E MTAB 11505:sv2aWT4S7L004 0:75.54 1:0 A:165881728;C:170388393;G:168105900;T:192572068;N:99792 75 0     165881728 170388393 168105900 192572068 99792 ERX8620335 ERS10857223 ERA9644804 Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg|European Nucleotide Archive Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg|European Nucleotide Archive 1 0.9584   0.09565   0.66115   0.46967   76   B   usable mapping rate illumina nextseq unknown poly_a trueseq bulk unknown unknown   Belgium 2022-04-21 Larval Larval Head Nervous System
10415 10415 ERR9077194 ERX8620334 ERS10857222 ERP135966 PRJEB51339 RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae E-MTAB-11505 Transcriptome Analysis Transcriptome analysis of the heads of 6 dpf sv2a / sv2a+/ and sv2a+/+ zebrafish larvae to provide insights into the neuropathological processes underlying the observed epileptic phenotype in sv2a / zebrafish larvae. ENA FIRST PUBLIC:2022 04 21|ENA LAST UPDATE:2022 04 21   Protocols: 6 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled per sample. Total RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. TruSeq RNA Seq sample preparation kit was used to prepare sequencing library of mRNA in accordance with the manufacturer guidelines. Sv2aWT3S2 SAMEA13254179 Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg ENA first public:2022 04 21|ENA last update:2022 04 21|External Id:SAMEA13254179|INSDC center alias:Laboratory for Molecular Biodiscovery KU Leuven Campus Gasthuisberg|INSDC center name:Laboratory for Molecular Biodiscovery KU Leuven Campus Gasthuisberg|INSDC first public:2022 04 21T00:32:07Z|INSDC last update:2022 04 21T00:32:07Z|INSDC status:public|Submitter Id:E MTAB 11505:Sv2aWT3S2|age:6|broker name:ArrayExpress|common name:zebrafish|developmental stage:larval stage|genotype:sv2a+/+|individual:pool of 10 heads|organism part:head|sample name:E MTAB 11505:Sv2aWT3S2|sex:not available|strain:AB                 NextSeq 500 sequencing; RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae E MTAB 11505:Sv2aWT3S2 s Sv2aWT3S2 s RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae 6 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled per sample. Total RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. TruSeq RNA Seq sample preparation kit was used to prepare sequencing library of mRNA in accordance with the manufacturer guidelines. Experimental Factor: genotype:sv2a+/+ RNA-Seq TRANSCRIPTOMIC PolyA SINGLE ILLUMINA NextSeq 500   ERP135966 NextSeq 500 sequencing; RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae ENA FIRST PUBLIC:2022 04 21|ENA LAST UPDATE:2022 04 21 sv2aWT3S2L001-1.fastq.gz fastq 723508205.0 9579193.0 E MTAB 11505:sv2aWT3S2L001 0:75.53 1:0 A:177832489;C:174193135;G:169978598;T:201360184;N:143799 75 0     177832489 174193135 169978598 201360184 143799 ERX8620334 ERS10857222 ERA9644804 Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg|European Nucleotide Archive Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg|European Nucleotide Archive 1 0.95218   0.11732   0.65916   0.47955   71   B   usable mapping rate illumina nextseq unknown poly_a trueseq bulk unknown unknown   Belgium 2022-04-21 Larval Larval Head Nervous System
10416 10416 ERR9077195 ERX8620334 ERS10857222 ERP135966 PRJEB51339 RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae E-MTAB-11505 Transcriptome Analysis Transcriptome analysis of the heads of 6 dpf sv2a / sv2a+/ and sv2a+/+ zebrafish larvae to provide insights into the neuropathological processes underlying the observed epileptic phenotype in sv2a / zebrafish larvae. ENA FIRST PUBLIC:2022 04 21|ENA LAST UPDATE:2022 04 21   Protocols: 6 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled per sample. Total RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. TruSeq RNA Seq sample preparation kit was used to prepare sequencing library of mRNA in accordance with the manufacturer guidelines. Sv2aWT3S2 SAMEA13254179 Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg ENA first public:2022 04 21|ENA last update:2022 04 21|External Id:SAMEA13254179|INSDC center alias:Laboratory for Molecular Biodiscovery KU Leuven Campus Gasthuisberg|INSDC center name:Laboratory for Molecular Biodiscovery KU Leuven Campus Gasthuisberg|INSDC first public:2022 04 21T00:32:07Z|INSDC last update:2022 04 21T00:32:07Z|INSDC status:public|Submitter Id:E MTAB 11505:Sv2aWT3S2|age:6|broker name:ArrayExpress|common name:zebrafish|developmental stage:larval stage|genotype:sv2a+/+|individual:pool of 10 heads|organism part:head|sample name:E MTAB 11505:Sv2aWT3S2|sex:not available|strain:AB                 NextSeq 500 sequencing; RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae E MTAB 11505:Sv2aWT3S2 s Sv2aWT3S2 s RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae 6 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled per sample. Total RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. TruSeq RNA Seq sample preparation kit was used to prepare sequencing library of mRNA in accordance with the manufacturer guidelines. Experimental Factor: genotype:sv2a+/+ RNA-Seq TRANSCRIPTOMIC PolyA SINGLE ILLUMINA NextSeq 500   ERP135966 NextSeq 500 sequencing; RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae ENA FIRST PUBLIC:2022 04 21|ENA LAST UPDATE:2022 04 21 sv2aWT3S2L002-1.fastq.gz fastq 726190024.0 9614674.0 E MTAB 11505:sv2aWT3S2L002 0:75.53 1:0 A:178408224;C:174776263;G:170820745;T:202047224;N:137568 75 0     178408224 174776263 170820745 202047224 137568 ERX8620334 ERS10857222 ERA9644804 Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg|European Nucleotide Archive Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg|European Nucleotide Archive 1 0.95093   0.11567   0.65865   0.46877   75   B   usable mapping rate illumina nextseq unknown poly_a trueseq bulk unknown unknown   Belgium 2022-04-21 Larval Larval Head Nervous System
10417 10417 ERR9077196 ERX8620334 ERS10857222 ERP135966 PRJEB51339 RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae E-MTAB-11505 Transcriptome Analysis Transcriptome analysis of the heads of 6 dpf sv2a / sv2a+/ and sv2a+/+ zebrafish larvae to provide insights into the neuropathological processes underlying the observed epileptic phenotype in sv2a / zebrafish larvae. ENA FIRST PUBLIC:2022 04 21|ENA LAST UPDATE:2022 04 21   Protocols: 6 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled per sample. Total RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. TruSeq RNA Seq sample preparation kit was used to prepare sequencing library of mRNA in accordance with the manufacturer guidelines. Sv2aWT3S2 SAMEA13254179 Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg ENA first public:2022 04 21|ENA last update:2022 04 21|External Id:SAMEA13254179|INSDC center alias:Laboratory for Molecular Biodiscovery KU Leuven Campus Gasthuisberg|INSDC center name:Laboratory for Molecular Biodiscovery KU Leuven Campus Gasthuisberg|INSDC first public:2022 04 21T00:32:07Z|INSDC last update:2022 04 21T00:32:07Z|INSDC status:public|Submitter Id:E MTAB 11505:Sv2aWT3S2|age:6|broker name:ArrayExpress|common name:zebrafish|developmental stage:larval stage|genotype:sv2a+/+|individual:pool of 10 heads|organism part:head|sample name:E MTAB 11505:Sv2aWT3S2|sex:not available|strain:AB                 NextSeq 500 sequencing; RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae E MTAB 11505:Sv2aWT3S2 s Sv2aWT3S2 s RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae 6 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled per sample. Total RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. TruSeq RNA Seq sample preparation kit was used to prepare sequencing library of mRNA in accordance with the manufacturer guidelines. Experimental Factor: genotype:sv2a+/+ RNA-Seq TRANSCRIPTOMIC PolyA SINGLE ILLUMINA NextSeq 500   ERP135966 NextSeq 500 sequencing; RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae ENA FIRST PUBLIC:2022 04 21|ENA LAST UPDATE:2022 04 21 sv2aWT3S2L003-1.fastq.gz fastq 735499955.0 9737845.0 E MTAB 11505:sv2aWT3S2L003 0:75.53 1:0 A:180659962;C:177141362;G:172905323;T:204678308;N:115000 75 0     180659962 177141362 172905323 204678308 115000 ERX8620334 ERS10857222 ERA9644804 Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg|European Nucleotide Archive Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg|European Nucleotide Archive 1 0.95233   0.11614   0.65898   0.47114   76   B   usable mapping rate illumina nextseq unknown poly_a trueseq bulk unknown unknown   Belgium 2022-04-21 Larval Larval Head Nervous System
10418 10418 ERR9077197 ERX8620334 ERS10857222 ERP135966 PRJEB51339 RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae E-MTAB-11505 Transcriptome Analysis Transcriptome analysis of the heads of 6 dpf sv2a / sv2a+/ and sv2a+/+ zebrafish larvae to provide insights into the neuropathological processes underlying the observed epileptic phenotype in sv2a / zebrafish larvae. ENA FIRST PUBLIC:2022 04 21|ENA LAST UPDATE:2022 04 21   Protocols: 6 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled per sample. Total RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. TruSeq RNA Seq sample preparation kit was used to prepare sequencing library of mRNA in accordance with the manufacturer guidelines. Sv2aWT3S2 SAMEA13254179 Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg ENA first public:2022 04 21|ENA last update:2022 04 21|External Id:SAMEA13254179|INSDC center alias:Laboratory for Molecular Biodiscovery KU Leuven Campus Gasthuisberg|INSDC center name:Laboratory for Molecular Biodiscovery KU Leuven Campus Gasthuisberg|INSDC first public:2022 04 21T00:32:07Z|INSDC last update:2022 04 21T00:32:07Z|INSDC status:public|Submitter Id:E MTAB 11505:Sv2aWT3S2|age:6|broker name:ArrayExpress|common name:zebrafish|developmental stage:larval stage|genotype:sv2a+/+|individual:pool of 10 heads|organism part:head|sample name:E MTAB 11505:Sv2aWT3S2|sex:not available|strain:AB                 NextSeq 500 sequencing; RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae E MTAB 11505:Sv2aWT3S2 s Sv2aWT3S2 s RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae 6 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled per sample. Total RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. TruSeq RNA Seq sample preparation kit was used to prepare sequencing library of mRNA in accordance with the manufacturer guidelines. Experimental Factor: genotype:sv2a+/+ RNA-Seq TRANSCRIPTOMIC PolyA SINGLE ILLUMINA NextSeq 500   ERP135966 NextSeq 500 sequencing; RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae ENA FIRST PUBLIC:2022 04 21|ENA LAST UPDATE:2022 04 21 sv2aWT3S2L004-1.fastq.gz fastq 745285512.0 9867337.0 E MTAB 11505:sv2aWT3S2L004 0:75.53 1:0 A:183067487;C:179408382;G:175250814;T:207445912;N:112917 75 0     183067487 179408382 175250814 207445912 112917 ERX8620334 ERS10857222 ERA9644804 Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg|European Nucleotide Archive Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg|European Nucleotide Archive 1 0.95245   0.11655   0.65857   0.47087   76   B   usable mapping rate illumina nextseq unknown poly_a trueseq bulk unknown unknown   Belgium 2022-04-21 Larval Larval Head Nervous System
10419 10419 ERR9077190 ERX8620333 ERS10857221 ERP135966 PRJEB51339 RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae E-MTAB-11505 Transcriptome Analysis Transcriptome analysis of the heads of 6 dpf sv2a / sv2a+/ and sv2a+/+ zebrafish larvae to provide insights into the neuropathological processes underlying the observed epileptic phenotype in sv2a / zebrafish larvae. ENA FIRST PUBLIC:2022 04 21|ENA LAST UPDATE:2022 04 21   Protocols: 6 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled per sample. Total RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. TruSeq RNA Seq sample preparation kit was used to prepare sequencing library of mRNA in accordance with the manufacturer guidelines. Sv2aWT1S1 SAMEA13254178 Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg ENA first public:2022 04 21|ENA last update:2022 04 21|External Id:SAMEA13254178|INSDC center alias:Laboratory for Molecular Biodiscovery KU Leuven Campus Gasthuisberg|INSDC center name:Laboratory for Molecular Biodiscovery KU Leuven Campus Gasthuisberg|INSDC first public:2022 04 21T00:32:07Z|INSDC last update:2022 04 21T00:32:07Z|INSDC status:public|Submitter Id:E MTAB 11505:Sv2aWT1S1|age:6|broker name:ArrayExpress|common name:zebrafish|developmental stage:larval stage|genotype:sv2a+/+|individual:pool of 10 heads|organism part:head|sample name:E MTAB 11505:Sv2aWT1S1|sex:not available|strain:AB                 NextSeq 500 sequencing; RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae E MTAB 11505:Sv2aWT1S1 s Sv2aWT1S1 s RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae 6 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled per sample. Total RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. TruSeq RNA Seq sample preparation kit was used to prepare sequencing library of mRNA in accordance with the manufacturer guidelines. Experimental Factor: genotype:sv2a+/+ RNA-Seq TRANSCRIPTOMIC PolyA SINGLE ILLUMINA NextSeq 500   ERP135966 NextSeq 500 sequencing; RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae ENA FIRST PUBLIC:2022 04 21|ENA LAST UPDATE:2022 04 21 sv2aWT1S1L001-1.fastq.gz fastq 647414748.0 8571883.0 E MTAB 11505:sv2aWT1S1L001 0:75.53 1:0 A:154593859;C:160498057;G:153809612;T:178389112;N:124108 75 0     154593859 160498057 153809612 178389112 124108 ERX8620333 ERS10857221 ERA9644804 Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg|European Nucleotide Archive Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg|European Nucleotide Archive 1 0.95955   0.08686   0.65955   0.47406   76   B   usable mapping rate illumina nextseq unknown poly_a trueseq bulk unknown unknown   Belgium 2022-04-21 Larval Larval Head Nervous System
10420 10420 ERR9077191 ERX8620333 ERS10857221 ERP135966 PRJEB51339 RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae E-MTAB-11505 Transcriptome Analysis Transcriptome analysis of the heads of 6 dpf sv2a / sv2a+/ and sv2a+/+ zebrafish larvae to provide insights into the neuropathological processes underlying the observed epileptic phenotype in sv2a / zebrafish larvae. ENA FIRST PUBLIC:2022 04 21|ENA LAST UPDATE:2022 04 21   Protocols: 6 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled per sample. Total RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. TruSeq RNA Seq sample preparation kit was used to prepare sequencing library of mRNA in accordance with the manufacturer guidelines. Sv2aWT1S1 SAMEA13254178 Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg ENA first public:2022 04 21|ENA last update:2022 04 21|External Id:SAMEA13254178|INSDC center alias:Laboratory for Molecular Biodiscovery KU Leuven Campus Gasthuisberg|INSDC center name:Laboratory for Molecular Biodiscovery KU Leuven Campus Gasthuisberg|INSDC first public:2022 04 21T00:32:07Z|INSDC last update:2022 04 21T00:32:07Z|INSDC status:public|Submitter Id:E MTAB 11505:Sv2aWT1S1|age:6|broker name:ArrayExpress|common name:zebrafish|developmental stage:larval stage|genotype:sv2a+/+|individual:pool of 10 heads|organism part:head|sample name:E MTAB 11505:Sv2aWT1S1|sex:not available|strain:AB                 NextSeq 500 sequencing; RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae E MTAB 11505:Sv2aWT1S1 s Sv2aWT1S1 s RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae 6 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled per sample. Total RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. TruSeq RNA Seq sample preparation kit was used to prepare sequencing library of mRNA in accordance with the manufacturer guidelines. Experimental Factor: genotype:sv2a+/+ RNA-Seq TRANSCRIPTOMIC PolyA SINGLE ILLUMINA NextSeq 500   ERP135966 NextSeq 500 sequencing; RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae ENA FIRST PUBLIC:2022 04 21|ENA LAST UPDATE:2022 04 21 sv2aWT1S1L002-1.fastq.gz fastq 646657758.0 8561861.0 E MTAB 11505:sv2aWT1S1L002 0:75.53 1:0 A:154348044;C:160294625;G:153804048;T:178092212;N:118829 75 0     154348044 160294625 153804048 178092212 118829 ERX8620333 ERS10857221 ERA9644804 Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg|European Nucleotide Archive Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg|European Nucleotide Archive 1 0.95942   0.08632   0.65991   0.47539   76   B   usable mapping rate illumina nextseq unknown poly_a trueseq bulk unknown unknown   Belgium 2022-04-21 Larval Larval Head Nervous System
10421 10421 ERR9077192 ERX8620333 ERS10857221 ERP135966 PRJEB51339 RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae E-MTAB-11505 Transcriptome Analysis Transcriptome analysis of the heads of 6 dpf sv2a / sv2a+/ and sv2a+/+ zebrafish larvae to provide insights into the neuropathological processes underlying the observed epileptic phenotype in sv2a / zebrafish larvae. ENA FIRST PUBLIC:2022 04 21|ENA LAST UPDATE:2022 04 21   Protocols: 6 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled per sample. Total RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. TruSeq RNA Seq sample preparation kit was used to prepare sequencing library of mRNA in accordance with the manufacturer guidelines. Sv2aWT1S1 SAMEA13254178 Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg ENA first public:2022 04 21|ENA last update:2022 04 21|External Id:SAMEA13254178|INSDC center alias:Laboratory for Molecular Biodiscovery KU Leuven Campus Gasthuisberg|INSDC center name:Laboratory for Molecular Biodiscovery KU Leuven Campus Gasthuisberg|INSDC first public:2022 04 21T00:32:07Z|INSDC last update:2022 04 21T00:32:07Z|INSDC status:public|Submitter Id:E MTAB 11505:Sv2aWT1S1|age:6|broker name:ArrayExpress|common name:zebrafish|developmental stage:larval stage|genotype:sv2a+/+|individual:pool of 10 heads|organism part:head|sample name:E MTAB 11505:Sv2aWT1S1|sex:not available|strain:AB                 NextSeq 500 sequencing; RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae E MTAB 11505:Sv2aWT1S1 s Sv2aWT1S1 s RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae 6 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled per sample. Total RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. TruSeq RNA Seq sample preparation kit was used to prepare sequencing library of mRNA in accordance with the manufacturer guidelines. Experimental Factor: genotype:sv2a+/+ RNA-Seq TRANSCRIPTOMIC PolyA SINGLE ILLUMINA NextSeq 500   ERP135966 NextSeq 500 sequencing; RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae ENA FIRST PUBLIC:2022 04 21|ENA LAST UPDATE:2022 04 21 sv2aWT1S1L003-1.fastq.gz fastq 654781451.0 8669333.0 E MTAB 11505:sv2aWT1S1L003 0:75.53 1:0 A:156252744;C:162396721;G:155681450;T:180352911;N:97625 75 0     156252744 162396721 155681450 180352911 97625 ERX8620333 ERS10857221 ERA9644804 Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg|European Nucleotide Archive Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg|European Nucleotide Archive 1 0.95972   0.08498   0.66137   0.47457   75   B   usable mapping rate illumina nextseq unknown poly_a trueseq bulk unknown unknown   Belgium 2022-04-21 Larval Larval Head Nervous System
10422 10422 ERR9077193 ERX8620333 ERS10857221 ERP135966 PRJEB51339 RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae E-MTAB-11505 Transcriptome Analysis Transcriptome analysis of the heads of 6 dpf sv2a / sv2a+/ and sv2a+/+ zebrafish larvae to provide insights into the neuropathological processes underlying the observed epileptic phenotype in sv2a / zebrafish larvae. ENA FIRST PUBLIC:2022 04 21|ENA LAST UPDATE:2022 04 21   Protocols: 6 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled per sample. Total RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. TruSeq RNA Seq sample preparation kit was used to prepare sequencing library of mRNA in accordance with the manufacturer guidelines. Sv2aWT1S1 SAMEA13254178 Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg ENA first public:2022 04 21|ENA last update:2022 04 21|External Id:SAMEA13254178|INSDC center alias:Laboratory for Molecular Biodiscovery KU Leuven Campus Gasthuisberg|INSDC center name:Laboratory for Molecular Biodiscovery KU Leuven Campus Gasthuisberg|INSDC first public:2022 04 21T00:32:07Z|INSDC last update:2022 04 21T00:32:07Z|INSDC status:public|Submitter Id:E MTAB 11505:Sv2aWT1S1|age:6|broker name:ArrayExpress|common name:zebrafish|developmental stage:larval stage|genotype:sv2a+/+|individual:pool of 10 heads|organism part:head|sample name:E MTAB 11505:Sv2aWT1S1|sex:not available|strain:AB                 NextSeq 500 sequencing; RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae E MTAB 11505:Sv2aWT1S1 s Sv2aWT1S1 s RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae 6 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled per sample. Total RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. TruSeq RNA Seq sample preparation kit was used to prepare sequencing library of mRNA in accordance with the manufacturer guidelines. Experimental Factor: genotype:sv2a+/+ RNA-Seq TRANSCRIPTOMIC PolyA SINGLE ILLUMINA NextSeq 500   ERP135966 NextSeq 500 sequencing; RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae ENA FIRST PUBLIC:2022 04 21|ENA LAST UPDATE:2022 04 21 sv2aWT1S1L004-1.fastq.gz fastq 659716937.0 8734618.0 E MTAB 11505:sv2aWT1S1L004 0:75.53 1:0 A:157367211;C:163585842;G:156911139;T:181757809;N:94936 75 0     157367211 163585842 156911139 181757809 94936 ERX8620333 ERS10857221 ERA9644804 Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg|European Nucleotide Archive Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg|European Nucleotide Archive 1 0.95985   0.08585   0.65857   0.47349   76   B   usable mapping rate illumina nextseq unknown poly_a trueseq bulk unknown unknown   Belgium 2022-04-21 Larval Larval Head Nervous System
10423 10423 ERR9077186 ERX8620332 ERS10857220 ERP135966 PRJEB51339 RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae E-MTAB-11505 Transcriptome Analysis Transcriptome analysis of the heads of 6 dpf sv2a / sv2a+/ and sv2a+/+ zebrafish larvae to provide insights into the neuropathological processes underlying the observed epileptic phenotype in sv2a / zebrafish larvae. ENA FIRST PUBLIC:2022 04 21|ENA LAST UPDATE:2022 04 21   Protocols: 6 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled per sample. Total RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. TruSeq RNA Seq sample preparation kit was used to prepare sequencing library of mRNA in accordance with the manufacturer guidelines. Sv2aHO6S12 SAMEA13254177 Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg ENA first public:2022 04 21|ENA last update:2022 04 21|External Id:SAMEA13254177|INSDC center alias:Laboratory for Molecular Biodiscovery KU Leuven Campus Gasthuisberg|INSDC center name:Laboratory for Molecular Biodiscovery KU Leuven Campus Gasthuisberg|INSDC first public:2022 04 21T00:32:07Z|INSDC last update:2022 04 21T00:32:07Z|INSDC status:public|Submitter Id:E MTAB 11505:Sv2aHO6S12|age:6|broker name:ArrayExpress|common name:zebrafish|developmental stage:larval stage|genotype:sv2a / |individual:pool of 10 heads|organism part:head|sample name:E MTAB 11505:Sv2aHO6S12|sex:not available|strain:AB                 NextSeq 500 sequencing; RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae E MTAB 11505:Sv2aHO6S12 s Sv2aHO6S12 s RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae 6 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled per sample. Total RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. TruSeq RNA Seq sample preparation kit was used to prepare sequencing library of mRNA in accordance with the manufacturer guidelines. Experimental Factor: genotype:sv2a / RNA-Seq TRANSCRIPTOMIC PolyA SINGLE ILLUMINA NextSeq 500   ERP135966 NextSeq 500 sequencing; RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae ENA FIRST PUBLIC:2022 04 21|ENA LAST UPDATE:2022 04 21 sv2aHO6S12L001-1.fastq.gz fastq 675018261.0 8937958.0 E MTAB 11505:sv2aHO6S12L001 0:75.52 1:0 A:166564263;C:160539328;G:160003980;T:187773509;N:137181 75 0     166564263 160539328 160003980 187773509 137181 ERX8620332 ERS10857220 ERA9644804 Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg|European Nucleotide Archive Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg|European Nucleotide Archive 1 0.94964   0.13009   0.65413   0.47079   76   B   usable mapping rate illumina nextseq unknown poly_a trueseq bulk unknown unknown   Belgium 2022-04-21 Larval Larval Head Nervous System
10424 10424 ERR9077187 ERX8620332 ERS10857220 ERP135966 PRJEB51339 RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae E-MTAB-11505 Transcriptome Analysis Transcriptome analysis of the heads of 6 dpf sv2a / sv2a+/ and sv2a+/+ zebrafish larvae to provide insights into the neuropathological processes underlying the observed epileptic phenotype in sv2a / zebrafish larvae. ENA FIRST PUBLIC:2022 04 21|ENA LAST UPDATE:2022 04 21   Protocols: 6 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled per sample. Total RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. TruSeq RNA Seq sample preparation kit was used to prepare sequencing library of mRNA in accordance with the manufacturer guidelines. Sv2aHO6S12 SAMEA13254177 Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg ENA first public:2022 04 21|ENA last update:2022 04 21|External Id:SAMEA13254177|INSDC center alias:Laboratory for Molecular Biodiscovery KU Leuven Campus Gasthuisberg|INSDC center name:Laboratory for Molecular Biodiscovery KU Leuven Campus Gasthuisberg|INSDC first public:2022 04 21T00:32:07Z|INSDC last update:2022 04 21T00:32:07Z|INSDC status:public|Submitter Id:E MTAB 11505:Sv2aHO6S12|age:6|broker name:ArrayExpress|common name:zebrafish|developmental stage:larval stage|genotype:sv2a / |individual:pool of 10 heads|organism part:head|sample name:E MTAB 11505:Sv2aHO6S12|sex:not available|strain:AB                 NextSeq 500 sequencing; RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae E MTAB 11505:Sv2aHO6S12 s Sv2aHO6S12 s RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae 6 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled per sample. Total RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. TruSeq RNA Seq sample preparation kit was used to prepare sequencing library of mRNA in accordance with the manufacturer guidelines. Experimental Factor: genotype:sv2a / RNA-Seq TRANSCRIPTOMIC PolyA SINGLE ILLUMINA NextSeq 500   ERP135966 NextSeq 500 sequencing; RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae ENA FIRST PUBLIC:2022 04 21|ENA LAST UPDATE:2022 04 21 sv2aHO6S12L002-1.fastq.gz fastq 672995667.0 8911161.0 E MTAB 11505:sv2aHO6S12L002 0:75.52 1:0 A:165990319;C:160039398;G:159722501;T:187108781;N:134668 75 0     165990319 160039398 159722501 187108781 134668 ERX8620332 ERS10857220 ERA9644804 Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg|European Nucleotide Archive Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg|European Nucleotide Archive 1 0.94837   0.13029   0.65744   0.47959   76   B   usable mapping rate illumina nextseq unknown poly_a trueseq bulk unknown unknown   Belgium 2022-04-21 Larval Larval Head Nervous System
10425 10425 ERR9077188 ERX8620332 ERS10857220 ERP135966 PRJEB51339 RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae E-MTAB-11505 Transcriptome Analysis Transcriptome analysis of the heads of 6 dpf sv2a / sv2a+/ and sv2a+/+ zebrafish larvae to provide insights into the neuropathological processes underlying the observed epileptic phenotype in sv2a / zebrafish larvae. ENA FIRST PUBLIC:2022 04 21|ENA LAST UPDATE:2022 04 21   Protocols: 6 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled per sample. Total RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. TruSeq RNA Seq sample preparation kit was used to prepare sequencing library of mRNA in accordance with the manufacturer guidelines. Sv2aHO6S12 SAMEA13254177 Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg ENA first public:2022 04 21|ENA last update:2022 04 21|External Id:SAMEA13254177|INSDC center alias:Laboratory for Molecular Biodiscovery KU Leuven Campus Gasthuisberg|INSDC center name:Laboratory for Molecular Biodiscovery KU Leuven Campus Gasthuisberg|INSDC first public:2022 04 21T00:32:07Z|INSDC last update:2022 04 21T00:32:07Z|INSDC status:public|Submitter Id:E MTAB 11505:Sv2aHO6S12|age:6|broker name:ArrayExpress|common name:zebrafish|developmental stage:larval stage|genotype:sv2a / |individual:pool of 10 heads|organism part:head|sample name:E MTAB 11505:Sv2aHO6S12|sex:not available|strain:AB                 NextSeq 500 sequencing; RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae E MTAB 11505:Sv2aHO6S12 s Sv2aHO6S12 s RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae 6 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled per sample. Total RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. TruSeq RNA Seq sample preparation kit was used to prepare sequencing library of mRNA in accordance with the manufacturer guidelines. Experimental Factor: genotype:sv2a / RNA-Seq TRANSCRIPTOMIC PolyA SINGLE ILLUMINA NextSeq 500   ERP135966 NextSeq 500 sequencing; RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae ENA FIRST PUBLIC:2022 04 21|ENA LAST UPDATE:2022 04 21 sv2aHO6S12L003-1.fastq.gz fastq 683276767.0 9047147.0 E MTAB 11505:sv2aHO6S12L003 0:75.52 1:0 A:168501690;C:162583852;G:162063190;T:190018001;N:110034 75 0     168501690 162583852 162063190 190018001 110034 ERX8620332 ERS10857220 ERA9644804 Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg|European Nucleotide Archive Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg|European Nucleotide Archive 1 0.94983   0.13248   0.6565   0.47977   76   B   usable mapping rate illumina nextseq unknown poly_a trueseq bulk unknown unknown   Belgium 2022-04-21 Larval Larval Head Nervous System
10426 10426 ERR9077189 ERX8620332 ERS10857220 ERP135966 PRJEB51339 RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae E-MTAB-11505 Transcriptome Analysis Transcriptome analysis of the heads of 6 dpf sv2a / sv2a+/ and sv2a+/+ zebrafish larvae to provide insights into the neuropathological processes underlying the observed epileptic phenotype in sv2a / zebrafish larvae. ENA FIRST PUBLIC:2022 04 21|ENA LAST UPDATE:2022 04 21   Protocols: 6 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled per sample. Total RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. TruSeq RNA Seq sample preparation kit was used to prepare sequencing library of mRNA in accordance with the manufacturer guidelines. Sv2aHO6S12 SAMEA13254177 Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg ENA first public:2022 04 21|ENA last update:2022 04 21|External Id:SAMEA13254177|INSDC center alias:Laboratory for Molecular Biodiscovery KU Leuven Campus Gasthuisberg|INSDC center name:Laboratory for Molecular Biodiscovery KU Leuven Campus Gasthuisberg|INSDC first public:2022 04 21T00:32:07Z|INSDC last update:2022 04 21T00:32:07Z|INSDC status:public|Submitter Id:E MTAB 11505:Sv2aHO6S12|age:6|broker name:ArrayExpress|common name:zebrafish|developmental stage:larval stage|genotype:sv2a / |individual:pool of 10 heads|organism part:head|sample name:E MTAB 11505:Sv2aHO6S12|sex:not available|strain:AB                 NextSeq 500 sequencing; RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae E MTAB 11505:Sv2aHO6S12 s Sv2aHO6S12 s RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae 6 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled per sample. Total RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. TruSeq RNA Seq sample preparation kit was used to prepare sequencing library of mRNA in accordance with the manufacturer guidelines. Experimental Factor: genotype:sv2a / RNA-Seq TRANSCRIPTOMIC PolyA SINGLE ILLUMINA NextSeq 500   ERP135966 NextSeq 500 sequencing; RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae ENA FIRST PUBLIC:2022 04 21|ENA LAST UPDATE:2022 04 21 sv2aHO6S12L004-1.fastq.gz fastq 686469910.0 9089431.0 E MTAB 11505:sv2aHO6S12L004 0:75.52 1:0 A:169287189;C:163276361;G:162844724;T:190954218;N:107418 75 0     169287189 163276361 162844724 190954218 107418 ERX8620332 ERS10857220 ERA9644804 Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg|European Nucleotide Archive Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg|European Nucleotide Archive 1 0.95061   0.13029   0.65389   0.48044   76   B   usable mapping rate illumina nextseq unknown poly_a trueseq bulk unknown unknown   Belgium 2022-04-21 Larval Larval Head Nervous System
10427 10427 ERR9077182 ERX8620331 ERS10857219 ERP135966 PRJEB51339 RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae E-MTAB-11505 Transcriptome Analysis Transcriptome analysis of the heads of 6 dpf sv2a / sv2a+/ and sv2a+/+ zebrafish larvae to provide insights into the neuropathological processes underlying the observed epileptic phenotype in sv2a / zebrafish larvae. ENA FIRST PUBLIC:2022 04 21|ENA LAST UPDATE:2022 04 21   Protocols: 6 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled per sample. Total RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. TruSeq RNA Seq sample preparation kit was used to prepare sequencing library of mRNA in accordance with the manufacturer guidelines. Sv2aHO4S10 SAMEA13254176 Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg ENA first public:2022 04 21|ENA last update:2022 04 21|External Id:SAMEA13254176|INSDC center alias:Laboratory for Molecular Biodiscovery KU Leuven Campus Gasthuisberg|INSDC center name:Laboratory for Molecular Biodiscovery KU Leuven Campus Gasthuisberg|INSDC first public:2022 04 21T00:32:07Z|INSDC last update:2022 04 21T00:32:07Z|INSDC status:public|Submitter Id:E MTAB 11505:Sv2aHO4S10|age:6|broker name:ArrayExpress|common name:zebrafish|developmental stage:larval stage|genotype:sv2a / |individual:pool of 10 heads|organism part:head|sample name:E MTAB 11505:Sv2aHO4S10|sex:not available|strain:AB                 NextSeq 500 sequencing; RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae E MTAB 11505:Sv2aHO4S10 s Sv2aHO4S10 s RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae 6 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled per sample. Total RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. TruSeq RNA Seq sample preparation kit was used to prepare sequencing library of mRNA in accordance with the manufacturer guidelines. Experimental Factor: genotype:sv2a / RNA-Seq TRANSCRIPTOMIC PolyA SINGLE ILLUMINA NextSeq 500   ERP135966 NextSeq 500 sequencing; RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae ENA FIRST PUBLIC:2022 04 21|ENA LAST UPDATE:2022 04 21 sv2aHO4S10L001-1.fastq.gz fastq 713858966.0 9452474.0 E MTAB 11505:sv2aHO4S10L001 0:75.52 1:0 A:177913695;C:169425317;G:167540012;T:198835532;N:144410 75 0     177913695 169425317 167540012 198835532 144410 ERX8620331 ERS10857219 ERA9644804 Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg|European Nucleotide Archive Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg|European Nucleotide Archive 1 0.94848   0.12981   0.6636   0.47772   76   B   usable mapping rate illumina nextseq unknown poly_a trueseq bulk unknown unknown   Belgium 2022-04-21 Larval Larval Head Nervous System
10428 10428 ERR9077183 ERX8620331 ERS10857219 ERP135966 PRJEB51339 RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae E-MTAB-11505 Transcriptome Analysis Transcriptome analysis of the heads of 6 dpf sv2a / sv2a+/ and sv2a+/+ zebrafish larvae to provide insights into the neuropathological processes underlying the observed epileptic phenotype in sv2a / zebrafish larvae. ENA FIRST PUBLIC:2022 04 21|ENA LAST UPDATE:2022 04 21   Protocols: 6 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled per sample. Total RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. TruSeq RNA Seq sample preparation kit was used to prepare sequencing library of mRNA in accordance with the manufacturer guidelines. Sv2aHO4S10 SAMEA13254176 Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg ENA first public:2022 04 21|ENA last update:2022 04 21|External Id:SAMEA13254176|INSDC center alias:Laboratory for Molecular Biodiscovery KU Leuven Campus Gasthuisberg|INSDC center name:Laboratory for Molecular Biodiscovery KU Leuven Campus Gasthuisberg|INSDC first public:2022 04 21T00:32:07Z|INSDC last update:2022 04 21T00:32:07Z|INSDC status:public|Submitter Id:E MTAB 11505:Sv2aHO4S10|age:6|broker name:ArrayExpress|common name:zebrafish|developmental stage:larval stage|genotype:sv2a / |individual:pool of 10 heads|organism part:head|sample name:E MTAB 11505:Sv2aHO4S10|sex:not available|strain:AB                 NextSeq 500 sequencing; RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae E MTAB 11505:Sv2aHO4S10 s Sv2aHO4S10 s RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae 6 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled per sample. Total RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. TruSeq RNA Seq sample preparation kit was used to prepare sequencing library of mRNA in accordance with the manufacturer guidelines. Experimental Factor: genotype:sv2a / RNA-Seq TRANSCRIPTOMIC PolyA SINGLE ILLUMINA NextSeq 500   ERP135966 NextSeq 500 sequencing; RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae ENA FIRST PUBLIC:2022 04 21|ENA LAST UPDATE:2022 04 21 sv2aHO4S10L002-1.fastq.gz fastq 717619593.0 9502301.0 E MTAB 11505:sv2aHO4S10L002 0:75.52 1:0 A:178830542;C:170284720;G:168594514;T:199773382;N:136435 75 0     178830542 170284720 168594514 199773382 136435 ERX8620331 ERS10857219 ERA9644804 Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg|European Nucleotide Archive Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg|European Nucleotide Archive 1 0.94812   0.12868   0.6645   0.47281   75   B   usable mapping rate illumina nextseq unknown poly_a trueseq bulk unknown unknown   Belgium 2022-04-21 Larval Larval Head Nervous System
10429 10429 ERR9077184 ERX8620331 ERS10857219 ERP135966 PRJEB51339 RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae E-MTAB-11505 Transcriptome Analysis Transcriptome analysis of the heads of 6 dpf sv2a / sv2a+/ and sv2a+/+ zebrafish larvae to provide insights into the neuropathological processes underlying the observed epileptic phenotype in sv2a / zebrafish larvae. ENA FIRST PUBLIC:2022 04 21|ENA LAST UPDATE:2022 04 21   Protocols: 6 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled per sample. Total RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. TruSeq RNA Seq sample preparation kit was used to prepare sequencing library of mRNA in accordance with the manufacturer guidelines. Sv2aHO4S10 SAMEA13254176 Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg ENA first public:2022 04 21|ENA last update:2022 04 21|External Id:SAMEA13254176|INSDC center alias:Laboratory for Molecular Biodiscovery KU Leuven Campus Gasthuisberg|INSDC center name:Laboratory for Molecular Biodiscovery KU Leuven Campus Gasthuisberg|INSDC first public:2022 04 21T00:32:07Z|INSDC last update:2022 04 21T00:32:07Z|INSDC status:public|Submitter Id:E MTAB 11505:Sv2aHO4S10|age:6|broker name:ArrayExpress|common name:zebrafish|developmental stage:larval stage|genotype:sv2a / |individual:pool of 10 heads|organism part:head|sample name:E MTAB 11505:Sv2aHO4S10|sex:not available|strain:AB                 NextSeq 500 sequencing; RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae E MTAB 11505:Sv2aHO4S10 s Sv2aHO4S10 s RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae 6 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled per sample. Total RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. TruSeq RNA Seq sample preparation kit was used to prepare sequencing library of mRNA in accordance with the manufacturer guidelines. Experimental Factor: genotype:sv2a / RNA-Seq TRANSCRIPTOMIC PolyA SINGLE ILLUMINA NextSeq 500   ERP135966 NextSeq 500 sequencing; RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae ENA FIRST PUBLIC:2022 04 21|ENA LAST UPDATE:2022 04 21 sv2aHO4S10L003-1.fastq.gz fastq 727263626.0 9629858.0 E MTAB 11505:sv2aHO4S10L003 0:75.52 1:0 A:181201278;C:172619520;G:170780953;T:202550397;N:111478 75 0     181201278 172619520 170780953 202550397 111478 ERX8620331 ERS10857219 ERA9644804 Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg|European Nucleotide Archive Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg|European Nucleotide Archive 1 0.94768   0.12827   0.66596   0.47332   76   B   usable mapping rate illumina nextseq unknown poly_a trueseq bulk unknown unknown   Belgium 2022-04-21 Larval Larval Head Nervous System
10430 10430 ERR9077185 ERX8620331 ERS10857219 ERP135966 PRJEB51339 RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae E-MTAB-11505 Transcriptome Analysis Transcriptome analysis of the heads of 6 dpf sv2a / sv2a+/ and sv2a+/+ zebrafish larvae to provide insights into the neuropathological processes underlying the observed epileptic phenotype in sv2a / zebrafish larvae. ENA FIRST PUBLIC:2022 04 21|ENA LAST UPDATE:2022 04 21   Protocols: 6 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled per sample. Total RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. TruSeq RNA Seq sample preparation kit was used to prepare sequencing library of mRNA in accordance with the manufacturer guidelines. Sv2aHO4S10 SAMEA13254176 Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg ENA first public:2022 04 21|ENA last update:2022 04 21|External Id:SAMEA13254176|INSDC center alias:Laboratory for Molecular Biodiscovery KU Leuven Campus Gasthuisberg|INSDC center name:Laboratory for Molecular Biodiscovery KU Leuven Campus Gasthuisberg|INSDC first public:2022 04 21T00:32:07Z|INSDC last update:2022 04 21T00:32:07Z|INSDC status:public|Submitter Id:E MTAB 11505:Sv2aHO4S10|age:6|broker name:ArrayExpress|common name:zebrafish|developmental stage:larval stage|genotype:sv2a / |individual:pool of 10 heads|organism part:head|sample name:E MTAB 11505:Sv2aHO4S10|sex:not available|strain:AB                 NextSeq 500 sequencing; RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae E MTAB 11505:Sv2aHO4S10 s Sv2aHO4S10 s RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae 6 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled per sample. Total RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. TruSeq RNA Seq sample preparation kit was used to prepare sequencing library of mRNA in accordance with the manufacturer guidelines. Experimental Factor: genotype:sv2a / RNA-Seq TRANSCRIPTOMIC PolyA SINGLE ILLUMINA NextSeq 500   ERP135966 NextSeq 500 sequencing; RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae ENA FIRST PUBLIC:2022 04 21|ENA LAST UPDATE:2022 04 21 sv2aHO4S10L004-1.fastq.gz fastq 736595278.0 9753337.0 E MTAB 11505:sv2aHO4S10L004 0:75.52 1:0 A:183510872;C:174806534;G:173027794;T:205140640;N:109438 75 0     183510872 174806534 173027794 205140640 109438 ERX8620331 ERS10857219 ERA9644804 Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg|European Nucleotide Archive Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg|European Nucleotide Archive 1 0.94925   0.12904   0.66417   0.47297   76   B   usable mapping rate illumina nextseq unknown poly_a trueseq bulk unknown unknown   Belgium 2022-04-21 Larval Larval Head Nervous System
10431 10431 ERR9077178 ERX8620330 ERS10857218 ERP135966 PRJEB51339 RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae E-MTAB-11505 Transcriptome Analysis Transcriptome analysis of the heads of 6 dpf sv2a / sv2a+/ and sv2a+/+ zebrafish larvae to provide insights into the neuropathological processes underlying the observed epileptic phenotype in sv2a / zebrafish larvae. ENA FIRST PUBLIC:2022 04 21|ENA LAST UPDATE:2022 04 21   Protocols: 6 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled per sample. Total RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. TruSeq RNA Seq sample preparation kit was used to prepare sequencing library of mRNA in accordance with the manufacturer guidelines. Sv2aHO3S6 SAMEA13254175 Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg ENA first public:2022 04 21|ENA last update:2022 04 21|External Id:SAMEA13254175|INSDC center alias:Laboratory for Molecular Biodiscovery KU Leuven Campus Gasthuisberg|INSDC center name:Laboratory for Molecular Biodiscovery KU Leuven Campus Gasthuisberg|INSDC first public:2022 04 21T00:32:07Z|INSDC last update:2022 04 21T00:32:07Z|INSDC status:public|Submitter Id:E MTAB 11505:Sv2aHO3S6|age:6|broker name:ArrayExpress|common name:zebrafish|developmental stage:larval stage|genotype:sv2a / |individual:pool of 10 heads|organism part:head|sample name:E MTAB 11505:Sv2aHO3S6|sex:not available|strain:AB                 NextSeq 500 sequencing; RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae E MTAB 11505:Sv2aHO3S6 s Sv2aHO3S6 s RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae 6 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled per sample. Total RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. TruSeq RNA Seq sample preparation kit was used to prepare sequencing library of mRNA in accordance with the manufacturer guidelines. Experimental Factor: genotype:sv2a / RNA-Seq TRANSCRIPTOMIC PolyA SINGLE ILLUMINA NextSeq 500   ERP135966 NextSeq 500 sequencing; RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae ENA FIRST PUBLIC:2022 04 21|ENA LAST UPDATE:2022 04 21 sv2aHO3S6L001-1.fastq.gz fastq 710756305.0 9410862.0 E MTAB 11505:sv2aHO3S6L001 0:75.53 1:0 A:175585613;C:170261120;G:166658917;T:198106388;N:144267 75 0     175585613 170261120 166658917 198106388 144267 ERX8620330 ERS10857218 ERA9644804 Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg|European Nucleotide Archive Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg|European Nucleotide Archive 1 0.94827   0.14002   0.66785   0.474   75   B   usable mapping rate illumina nextseq unknown poly_a trueseq bulk unknown unknown   Belgium 2022-04-21 Larval Larval Head Nervous System
10432 10432 ERR9077179 ERX8620330 ERS10857218 ERP135966 PRJEB51339 RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae E-MTAB-11505 Transcriptome Analysis Transcriptome analysis of the heads of 6 dpf sv2a / sv2a+/ and sv2a+/+ zebrafish larvae to provide insights into the neuropathological processes underlying the observed epileptic phenotype in sv2a / zebrafish larvae. ENA FIRST PUBLIC:2022 04 21|ENA LAST UPDATE:2022 04 21   Protocols: 6 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled per sample. Total RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. TruSeq RNA Seq sample preparation kit was used to prepare sequencing library of mRNA in accordance with the manufacturer guidelines. Sv2aHO3S6 SAMEA13254175 Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg ENA first public:2022 04 21|ENA last update:2022 04 21|External Id:SAMEA13254175|INSDC center alias:Laboratory for Molecular Biodiscovery KU Leuven Campus Gasthuisberg|INSDC center name:Laboratory for Molecular Biodiscovery KU Leuven Campus Gasthuisberg|INSDC first public:2022 04 21T00:32:07Z|INSDC last update:2022 04 21T00:32:07Z|INSDC status:public|Submitter Id:E MTAB 11505:Sv2aHO3S6|age:6|broker name:ArrayExpress|common name:zebrafish|developmental stage:larval stage|genotype:sv2a / |individual:pool of 10 heads|organism part:head|sample name:E MTAB 11505:Sv2aHO3S6|sex:not available|strain:AB                 NextSeq 500 sequencing; RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae E MTAB 11505:Sv2aHO3S6 s Sv2aHO3S6 s RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae 6 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled per sample. Total RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. TruSeq RNA Seq sample preparation kit was used to prepare sequencing library of mRNA in accordance with the manufacturer guidelines. Experimental Factor: genotype:sv2a / RNA-Seq TRANSCRIPTOMIC PolyA SINGLE ILLUMINA NextSeq 500   ERP135966 NextSeq 500 sequencing; RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae ENA FIRST PUBLIC:2022 04 21|ENA LAST UPDATE:2022 04 21 sv2aHO3S6L002-1.fastq.gz fastq 715330324.0 9471415.0 E MTAB 11505:sv2aHO3S6L002 0:75.53 1:0 A:176679775;C:171311031;G:167903237;T:199299483;N:136798 75 0     176679775 171311031 167903237 199299483 136798 ERX8620330 ERS10857218 ERA9644804 Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg|European Nucleotide Archive Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg|European Nucleotide Archive 1 0.9469   0.13915   0.67004   0.47654   75   B   usable mapping rate illumina nextseq unknown poly_a trueseq bulk unknown unknown   Belgium 2022-04-21 Larval Larval Head Nervous System
10433 10433 ERR9077180 ERX8620330 ERS10857218 ERP135966 PRJEB51339 RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae E-MTAB-11505 Transcriptome Analysis Transcriptome analysis of the heads of 6 dpf sv2a / sv2a+/ and sv2a+/+ zebrafish larvae to provide insights into the neuropathological processes underlying the observed epileptic phenotype in sv2a / zebrafish larvae. ENA FIRST PUBLIC:2022 04 21|ENA LAST UPDATE:2022 04 21   Protocols: 6 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled per sample. Total RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. TruSeq RNA Seq sample preparation kit was used to prepare sequencing library of mRNA in accordance with the manufacturer guidelines. Sv2aHO3S6 SAMEA13254175 Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg ENA first public:2022 04 21|ENA last update:2022 04 21|External Id:SAMEA13254175|INSDC center alias:Laboratory for Molecular Biodiscovery KU Leuven Campus Gasthuisberg|INSDC center name:Laboratory for Molecular Biodiscovery KU Leuven Campus Gasthuisberg|INSDC first public:2022 04 21T00:32:07Z|INSDC last update:2022 04 21T00:32:07Z|INSDC status:public|Submitter Id:E MTAB 11505:Sv2aHO3S6|age:6|broker name:ArrayExpress|common name:zebrafish|developmental stage:larval stage|genotype:sv2a / |individual:pool of 10 heads|organism part:head|sample name:E MTAB 11505:Sv2aHO3S6|sex:not available|strain:AB                 NextSeq 500 sequencing; RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae E MTAB 11505:Sv2aHO3S6 s Sv2aHO3S6 s RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae 6 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled per sample. Total RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. TruSeq RNA Seq sample preparation kit was used to prepare sequencing library of mRNA in accordance with the manufacturer guidelines. Experimental Factor: genotype:sv2a / RNA-Seq TRANSCRIPTOMIC PolyA SINGLE ILLUMINA NextSeq 500   ERP135966 NextSeq 500 sequencing; RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae ENA FIRST PUBLIC:2022 04 21|ENA LAST UPDATE:2022 04 21 sv2aHO3S6L003-1.fastq.gz fastq 722810562.0 9570364.0 E MTAB 11505:sv2aHO3S6L003 0:75.53 1:0 A:178442845;C:173192786;G:169595085;T:201465522;N:114324 75 0     178442845 173192786 169595085 201465522 114324 ERX8620330 ERS10857218 ERA9644804 Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg|European Nucleotide Archive Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg|European Nucleotide Archive 1 0.94918   0.13979   0.66902   0.47572   75   B   usable mapping rate illumina nextseq unknown poly_a trueseq bulk unknown unknown   Belgium 2022-04-21 Larval Larval Head Nervous System
10434 10434 ERR9077181 ERX8620330 ERS10857218 ERP135966 PRJEB51339 RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae E-MTAB-11505 Transcriptome Analysis Transcriptome analysis of the heads of 6 dpf sv2a / sv2a+/ and sv2a+/+ zebrafish larvae to provide insights into the neuropathological processes underlying the observed epileptic phenotype in sv2a / zebrafish larvae. ENA FIRST PUBLIC:2022 04 21|ENA LAST UPDATE:2022 04 21   Protocols: 6 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled per sample. Total RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. TruSeq RNA Seq sample preparation kit was used to prepare sequencing library of mRNA in accordance with the manufacturer guidelines. Sv2aHO3S6 SAMEA13254175 Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg ENA first public:2022 04 21|ENA last update:2022 04 21|External Id:SAMEA13254175|INSDC center alias:Laboratory for Molecular Biodiscovery KU Leuven Campus Gasthuisberg|INSDC center name:Laboratory for Molecular Biodiscovery KU Leuven Campus Gasthuisberg|INSDC first public:2022 04 21T00:32:07Z|INSDC last update:2022 04 21T00:32:07Z|INSDC status:public|Submitter Id:E MTAB 11505:Sv2aHO3S6|age:6|broker name:ArrayExpress|common name:zebrafish|developmental stage:larval stage|genotype:sv2a / |individual:pool of 10 heads|organism part:head|sample name:E MTAB 11505:Sv2aHO3S6|sex:not available|strain:AB                 NextSeq 500 sequencing; RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae E MTAB 11505:Sv2aHO3S6 s Sv2aHO3S6 s RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae 6 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled per sample. Total RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. TruSeq RNA Seq sample preparation kit was used to prepare sequencing library of mRNA in accordance with the manufacturer guidelines. Experimental Factor: genotype:sv2a / RNA-Seq TRANSCRIPTOMIC PolyA SINGLE ILLUMINA NextSeq 500   ERP135966 NextSeq 500 sequencing; RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae ENA FIRST PUBLIC:2022 04 21|ENA LAST UPDATE:2022 04 21 sv2aHO3S6L004-1.fastq.gz fastq 732990507.0 9705054.0 E MTAB 11505:sv2aHO3S6L004 0:75.53 1:0 A:180951130;C:175567778;G:172037542;T:204323488;N:110569 75 0     180951130 175567778 172037542 204323488 110569 ERX8620330 ERS10857218 ERA9644804 Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg|European Nucleotide Archive Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg|European Nucleotide Archive 1 0.94812   0.13893   0.67085   0.47502   75   B   usable mapping rate illumina nextseq unknown poly_a trueseq bulk unknown unknown   Belgium 2022-04-21 Larval Larval Head Nervous System
10435 10435 ERR9077174 ERX8620329 ERS10857217 ERP135966 PRJEB51339 RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae E-MTAB-11505 Transcriptome Analysis Transcriptome analysis of the heads of 6 dpf sv2a / sv2a+/ and sv2a+/+ zebrafish larvae to provide insights into the neuropathological processes underlying the observed epileptic phenotype in sv2a / zebrafish larvae. ENA FIRST PUBLIC:2022 04 21|ENA LAST UPDATE:2022 04 21   Protocols: 6 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled per sample. Total RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. TruSeq RNA Seq sample preparation kit was used to prepare sequencing library of mRNA in accordance with the manufacturer guidelines. Sv2aHET7S9 SAMEA13254174 Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg ENA first public:2022 04 21|ENA last update:2022 04 21|External Id:SAMEA13254174|INSDC center alias:Laboratory for Molecular Biodiscovery KU Leuven Campus Gasthuisberg|INSDC center name:Laboratory for Molecular Biodiscovery KU Leuven Campus Gasthuisberg|INSDC first public:2022 04 21T00:32:07Z|INSDC last update:2022 04 21T00:32:07Z|INSDC status:public|Submitter Id:E MTAB 11505:Sv2aHET7S9|age:6|broker name:ArrayExpress|common name:zebrafish|developmental stage:larval stage|genotype:sv2a+/ |individual:pool of 10 heads|organism part:head|sample name:E MTAB 11505:Sv2aHET7S9|sex:not available|strain:AB                 NextSeq 500 sequencing; RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae E MTAB 11505:Sv2aHET7S9 s Sv2aHET7S9 s RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae 6 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled per sample. Total RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. TruSeq RNA Seq sample preparation kit was used to prepare sequencing library of mRNA in accordance with the manufacturer guidelines. Experimental Factor: genotype:sv2a+/ RNA-Seq TRANSCRIPTOMIC PolyA SINGLE ILLUMINA NextSeq 500   ERP135966 NextSeq 500 sequencing; RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae ENA FIRST PUBLIC:2022 04 21|ENA LAST UPDATE:2022 04 21 sv2aHET7S9L001-1.fastq.gz fastq 773209432.0 10238087.0 E MTAB 11505:sv2aHET7S9L001 0:75.52 1:0 A:191962953;C:184699376;G:180774008;T:215620759;N:152336 75 0     191962953 184699376 180774008 215620759 152336 ERX8620329 ERS10857217 ERA9644804 Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg|European Nucleotide Archive Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg|European Nucleotide Archive 1 0.95047   0.12485   0.65705   0.4775   76   B   usable mapping rate illumina nextseq unknown poly_a trueseq bulk unknown unknown   Belgium 2022-04-21 Larval Larval Head Nervous System
10436 10436 ERR9077175 ERX8620329 ERS10857217 ERP135966 PRJEB51339 RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae E-MTAB-11505 Transcriptome Analysis Transcriptome analysis of the heads of 6 dpf sv2a / sv2a+/ and sv2a+/+ zebrafish larvae to provide insights into the neuropathological processes underlying the observed epileptic phenotype in sv2a / zebrafish larvae. ENA FIRST PUBLIC:2022 04 21|ENA LAST UPDATE:2022 04 21   Protocols: 6 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled per sample. Total RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. TruSeq RNA Seq sample preparation kit was used to prepare sequencing library of mRNA in accordance with the manufacturer guidelines. Sv2aHET7S9 SAMEA13254174 Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg ENA first public:2022 04 21|ENA last update:2022 04 21|External Id:SAMEA13254174|INSDC center alias:Laboratory for Molecular Biodiscovery KU Leuven Campus Gasthuisberg|INSDC center name:Laboratory for Molecular Biodiscovery KU Leuven Campus Gasthuisberg|INSDC first public:2022 04 21T00:32:07Z|INSDC last update:2022 04 21T00:32:07Z|INSDC status:public|Submitter Id:E MTAB 11505:Sv2aHET7S9|age:6|broker name:ArrayExpress|common name:zebrafish|developmental stage:larval stage|genotype:sv2a+/ |individual:pool of 10 heads|organism part:head|sample name:E MTAB 11505:Sv2aHET7S9|sex:not available|strain:AB                 NextSeq 500 sequencing; RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae E MTAB 11505:Sv2aHET7S9 s Sv2aHET7S9 s RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae 6 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled per sample. Total RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. TruSeq RNA Seq sample preparation kit was used to prepare sequencing library of mRNA in accordance with the manufacturer guidelines. Experimental Factor: genotype:sv2a+/ RNA-Seq TRANSCRIPTOMIC PolyA SINGLE ILLUMINA NextSeq 500   ERP135966 NextSeq 500 sequencing; RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae ENA FIRST PUBLIC:2022 04 21|ENA LAST UPDATE:2022 04 21 sv2aHET7S9L002-1.fastq.gz fastq 773106152.0 10236677.0 E MTAB 11505:sv2aHET7S9L002 0:75.52 1:0 A:191812833;C:184676419;G:180997547;T:215473732;N:145621 75 0     191812833 184676419 180997547 215473732 145621 ERX8620329 ERS10857217 ERA9644804 Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg|European Nucleotide Archive Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg|European Nucleotide Archive 1 0.95016   0.12464   0.65482   0.47419   76   B   usable mapping rate illumina nextseq unknown poly_a trueseq bulk unknown unknown   Belgium 2022-04-21 Larval Larval Head Nervous System
10437 10437 ERR9077176 ERX8620329 ERS10857217 ERP135966 PRJEB51339 RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae E-MTAB-11505 Transcriptome Analysis Transcriptome analysis of the heads of 6 dpf sv2a / sv2a+/ and sv2a+/+ zebrafish larvae to provide insights into the neuropathological processes underlying the observed epileptic phenotype in sv2a / zebrafish larvae. ENA FIRST PUBLIC:2022 04 21|ENA LAST UPDATE:2022 04 21   Protocols: 6 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled per sample. Total RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. TruSeq RNA Seq sample preparation kit was used to prepare sequencing library of mRNA in accordance with the manufacturer guidelines. Sv2aHET7S9 SAMEA13254174 Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg ENA first public:2022 04 21|ENA last update:2022 04 21|External Id:SAMEA13254174|INSDC center alias:Laboratory for Molecular Biodiscovery KU Leuven Campus Gasthuisberg|INSDC center name:Laboratory for Molecular Biodiscovery KU Leuven Campus Gasthuisberg|INSDC first public:2022 04 21T00:32:07Z|INSDC last update:2022 04 21T00:32:07Z|INSDC status:public|Submitter Id:E MTAB 11505:Sv2aHET7S9|age:6|broker name:ArrayExpress|common name:zebrafish|developmental stage:larval stage|genotype:sv2a+/ |individual:pool of 10 heads|organism part:head|sample name:E MTAB 11505:Sv2aHET7S9|sex:not available|strain:AB                 NextSeq 500 sequencing; RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae E MTAB 11505:Sv2aHET7S9 s Sv2aHET7S9 s RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae 6 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled per sample. Total RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. TruSeq RNA Seq sample preparation kit was used to prepare sequencing library of mRNA in accordance with the manufacturer guidelines. Experimental Factor: genotype:sv2a+/ RNA-Seq TRANSCRIPTOMIC PolyA SINGLE ILLUMINA NextSeq 500   ERP135966 NextSeq 500 sequencing; RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae ENA FIRST PUBLIC:2022 04 21|ENA LAST UPDATE:2022 04 21 sv2aHET7S9L003-1.fastq.gz fastq 783061051.0 10368445.0 E MTAB 11505:sv2aHET7S9L003 0:75.52 1:0 A:194289152;C:187108364;G:183177036;T:218370500;N:115999 75 0     194289152 187108364 183177036 218370500 115999 ERX8620329 ERS10857217 ERA9644804 Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg|European Nucleotide Archive Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg|European Nucleotide Archive 1 0.95172   0.12488   0.65445   0.48157   76   B   usable mapping rate illumina nextseq unknown poly_a trueseq bulk unknown unknown   Belgium 2022-04-21 Larval Larval Head Nervous System
10438 10438 ERR9077177 ERX8620329 ERS10857217 ERP135966 PRJEB51339 RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae E-MTAB-11505 Transcriptome Analysis Transcriptome analysis of the heads of 6 dpf sv2a / sv2a+/ and sv2a+/+ zebrafish larvae to provide insights into the neuropathological processes underlying the observed epileptic phenotype in sv2a / zebrafish larvae. ENA FIRST PUBLIC:2022 04 21|ENA LAST UPDATE:2022 04 21   Protocols: 6 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled per sample. Total RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. TruSeq RNA Seq sample preparation kit was used to prepare sequencing library of mRNA in accordance with the manufacturer guidelines. Sv2aHET7S9 SAMEA13254174 Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg ENA first public:2022 04 21|ENA last update:2022 04 21|External Id:SAMEA13254174|INSDC center alias:Laboratory for Molecular Biodiscovery KU Leuven Campus Gasthuisberg|INSDC center name:Laboratory for Molecular Biodiscovery KU Leuven Campus Gasthuisberg|INSDC first public:2022 04 21T00:32:07Z|INSDC last update:2022 04 21T00:32:07Z|INSDC status:public|Submitter Id:E MTAB 11505:Sv2aHET7S9|age:6|broker name:ArrayExpress|common name:zebrafish|developmental stage:larval stage|genotype:sv2a+/ |individual:pool of 10 heads|organism part:head|sample name:E MTAB 11505:Sv2aHET7S9|sex:not available|strain:AB                 NextSeq 500 sequencing; RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae E MTAB 11505:Sv2aHET7S9 s Sv2aHET7S9 s RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae 6 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled per sample. Total RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. TruSeq RNA Seq sample preparation kit was used to prepare sequencing library of mRNA in accordance with the manufacturer guidelines. Experimental Factor: genotype:sv2a+/ RNA-Seq TRANSCRIPTOMIC PolyA SINGLE ILLUMINA NextSeq 500   ERP135966 NextSeq 500 sequencing; RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae ENA FIRST PUBLIC:2022 04 21|ENA LAST UPDATE:2022 04 21 sv2aHET7S9L004-1.fastq.gz fastq 790150025.0 10462214.0 E MTAB 11505:sv2aHET7S9L004 0:75.52 1:0 A:196056500;C:188746833;G:184927588;T:220305922;N:113182 75 0     196056500 188746833 184927588 220305922 113182 ERX8620329 ERS10857217 ERA9644804 Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg|European Nucleotide Archive Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg|European Nucleotide Archive 1 0.95285   0.12478   0.65551   0.4763   76   B   usable mapping rate illumina nextseq unknown poly_a trueseq bulk unknown unknown   Belgium 2022-04-21 Larval Larval Head Nervous System
10439 10439 ERR9077170 ERX8620328 ERS10857216 ERP135966 PRJEB51339 RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae E-MTAB-11505 Transcriptome Analysis Transcriptome analysis of the heads of 6 dpf sv2a / sv2a+/ and sv2a+/+ zebrafish larvae to provide insights into the neuropathological processes underlying the observed epileptic phenotype in sv2a / zebrafish larvae. ENA FIRST PUBLIC:2022 04 21|ENA LAST UPDATE:2022 04 21   Protocols: 6 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled per sample. Total RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. TruSeq RNA Seq sample preparation kit was used to prepare sequencing library of mRNA in accordance with the manufacturer guidelines. Sv2aHET4S5 SAMEA13254173 Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg ENA first public:2022 04 21|ENA last update:2022 04 21|External Id:SAMEA13254173|INSDC center alias:Laboratory for Molecular Biodiscovery KU Leuven Campus Gasthuisberg|INSDC center name:Laboratory for Molecular Biodiscovery KU Leuven Campus Gasthuisberg|INSDC first public:2022 04 21T00:32:07Z|INSDC last update:2022 04 21T00:32:07Z|INSDC status:public|Submitter Id:E MTAB 11505:Sv2aHET4S5|age:6|broker name:ArrayExpress|common name:zebrafish|developmental stage:larval stage|genotype:sv2a+/ |individual:pool of 10 heads|organism part:head|sample name:E MTAB 11505:Sv2aHET4S5|sex:not available|strain:AB                 NextSeq 500 sequencing; RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae E MTAB 11505:Sv2aHET4S5 s Sv2aHET4S5 s RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae 6 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled per sample. Total RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. TruSeq RNA Seq sample preparation kit was used to prepare sequencing library of mRNA in accordance with the manufacturer guidelines. Experimental Factor: genotype:sv2a+/ RNA-Seq TRANSCRIPTOMIC PolyA SINGLE ILLUMINA NextSeq 500   ERP135966 NextSeq 500 sequencing; RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae ENA FIRST PUBLIC:2022 04 21|ENA LAST UPDATE:2022 04 21 sv2aHET4S5L001-1.fastq.gz fastq 685650097.0 9076481.0 E MTAB 11505:sv2aHET4S5L001 0:75.54 1:0 A:161812875;C:167870520;G:166985310;T:188850530;N:130862 75 0     161812875 167870520 166985310 188850530 130862 ERX8620328 ERS10857216 ERA9644804 Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg|European Nucleotide Archive Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg|European Nucleotide Archive 1 0.95733   0.09974   0.65691   0.47392   76   B   usable mapping rate illumina nextseq unknown poly_a trueseq bulk unknown unknown   Belgium 2022-04-21 Larval Larval Head Nervous System
10440 10440 ERR9077171 ERX8620328 ERS10857216 ERP135966 PRJEB51339 RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae E-MTAB-11505 Transcriptome Analysis Transcriptome analysis of the heads of 6 dpf sv2a / sv2a+/ and sv2a+/+ zebrafish larvae to provide insights into the neuropathological processes underlying the observed epileptic phenotype in sv2a / zebrafish larvae. ENA FIRST PUBLIC:2022 04 21|ENA LAST UPDATE:2022 04 21   Protocols: 6 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled per sample. Total RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. TruSeq RNA Seq sample preparation kit was used to prepare sequencing library of mRNA in accordance with the manufacturer guidelines. Sv2aHET4S5 SAMEA13254173 Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg ENA first public:2022 04 21|ENA last update:2022 04 21|External Id:SAMEA13254173|INSDC center alias:Laboratory for Molecular Biodiscovery KU Leuven Campus Gasthuisberg|INSDC center name:Laboratory for Molecular Biodiscovery KU Leuven Campus Gasthuisberg|INSDC first public:2022 04 21T00:32:07Z|INSDC last update:2022 04 21T00:32:07Z|INSDC status:public|Submitter Id:E MTAB 11505:Sv2aHET4S5|age:6|broker name:ArrayExpress|common name:zebrafish|developmental stage:larval stage|genotype:sv2a+/ |individual:pool of 10 heads|organism part:head|sample name:E MTAB 11505:Sv2aHET4S5|sex:not available|strain:AB                 NextSeq 500 sequencing; RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae E MTAB 11505:Sv2aHET4S5 s Sv2aHET4S5 s RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae 6 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled per sample. Total RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. TruSeq RNA Seq sample preparation kit was used to prepare sequencing library of mRNA in accordance with the manufacturer guidelines. Experimental Factor: genotype:sv2a+/ RNA-Seq TRANSCRIPTOMIC PolyA SINGLE ILLUMINA NextSeq 500   ERP135966 NextSeq 500 sequencing; RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae ENA FIRST PUBLIC:2022 04 21|ENA LAST UPDATE:2022 04 21 sv2aHET4S5L002-1.fastq.gz fastq 684402241.0 9059974.0 E MTAB 11505:sv2aHET4S5L002 0:75.54 1:0 A:161493428;C:167520248;G:166882054;T:188383816;N:122695 75 0     161493428 167520248 166882054 188383816 122695 ERX8620328 ERS10857216 ERA9644804 Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg|European Nucleotide Archive Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg|European Nucleotide Archive 1 0.95537   0.09915   0.65719   0.48261   76   B   usable mapping rate illumina nextseq unknown poly_a trueseq bulk unknown unknown   Belgium 2022-04-21 Larval Larval Head Nervous System
10441 10441 ERR9077172 ERX8620328 ERS10857216 ERP135966 PRJEB51339 RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae E-MTAB-11505 Transcriptome Analysis Transcriptome analysis of the heads of 6 dpf sv2a / sv2a+/ and sv2a+/+ zebrafish larvae to provide insights into the neuropathological processes underlying the observed epileptic phenotype in sv2a / zebrafish larvae. ENA FIRST PUBLIC:2022 04 21|ENA LAST UPDATE:2022 04 21   Protocols: 6 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled per sample. Total RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. TruSeq RNA Seq sample preparation kit was used to prepare sequencing library of mRNA in accordance with the manufacturer guidelines. Sv2aHET4S5 SAMEA13254173 Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg ENA first public:2022 04 21|ENA last update:2022 04 21|External Id:SAMEA13254173|INSDC center alias:Laboratory for Molecular Biodiscovery KU Leuven Campus Gasthuisberg|INSDC center name:Laboratory for Molecular Biodiscovery KU Leuven Campus Gasthuisberg|INSDC first public:2022 04 21T00:32:07Z|INSDC last update:2022 04 21T00:32:07Z|INSDC status:public|Submitter Id:E MTAB 11505:Sv2aHET4S5|age:6|broker name:ArrayExpress|common name:zebrafish|developmental stage:larval stage|genotype:sv2a+/ |individual:pool of 10 heads|organism part:head|sample name:E MTAB 11505:Sv2aHET4S5|sex:not available|strain:AB                 NextSeq 500 sequencing; RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae E MTAB 11505:Sv2aHET4S5 s Sv2aHET4S5 s RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae 6 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled per sample. Total RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. TruSeq RNA Seq sample preparation kit was used to prepare sequencing library of mRNA in accordance with the manufacturer guidelines. Experimental Factor: genotype:sv2a+/ RNA-Seq TRANSCRIPTOMIC PolyA SINGLE ILLUMINA NextSeq 500   ERP135966 NextSeq 500 sequencing; RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae ENA FIRST PUBLIC:2022 04 21|ENA LAST UPDATE:2022 04 21 sv2aHET4S5L003-1.fastq.gz fastq 694099126.0 9188245.0 E MTAB 11505:sv2aHET4S5L003 0:75.54 1:0 A:163727378;C:169989210;G:169143224;T:191137588;N:101726 75 0     163727378 169989210 169143224 191137588 101726 ERX8620328 ERS10857216 ERA9644804 Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg|European Nucleotide Archive Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg|European Nucleotide Archive 1 0.95629   0.09861   0.65705   0.47187   75   B   usable mapping rate illumina nextseq unknown poly_a trueseq bulk unknown unknown   Belgium 2022-04-21 Larval Larval Head Nervous System
10442 10442 ERR9077173 ERX8620328 ERS10857216 ERP135966 PRJEB51339 RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae E-MTAB-11505 Transcriptome Analysis Transcriptome analysis of the heads of 6 dpf sv2a / sv2a+/ and sv2a+/+ zebrafish larvae to provide insights into the neuropathological processes underlying the observed epileptic phenotype in sv2a / zebrafish larvae. ENA FIRST PUBLIC:2022 04 21|ENA LAST UPDATE:2022 04 21   Protocols: 6 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled per sample. Total RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. TruSeq RNA Seq sample preparation kit was used to prepare sequencing library of mRNA in accordance with the manufacturer guidelines. Sv2aHET4S5 SAMEA13254173 Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg ENA first public:2022 04 21|ENA last update:2022 04 21|External Id:SAMEA13254173|INSDC center alias:Laboratory for Molecular Biodiscovery KU Leuven Campus Gasthuisberg|INSDC center name:Laboratory for Molecular Biodiscovery KU Leuven Campus Gasthuisberg|INSDC first public:2022 04 21T00:32:07Z|INSDC last update:2022 04 21T00:32:07Z|INSDC status:public|Submitter Id:E MTAB 11505:Sv2aHET4S5|age:6|broker name:ArrayExpress|common name:zebrafish|developmental stage:larval stage|genotype:sv2a+/ |individual:pool of 10 heads|organism part:head|sample name:E MTAB 11505:Sv2aHET4S5|sex:not available|strain:AB                 NextSeq 500 sequencing; RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae E MTAB 11505:Sv2aHET4S5 s Sv2aHET4S5 s RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae 6 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled per sample. Total RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. TruSeq RNA Seq sample preparation kit was used to prepare sequencing library of mRNA in accordance with the manufacturer guidelines. Experimental Factor: genotype:sv2a+/ RNA-Seq TRANSCRIPTOMIC PolyA SINGLE ILLUMINA NextSeq 500   ERP135966 NextSeq 500 sequencing; RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae ENA FIRST PUBLIC:2022 04 21|ENA LAST UPDATE:2022 04 21 sv2aHET4S5L004-1.fastq.gz fastq 698753836.0 9249820.0 E MTAB 11505:sv2aHET4S5L004 0:75.54 1:0 A:164809473;C:171057633;G:170349692;T:192441413;N:95625 75 0     164809473 171057633 170349692 192441413 95625 ERX8620328 ERS10857216 ERA9644804 Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg|European Nucleotide Archive Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg|European Nucleotide Archive 1 0.95613   0.09885   0.65798   0.47227   76   B   usable mapping rate illumina nextseq unknown poly_a trueseq bulk unknown unknown   Belgium 2022-04-21 Larval Larval Head Nervous System
10443 10443 ERR9077166 ERX8620327 ERS10857215 ERP135966 PRJEB51339 RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae E-MTAB-11505 Transcriptome Analysis Transcriptome analysis of the heads of 6 dpf sv2a / sv2a+/ and sv2a+/+ zebrafish larvae to provide insights into the neuropathological processes underlying the observed epileptic phenotype in sv2a / zebrafish larvae. ENA FIRST PUBLIC:2022 04 21|ENA LAST UPDATE:2022 04 21   Protocols: 6 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled per sample. Total RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. TruSeq RNA Seq sample preparation kit was used to prepare sequencing library of mRNA in accordance with the manufacturer guidelines. Sv2aHET3S4 SAMEA13254172 Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg ENA first public:2022 04 21|ENA last update:2022 04 21|External Id:SAMEA13254172|INSDC center alias:Laboratory for Molecular Biodiscovery KU Leuven Campus Gasthuisberg|INSDC center name:Laboratory for Molecular Biodiscovery KU Leuven Campus Gasthuisberg|INSDC first public:2022 04 21T00:32:07Z|INSDC last update:2022 04 21T00:32:07Z|INSDC status:public|Submitter Id:E MTAB 11505:Sv2aHET3S4|age:6|broker name:ArrayExpress|common name:zebrafish|developmental stage:larval stage|genotype:sv2a+/ |individual:pool of 10 heads|organism part:head|sample name:E MTAB 11505:Sv2aHET3S4|sex:not available|strain:AB                 NextSeq 500 sequencing; RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae E MTAB 11505:Sv2aHET3S4 s Sv2aHET3S4 s RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae 6 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled per sample. Total RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. TruSeq RNA Seq sample preparation kit was used to prepare sequencing library of mRNA in accordance with the manufacturer guidelines. Experimental Factor: genotype:sv2a+/ RNA-Seq TRANSCRIPTOMIC PolyA SINGLE ILLUMINA NextSeq 500   ERP135966 NextSeq 500 sequencing; RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae ENA FIRST PUBLIC:2022 04 21|ENA LAST UPDATE:2022 04 21 sv2aHET3S4L001-1.fastq.gz fastq 691298605.0 9151512.0 E MTAB 11505:sv2aHET3S4L001 0:75.54 1:0 A:164743919;C:170752099;G:164763621;T:190912044;N:126922 75 0     164743919 170752099 164763621 190912044 126922 ERX8620327 ERS10857215 ERA9644804 Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg|European Nucleotide Archive Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg|European Nucleotide Archive 1 0.95684   0.09604   0.6603   0.47285   76   B   usable mapping rate illumina nextseq unknown poly_a trueseq bulk unknown unknown   Belgium 2022-04-21 Larval Larval Head Nervous System
10444 10444 ERR9077167 ERX8620327 ERS10857215 ERP135966 PRJEB51339 RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae E-MTAB-11505 Transcriptome Analysis Transcriptome analysis of the heads of 6 dpf sv2a / sv2a+/ and sv2a+/+ zebrafish larvae to provide insights into the neuropathological processes underlying the observed epileptic phenotype in sv2a / zebrafish larvae. ENA FIRST PUBLIC:2022 04 21|ENA LAST UPDATE:2022 04 21   Protocols: 6 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled per sample. Total RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. TruSeq RNA Seq sample preparation kit was used to prepare sequencing library of mRNA in accordance with the manufacturer guidelines. Sv2aHET3S4 SAMEA13254172 Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg ENA first public:2022 04 21|ENA last update:2022 04 21|External Id:SAMEA13254172|INSDC center alias:Laboratory for Molecular Biodiscovery KU Leuven Campus Gasthuisberg|INSDC center name:Laboratory for Molecular Biodiscovery KU Leuven Campus Gasthuisberg|INSDC first public:2022 04 21T00:32:07Z|INSDC last update:2022 04 21T00:32:07Z|INSDC status:public|Submitter Id:E MTAB 11505:Sv2aHET3S4|age:6|broker name:ArrayExpress|common name:zebrafish|developmental stage:larval stage|genotype:sv2a+/ |individual:pool of 10 heads|organism part:head|sample name:E MTAB 11505:Sv2aHET3S4|sex:not available|strain:AB                 NextSeq 500 sequencing; RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae E MTAB 11505:Sv2aHET3S4 s Sv2aHET3S4 s RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae 6 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled per sample. Total RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. TruSeq RNA Seq sample preparation kit was used to prepare sequencing library of mRNA in accordance with the manufacturer guidelines. Experimental Factor: genotype:sv2a+/ RNA-Seq TRANSCRIPTOMIC PolyA SINGLE ILLUMINA NextSeq 500   ERP135966 NextSeq 500 sequencing; RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae ENA FIRST PUBLIC:2022 04 21|ENA LAST UPDATE:2022 04 21 sv2aHET3S4L002-1.fastq.gz fastq 694080975.0 9188259.0 E MTAB 11505:sv2aHET3S4L002 0:75.54 1:0 A:165336810;C:171397273;G:165632321;T:191591872;N:122699 75 0     165336810 171397273 165632321 191591872 122699 ERX8620327 ERS10857215 ERA9644804 Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg|European Nucleotide Archive Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg|European Nucleotide Archive 1 0.95612   0.09694   0.65993   0.46918   76   B   usable mapping rate illumina nextseq unknown poly_a trueseq bulk unknown unknown   Belgium 2022-04-21 Larval Larval Head Nervous System
10445 10445 ERR9077168 ERX8620327 ERS10857215 ERP135966 PRJEB51339 RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae E-MTAB-11505 Transcriptome Analysis Transcriptome analysis of the heads of 6 dpf sv2a / sv2a+/ and sv2a+/+ zebrafish larvae to provide insights into the neuropathological processes underlying the observed epileptic phenotype in sv2a / zebrafish larvae. ENA FIRST PUBLIC:2022 04 21|ENA LAST UPDATE:2022 04 21   Protocols: 6 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled per sample. Total RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. TruSeq RNA Seq sample preparation kit was used to prepare sequencing library of mRNA in accordance with the manufacturer guidelines. Sv2aHET3S4 SAMEA13254172 Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg ENA first public:2022 04 21|ENA last update:2022 04 21|External Id:SAMEA13254172|INSDC center alias:Laboratory for Molecular Biodiscovery KU Leuven Campus Gasthuisberg|INSDC center name:Laboratory for Molecular Biodiscovery KU Leuven Campus Gasthuisberg|INSDC first public:2022 04 21T00:32:07Z|INSDC last update:2022 04 21T00:32:07Z|INSDC status:public|Submitter Id:E MTAB 11505:Sv2aHET3S4|age:6|broker name:ArrayExpress|common name:zebrafish|developmental stage:larval stage|genotype:sv2a+/ |individual:pool of 10 heads|organism part:head|sample name:E MTAB 11505:Sv2aHET3S4|sex:not available|strain:AB                 NextSeq 500 sequencing; RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae E MTAB 11505:Sv2aHET3S4 s Sv2aHET3S4 s RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae 6 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled per sample. Total RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. TruSeq RNA Seq sample preparation kit was used to prepare sequencing library of mRNA in accordance with the manufacturer guidelines. Experimental Factor: genotype:sv2a+/ RNA-Seq TRANSCRIPTOMIC PolyA SINGLE ILLUMINA NextSeq 500   ERP135966 NextSeq 500 sequencing; RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae ENA FIRST PUBLIC:2022 04 21|ENA LAST UPDATE:2022 04 21 sv2aHET3S4L003-1.fastq.gz fastq 703689889.0 9315387.0 E MTAB 11505:sv2aHET3S4L003 0:75.54 1:0 A:167575230;C:173881977;G:167845574;T:194289403;N:97705 75 0     167575230 173881977 167845574 194289403 97705 ERX8620327 ERS10857215 ERA9644804 Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg|European Nucleotide Archive Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg|European Nucleotide Archive 1 0.9577   0.09608   0.66042   0.47022   74   B   usable mapping rate illumina nextseq unknown poly_a trueseq bulk unknown unknown   Belgium 2022-04-21 Larval Larval Head Nervous System
10446 10446 ERR9077169 ERX8620327 ERS10857215 ERP135966 PRJEB51339 RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae E-MTAB-11505 Transcriptome Analysis Transcriptome analysis of the heads of 6 dpf sv2a / sv2a+/ and sv2a+/+ zebrafish larvae to provide insights into the neuropathological processes underlying the observed epileptic phenotype in sv2a / zebrafish larvae. ENA FIRST PUBLIC:2022 04 21|ENA LAST UPDATE:2022 04 21   Protocols: 6 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled per sample. Total RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. TruSeq RNA Seq sample preparation kit was used to prepare sequencing library of mRNA in accordance with the manufacturer guidelines. Sv2aHET3S4 SAMEA13254172 Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg ENA first public:2022 04 21|ENA last update:2022 04 21|External Id:SAMEA13254172|INSDC center alias:Laboratory for Molecular Biodiscovery KU Leuven Campus Gasthuisberg|INSDC center name:Laboratory for Molecular Biodiscovery KU Leuven Campus Gasthuisberg|INSDC first public:2022 04 21T00:32:07Z|INSDC last update:2022 04 21T00:32:07Z|INSDC status:public|Submitter Id:E MTAB 11505:Sv2aHET3S4|age:6|broker name:ArrayExpress|common name:zebrafish|developmental stage:larval stage|genotype:sv2a+/ |individual:pool of 10 heads|organism part:head|sample name:E MTAB 11505:Sv2aHET3S4|sex:not available|strain:AB                 NextSeq 500 sequencing; RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae E MTAB 11505:Sv2aHET3S4 s Sv2aHET3S4 s RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae 6 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled per sample. Total RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. TruSeq RNA Seq sample preparation kit was used to prepare sequencing library of mRNA in accordance with the manufacturer guidelines. Experimental Factor: genotype:sv2a+/ RNA-Seq TRANSCRIPTOMIC PolyA SINGLE ILLUMINA NextSeq 500   ERP135966 NextSeq 500 sequencing; RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae ENA FIRST PUBLIC:2022 04 21|ENA LAST UPDATE:2022 04 21 sv2aHET3S4L004-1.fastq.gz fastq 712116538.0 9426961.0 E MTAB 11505:sv2aHET3S4L004 0:75.54 1:0 A:169598596;C:175885948;G:169866534;T:196669400;N:96060 75 0     169598596 175885948 169866534 196669400 96060 ERX8620327 ERS10857215 ERA9644804 Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg|European Nucleotide Archive Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg|European Nucleotide Archive 1 0.95734   0.09716   0.66054   0.47257   75   B   usable mapping rate illumina nextseq unknown poly_a trueseq bulk unknown unknown   Belgium 2022-04-21 Larval Larval Head Nervous System
10447 10447 ERR9077162 ERX8620326 ERS10857214 ERP135966 PRJEB51339 RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae E-MTAB-11505 Transcriptome Analysis Transcriptome analysis of the heads of 6 dpf sv2a / sv2a+/ and sv2a+/+ zebrafish larvae to provide insights into the neuropathological processes underlying the observed epileptic phenotype in sv2a / zebrafish larvae. ENA FIRST PUBLIC:2022 04 21|ENA LAST UPDATE:2022 04 21   Protocols: 6 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled per sample. Total RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. TruSeq RNA Seq sample preparation kit was used to prepare sequencing library of mRNA in accordance with the manufacturer guidelines. Sv2aHET2S3 SAMEA13254171 Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg ENA first public:2022 04 21|ENA last update:2022 04 21|External Id:SAMEA13254171|INSDC center alias:Laboratory for Molecular Biodiscovery KU Leuven Campus Gasthuisberg|INSDC center name:Laboratory for Molecular Biodiscovery KU Leuven Campus Gasthuisberg|INSDC first public:2022 04 21T00:32:07Z|INSDC last update:2022 04 21T00:32:07Z|INSDC status:public|Submitter Id:E MTAB 11505:Sv2aHET2S3|age:6|broker name:ArrayExpress|common name:zebrafish|developmental stage:larval stage|genotype:sv2a+/ |individual:pool of 10 heads|organism part:head|sample name:E MTAB 11505:Sv2aHET2S3|sex:not available|strain:AB                 NextSeq 500 sequencing; RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae E MTAB 11505:Sv2aHET2S3 s Sv2aHET2S3 s RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae 6 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled per sample. Total RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. TruSeq RNA Seq sample preparation kit was used to prepare sequencing library of mRNA in accordance with the manufacturer guidelines. Experimental Factor: genotype:sv2a+/ RNA-Seq TRANSCRIPTOMIC PolyA SINGLE ILLUMINA NextSeq 500   ERP135966 NextSeq 500 sequencing; RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae ENA FIRST PUBLIC:2022 04 21|ENA LAST UPDATE:2022 04 21 sv2aHET2S3L001-1.fastq.gz fastq 733440522.0 9709422.0 E MTAB 11505:sv2aHET2S3L001 0:75.54 1:0 A:173670000;C:181175353;G:175392793;T:203059256;N:143120 75 0     173670000 181175353 175392793 203059256 143120 ERX8620326 ERS10857214 ERA9644804 Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg|European Nucleotide Archive Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg|European Nucleotide Archive 1 0.95885   0.08758   0.65393   0.47249   76   B   usable mapping rate illumina nextseq unknown poly_a trueseq bulk unknown unknown   Belgium 2022-04-21 Larval Larval Head Nervous System
10448 10448 ERR9077163 ERX8620326 ERS10857214 ERP135966 PRJEB51339 RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae E-MTAB-11505 Transcriptome Analysis Transcriptome analysis of the heads of 6 dpf sv2a / sv2a+/ and sv2a+/+ zebrafish larvae to provide insights into the neuropathological processes underlying the observed epileptic phenotype in sv2a / zebrafish larvae. ENA FIRST PUBLIC:2022 04 21|ENA LAST UPDATE:2022 04 21   Protocols: 6 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled per sample. Total RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. TruSeq RNA Seq sample preparation kit was used to prepare sequencing library of mRNA in accordance with the manufacturer guidelines. Sv2aHET2S3 SAMEA13254171 Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg ENA first public:2022 04 21|ENA last update:2022 04 21|External Id:SAMEA13254171|INSDC center alias:Laboratory for Molecular Biodiscovery KU Leuven Campus Gasthuisberg|INSDC center name:Laboratory for Molecular Biodiscovery KU Leuven Campus Gasthuisberg|INSDC first public:2022 04 21T00:32:07Z|INSDC last update:2022 04 21T00:32:07Z|INSDC status:public|Submitter Id:E MTAB 11505:Sv2aHET2S3|age:6|broker name:ArrayExpress|common name:zebrafish|developmental stage:larval stage|genotype:sv2a+/ |individual:pool of 10 heads|organism part:head|sample name:E MTAB 11505:Sv2aHET2S3|sex:not available|strain:AB                 NextSeq 500 sequencing; RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae E MTAB 11505:Sv2aHET2S3 s Sv2aHET2S3 s RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae 6 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled per sample. Total RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. TruSeq RNA Seq sample preparation kit was used to prepare sequencing library of mRNA in accordance with the manufacturer guidelines. Experimental Factor: genotype:sv2a+/ RNA-Seq TRANSCRIPTOMIC PolyA SINGLE ILLUMINA NextSeq 500   ERP135966 NextSeq 500 sequencing; RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae ENA FIRST PUBLIC:2022 04 21|ENA LAST UPDATE:2022 04 21 sv2aHET2S3L002-1.fastq.gz fastq 732121929.0 9691967.0 E MTAB 11505:sv2aHET2S3L002 0:75.54 1:0 A:173332091;C:180805738;G:175271736;T:202574727;N:137637 75 0     173332091 180805738 175271736 202574727 137637 ERX8620326 ERS10857214 ERA9644804 Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg|European Nucleotide Archive Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg|European Nucleotide Archive 1 0.95775   0.08879   0.6564   0.4718   76   B   usable mapping rate illumina nextseq unknown poly_a trueseq bulk unknown unknown   Belgium 2022-04-21 Larval Larval Head Nervous System
10449 10449 ERR9077164 ERX8620326 ERS10857214 ERP135966 PRJEB51339 RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae E-MTAB-11505 Transcriptome Analysis Transcriptome analysis of the heads of 6 dpf sv2a / sv2a+/ and sv2a+/+ zebrafish larvae to provide insights into the neuropathological processes underlying the observed epileptic phenotype in sv2a / zebrafish larvae. ENA FIRST PUBLIC:2022 04 21|ENA LAST UPDATE:2022 04 21   Protocols: 6 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled per sample. Total RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. TruSeq RNA Seq sample preparation kit was used to prepare sequencing library of mRNA in accordance with the manufacturer guidelines. Sv2aHET2S3 SAMEA13254171 Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg ENA first public:2022 04 21|ENA last update:2022 04 21|External Id:SAMEA13254171|INSDC center alias:Laboratory for Molecular Biodiscovery KU Leuven Campus Gasthuisberg|INSDC center name:Laboratory for Molecular Biodiscovery KU Leuven Campus Gasthuisberg|INSDC first public:2022 04 21T00:32:07Z|INSDC last update:2022 04 21T00:32:07Z|INSDC status:public|Submitter Id:E MTAB 11505:Sv2aHET2S3|age:6|broker name:ArrayExpress|common name:zebrafish|developmental stage:larval stage|genotype:sv2a+/ |individual:pool of 10 heads|organism part:head|sample name:E MTAB 11505:Sv2aHET2S3|sex:not available|strain:AB                 NextSeq 500 sequencing; RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae E MTAB 11505:Sv2aHET2S3 s Sv2aHET2S3 s RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae 6 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled per sample. Total RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. TruSeq RNA Seq sample preparation kit was used to prepare sequencing library of mRNA in accordance with the manufacturer guidelines. Experimental Factor: genotype:sv2a+/ RNA-Seq TRANSCRIPTOMIC PolyA SINGLE ILLUMINA NextSeq 500   ERP135966 NextSeq 500 sequencing; RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae ENA FIRST PUBLIC:2022 04 21|ENA LAST UPDATE:2022 04 21 sv2aHET2S3L003-1.fastq.gz fastq 743488189.0 9842286.0 E MTAB 11505:sv2aHET2S3L003 0:75.54 1:0 A:175979238;C:183726319;G:177933958;T:205735955;N:112719 75 0     175979238 183726319 177933958 205735955 112719 ERX8620326 ERS10857214 ERA9644804 Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg|European Nucleotide Archive Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg|European Nucleotide Archive 1 0.9593   0.08716   0.65437   0.46976   75   B   usable mapping rate illumina nextseq unknown poly_a trueseq bulk unknown unknown   Belgium 2022-04-21 Larval Larval Head Nervous System
10450 10450 ERR9077165 ERX8620326 ERS10857214 ERP135966 PRJEB51339 RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae E-MTAB-11505 Transcriptome Analysis Transcriptome analysis of the heads of 6 dpf sv2a / sv2a+/ and sv2a+/+ zebrafish larvae to provide insights into the neuropathological processes underlying the observed epileptic phenotype in sv2a / zebrafish larvae. ENA FIRST PUBLIC:2022 04 21|ENA LAST UPDATE:2022 04 21   Protocols: 6 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled per sample. Total RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. TruSeq RNA Seq sample preparation kit was used to prepare sequencing library of mRNA in accordance with the manufacturer guidelines. Sv2aHET2S3 SAMEA13254171 Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg ENA first public:2022 04 21|ENA last update:2022 04 21|External Id:SAMEA13254171|INSDC center alias:Laboratory for Molecular Biodiscovery KU Leuven Campus Gasthuisberg|INSDC center name:Laboratory for Molecular Biodiscovery KU Leuven Campus Gasthuisberg|INSDC first public:2022 04 21T00:32:07Z|INSDC last update:2022 04 21T00:32:07Z|INSDC status:public|Submitter Id:E MTAB 11505:Sv2aHET2S3|age:6|broker name:ArrayExpress|common name:zebrafish|developmental stage:larval stage|genotype:sv2a+/ |individual:pool of 10 heads|organism part:head|sample name:E MTAB 11505:Sv2aHET2S3|sex:not available|strain:AB                 NextSeq 500 sequencing; RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae E MTAB 11505:Sv2aHET2S3 s Sv2aHET2S3 s RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae 6 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled per sample. Total RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. TruSeq RNA Seq sample preparation kit was used to prepare sequencing library of mRNA in accordance with the manufacturer guidelines. Experimental Factor: genotype:sv2a+/ RNA-Seq TRANSCRIPTOMIC PolyA SINGLE ILLUMINA NextSeq 500   ERP135966 NextSeq 500 sequencing; RNA seq experiment of sv2a / sv2a+/ and sv2a+/+ zebrafish larvae ENA FIRST PUBLIC:2022 04 21|ENA LAST UPDATE:2022 04 21 sv2aHET2S3L004-1.fastq.gz fastq 747723481.0 9898304.0 E MTAB 11505:sv2aHET2S3L004 0:75.54 1:0 A:176935451;C:184684782;G:179046040;T:206946124;N:111084 75 0     176935451 184684782 179046040 206946124 111084 ERX8620326 ERS10857214 ERA9644804 Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg|European Nucleotide Archive Laboratory for Molecular Biodiscovery, KU Leuven, Campus Gasthuisberg|European Nucleotide Archive 1 0.95934   0.08676   0.65533   0.47523   75   B   usable mapping rate illumina nextseq unknown poly_a trueseq bulk unknown unknown   Belgium 2022-04-21 Larval Larval Head Nervous System
11025 11025 ERR9787516 ERX9334792 ERS12088364 ERP137937 PRJEB53153 RNA seq of depdc5 / tsc2 / depdc5 / x tsc2 / and wildtype zebrafish larvae E-MTAB-11776 Transcriptome Analysis Transcriptome analysis of the heads of 5 dpf epdc5 / tsc2 / depdc5 / x tsc2 / and wildtype zebrafish larvae to provide insights into the neuropathological processes underlying the observed epileptic phenotype in sv2a / zebrafish larvae. ENA FIRST PUBLIC:2022 09 12|ENA LAST UPDATE:2022 09 12   Protocols: 5 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled in quadruplicate per genotype. otal RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. Illumina TruSeq Stranded mRNA Seq sample preparation kit was used to prepare the mRNA sequencing library according to the manufacturer guidelines. Sample 9 SAMEA14460887 Laboratory for Molecular Biodiscovery, KU Leuven ENA FIRST PUBLIC:2022 09 12|ENA LAST UPDATE:2022 09 12|External Id:SAMEA14460887|INSDC center alias:Laboratory for Molecular Biodiscovery KU Leuven|INSDC center name:Laboratory for Molecular Biodiscovery KU Leuven|INSDC first public:2022 09 12T12:19:24Z|INSDC last update:2022 09 12T12:19:24Z|INSDC status:public|Submitter Id:E MTAB 11776:Sample 9|age:5|broker name:ArrayExpress|common name:zebrafish|developmental stage:larval stage|genotype:tsc2 / |individual:pool of 10 larvae|isolate:not applicable|organism part:head|sample name:E MTAB 11776:Sample 9|scientific name:Danio rerio|sex:non available|strain:AB                 Illumina NovaSeq 6000 paired end sequencing; RNA seq of depdc5 / tsc2 / depdc5 / x tsc2 / and wildtype zebrafish larvae E MTAB 11776:Sample 9 p Sample 9 p RNA seq of depdc5 / tsc2 / depdc5 / x tsc2 / and wildtype zebrafish larvae 5 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled in quadruplicate per genotype. otal RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. Illumina TruSeq Stranded mRNA Seq sample preparation kit was used to prepare the mRNA sequencing library according to the manufacturer guidelines. Experimental Factor: genotype:tsc2 / RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP137937 Illumina NovaSeq 6000 paired end sequencing; RNA seq of depdc5 / tsc2 / depdc5 / x tsc2 / and wildtype zebrafish larvae ENA FIRST PUBLIC:2022 09 12|ENA LAST UPDATE:2022 09 12 TSCHOM1_1.fastq.gz TSCHOM1_2.fastq.gz fastq fastq 6360351174.0 31486887.0 E MTAB 11776:TSCHOM1 0:101 1:101 A:1750731340;C:1410426576;G:1460021447;T:1739131898;N:39913 101 101     1750731340 1410426576 1460021447 1739131898 39913 ERX9334792 ERS12088364 ERA14756702 Laboratory for Molecular Biodiscovery, KU Leuven|European Nucleotide Archive Laboratory for Molecular Biodiscovery, KU Leuven|European Nucleotide Archive 2 0.93517 0.92417 0.15551 0.15199 0.67736 0.6786 0.48763 0.48988 101 101 B B biological fallback assumption illumina novaseq_era unknown poly_a trueseq bulk unknown unknown   Belgium 2022-09-12 Larval Larval Head Nervous System
11026 11026 ERR9787515 ERX9334791 ERS12088363 ERP137937 PRJEB53153 RNA seq of depdc5 / tsc2 / depdc5 / x tsc2 / and wildtype zebrafish larvae E-MTAB-11776 Transcriptome Analysis Transcriptome analysis of the heads of 5 dpf epdc5 / tsc2 / depdc5 / x tsc2 / and wildtype zebrafish larvae to provide insights into the neuropathological processes underlying the observed epileptic phenotype in sv2a / zebrafish larvae. ENA FIRST PUBLIC:2022 09 12|ENA LAST UPDATE:2022 09 12   Protocols: 5 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled in quadruplicate per genotype. otal RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. Illumina TruSeq Stranded mRNA Seq sample preparation kit was used to prepare the mRNA sequencing library according to the manufacturer guidelines. Sample 8 SAMEA14460886 Laboratory for Molecular Biodiscovery, KU Leuven ENA FIRST PUBLIC:2022 09 12|ENA LAST UPDATE:2022 09 12|External Id:SAMEA14460886|INSDC center alias:Laboratory for Molecular Biodiscovery KU Leuven|INSDC center name:Laboratory for Molecular Biodiscovery KU Leuven|INSDC first public:2022 09 12T12:19:24Z|INSDC last update:2022 09 12T12:19:24Z|INSDC status:public|Submitter Id:E MTAB 11776:Sample 8|age:5|broker name:ArrayExpress|common name:zebrafish|developmental stage:larval stage|genotype:depdc5 / |individual:pool of 10 larvae|isolate:not applicable|organism part:head|sample name:E MTAB 11776:Sample 8|scientific name:Danio rerio|sex:non available|strain:AB                 Illumina NovaSeq 6000 paired end sequencing; RNA seq of depdc5 / tsc2 / depdc5 / x tsc2 / and wildtype zebrafish larvae E MTAB 11776:Sample 8 p Sample 8 p RNA seq of depdc5 / tsc2 / depdc5 / x tsc2 / and wildtype zebrafish larvae 5 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled in quadruplicate per genotype. otal RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. Illumina TruSeq Stranded mRNA Seq sample preparation kit was used to prepare the mRNA sequencing library according to the manufacturer guidelines. Experimental Factor: genotype:depdc5 / RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP137937 Illumina NovaSeq 6000 paired end sequencing; RNA seq of depdc5 / tsc2 / depdc5 / x tsc2 / and wildtype zebrafish larvae ENA FIRST PUBLIC:2022 09 12|ENA LAST UPDATE:2022 09 12 DEPHOM4_1.fastq.gz DEPHOM4_2.fastq.gz fastq fastq 6195443828.0 30670514.0 E MTAB 11776:DEPHOM4 0:101 1:101 A:1524344281;C:1573560980;G:1585093004;T:1512406843;N:38720 101 101     1524344281 1573560980 1585093004 1512406843 38720 ERX9334791 ERS12088363 ERA14756702 Laboratory for Molecular Biodiscovery, KU Leuven|European Nucleotide Archive Laboratory for Molecular Biodiscovery, KU Leuven|European Nucleotide Archive 2 0.95088 0.9542 0.17631 0.17203 0.71121 0.70981 0.56015 0.57999 101 101 B B biological fallback assumption illumina novaseq_era unknown poly_a trueseq bulk unknown unknown   Belgium 2022-09-12 Larval Larval Head Nervous System
11027 11027 ERR9787514 ERX9334790 ERS12088362 ERP137937 PRJEB53153 RNA seq of depdc5 / tsc2 / depdc5 / x tsc2 / and wildtype zebrafish larvae E-MTAB-11776 Transcriptome Analysis Transcriptome analysis of the heads of 5 dpf epdc5 / tsc2 / depdc5 / x tsc2 / and wildtype zebrafish larvae to provide insights into the neuropathological processes underlying the observed epileptic phenotype in sv2a / zebrafish larvae. ENA FIRST PUBLIC:2022 09 12|ENA LAST UPDATE:2022 09 12   Protocols: 5 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled in quadruplicate per genotype. otal RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. Illumina TruSeq Stranded mRNA Seq sample preparation kit was used to prepare the mRNA sequencing library according to the manufacturer guidelines. Sample 7 SAMEA14460885 Laboratory for Molecular Biodiscovery, KU Leuven ENA FIRST PUBLIC:2022 09 12|ENA LAST UPDATE:2022 09 12|External Id:SAMEA14460885|INSDC center alias:Laboratory for Molecular Biodiscovery KU Leuven|INSDC center name:Laboratory for Molecular Biodiscovery KU Leuven|INSDC first public:2022 09 12T12:19:23Z|INSDC last update:2022 09 12T12:19:23Z|INSDC status:public|Submitter Id:E MTAB 11776:Sample 7|age:5|broker name:ArrayExpress|common name:zebrafish|developmental stage:larval stage|genotype:depdc5 / |individual:pool of 10 larvae|isolate:not applicable|organism part:head|sample name:E MTAB 11776:Sample 7|scientific name:Danio rerio|sex:non available|strain:AB                 Illumina NovaSeq 6000 paired end sequencing; RNA seq of depdc5 / tsc2 / depdc5 / x tsc2 / and wildtype zebrafish larvae E MTAB 11776:Sample 7 p Sample 7 p RNA seq of depdc5 / tsc2 / depdc5 / x tsc2 / and wildtype zebrafish larvae 5 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled in quadruplicate per genotype. otal RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. Illumina TruSeq Stranded mRNA Seq sample preparation kit was used to prepare the mRNA sequencing library according to the manufacturer guidelines. Experimental Factor: genotype:depdc5 / RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP137937 Illumina NovaSeq 6000 paired end sequencing; RNA seq of depdc5 / tsc2 / depdc5 / x tsc2 / and wildtype zebrafish larvae ENA FIRST PUBLIC:2022 09 12|ENA LAST UPDATE:2022 09 12 DEPHOM7_1.fastq.gz DEPHOM7_2.fastq.gz fastq fastq 6201660378.0 30701289.0 E MTAB 11776:DEPHOM7 0:101 1:101 A:1699906420;C:1382805098;G:1427335171;T:1691574092;N:39597 101 101     1699906420 1382805098 1427335171 1691574092 39597 ERX9334790 ERS12088362 ERA14756702 Laboratory for Molecular Biodiscovery, KU Leuven|European Nucleotide Archive Laboratory for Molecular Biodiscovery, KU Leuven|European Nucleotide Archive 2 0.92781 0.92603 0.15556 0.15416 0.67965 0.67963 0.48209 0.48229 101 101 B B biological fallback assumption illumina novaseq_era unknown poly_a trueseq bulk unknown unknown   Belgium 2022-09-12 Larval Larval Head Nervous System
11028 11028 ERR9787513 ERX9334789 ERS12088361 ERP137937 PRJEB53153 RNA seq of depdc5 / tsc2 / depdc5 / x tsc2 / and wildtype zebrafish larvae E-MTAB-11776 Transcriptome Analysis Transcriptome analysis of the heads of 5 dpf epdc5 / tsc2 / depdc5 / x tsc2 / and wildtype zebrafish larvae to provide insights into the neuropathological processes underlying the observed epileptic phenotype in sv2a / zebrafish larvae. ENA FIRST PUBLIC:2022 09 12|ENA LAST UPDATE:2022 09 12   Protocols: 5 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled in quadruplicate per genotype. otal RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. Illumina TruSeq Stranded mRNA Seq sample preparation kit was used to prepare the mRNA sequencing library according to the manufacturer guidelines. Sample 6 SAMEA14460884 Laboratory for Molecular Biodiscovery, KU Leuven ENA FIRST PUBLIC:2022 09 12|ENA LAST UPDATE:2022 09 12|External Id:SAMEA14460884|INSDC center alias:Laboratory for Molecular Biodiscovery KU Leuven|INSDC center name:Laboratory for Molecular Biodiscovery KU Leuven|INSDC first public:2022 09 12T12:19:23Z|INSDC last update:2022 09 12T12:19:23Z|INSDC status:public|Submitter Id:E MTAB 11776:Sample 6|age:5|broker name:ArrayExpress|common name:zebrafish|developmental stage:larval stage|genotype:depdc5 / |individual:pool of 10 larvae|isolate:not applicable|organism part:head|sample name:E MTAB 11776:Sample 6|scientific name:Danio rerio|sex:non available|strain:AB                 Illumina NovaSeq 6000 paired end sequencing; RNA seq of depdc5 / tsc2 / depdc5 / x tsc2 / and wildtype zebrafish larvae E MTAB 11776:Sample 6 p Sample 6 p RNA seq of depdc5 / tsc2 / depdc5 / x tsc2 / and wildtype zebrafish larvae 5 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled in quadruplicate per genotype. otal RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. Illumina TruSeq Stranded mRNA Seq sample preparation kit was used to prepare the mRNA sequencing library according to the manufacturer guidelines. Experimental Factor: genotype:depdc5 / RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP137937 Illumina NovaSeq 6000 paired end sequencing; RNA seq of depdc5 / tsc2 / depdc5 / x tsc2 / and wildtype zebrafish larvae ENA FIRST PUBLIC:2022 09 12|ENA LAST UPDATE:2022 09 12 DEPHOM6_1.fastq.gz DEPHOM6_2.fastq.gz fastq fastq 6255857382.0 30969591.0 E MTAB 11776:DEPHOM6 0:101 1:101 A:1722554517;C:1398134491;G:1424183345;T:1710945949;N:39080 101 101     1722554517 1398134491 1424183345 1710945949 39080 ERX9334789 ERS12088361 ERA14756702 Laboratory for Molecular Biodiscovery, KU Leuven|European Nucleotide Archive Laboratory for Molecular Biodiscovery, KU Leuven|European Nucleotide Archive 2 0.93476 0.93206 0.16121 0.1592 0.67882 0.67898 0.48043 0.47851 101 101 B B biological fallback assumption illumina novaseq_era unknown poly_a trueseq bulk unknown unknown   Belgium 2022-09-12 Larval Larval Head Nervous System
11029 11029 ERR9787512 ERX9334788 ERS12088360 ERP137937 PRJEB53153 RNA seq of depdc5 / tsc2 / depdc5 / x tsc2 / and wildtype zebrafish larvae E-MTAB-11776 Transcriptome Analysis Transcriptome analysis of the heads of 5 dpf epdc5 / tsc2 / depdc5 / x tsc2 / and wildtype zebrafish larvae to provide insights into the neuropathological processes underlying the observed epileptic phenotype in sv2a / zebrafish larvae. ENA FIRST PUBLIC:2022 09 12|ENA LAST UPDATE:2022 09 12   Protocols: 5 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled in quadruplicate per genotype. otal RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. Illumina TruSeq Stranded mRNA Seq sample preparation kit was used to prepare the mRNA sequencing library according to the manufacturer guidelines. Sample 5 SAMEA14460883 Laboratory for Molecular Biodiscovery, KU Leuven ENA FIRST PUBLIC:2022 09 12|ENA LAST UPDATE:2022 09 12|External Id:SAMEA14460883|INSDC center alias:Laboratory for Molecular Biodiscovery KU Leuven|INSDC center name:Laboratory for Molecular Biodiscovery KU Leuven|INSDC first public:2022 09 12T12:19:23Z|INSDC last update:2022 09 12T12:19:23Z|INSDC status:public|Submitter Id:E MTAB 11776:Sample 5|age:5|broker name:ArrayExpress|common name:zebrafish|developmental stage:larval stage|genotype:depdc5 / |individual:pool of 10 larvae|isolate:not applicable|organism part:head|sample name:E MTAB 11776:Sample 5|scientific name:Danio rerio|sex:non available|strain:AB                 Illumina NovaSeq 6000 paired end sequencing; RNA seq of depdc5 / tsc2 / depdc5 / x tsc2 / and wildtype zebrafish larvae E MTAB 11776:Sample 5 p Sample 5 p RNA seq of depdc5 / tsc2 / depdc5 / x tsc2 / and wildtype zebrafish larvae 5 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled in quadruplicate per genotype. otal RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. Illumina TruSeq Stranded mRNA Seq sample preparation kit was used to prepare the mRNA sequencing library according to the manufacturer guidelines. Experimental Factor: genotype:depdc5 / RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP137937 Illumina NovaSeq 6000 paired end sequencing; RNA seq of depdc5 / tsc2 / depdc5 / x tsc2 / and wildtype zebrafish larvae ENA FIRST PUBLIC:2022 09 12|ENA LAST UPDATE:2022 09 12 DEPHOM1_1.fastq.gz DEPHOM1_2.fastq.gz fastq fastq 6340417006.0 31388203.0 E MTAB 11776:DEPHOM1 0:101 1:101 A:1738622221;C:1420060351;G:1455477148;T:1726216833;N:40453 101 101     1738622221 1420060351 1455477148 1726216833 40453 ERX9334788 ERS12088360 ERA14756702 Laboratory for Molecular Biodiscovery, KU Leuven|European Nucleotide Archive Laboratory for Molecular Biodiscovery, KU Leuven|European Nucleotide Archive 2 0.93634 0.93167 0.15036 0.14813 0.67809 0.67813 0.47978 0.47851 101 101 B B biological fallback assumption illumina novaseq_era unknown poly_a trueseq bulk unknown unknown   Belgium 2022-09-12 Larval Larval Head Nervous System
11030 11030 ERR9787511 ERX9334787 ERS12088359 ERP137937 PRJEB53153 RNA seq of depdc5 / tsc2 / depdc5 / x tsc2 / and wildtype zebrafish larvae E-MTAB-11776 Transcriptome Analysis Transcriptome analysis of the heads of 5 dpf epdc5 / tsc2 / depdc5 / x tsc2 / and wildtype zebrafish larvae to provide insights into the neuropathological processes underlying the observed epileptic phenotype in sv2a / zebrafish larvae. ENA FIRST PUBLIC:2022 09 12|ENA LAST UPDATE:2022 09 12   Protocols: 5 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled in quadruplicate per genotype. otal RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. Illumina TruSeq Stranded mRNA Seq sample preparation kit was used to prepare the mRNA sequencing library according to the manufacturer guidelines. Sample 4 SAMEA14460882 Laboratory for Molecular Biodiscovery, KU Leuven ENA FIRST PUBLIC:2022 09 12|ENA LAST UPDATE:2022 09 12|External Id:SAMEA14460882|INSDC center alias:Laboratory for Molecular Biodiscovery KU Leuven|INSDC center name:Laboratory for Molecular Biodiscovery KU Leuven|INSDC first public:2022 09 12T12:19:23Z|INSDC last update:2022 09 12T12:19:23Z|INSDC status:public|Submitter Id:E MTAB 11776:Sample 4|age:5|broker name:ArrayExpress|common name:zebrafish|developmental stage:larval stage|genotype:depdc5 / x tsc2 / |individual:pool of 10 larvae|isolate:not applicable|organism part:head|sample name:E MTAB 11776:Sample 4|scientific name:Danio rerio|sex:non available|strain:AB                 Illumina NovaSeq 6000 paired end sequencing; RNA seq of depdc5 / tsc2 / depdc5 / x tsc2 / and wildtype zebrafish larvae E MTAB 11776:Sample 4 p Sample 4 p RNA seq of depdc5 / tsc2 / depdc5 / x tsc2 / and wildtype zebrafish larvae 5 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled in quadruplicate per genotype. otal RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. Illumina TruSeq Stranded mRNA Seq sample preparation kit was used to prepare the mRNA sequencing library according to the manufacturer guidelines. Experimental Factor: genotype:depdc5 / x tsc2 / RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP137937 Illumina NovaSeq 6000 paired end sequencing; RNA seq of depdc5 / tsc2 / depdc5 / x tsc2 / and wildtype zebrafish larvae ENA FIRST PUBLIC:2022 09 12|ENA LAST UPDATE:2022 09 12 2XHOM7_1.fastq.gz 2XHOM7_2.fastq.gz fastq fastq 6291880446.0 31147923.0 E MTAB 11776:2XHOM7 0:101 1:101 A:1712784902;C:1424143534;G:1452943449;T:1701969086;N:39475 101 101     1712784902 1424143534 1452943449 1701969086 39475 ERX9334787 ERS12088359 ERA14756702 Laboratory for Molecular Biodiscovery, KU Leuven|European Nucleotide Archive Laboratory for Molecular Biodiscovery, KU Leuven|European Nucleotide Archive 2 0.93869 0.93511 0.15405 0.15042 0.67377 0.67351 0.50599 0.50683 101 101 B B biological fallback assumption illumina novaseq_era unknown poly_a trueseq bulk unknown unknown   Belgium 2022-09-12 Larval Larval Head Nervous System
11031 11031 ERR9787510 ERX9334786 ERS12088358 ERP137937 PRJEB53153 RNA seq of depdc5 / tsc2 / depdc5 / x tsc2 / and wildtype zebrafish larvae E-MTAB-11776 Transcriptome Analysis Transcriptome analysis of the heads of 5 dpf epdc5 / tsc2 / depdc5 / x tsc2 / and wildtype zebrafish larvae to provide insights into the neuropathological processes underlying the observed epileptic phenotype in sv2a / zebrafish larvae. ENA FIRST PUBLIC:2022 09 12|ENA LAST UPDATE:2022 09 12   Protocols: 5 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled in quadruplicate per genotype. otal RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. Illumina TruSeq Stranded mRNA Seq sample preparation kit was used to prepare the mRNA sequencing library according to the manufacturer guidelines. Sample 3 SAMEA14460881 Laboratory for Molecular Biodiscovery, KU Leuven ENA FIRST PUBLIC:2022 09 12|ENA LAST UPDATE:2022 09 12|External Id:SAMEA14460881|INSDC center alias:Laboratory for Molecular Biodiscovery KU Leuven|INSDC center name:Laboratory for Molecular Biodiscovery KU Leuven|INSDC first public:2022 09 12T12:19:23Z|INSDC last update:2022 09 12T12:19:23Z|INSDC status:public|Submitter Id:E MTAB 11776:Sample 3|age:5|broker name:ArrayExpress|common name:zebrafish|developmental stage:larval stage|genotype:depdc5 / x tsc2 / |individual:pool of 10 larvae|isolate:not applicable|organism part:head|sample name:E MTAB 11776:Sample 3|scientific name:Danio rerio|sex:non available|strain:AB                 Illumina NovaSeq 6000 paired end sequencing; RNA seq of depdc5 / tsc2 / depdc5 / x tsc2 / and wildtype zebrafish larvae E MTAB 11776:Sample 3 p Sample 3 p RNA seq of depdc5 / tsc2 / depdc5 / x tsc2 / and wildtype zebrafish larvae 5 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled in quadruplicate per genotype. otal RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. Illumina TruSeq Stranded mRNA Seq sample preparation kit was used to prepare the mRNA sequencing library according to the manufacturer guidelines. Experimental Factor: genotype:depdc5 / x tsc2 / RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP137937 Illumina NovaSeq 6000 paired end sequencing; RNA seq of depdc5 / tsc2 / depdc5 / x tsc2 / and wildtype zebrafish larvae ENA FIRST PUBLIC:2022 09 12|ENA LAST UPDATE:2022 09 12 2XHOM6_1.fastq.gz 2XHOM6_2.fastq.gz fastq fastq 6214327596.0 30763998.0 E MTAB 11776:2XHOM6 0:101 1:101 A:1705019759;C:1384064144;G:1432455427;T:1692749964;N:38302 101 101     1705019759 1384064144 1432455427 1692749964 38302 ERX9334786 ERS12088358 ERA14756702 Laboratory for Molecular Biodiscovery, KU Leuven|European Nucleotide Archive Laboratory for Molecular Biodiscovery, KU Leuven|European Nucleotide Archive 2 0.93591 0.92636 0.14492 0.14145 0.67489 0.67491 0.47753 0.49286 101 101 B B biological fallback assumption illumina novaseq_era unknown poly_a trueseq bulk unknown unknown   Belgium 2022-09-12 Larval Larval Head Nervous System
11032 11032 ERR9787509 ERX9334785 ERS12088357 ERP137937 PRJEB53153 RNA seq of depdc5 / tsc2 / depdc5 / x tsc2 / and wildtype zebrafish larvae E-MTAB-11776 Transcriptome Analysis Transcriptome analysis of the heads of 5 dpf epdc5 / tsc2 / depdc5 / x tsc2 / and wildtype zebrafish larvae to provide insights into the neuropathological processes underlying the observed epileptic phenotype in sv2a / zebrafish larvae. ENA FIRST PUBLIC:2022 09 12|ENA LAST UPDATE:2022 09 12   Protocols: 5 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled in quadruplicate per genotype. otal RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. Illumina TruSeq Stranded mRNA Seq sample preparation kit was used to prepare the mRNA sequencing library according to the manufacturer guidelines. Sample 2 SAMEA14460880 Laboratory for Molecular Biodiscovery, KU Leuven ENA FIRST PUBLIC:2022 09 12|ENA LAST UPDATE:2022 09 12|External Id:SAMEA14460880|INSDC center alias:Laboratory for Molecular Biodiscovery KU Leuven|INSDC center name:Laboratory for Molecular Biodiscovery KU Leuven|INSDC first public:2022 09 12T12:19:23Z|INSDC last update:2022 09 12T12:19:23Z|INSDC status:public|Submitter Id:E MTAB 11776:Sample 2|age:5|broker name:ArrayExpress|common name:zebrafish|developmental stage:larval stage|genotype:depdc5 / x tsc2 / |individual:pool of 10 larvae|isolate:not applicable|organism part:head|sample name:E MTAB 11776:Sample 2|scientific name:Danio rerio|sex:non available|strain:AB                 Illumina NovaSeq 6000 paired end sequencing; RNA seq of depdc5 / tsc2 / depdc5 / x tsc2 / and wildtype zebrafish larvae E MTAB 11776:Sample 2 p Sample 2 p RNA seq of depdc5 / tsc2 / depdc5 / x tsc2 / and wildtype zebrafish larvae 5 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled in quadruplicate per genotype. otal RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. Illumina TruSeq Stranded mRNA Seq sample preparation kit was used to prepare the mRNA sequencing library according to the manufacturer guidelines. Experimental Factor: genotype:depdc5 / x tsc2 / RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP137937 Illumina NovaSeq 6000 paired end sequencing; RNA seq of depdc5 / tsc2 / depdc5 / x tsc2 / and wildtype zebrafish larvae ENA FIRST PUBLIC:2022 09 12|ENA LAST UPDATE:2022 09 12 2XHOM4_1.fastq.gz 2XHOM4_2.fastq.gz fastq fastq 6301691990.0 31196495.0 E MTAB 11776:2XHOM4 0:101 1:101 A:1698118705;C:1442276237;G:1473988715;T:1687268823;N:39510 101 101     1698118705 1442276237 1473988715 1687268823 39510 ERX9334785 ERS12088357 ERA14756702 Laboratory for Molecular Biodiscovery, KU Leuven|European Nucleotide Archive Laboratory for Molecular Biodiscovery, KU Leuven|European Nucleotide Archive 2 0.94255 0.93839 0.13232 0.13007 0.67326 0.67294 0.49084 0.49291 101 101 B B biological fallback assumption illumina novaseq_era unknown poly_a trueseq bulk unknown unknown   Belgium 2022-09-12 Larval Larval Head Nervous System
11033 11033 ERR9787508 ERX9334784 ERS12088356 ERP137937 PRJEB53153 RNA seq of depdc5 / tsc2 / depdc5 / x tsc2 / and wildtype zebrafish larvae E-MTAB-11776 Transcriptome Analysis Transcriptome analysis of the heads of 5 dpf epdc5 / tsc2 / depdc5 / x tsc2 / and wildtype zebrafish larvae to provide insights into the neuropathological processes underlying the observed epileptic phenotype in sv2a / zebrafish larvae. ENA FIRST PUBLIC:2022 09 12|ENA LAST UPDATE:2022 09 12   Protocols: 5 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled in quadruplicate per genotype. otal RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. Illumina TruSeq Stranded mRNA Seq sample preparation kit was used to prepare the mRNA sequencing library according to the manufacturer guidelines. Sample 16 SAMEA14460879 Laboratory for Molecular Biodiscovery, KU Leuven ENA FIRST PUBLIC:2022 09 12|ENA LAST UPDATE:2022 09 12|External Id:SAMEA14460879|INSDC center alias:Laboratory for Molecular Biodiscovery KU Leuven|INSDC center name:Laboratory for Molecular Biodiscovery KU Leuven|INSDC first public:2022 09 12T12:19:23Z|INSDC last update:2022 09 12T12:19:23Z|INSDC status:public|Submitter Id:E MTAB 11776:Sample 16|age:5|broker name:ArrayExpress|common name:zebrafish|developmental stage:larval stage|genotype:wild type genotype|individual:pool of 10 larvae|isolate:not applicable|organism part:head|sample name:E MTAB 11776:Sample 16|scientific name:Danio rerio|sex:non available|strain:AB                 Illumina NovaSeq 6000 paired end sequencing; RNA seq of depdc5 / tsc2 / depdc5 / x tsc2 / and wildtype zebrafish larvae E MTAB 11776:Sample 16 p Sample 16 p RNA seq of depdc5 / tsc2 / depdc5 / x tsc2 / and wildtype zebrafish larvae 5 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled in quadruplicate per genotype. otal RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. Illumina TruSeq Stranded mRNA Seq sample preparation kit was used to prepare the mRNA sequencing library according to the manufacturer guidelines. Experimental Factor: genotype:wild type genotype RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP137937 Illumina NovaSeq 6000 paired end sequencing; RNA seq of depdc5 / tsc2 / depdc5 / x tsc2 / and wildtype zebrafish larvae ENA FIRST PUBLIC:2022 09 12|ENA LAST UPDATE:2022 09 12 WT7_1.fastq.gz WT7_2.fastq.gz fastq fastq 6206666746.0 30726073.0 E MTAB 11776:WT7 0:101 1:101 A:1705689174;C:1387290312;G:1420249657;T:1693397929;N:39674 101 101     1705689174 1387290312 1420249657 1693397929 39674 ERX9334784 ERS12088356 ERA14756702 Laboratory for Molecular Biodiscovery, KU Leuven|European Nucleotide Archive Laboratory for Molecular Biodiscovery, KU Leuven|European Nucleotide Archive 2 0.93493 0.92964 0.15803 0.1554 0.67405 0.67501 0.47988 0.46768 101 101 B B biological fallback assumption illumina novaseq_era unknown poly_a trueseq bulk unknown unknown   Belgium 2022-09-12 Larval Larval Head Nervous System
11034 11034 ERR9787507 ERX9334783 ERS12088355 ERP137937 PRJEB53153 RNA seq of depdc5 / tsc2 / depdc5 / x tsc2 / and wildtype zebrafish larvae E-MTAB-11776 Transcriptome Analysis Transcriptome analysis of the heads of 5 dpf epdc5 / tsc2 / depdc5 / x tsc2 / and wildtype zebrafish larvae to provide insights into the neuropathological processes underlying the observed epileptic phenotype in sv2a / zebrafish larvae. ENA FIRST PUBLIC:2022 09 12|ENA LAST UPDATE:2022 09 12   Protocols: 5 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled in quadruplicate per genotype. otal RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. Illumina TruSeq Stranded mRNA Seq sample preparation kit was used to prepare the mRNA sequencing library according to the manufacturer guidelines. Sample 15 SAMEA14460878 Laboratory for Molecular Biodiscovery, KU Leuven ENA FIRST PUBLIC:2022 09 12|ENA LAST UPDATE:2022 09 12|External Id:SAMEA14460878|INSDC center alias:Laboratory for Molecular Biodiscovery KU Leuven|INSDC center name:Laboratory for Molecular Biodiscovery KU Leuven|INSDC first public:2022 09 12T12:19:23Z|INSDC last update:2022 09 12T12:19:23Z|INSDC status:public|Submitter Id:E MTAB 11776:Sample 15|age:5|broker name:ArrayExpress|common name:zebrafish|developmental stage:larval stage|genotype:wild type genotype|individual:pool of 10 larvae|isolate:not applicable|organism part:head|sample name:E MTAB 11776:Sample 15|scientific name:Danio rerio|sex:non available|strain:AB                 Illumina NovaSeq 6000 paired end sequencing; RNA seq of depdc5 / tsc2 / depdc5 / x tsc2 / and wildtype zebrafish larvae E MTAB 11776:Sample 15 p Sample 15 p RNA seq of depdc5 / tsc2 / depdc5 / x tsc2 / and wildtype zebrafish larvae 5 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled in quadruplicate per genotype. otal RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. Illumina TruSeq Stranded mRNA Seq sample preparation kit was used to prepare the mRNA sequencing library according to the manufacturer guidelines. Experimental Factor: genotype:wild type genotype RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP137937 Illumina NovaSeq 6000 paired end sequencing; RNA seq of depdc5 / tsc2 / depdc5 / x tsc2 / and wildtype zebrafish larvae ENA FIRST PUBLIC:2022 09 12|ENA LAST UPDATE:2022 09 12 WT6_1.fastq.gz WT6_2.fastq.gz fastq fastq 6360740630.0 31488815.0 E MTAB 11776:WT6 0:101 1:101 A:1735195643;C:1436805269;G:1469558083;T:1719141699;N:39936 101 101     1735195643 1436805269 1469558083 1719141699 39936 ERX9334783 ERS12088355 ERA14756702 Laboratory for Molecular Biodiscovery, KU Leuven|European Nucleotide Archive Laboratory for Molecular Biodiscovery, KU Leuven|European Nucleotide Archive 2 0.93629 0.93343 0.15169 0.1501 0.67572 0.67517 0.47499 0.47879 101 101 B B biological fallback assumption illumina novaseq_era unknown poly_a trueseq bulk unknown unknown   Belgium 2022-09-12 Larval Larval Head Nervous System
11035 11035 ERR9787506 ERX9334782 ERS12088354 ERP137937 PRJEB53153 RNA seq of depdc5 / tsc2 / depdc5 / x tsc2 / and wildtype zebrafish larvae E-MTAB-11776 Transcriptome Analysis Transcriptome analysis of the heads of 5 dpf epdc5 / tsc2 / depdc5 / x tsc2 / and wildtype zebrafish larvae to provide insights into the neuropathological processes underlying the observed epileptic phenotype in sv2a / zebrafish larvae. ENA FIRST PUBLIC:2022 09 12|ENA LAST UPDATE:2022 09 12   Protocols: 5 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled in quadruplicate per genotype. otal RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. Illumina TruSeq Stranded mRNA Seq sample preparation kit was used to prepare the mRNA sequencing library according to the manufacturer guidelines. Sample 14 SAMEA14460877 Laboratory for Molecular Biodiscovery, KU Leuven ENA FIRST PUBLIC:2022 09 12|ENA LAST UPDATE:2022 09 12|External Id:SAMEA14460877|INSDC center alias:Laboratory for Molecular Biodiscovery KU Leuven|INSDC center name:Laboratory for Molecular Biodiscovery KU Leuven|INSDC first public:2022 09 12T12:19:23Z|INSDC last update:2022 09 12T12:19:23Z|INSDC status:public|Submitter Id:E MTAB 11776:Sample 14|age:5|broker name:ArrayExpress|common name:zebrafish|developmental stage:larval stage|genotype:wild type genotype|individual:pool of 10 larvae|isolate:not applicable|organism part:head|sample name:E MTAB 11776:Sample 14|scientific name:Danio rerio|sex:non available|strain:AB                 Illumina NovaSeq 6000 paired end sequencing; RNA seq of depdc5 / tsc2 / depdc5 / x tsc2 / and wildtype zebrafish larvae E MTAB 11776:Sample 14 p Sample 14 p RNA seq of depdc5 / tsc2 / depdc5 / x tsc2 / and wildtype zebrafish larvae 5 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled in quadruplicate per genotype. otal RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. Illumina TruSeq Stranded mRNA Seq sample preparation kit was used to prepare the mRNA sequencing library according to the manufacturer guidelines. Experimental Factor: genotype:wild type genotype RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP137937 Illumina NovaSeq 6000 paired end sequencing; RNA seq of depdc5 / tsc2 / depdc5 / x tsc2 / and wildtype zebrafish larvae ENA FIRST PUBLIC:2022 09 12|ENA LAST UPDATE:2022 09 12 WT4_1.fastq.gz WT4_2.fastq.gz fastq fastq 6227472342.0 30829071.0 E MTAB 11776:WT4 0:101 1:101 A:1668352581;C:1434152947;G:1468645621;T:1656281986;N:39207 101 101     1668352581 1434152947 1468645621 1656281986 39207 ERX9334782 ERS12088354 ERA14756702 Laboratory for Molecular Biodiscovery, KU Leuven|European Nucleotide Archive Laboratory for Molecular Biodiscovery, KU Leuven|European Nucleotide Archive 2 0.94261 0.93675 0.15334 0.15049 0.67927 0.67872 0.48762 0.49138 101 101 B B biological fallback assumption illumina novaseq_era unknown poly_a trueseq bulk unknown unknown   Belgium 2022-09-12 Larval Larval Head Nervous System
11036 11036 ERR9787505 ERX9334781 ERS12088353 ERP137937 PRJEB53153 RNA seq of depdc5 / tsc2 / depdc5 / x tsc2 / and wildtype zebrafish larvae E-MTAB-11776 Transcriptome Analysis Transcriptome analysis of the heads of 5 dpf epdc5 / tsc2 / depdc5 / x tsc2 / and wildtype zebrafish larvae to provide insights into the neuropathological processes underlying the observed epileptic phenotype in sv2a / zebrafish larvae. ENA FIRST PUBLIC:2022 09 12|ENA LAST UPDATE:2022 09 12   Protocols: 5 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled in quadruplicate per genotype. otal RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. Illumina TruSeq Stranded mRNA Seq sample preparation kit was used to prepare the mRNA sequencing library according to the manufacturer guidelines. Sample 13 SAMEA14460876 Laboratory for Molecular Biodiscovery, KU Leuven ENA FIRST PUBLIC:2022 09 12|ENA LAST UPDATE:2022 09 12|External Id:SAMEA14460876|INSDC center alias:Laboratory for Molecular Biodiscovery KU Leuven|INSDC center name:Laboratory for Molecular Biodiscovery KU Leuven|INSDC first public:2022 09 12T12:19:23Z|INSDC last update:2022 09 12T12:19:23Z|INSDC status:public|Submitter Id:E MTAB 11776:Sample 13|age:5|broker name:ArrayExpress|common name:zebrafish|developmental stage:larval stage|genotype:wild type genotype|individual:pool of 10 larvae|isolate:not applicable|organism part:head|sample name:E MTAB 11776:Sample 13|scientific name:Danio rerio|sex:non available|strain:AB                 Illumina NovaSeq 6000 paired end sequencing; RNA seq of depdc5 / tsc2 / depdc5 / x tsc2 / and wildtype zebrafish larvae E MTAB 11776:Sample 13 p Sample 13 p RNA seq of depdc5 / tsc2 / depdc5 / x tsc2 / and wildtype zebrafish larvae 5 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled in quadruplicate per genotype. otal RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. Illumina TruSeq Stranded mRNA Seq sample preparation kit was used to prepare the mRNA sequencing library according to the manufacturer guidelines. Experimental Factor: genotype:wild type genotype RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP137937 Illumina NovaSeq 6000 paired end sequencing; RNA seq of depdc5 / tsc2 / depdc5 / x tsc2 / and wildtype zebrafish larvae ENA FIRST PUBLIC:2022 09 12|ENA LAST UPDATE:2022 09 12 WT1_1.fastq.gz WT1_2.fastq.gz fastq fastq 6332757570.0 31350285.0 E MTAB 11776:WT1 0:101 1:101 A:1726838066;C:1431452165;G:1460746594;T:1713681043;N:39702 101 101     1726838066 1431452165 1460746594 1713681043 39702 ERX9334781 ERS12088353 ERA14756702 Laboratory for Molecular Biodiscovery, KU Leuven|European Nucleotide Archive Laboratory for Molecular Biodiscovery, KU Leuven|European Nucleotide Archive 2 0.92422 0.93556 0.14884 0.14926 0.67694 0.67564 0.48223 0.48884 101 101 B B biological fallback assumption illumina novaseq_era unknown poly_a trueseq bulk unknown unknown   Belgium 2022-09-12 Larval Larval Head Nervous System
11037 11037 ERR9787504 ERX9334780 ERS12088352 ERP137937 PRJEB53153 RNA seq of depdc5 / tsc2 / depdc5 / x tsc2 / and wildtype zebrafish larvae E-MTAB-11776 Transcriptome Analysis Transcriptome analysis of the heads of 5 dpf epdc5 / tsc2 / depdc5 / x tsc2 / and wildtype zebrafish larvae to provide insights into the neuropathological processes underlying the observed epileptic phenotype in sv2a / zebrafish larvae. ENA FIRST PUBLIC:2022 09 12|ENA LAST UPDATE:2022 09 12   Protocols: 5 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled in quadruplicate per genotype. otal RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. Illumina TruSeq Stranded mRNA Seq sample preparation kit was used to prepare the mRNA sequencing library according to the manufacturer guidelines. Sample 12 SAMEA14460875 Laboratory for Molecular Biodiscovery, KU Leuven ENA FIRST PUBLIC:2022 09 12|ENA LAST UPDATE:2022 09 12|External Id:SAMEA14460875|INSDC center alias:Laboratory for Molecular Biodiscovery KU Leuven|INSDC center name:Laboratory for Molecular Biodiscovery KU Leuven|INSDC first public:2022 09 12T12:19:23Z|INSDC last update:2022 09 12T12:19:23Z|INSDC status:public|Submitter Id:E MTAB 11776:Sample 12|age:5|broker name:ArrayExpress|common name:zebrafish|developmental stage:larval stage|genotype:tsc2 / |individual:pool of 10 larvae|isolate:not applicable|organism part:head|sample name:E MTAB 11776:Sample 12|scientific name:Danio rerio|sex:non available|strain:AB                 Illumina NovaSeq 6000 paired end sequencing; RNA seq of depdc5 / tsc2 / depdc5 / x tsc2 / and wildtype zebrafish larvae E MTAB 11776:Sample 12 p Sample 12 p RNA seq of depdc5 / tsc2 / depdc5 / x tsc2 / and wildtype zebrafish larvae 5 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled in quadruplicate per genotype. otal RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. Illumina TruSeq Stranded mRNA Seq sample preparation kit was used to prepare the mRNA sequencing library according to the manufacturer guidelines. Experimental Factor: genotype:tsc2 / RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP137937 Illumina NovaSeq 6000 paired end sequencing; RNA seq of depdc5 / tsc2 / depdc5 / x tsc2 / and wildtype zebrafish larvae ENA FIRST PUBLIC:2022 09 12|ENA LAST UPDATE:2022 09 12 TSCHOM7_1.fastq.gz TSCHOM7_2.fastq.gz fastq fastq 6216990360.0 30777180.0 E MTAB 11776:TSCHOM7 0:101 1:101 A:1710256020;C:1390027205;G:1419250792;T:1697417099;N:39244 101 101     1710256020 1390027205 1419250792 1697417099 39244 ERX9334780 ERS12088352 ERA14756702 Laboratory for Molecular Biodiscovery, KU Leuven|European Nucleotide Archive Laboratory for Molecular Biodiscovery, KU Leuven|European Nucleotide Archive 2 0.93162 0.92801 0.15191 0.14943 0.67789 0.67951 0.47915 0.47762 101 101 B B biological fallback assumption illumina novaseq_era unknown poly_a trueseq bulk unknown unknown   Belgium 2022-09-12 Larval Larval Head Nervous System
11038 11038 ERR9787503 ERX9334779 ERS12088351 ERP137937 PRJEB53153 RNA seq of depdc5 / tsc2 / depdc5 / x tsc2 / and wildtype zebrafish larvae E-MTAB-11776 Transcriptome Analysis Transcriptome analysis of the heads of 5 dpf epdc5 / tsc2 / depdc5 / x tsc2 / and wildtype zebrafish larvae to provide insights into the neuropathological processes underlying the observed epileptic phenotype in sv2a / zebrafish larvae. ENA FIRST PUBLIC:2022 09 12|ENA LAST UPDATE:2022 09 12   Protocols: 5 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled in quadruplicate per genotype. otal RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. Illumina TruSeq Stranded mRNA Seq sample preparation kit was used to prepare the mRNA sequencing library according to the manufacturer guidelines. Sample 11 SAMEA14460874 Laboratory for Molecular Biodiscovery, KU Leuven ENA FIRST PUBLIC:2022 09 12|ENA LAST UPDATE:2022 09 12|External Id:SAMEA14460874|INSDC center alias:Laboratory for Molecular Biodiscovery KU Leuven|INSDC center name:Laboratory for Molecular Biodiscovery KU Leuven|INSDC first public:2022 09 12T12:19:23Z|INSDC last update:2022 09 12T12:19:23Z|INSDC status:public|Submitter Id:E MTAB 11776:Sample 11|age:5|broker name:ArrayExpress|common name:zebrafish|developmental stage:larval stage|genotype:tsc2 / |individual:pool of 10 larvae|isolate:not applicable|organism part:head|sample name:E MTAB 11776:Sample 11|scientific name:Danio rerio|sex:non available|strain:AB                 Illumina NovaSeq 6000 paired end sequencing; RNA seq of depdc5 / tsc2 / depdc5 / x tsc2 / and wildtype zebrafish larvae E MTAB 11776:Sample 11 p Sample 11 p RNA seq of depdc5 / tsc2 / depdc5 / x tsc2 / and wildtype zebrafish larvae 5 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled in quadruplicate per genotype. otal RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. Illumina TruSeq Stranded mRNA Seq sample preparation kit was used to prepare the mRNA sequencing library according to the manufacturer guidelines. Experimental Factor: genotype:tsc2 / RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP137937 Illumina NovaSeq 6000 paired end sequencing; RNA seq of depdc5 / tsc2 / depdc5 / x tsc2 / and wildtype zebrafish larvae ENA FIRST PUBLIC:2022 09 12|ENA LAST UPDATE:2022 09 12 TSCHOM6_1.fastq.gz TSCHOM6_2.fastq.gz fastq fastq 6199081848.0 30688524.0 E MTAB 11776:TSCHOM6 0:101 1:101 A:1705859045;C:1387530558;G:1415224718;T:1690428701;N:38826 101 101     1705859045 1387530558 1415224718 1690428701 38826 ERX9334779 ERS12088351 ERA14756702 Laboratory for Molecular Biodiscovery, KU Leuven|European Nucleotide Archive Laboratory for Molecular Biodiscovery, KU Leuven|European Nucleotide Archive 2 0.93583 0.93349 0.15923 0.15664 0.67976 0.67986 0.48632 0.48376 101 101 B B biological fallback assumption illumina novaseq_era unknown poly_a trueseq bulk unknown unknown   Belgium 2022-09-12 Larval Larval Head Nervous System
11039 11039 ERR9787502 ERX9334778 ERS12088350 ERP137937 PRJEB53153 RNA seq of depdc5 / tsc2 / depdc5 / x tsc2 / and wildtype zebrafish larvae E-MTAB-11776 Transcriptome Analysis Transcriptome analysis of the heads of 5 dpf epdc5 / tsc2 / depdc5 / x tsc2 / and wildtype zebrafish larvae to provide insights into the neuropathological processes underlying the observed epileptic phenotype in sv2a / zebrafish larvae. ENA FIRST PUBLIC:2022 09 12|ENA LAST UPDATE:2022 09 12   Protocols: 5 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled in quadruplicate per genotype. otal RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. Illumina TruSeq Stranded mRNA Seq sample preparation kit was used to prepare the mRNA sequencing library according to the manufacturer guidelines. Sample 10 SAMEA14460873 Laboratory for Molecular Biodiscovery, KU Leuven ENA FIRST PUBLIC:2022 09 12|ENA LAST UPDATE:2022 09 12|External Id:SAMEA14460873|INSDC center alias:Laboratory for Molecular Biodiscovery KU Leuven|INSDC center name:Laboratory for Molecular Biodiscovery KU Leuven|INSDC first public:2022 09 12T12:19:23Z|INSDC last update:2022 09 12T12:19:23Z|INSDC status:public|Submitter Id:E MTAB 11776:Sample 10|age:5|broker name:ArrayExpress|common name:zebrafish|developmental stage:larval stage|genotype:tsc2 / |individual:pool of 10 larvae|isolate:not applicable|organism part:head|sample name:E MTAB 11776:Sample 10|scientific name:Danio rerio|sex:non available|strain:AB                 Illumina NovaSeq 6000 paired end sequencing; RNA seq of depdc5 / tsc2 / depdc5 / x tsc2 / and wildtype zebrafish larvae E MTAB 11776:Sample 10 p Sample 10 p RNA seq of depdc5 / tsc2 / depdc5 / x tsc2 / and wildtype zebrafish larvae 5 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled in quadruplicate per genotype. otal RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. Illumina TruSeq Stranded mRNA Seq sample preparation kit was used to prepare the mRNA sequencing library according to the manufacturer guidelines. Experimental Factor: genotype:tsc2 / RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP137937 Illumina NovaSeq 6000 paired end sequencing; RNA seq of depdc5 / tsc2 / depdc5 / x tsc2 / and wildtype zebrafish larvae ENA FIRST PUBLIC:2022 09 12|ENA LAST UPDATE:2022 09 12 TSCHOM4_1.fastq.gz TSCHOM4_2.fastq.gz fastq fastq 6287836204.0 31127902.0 E MTAB 11776:TSCHOM4 0:101 1:101 A:1673762523;C:1453880149;G:1493343671;T:1666809849;N:40012 101 101     1673762523 1453880149 1493343671 1666809849 40012 ERX9334778 ERS12088350 ERA14756702 Laboratory for Molecular Biodiscovery, KU Leuven|European Nucleotide Archive Laboratory for Molecular Biodiscovery, KU Leuven|European Nucleotide Archive 2 0.94269 0.9375 0.14166 0.13979 0.67476 0.67722 0.4927 0.49365 101 101 B B biological fallback assumption illumina novaseq_era unknown poly_a trueseq bulk unknown unknown   Belgium 2022-09-12 Larval Larval Head Nervous System
11040 11040 ERR9787501 ERX9334777 ERS12088349 ERP137937 PRJEB53153 RNA seq of depdc5 / tsc2 / depdc5 / x tsc2 / and wildtype zebrafish larvae E-MTAB-11776 Transcriptome Analysis Transcriptome analysis of the heads of 5 dpf epdc5 / tsc2 / depdc5 / x tsc2 / and wildtype zebrafish larvae to provide insights into the neuropathological processes underlying the observed epileptic phenotype in sv2a / zebrafish larvae. ENA FIRST PUBLIC:2022 09 12|ENA LAST UPDATE:2022 09 12   Protocols: 5 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled in quadruplicate per genotype. otal RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. Illumina TruSeq Stranded mRNA Seq sample preparation kit was used to prepare the mRNA sequencing library according to the manufacturer guidelines. Sample 1 SAMEA14460872 Laboratory for Molecular Biodiscovery, KU Leuven ENA FIRST PUBLIC:2022 09 12|ENA LAST UPDATE:2022 09 12|External Id:SAMEA14460872|INSDC center alias:Laboratory for Molecular Biodiscovery KU Leuven|INSDC center name:Laboratory for Molecular Biodiscovery KU Leuven|INSDC first public:2022 09 12T12:19:23Z|INSDC last update:2022 09 12T12:19:23Z|INSDC status:public|Submitter Id:E MTAB 11776:Sample 1|age:5|broker name:ArrayExpress|common name:zebrafish|developmental stage:larval stage|genotype:depdc5 / x tsc2 / |individual:pool of 10 larvae|isolate:not applicable|organism part:head|sample name:E MTAB 11776:Sample 1|scientific name:Danio rerio|sex:non available|strain:AB                 Illumina NovaSeq 6000 paired end sequencing; RNA seq of depdc5 / tsc2 / depdc5 / x tsc2 / and wildtype zebrafish larvae E MTAB 11776:Sample 1 p Sample 1 p RNA seq of depdc5 / tsc2 / depdc5 / x tsc2 / and wildtype zebrafish larvae 5 dpf zebrafish larvae were anesthetized and decapitated using a razor blade. 10 heads were pooled in quadruplicate per genotype. otal RNA was extracted using TRIzol reagent Invitrogen followed by phenol chlorophorm extraction and isopropanol precipitation. post ethanol washes the RNA pellet was air dried dissolved in nuclease free water Fermentas. Illumina TruSeq Stranded mRNA Seq sample preparation kit was used to prepare the mRNA sequencing library according to the manufacturer guidelines. Experimental Factor: genotype:depdc5 / x tsc2 / RNA-Seq TRANSCRIPTOMIC PolyA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP137937 Illumina NovaSeq 6000 paired end sequencing; RNA seq of depdc5 / tsc2 / depdc5 / x tsc2 / and wildtype zebrafish larvae ENA FIRST PUBLIC:2022 09 12|ENA LAST UPDATE:2022 09 12 2XHOM1_1.fastq.gz 2XHOM1_2.fastq.gz fastq fastq 6232605768.0 30854484.0 E MTAB 11776:2XHOM1 0:101 1:101 A:1725401812;C:1384507160;G:1410306583;T:1712351429;N:38784 101 101     1725401812 1384507160 1410306583 1712351429 38784 ERX9334777 ERS12088349 ERA14756702 Laboratory for Molecular Biodiscovery, KU Leuven|European Nucleotide Archive Laboratory for Molecular Biodiscovery, KU Leuven|European Nucleotide Archive 2 0.93594 0.93262 0.15282 0.14977 0.67503 0.67373 0.49522 0.49759 101 101 B B biological fallback assumption illumina novaseq_era unknown poly_a trueseq bulk unknown unknown   Belgium 2022-09-12 Larval Larval Head Nervous System
19221 19221 ERR14935135 ERX14339377 ERS24360099 ERP166068 PRJEB82358 Human gene duplications 53f6d331-4985-4b69-8ac3-a57d010118dd Other Duplicated genes expanded in the human lineage likely contributed to brain evolution yet challenges exist in their discovery due to sequence assembly errors. We used a complete telomere to telomere genome sequence to identify 213 human specific gene families. From these 362 paralogs were found in all modern human genomes tested and brain transcriptomes making them top candidates contributing to human universal brain features. Choosing a subset of paralogs we used long read DNA sequencing of hundreds of modern humans to reveal previously hidden signatures of selection. To understand their roles in brain development we generated zebrafish CRISPR “knockout” models of nine orthologs and introduced mRNA encoding paralogs effectively “humanizing” larvae. Our findings implicate two new genes in possibly contributing to hallmark features of the human brain: GPR89B in dosage mediated brain expansion and FRMPD2B in altered synapse signaling. Our holistic approach provides new insights and a comprehensive resource for studying gene expansion drivers of human brain evolution. ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23   Single cell RNA sequencing of zebrafish heads from well H06 Humanized Plate 1 Well H06 SAMEA118225022 UNIVERSITY OF CALIFORNIA - DAVIS ENA first public:2025 05 23|INSDC center name:UNIVERSITY OF CALIFORNIA DAVIS|INSDC status:public|Submitter Id:Sample HUM1 H06|collection date:2022 11 14|common name:zebrafish|dev stage:72 hpf|geographic location country and/or sea:USA|sample name:Sample HUM1 H06|scientific name:Danio rerio                 Raw reads: Sample HUM1 H06 webin reads Sample HUM1 H06   unspecified   ENA STATUS ID:4 RNA-Seq TRANSCRIPTOMIC SINGLE CELL cDNA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP166068 Raw reads: Sample HUM1 H06 ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23 H06.R1.fastq.gz H06.R2.fastq.gz fastq fastq 168135000.0 560450.0 webin reads Sample HUM1 H06 0:150 1:150 A:49336993;C:19637394;G:50002867;T:49156187;N:1559 150 150     49336993 19637394 50002867 49156187 1559 ERX14339377 ERS24360099 ERA33113052 UNIVERSITY OF CALIFORNIA - DAVIS|European Nucleotide Archive UNIVERSITY OF CALIFORNIA - DAVIS                       B B mate1-mate2 similar by mapping diff illumina novaseq_era unknown poly_a unknown sc single_cell_generic generic-scrnaseq-only   United States 2025-05-23 Larval Larval Head Nervous System
19222 19222 ERR14934924 ERX14339166 ERS24360038 ERP166068 PRJEB82358 Human gene duplications 53f6d331-4985-4b69-8ac3-a57d010118dd Other Duplicated genes expanded in the human lineage likely contributed to brain evolution yet challenges exist in their discovery due to sequence assembly errors. We used a complete telomere to telomere genome sequence to identify 213 human specific gene families. From these 362 paralogs were found in all modern human genomes tested and brain transcriptomes making them top candidates contributing to human universal brain features. Choosing a subset of paralogs we used long read DNA sequencing of hundreds of modern humans to reveal previously hidden signatures of selection. To understand their roles in brain development we generated zebrafish CRISPR “knockout” models of nine orthologs and introduced mRNA encoding paralogs effectively “humanizing” larvae. Our findings implicate two new genes in possibly contributing to hallmark features of the human brain: GPR89B in dosage mediated brain expansion and FRMPD2B in altered synapse signaling. Our holistic approach provides new insights and a comprehensive resource for studying gene expansion drivers of human brain evolution. ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23   Single cell RNA sequencing of zebrafish heads from well C05 Humanized Plate 1 Well C05 SAMEA118224961 UNIVERSITY OF CALIFORNIA - DAVIS ENA first public:2025 05 23|INSDC center name:UNIVERSITY OF CALIFORNIA DAVIS|INSDC status:public|Submitter Id:Sample HUM1 C05|collection date:2022 11 14|common name:zebrafish|dev stage:72 hpf|geographic location country and/or sea:USA|sample name:Sample HUM1 C05|scientific name:Danio rerio                 Raw reads: Sample HUM1 C05 webin reads Sample HUM1 C05   unspecified   ENA STATUS ID:4 RNA-Seq TRANSCRIPTOMIC SINGLE CELL cDNA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP166068 Raw reads: Sample HUM1 C05 ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23 C05.R1.fastq.gz C05.R2.fastq.gz fastq fastq 406863000.0 1356210.0 webin reads Sample HUM1 C05 0:150 1:150 A:135043675;C:48707343;G:87607964;T:135501103;N:2915 150 150     135043675 48707343 87607964 135501103 2915 ERX14339166 ERS24360038 ERA33112290 UNIVERSITY OF CALIFORNIA - DAVIS|European Nucleotide Archive UNIVERSITY OF CALIFORNIA - DAVIS                       B B mate1-mate2 similar by mapping diff illumina novaseq_era unknown poly_a unknown sc single_cell_generic generic-scrnaseq-only   United States 2025-05-23 Larval Larval Head Nervous System
19223 19223 ERR14934974 ERX14339216 ERS24360047 ERP166068 PRJEB82358 Human gene duplications 53f6d331-4985-4b69-8ac3-a57d010118dd Other Duplicated genes expanded in the human lineage likely contributed to brain evolution yet challenges exist in their discovery due to sequence assembly errors. We used a complete telomere to telomere genome sequence to identify 213 human specific gene families. From these 362 paralogs were found in all modern human genomes tested and brain transcriptomes making them top candidates contributing to human universal brain features. Choosing a subset of paralogs we used long read DNA sequencing of hundreds of modern humans to reveal previously hidden signatures of selection. To understand their roles in brain development we generated zebrafish CRISPR “knockout” models of nine orthologs and introduced mRNA encoding paralogs effectively “humanizing” larvae. Our findings implicate two new genes in possibly contributing to hallmark features of the human brain: GPR89B in dosage mediated brain expansion and FRMPD2B in altered synapse signaling. Our holistic approach provides new insights and a comprehensive resource for studying gene expansion drivers of human brain evolution. ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23   Single cell RNA sequencing of zebrafish heads from well D02 Humanized Plate 1 Well D02 SAMEA118224970 UNIVERSITY OF CALIFORNIA - DAVIS ENA first public:2025 05 23|INSDC center name:UNIVERSITY OF CALIFORNIA DAVIS|INSDC status:public|Submitter Id:Sample HUM1 D02|collection date:2022 11 14|common name:zebrafish|dev stage:72 hpf|geographic location country and/or sea:USA|sample name:Sample HUM1 D02|scientific name:Danio rerio                 Raw reads: Sample HUM1 D02 webin reads Sample HUM1 D02   unspecified   ENA STATUS ID:4 RNA-Seq TRANSCRIPTOMIC SINGLE CELL cDNA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP166068 Raw reads: Sample HUM1 D02 ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23 D02.R1.fastq.gz D02.R2.fastq.gz fastq fastq 231350700.0 771169.0 webin reads Sample HUM1 D02 0:150 1:150 A:61554211;C:27195025;G:82686912;T:59912853;N:1699 150 150     61554211 27195025 82686912 59912853 1699 ERX14339216 ERS24360047 ERA33112492 UNIVERSITY OF CALIFORNIA - DAVIS|European Nucleotide Archive UNIVERSITY OF CALIFORNIA - DAVIS                       T T mates < 9% mapping rate illumina novaseq_era unknown poly_a unknown sc single_cell_generic generic-scrnaseq-only   United States 2025-05-23 Larval Larval Head Nervous System
19224 19224 ERR14937148 ERX14341392 ERS24422818 ERP166068 PRJEB82358 Human gene duplications 53f6d331-4985-4b69-8ac3-a57d010118dd Other Duplicated genes expanded in the human lineage likely contributed to brain evolution yet challenges exist in their discovery due to sequence assembly errors. We used a complete telomere to telomere genome sequence to identify 213 human specific gene families. From these 362 paralogs were found in all modern human genomes tested and brain transcriptomes making them top candidates contributing to human universal brain features. Choosing a subset of paralogs we used long read DNA sequencing of hundreds of modern humans to reveal previously hidden signatures of selection. To understand their roles in brain development we generated zebrafish CRISPR “knockout” models of nine orthologs and introduced mRNA encoding paralogs effectively “humanizing” larvae. Our findings implicate two new genes in possibly contributing to hallmark features of the human brain: GPR89B in dosage mediated brain expansion and FRMPD2B in altered synapse signaling. Our holistic approach provides new insights and a comprehensive resource for studying gene expansion drivers of human brain evolution. ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23   Single cell RNA sequencing of zebrafish heads from well G07 Humanized Plate 2 Well G07 SAMEA118242644 UNIVERSITY OF CALIFORNIA - DAVIS ENA first public:2025 05 23|INSDC center name:UNIVERSITY OF CALIFORNIA DAVIS|INSDC status:public|Submitter Id:Sample HUM2 G07|collection date:2022 12 21|common name:zebrafish|dev stage:72 hpf|geographic location country and/or sea:USA|sample name:Sample HUM2 G07|scientific name:Danio rerio                 Raw reads: Sample HUM2 G07 webin reads Sample HUM2 G07   unspecified   ENA STATUS ID:4 RNA-Seq TRANSCRIPTOMIC SINGLE CELL cDNA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP166068 Raw reads: Sample HUM2 G07 ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23 G07.R1.fastq.gz G07.R2.fastq.gz fastq fastq 1858827300.0 6196091.0 webin reads Sample HUM2 G07 0:150 1:150 A:377243729;C:275647713;G:834077378;T:371849924;N:8556 150 150     377243729 275647713 834077378 371849924 8556 ERX14341392 ERS24422818 ERA33115718 UNIVERSITY OF CALIFORNIA - DAVIS|European Nucleotide Archive UNIVERSITY OF CALIFORNIA - DAVIS                       T T mates < 9% mapping rate illumina novaseq_era unknown poly_a unknown sc single_cell_generic generic-scrnaseq-only   United States 2025-05-23 Larval Larval Head Nervous System
19225 19225 ERR14935143 ERX14339385 ERS24360101 ERP166068 PRJEB82358 Human gene duplications 53f6d331-4985-4b69-8ac3-a57d010118dd Other Duplicated genes expanded in the human lineage likely contributed to brain evolution yet challenges exist in their discovery due to sequence assembly errors. We used a complete telomere to telomere genome sequence to identify 213 human specific gene families. From these 362 paralogs were found in all modern human genomes tested and brain transcriptomes making them top candidates contributing to human universal brain features. Choosing a subset of paralogs we used long read DNA sequencing of hundreds of modern humans to reveal previously hidden signatures of selection. To understand their roles in brain development we generated zebrafish CRISPR “knockout” models of nine orthologs and introduced mRNA encoding paralogs effectively “humanizing” larvae. Our findings implicate two new genes in possibly contributing to hallmark features of the human brain: GPR89B in dosage mediated brain expansion and FRMPD2B in altered synapse signaling. Our holistic approach provides new insights and a comprehensive resource for studying gene expansion drivers of human brain evolution. ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23   Single cell RNA sequencing of zebrafish heads from well H08 Humanized Plate 1 Well H08 SAMEA118225024 UNIVERSITY OF CALIFORNIA - DAVIS ENA first public:2025 05 23|INSDC center name:UNIVERSITY OF CALIFORNIA DAVIS|INSDC status:public|Submitter Id:Sample HUM1 H08|collection date:2022 11 14|common name:zebrafish|dev stage:72 hpf|geographic location country and/or sea:USA|sample name:Sample HUM1 H08|scientific name:Danio rerio                 Raw reads: Sample HUM1 H08 webin reads Sample HUM1 H08   unspecified   ENA STATUS ID:4 RNA-Seq TRANSCRIPTOMIC SINGLE CELL cDNA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP166068 Raw reads: Sample HUM1 H08 ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23 H08.R1.fastq.gz H08.R2.fastq.gz fastq fastq 104513100.0 348377.0 webin reads Sample HUM1 H08 0:150 1:150 A:24551652;C:12552824;G:43587381;T:23820238;N:1005 150 150     24551652 12552824 43587381 23820238 1005 ERX14339385 ERS24360101 ERA33113082 UNIVERSITY OF CALIFORNIA - DAVIS|European Nucleotide Archive UNIVERSITY OF CALIFORNIA - DAVIS                       T T mates < 9% mapping rate illumina novaseq_era unknown poly_a unknown sc single_cell_generic generic-scrnaseq-only   United States 2025-05-23 Larval Larval Head Nervous System
19226 19226 ERR14936904 ERX14341146 ERS24422763 ERP166068 PRJEB82358 Human gene duplications 53f6d331-4985-4b69-8ac3-a57d010118dd Other Duplicated genes expanded in the human lineage likely contributed to brain evolution yet challenges exist in their discovery due to sequence assembly errors. We used a complete telomere to telomere genome sequence to identify 213 human specific gene families. From these 362 paralogs were found in all modern human genomes tested and brain transcriptomes making them top candidates contributing to human universal brain features. Choosing a subset of paralogs we used long read DNA sequencing of hundreds of modern humans to reveal previously hidden signatures of selection. To understand their roles in brain development we generated zebrafish CRISPR “knockout” models of nine orthologs and introduced mRNA encoding paralogs effectively “humanizing” larvae. Our findings implicate two new genes in possibly contributing to hallmark features of the human brain: GPR89B in dosage mediated brain expansion and FRMPD2B in altered synapse signaling. Our holistic approach provides new insights and a comprehensive resource for studying gene expansion drivers of human brain evolution. ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23   Single cell RNA sequencing of zebrafish heads from well B12 Humanized Plate 2 Well B12 SAMEA118242589 UNIVERSITY OF CALIFORNIA - DAVIS ENA first public:2025 05 23|INSDC center name:UNIVERSITY OF CALIFORNIA DAVIS|INSDC status:public|Submitter Id:Sample HUM2 B12|collection date:2022 12 21|common name:zebrafish|dev stage:72 hpf|geographic location country and/or sea:USA|sample name:Sample HUM2 B12|scientific name:Danio rerio                 Raw reads: Sample HUM2 B12 webin reads Sample HUM2 B12   unspecified   ENA STATUS ID:4 RNA-Seq TRANSCRIPTOMIC SINGLE CELL cDNA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP166068 Raw reads: Sample HUM2 B12 ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23 B12.R1.fastq.gz B12.R2.fastq.gz fastq fastq 14783024100.0 49276747.0 webin reads Sample HUM2 B12 0:150 1:150 A:4993941125;C:1900193626;G:3694935207;T:4193880937;N:73205 150 150     4993941125 1900193626 3694935207 4193880937 73205 ERX14341146 ERS24422763 ERA33115587 UNIVERSITY OF CALIFORNIA - DAVIS|European Nucleotide Archive UNIVERSITY OF CALIFORNIA - DAVIS                       T T mates < 9% mapping rate illumina novaseq_era unknown poly_a unknown sc single_cell_generic generic-scrnaseq-only   United States 2025-05-23 Larval Larval Head Nervous System
19227 19227 ERR14935120 ERX14339362 ERS24360094 ERP166068 PRJEB82358 Human gene duplications 53f6d331-4985-4b69-8ac3-a57d010118dd Other Duplicated genes expanded in the human lineage likely contributed to brain evolution yet challenges exist in their discovery due to sequence assembly errors. We used a complete telomere to telomere genome sequence to identify 213 human specific gene families. From these 362 paralogs were found in all modern human genomes tested and brain transcriptomes making them top candidates contributing to human universal brain features. Choosing a subset of paralogs we used long read DNA sequencing of hundreds of modern humans to reveal previously hidden signatures of selection. To understand their roles in brain development we generated zebrafish CRISPR “knockout” models of nine orthologs and introduced mRNA encoding paralogs effectively “humanizing” larvae. Our findings implicate two new genes in possibly contributing to hallmark features of the human brain: GPR89B in dosage mediated brain expansion and FRMPD2B in altered synapse signaling. Our holistic approach provides new insights and a comprehensive resource for studying gene expansion drivers of human brain evolution. ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23   Single cell RNA sequencing of zebrafish heads from well H01 Humanized Plate 1 Well H01 SAMEA118225017 UNIVERSITY OF CALIFORNIA - DAVIS ENA first public:2025 05 23|INSDC center name:UNIVERSITY OF CALIFORNIA DAVIS|INSDC status:public|Submitter Id:Sample HUM1 H01|collection date:2022 11 14|common name:zebrafish|dev stage:72 hpf|geographic location country and/or sea:USA|sample name:Sample HUM1 H01|scientific name:Danio rerio                 Raw reads: Sample HUM1 H01 webin reads Sample HUM1 H01   unspecified   ENA STATUS ID:4 RNA-Seq TRANSCRIPTOMIC SINGLE CELL cDNA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP166068 Raw reads: Sample HUM1 H01 ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23 H01.R1.fastq.gz H01.R2.fastq.gz fastq fastq 214281900.0 714273.0 webin reads Sample HUM1 H01 0:150 1:150 A:63612930;C:24945238;G:64455038;T:61267490;N:1204 150 150     63612930 24945238 64455038 61267490 1204 ERX14339362 ERS24360094 ERA33112989 UNIVERSITY OF CALIFORNIA - DAVIS|European Nucleotide Archive UNIVERSITY OF CALIFORNIA - DAVIS                       B B biological fallback assumption illumina novaseq_era unknown poly_a unknown sc single_cell_generic generic-scrnaseq-only   United States 2025-05-23 Larval Larval Head Nervous System
19228 19228 ERR14935021 ERX14339263 ERS24360064 ERP166068 PRJEB82358 Human gene duplications 53f6d331-4985-4b69-8ac3-a57d010118dd Other Duplicated genes expanded in the human lineage likely contributed to brain evolution yet challenges exist in their discovery due to sequence assembly errors. We used a complete telomere to telomere genome sequence to identify 213 human specific gene families. From these 362 paralogs were found in all modern human genomes tested and brain transcriptomes making them top candidates contributing to human universal brain features. Choosing a subset of paralogs we used long read DNA sequencing of hundreds of modern humans to reveal previously hidden signatures of selection. To understand their roles in brain development we generated zebrafish CRISPR “knockout” models of nine orthologs and introduced mRNA encoding paralogs effectively “humanizing” larvae. Our findings implicate two new genes in possibly contributing to hallmark features of the human brain: GPR89B in dosage mediated brain expansion and FRMPD2B in altered synapse signaling. Our holistic approach provides new insights and a comprehensive resource for studying gene expansion drivers of human brain evolution. ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23   Single cell RNA sequencing of zebrafish heads from well E07 Humanized Plate 1 Well E07 SAMEA118224987 UNIVERSITY OF CALIFORNIA - DAVIS ENA first public:2025 05 23|INSDC center name:UNIVERSITY OF CALIFORNIA DAVIS|INSDC status:public|Submitter Id:Sample HUM1 E07|collection date:2022 11 14|common name:zebrafish|dev stage:72 hpf|geographic location country and/or sea:USA|sample name:Sample HUM1 E07|scientific name:Danio rerio                 Raw reads: Sample HUM1 E07 webin reads Sample HUM1 E07   unspecified   ENA STATUS ID:4 RNA-Seq TRANSCRIPTOMIC SINGLE CELL cDNA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP166068 Raw reads: Sample HUM1 E07 ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23 E07.R1.fastq.gz E07.R2.fastq.gz fastq fastq 274863600.0 916212.0 webin reads Sample HUM1 E07 0:150 1:150 A:89634361;C:31803602;G:65721376;T:87702420;N:1841 150 150     89634361 31803602 65721376 87702420 1841 ERX14339263 ERS24360064 ERA33112659 UNIVERSITY OF CALIFORNIA - DAVIS|European Nucleotide Archive UNIVERSITY OF CALIFORNIA - DAVIS                       B B mate1-mate2 similar by mapping diff illumina novaseq_era unknown poly_a unknown sc single_cell_generic generic-scrnaseq-only   United States 2025-05-23 Larval Larval Head Nervous System
19229 19229 ERR14950666 ERX14354790 ERS24422897 ERP166068 PRJEB82358 Human gene duplications 53f6d331-4985-4b69-8ac3-a57d010118dd Other Duplicated genes expanded in the human lineage likely contributed to brain evolution yet challenges exist in their discovery due to sequence assembly errors. We used a complete telomere to telomere genome sequence to identify 213 human specific gene families. From these 362 paralogs were found in all modern human genomes tested and brain transcriptomes making them top candidates contributing to human universal brain features. Choosing a subset of paralogs we used long read DNA sequencing of hundreds of modern humans to reveal previously hidden signatures of selection. To understand their roles in brain development we generated zebrafish CRISPR “knockout” models of nine orthologs and introduced mRNA encoding paralogs effectively “humanizing” larvae. Our findings implicate two new genes in possibly contributing to hallmark features of the human brain: GPR89B in dosage mediated brain expansion and FRMPD2B in altered synapse signaling. Our holistic approach provides new insights and a comprehensive resource for studying gene expansion drivers of human brain evolution. ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23   Single cell RNA sequencing of zebrafish heads from well C09 Knockout Plate Well C09 SAMEA118242723 UNIVERSITY OF CALIFORNIA - DAVIS ENA first public:2025 05 23|INSDC center name:UNIVERSITY OF CALIFORNIA DAVIS|INSDC status:public|Submitter Id:Sample KO C09|collection date:2022 05 13|common name:zebrafish|dev stage:72 hpf|geographic location country and/or sea:USA|sample name:Sample KO C09|scientific name:Danio rerio                 Raw reads: Sample KO C09 webin reads Sample KO C09   unspecified   ENA STATUS ID:4 RNA-Seq TRANSCRIPTOMIC SINGLE CELL cDNA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP166068 Raw reads: Sample KO C09 ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23 C09.R1.fastq.gz C09.R2.fastq.gz fastq fastq 12910892700.0 43036309.0 webin reads Sample KO C09 0:150 1:150 A:4656205100;C:1791783755;G:2065221420;T:4397579948;N:102477 150 150     4656205100 1791783755 2065221420 4397579948 102477 ERX14354790 ERS24422897 ERA33121161 UNIVERSITY OF CALIFORNIA - DAVIS|European Nucleotide Archive UNIVERSITY OF CALIFORNIA - DAVIS                       B B biological fallback assumption illumina novaseq_era unknown poly_a unknown sc single_cell_generic generic-scrnaseq-only   United States 2025-05-23 Larval Larval Head Nervous System
19230 19230 ERR14936878 ERX14341120 ERS24422755 ERP166068 PRJEB82358 Human gene duplications 53f6d331-4985-4b69-8ac3-a57d010118dd Other Duplicated genes expanded in the human lineage likely contributed to brain evolution yet challenges exist in their discovery due to sequence assembly errors. We used a complete telomere to telomere genome sequence to identify 213 human specific gene families. From these 362 paralogs were found in all modern human genomes tested and brain transcriptomes making them top candidates contributing to human universal brain features. Choosing a subset of paralogs we used long read DNA sequencing of hundreds of modern humans to reveal previously hidden signatures of selection. To understand their roles in brain development we generated zebrafish CRISPR “knockout” models of nine orthologs and introduced mRNA encoding paralogs effectively “humanizing” larvae. Our findings implicate two new genes in possibly contributing to hallmark features of the human brain: GPR89B in dosage mediated brain expansion and FRMPD2B in altered synapse signaling. Our holistic approach provides new insights and a comprehensive resource for studying gene expansion drivers of human brain evolution. ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23   Single cell RNA sequencing of zebrafish heads from well B04 Humanized Plate 2 Well B04 SAMEA118242581 UNIVERSITY OF CALIFORNIA - DAVIS ENA first public:2025 05 23|INSDC center name:UNIVERSITY OF CALIFORNIA DAVIS|INSDC status:public|Submitter Id:Sample HUM2 B04|collection date:2022 12 21|common name:zebrafish|dev stage:72 hpf|geographic location country and/or sea:USA|sample name:Sample HUM2 B04|scientific name:Danio rerio                 Raw reads: Sample HUM2 B04 webin reads Sample HUM2 B04   unspecified   ENA STATUS ID:4 RNA-Seq TRANSCRIPTOMIC SINGLE CELL cDNA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP166068 Raw reads: Sample HUM2 B04 ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23 B04.R1.fastq.gz B04.R2.fastq.gz fastq fastq 2614344300.0 8714481.0 webin reads Sample HUM2 B04 0:150 1:150 A:495532634;C:388504084;G:1222436337;T:507858943;N:12302 150 150     495532634 388504084 1222436337 507858943 12302 ERX14341120 ERS24422755 ERA33115558 UNIVERSITY OF CALIFORNIA - DAVIS|European Nucleotide Archive UNIVERSITY OF CALIFORNIA - DAVIS                       T T mates < 9% mapping rate illumina novaseq_era unknown poly_a unknown sc single_cell_generic generic-scrnaseq-only   United States 2025-05-23 Larval Larval Head Nervous System
19231 19231 ERR14950561 ERX14354685 ERS24422871 ERP166068 PRJEB82358 Human gene duplications 53f6d331-4985-4b69-8ac3-a57d010118dd Other Duplicated genes expanded in the human lineage likely contributed to brain evolution yet challenges exist in their discovery due to sequence assembly errors. We used a complete telomere to telomere genome sequence to identify 213 human specific gene families. From these 362 paralogs were found in all modern human genomes tested and brain transcriptomes making them top candidates contributing to human universal brain features. Choosing a subset of paralogs we used long read DNA sequencing of hundreds of modern humans to reveal previously hidden signatures of selection. To understand their roles in brain development we generated zebrafish CRISPR “knockout” models of nine orthologs and introduced mRNA encoding paralogs effectively “humanizing” larvae. Our findings implicate two new genes in possibly contributing to hallmark features of the human brain: GPR89B in dosage mediated brain expansion and FRMPD2B in altered synapse signaling. Our holistic approach provides new insights and a comprehensive resource for studying gene expansion drivers of human brain evolution. ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23   Single cell RNA sequencing of zebrafish heads from well A07 Knockout Plate Well A07 SAMEA118242697 UNIVERSITY OF CALIFORNIA - DAVIS ENA first public:2025 05 23|INSDC center name:UNIVERSITY OF CALIFORNIA DAVIS|INSDC status:public|Submitter Id:Sample KO A07|collection date:2022 05 13|common name:zebrafish|dev stage:72 hpf|geographic location country and/or sea:USA|sample name:Sample KO A07|scientific name:Danio rerio                 Raw reads: Sample KO A07 webin reads Sample KO A07   unspecified   ENA STATUS ID:4 RNA-Seq TRANSCRIPTOMIC SINGLE CELL cDNA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP166068 Raw reads: Sample KO A07 ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23 A07.R1.fastq.gz A07.R2.fastq.gz fastq fastq 3401128800.0 11337096.0 webin reads Sample KO A07 0:150 1:150 A:1234869505;C:459023584;G:579824655;T:1127383390;N:27666 150 150     1234869505 459023584 579824655 1127383390 27666 ERX14354685 ERS24422871 ERA33121056 UNIVERSITY OF CALIFORNIA - DAVIS|European Nucleotide Archive UNIVERSITY OF CALIFORNIA - DAVIS                       B B biological fallback assumption illumina novaseq_era unknown poly_a unknown sc single_cell_generic generic-scrnaseq-only   United States 2025-05-23 Larval Larval Head Nervous System
19232 19232 ERR14936823 ERX14341065 ERS24422746 ERP166068 PRJEB82358 Human gene duplications 53f6d331-4985-4b69-8ac3-a57d010118dd Other Duplicated genes expanded in the human lineage likely contributed to brain evolution yet challenges exist in their discovery due to sequence assembly errors. We used a complete telomere to telomere genome sequence to identify 213 human specific gene families. From these 362 paralogs were found in all modern human genomes tested and brain transcriptomes making them top candidates contributing to human universal brain features. Choosing a subset of paralogs we used long read DNA sequencing of hundreds of modern humans to reveal previously hidden signatures of selection. To understand their roles in brain development we generated zebrafish CRISPR “knockout” models of nine orthologs and introduced mRNA encoding paralogs effectively “humanizing” larvae. Our findings implicate two new genes in possibly contributing to hallmark features of the human brain: GPR89B in dosage mediated brain expansion and FRMPD2B in altered synapse signaling. Our holistic approach provides new insights and a comprehensive resource for studying gene expansion drivers of human brain evolution. ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23   Single cell RNA sequencing of zebrafish heads from well A07 Humanized Plate 2 Well A07 SAMEA118242572 UNIVERSITY OF CALIFORNIA - DAVIS ENA first public:2025 05 23|INSDC center name:UNIVERSITY OF CALIFORNIA DAVIS|INSDC status:public|Submitter Id:Sample HUM2 A07|collection date:2022 12 21|common name:zebrafish|dev stage:72 hpf|geographic location country and/or sea:USA|sample name:Sample HUM2 A07|scientific name:Danio rerio                 Raw reads: Sample HUM2 A07 webin reads Sample HUM2 A07   unspecified   ENA STATUS ID:4 RNA-Seq TRANSCRIPTOMIC SINGLE CELL cDNA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP166068 Raw reads: Sample HUM2 A07 ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23 A07.R1.fastq.gz A07.R2.fastq.gz fastq fastq 3778502100.0 12595007.0 webin reads Sample HUM2 A07 0:150 1:150 A:710336891;C:494217522;G:1880968771;T:692961837;N:17079 150 150     710336891 494217522 1880968771 692961837 17079 ERX14341065 ERS24422746 ERA33115511 UNIVERSITY OF CALIFORNIA - DAVIS|European Nucleotide Archive UNIVERSITY OF CALIFORNIA - DAVIS                       T T mates < 9% mapping rate illumina novaseq_era unknown poly_a unknown sc single_cell_generic generic-scrnaseq-only   United States 2025-05-23 Larval Larval Head Nervous System
19233 19233 ERR14937143 ERX14341387 ERS24422813 ERP166068 PRJEB82358 Human gene duplications 53f6d331-4985-4b69-8ac3-a57d010118dd Other Duplicated genes expanded in the human lineage likely contributed to brain evolution yet challenges exist in their discovery due to sequence assembly errors. We used a complete telomere to telomere genome sequence to identify 213 human specific gene families. From these 362 paralogs were found in all modern human genomes tested and brain transcriptomes making them top candidates contributing to human universal brain features. Choosing a subset of paralogs we used long read DNA sequencing of hundreds of modern humans to reveal previously hidden signatures of selection. To understand their roles in brain development we generated zebrafish CRISPR “knockout” models of nine orthologs and introduced mRNA encoding paralogs effectively “humanizing” larvae. Our findings implicate two new genes in possibly contributing to hallmark features of the human brain: GPR89B in dosage mediated brain expansion and FRMPD2B in altered synapse signaling. Our holistic approach provides new insights and a comprehensive resource for studying gene expansion drivers of human brain evolution. ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23   Single cell RNA sequencing of zebrafish heads from well G02 Humanized Plate 2 Well G02 SAMEA118242639 UNIVERSITY OF CALIFORNIA - DAVIS ENA first public:2025 05 23|INSDC center name:UNIVERSITY OF CALIFORNIA DAVIS|INSDC status:public|Submitter Id:Sample HUM2 G02|collection date:2022 12 21|common name:zebrafish|dev stage:72 hpf|geographic location country and/or sea:USA|sample name:Sample HUM2 G02|scientific name:Danio rerio                 Raw reads: Sample HUM2 G02 webin reads Sample HUM2 G02   unspecified   ENA STATUS ID:4 RNA-Seq TRANSCRIPTOMIC SINGLE CELL cDNA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP166068 Raw reads: Sample HUM2 G02 ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23 G02.R1.fastq.gz G02.R2.fastq.gz fastq fastq 5962135800.0 19873786.0 webin reads Sample HUM2 G02 0:150 1:150 A:1745436521;C:821720129;G:1863789129;T:1531162608;N:27413 150 150     1745436521 821720129 1863789129 1531162608 27413 ERX14341387 ERS24422813 ERA33115710 UNIVERSITY OF CALIFORNIA - DAVIS|European Nucleotide Archive UNIVERSITY OF CALIFORNIA - DAVIS                       T T mates < 9% mapping rate illumina novaseq_era unknown poly_a unknown sc single_cell_generic generic-scrnaseq-only   United States 2025-05-23 Larval Larval Head Nervous System
19234 19234 ERR14934810 ERX14339052 ERS24360011 ERP166068 PRJEB82358 Human gene duplications 53f6d331-4985-4b69-8ac3-a57d010118dd Other Duplicated genes expanded in the human lineage likely contributed to brain evolution yet challenges exist in their discovery due to sequence assembly errors. We used a complete telomere to telomere genome sequence to identify 213 human specific gene families. From these 362 paralogs were found in all modern human genomes tested and brain transcriptomes making them top candidates contributing to human universal brain features. Choosing a subset of paralogs we used long read DNA sequencing of hundreds of modern humans to reveal previously hidden signatures of selection. To understand their roles in brain development we generated zebrafish CRISPR “knockout” models of nine orthologs and introduced mRNA encoding paralogs effectively “humanizing” larvae. Our findings implicate two new genes in possibly contributing to hallmark features of the human brain: GPR89B in dosage mediated brain expansion and FRMPD2B in altered synapse signaling. Our holistic approach provides new insights and a comprehensive resource for studying gene expansion drivers of human brain evolution. ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23   Single cell RNA sequencing of zebrafish heads from well A02 Humanized Plate 1 Well A02 SAMEA118224934 UNIVERSITY OF CALIFORNIA - DAVIS ENA first public:2025 05 23|INSDC center name:UNIVERSITY OF CALIFORNIA DAVIS|INSDC status:public|Submitter Id:Sample HUM1 A02|collection date:2022 11 14|common name:zebrafish|dev stage:72 hpf|geographic location country and/or sea:USA|sample name:Sample HUM1 A02|scientific name:Danio rerio                 Raw reads: Sample HUM1 A02 webin reads Sample HUM1 A02   unspecified   ENA STATUS ID:4 RNA-Seq TRANSCRIPTOMIC SINGLE CELL cDNA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP166068 Raw reads: Sample HUM1 A02 ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23 A02.R1.fastq.gz A02.R2.fastq.gz fastq fastq 480559200.0 1601864.0 webin reads Sample HUM1 A02 0:150 1:150 A:163177108;C:53718756;G:98835089;T:164825485;N:2762 150 150     163177108 53718756 98835089 164825485 2762 ERX14339052 ERS24360011 ERA33111955 UNIVERSITY OF CALIFORNIA - DAVIS|European Nucleotide Archive UNIVERSITY OF CALIFORNIA - DAVIS                       B B mate1-mate2 similar by mapping diff illumina novaseq_era unknown poly_a unknown sc single_cell_generic generic-scrnaseq-only   United States 2025-05-23 Larval Larval Head Nervous System
19235 19235 ERR14934984 ERX14339226 ERS24360049 ERP166068 PRJEB82358 Human gene duplications 53f6d331-4985-4b69-8ac3-a57d010118dd Other Duplicated genes expanded in the human lineage likely contributed to brain evolution yet challenges exist in their discovery due to sequence assembly errors. We used a complete telomere to telomere genome sequence to identify 213 human specific gene families. From these 362 paralogs were found in all modern human genomes tested and brain transcriptomes making them top candidates contributing to human universal brain features. Choosing a subset of paralogs we used long read DNA sequencing of hundreds of modern humans to reveal previously hidden signatures of selection. To understand their roles in brain development we generated zebrafish CRISPR “knockout” models of nine orthologs and introduced mRNA encoding paralogs effectively “humanizing” larvae. Our findings implicate two new genes in possibly contributing to hallmark features of the human brain: GPR89B in dosage mediated brain expansion and FRMPD2B in altered synapse signaling. Our holistic approach provides new insights and a comprehensive resource for studying gene expansion drivers of human brain evolution. ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23   Single cell RNA sequencing of zebrafish heads from well D04 Humanized Plate 1 Well D04 SAMEA118224972 UNIVERSITY OF CALIFORNIA - DAVIS ENA first public:2025 05 23|INSDC center name:UNIVERSITY OF CALIFORNIA DAVIS|INSDC status:public|Submitter Id:Sample HUM1 D04|collection date:2022 11 14|common name:zebrafish|dev stage:72 hpf|geographic location country and/or sea:USA|sample name:Sample HUM1 D04|scientific name:Danio rerio                 Raw reads: Sample HUM1 D04 webin reads Sample HUM1 D04   unspecified   ENA STATUS ID:4 RNA-Seq TRANSCRIPTOMIC SINGLE CELL cDNA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP166068 Raw reads: Sample HUM1 D04 ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23 D04.R1.fastq.gz D04.R2.fastq.gz fastq fastq 179225700.0 597419.0 webin reads Sample HUM1 D04 0:150 1:150 A:45457519;C:22876690;G:67395901;T:43493765;N:1825 150 150     45457519 22876690 67395901 43493765 1825 ERX14339226 ERS24360049 ERA33112537 UNIVERSITY OF CALIFORNIA - DAVIS|European Nucleotide Archive UNIVERSITY OF CALIFORNIA - DAVIS                       B B biological fallback assumption illumina novaseq_era unknown poly_a unknown sc single_cell_generic generic-scrnaseq-only   United States 2025-05-23 Larval Larval Head Nervous System
19236 19236 ERR14934845 ERX14339087 ERS24360021 ERP166068 PRJEB82358 Human gene duplications 53f6d331-4985-4b69-8ac3-a57d010118dd Other Duplicated genes expanded in the human lineage likely contributed to brain evolution yet challenges exist in their discovery due to sequence assembly errors. We used a complete telomere to telomere genome sequence to identify 213 human specific gene families. From these 362 paralogs were found in all modern human genomes tested and brain transcriptomes making them top candidates contributing to human universal brain features. Choosing a subset of paralogs we used long read DNA sequencing of hundreds of modern humans to reveal previously hidden signatures of selection. To understand their roles in brain development we generated zebrafish CRISPR “knockout” models of nine orthologs and introduced mRNA encoding paralogs effectively “humanizing” larvae. Our findings implicate two new genes in possibly contributing to hallmark features of the human brain: GPR89B in dosage mediated brain expansion and FRMPD2B in altered synapse signaling. Our holistic approach provides new insights and a comprehensive resource for studying gene expansion drivers of human brain evolution. ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23   Single cell RNA sequencing of zebrafish heads from well A12 Humanized Plate 1 Well A12 SAMEA118224944 UNIVERSITY OF CALIFORNIA - DAVIS ENA first public:2025 05 23|INSDC center name:UNIVERSITY OF CALIFORNIA DAVIS|INSDC status:public|Submitter Id:Sample HUM1 A12|collection date:2022 11 14|common name:zebrafish|dev stage:72 hpf|geographic location country and/or sea:USA|sample name:Sample HUM1 A12|scientific name:Danio rerio                 Raw reads: Sample HUM1 A12 webin reads Sample HUM1 A12   unspecified   ENA STATUS ID:4 RNA-Seq TRANSCRIPTOMIC SINGLE CELL cDNA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP166068 Raw reads: Sample HUM1 A12 ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23 A12.R1.fastq.gz A12.R2.fastq.gz fastq fastq 77425200.0 258084.0 webin reads Sample HUM1 A12 0:150 1:150 A:16644810;C:10391814;G:34720928;T:15667259;N:389 150 150     16644810 10391814 34720928 15667259 389 ERX14339087 ERS24360021 ERA33112104 UNIVERSITY OF CALIFORNIA - DAVIS|European Nucleotide Archive UNIVERSITY OF CALIFORNIA - DAVIS                       T T mates < 9% mapping rate illumina novaseq_era unknown poly_a unknown sc single_cell_generic generic-scrnaseq-only   United States 2025-05-23 Larval Larval Head Nervous System
19237 19237 ERR14934855 ERX14339097 ERS24360024 ERP166068 PRJEB82358 Human gene duplications 53f6d331-4985-4b69-8ac3-a57d010118dd Other Duplicated genes expanded in the human lineage likely contributed to brain evolution yet challenges exist in their discovery due to sequence assembly errors. We used a complete telomere to telomere genome sequence to identify 213 human specific gene families. From these 362 paralogs were found in all modern human genomes tested and brain transcriptomes making them top candidates contributing to human universal brain features. Choosing a subset of paralogs we used long read DNA sequencing of hundreds of modern humans to reveal previously hidden signatures of selection. To understand their roles in brain development we generated zebrafish CRISPR “knockout” models of nine orthologs and introduced mRNA encoding paralogs effectively “humanizing” larvae. Our findings implicate two new genes in possibly contributing to hallmark features of the human brain: GPR89B in dosage mediated brain expansion and FRMPD2B in altered synapse signaling. Our holistic approach provides new insights and a comprehensive resource for studying gene expansion drivers of human brain evolution. ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23   Single cell RNA sequencing of zebrafish heads from well B03 Humanized Plate 1 Well B03 SAMEA118224947 UNIVERSITY OF CALIFORNIA - DAVIS ENA first public:2025 05 23|INSDC center name:UNIVERSITY OF CALIFORNIA DAVIS|INSDC status:public|Submitter Id:Sample HUM1 B03|collection date:2022 11 14|common name:zebrafish|dev stage:72 hpf|geographic location country and/or sea:USA|sample name:Sample HUM1 B03|scientific name:Danio rerio                 Raw reads: Sample HUM1 B03 webin reads Sample HUM1 B03   unspecified   ENA STATUS ID:4 RNA-Seq TRANSCRIPTOMIC SINGLE CELL cDNA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP166068 Raw reads: Sample HUM1 B03 ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23 B03.R1.fastq.gz B03.R2.fastq.gz fastq fastq 94155000.0 313850.0 webin reads Sample HUM1 B03 0:150 1:150 A:23101292;C:11479599;G:38484223;T:21089074;N:812 150 150     23101292 11479599 38484223 21089074 812 ERX14339097 ERS24360024 ERA33112137 UNIVERSITY OF CALIFORNIA - DAVIS|European Nucleotide Archive UNIVERSITY OF CALIFORNIA - DAVIS                       T T mates < 9% mapping rate illumina novaseq_era unknown poly_a unknown sc single_cell_generic generic-scrnaseq-only   United States 2025-05-23 Larval Larval Head Nervous System
19238 19238 ERR14943975 ERX14348127 ERS24422869 ERP166068 PRJEB82358 Human gene duplications 53f6d331-4985-4b69-8ac3-a57d010118dd Other Duplicated genes expanded in the human lineage likely contributed to brain evolution yet challenges exist in their discovery due to sequence assembly errors. We used a complete telomere to telomere genome sequence to identify 213 human specific gene families. From these 362 paralogs were found in all modern human genomes tested and brain transcriptomes making them top candidates contributing to human universal brain features. Choosing a subset of paralogs we used long read DNA sequencing of hundreds of modern humans to reveal previously hidden signatures of selection. To understand their roles in brain development we generated zebrafish CRISPR “knockout” models of nine orthologs and introduced mRNA encoding paralogs effectively “humanizing” larvae. Our findings implicate two new genes in possibly contributing to hallmark features of the human brain: GPR89B in dosage mediated brain expansion and FRMPD2B in altered synapse signaling. Our holistic approach provides new insights and a comprehensive resource for studying gene expansion drivers of human brain evolution. ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23   Single cell RNA sequencing of zebrafish heads from well A05 Knockout Plate Well A05 SAMEA118242695 UNIVERSITY OF CALIFORNIA - DAVIS ENA first public:2025 05 23|INSDC center name:UNIVERSITY OF CALIFORNIA DAVIS|INSDC status:public|Submitter Id:Sample KO A05|collection date:2022 05 13|common name:zebrafish|dev stage:72 hpf|geographic location country and/or sea:USA|sample name:Sample KO A05|scientific name:Danio rerio                 Raw reads: Sample KO A05 webin reads Sample KO A05   unspecified   ENA STATUS ID:4 RNA-Seq TRANSCRIPTOMIC SINGLE CELL cDNA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP166068 Raw reads: Sample KO A05 ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23 A05.R1.fastq.gz A05.R2.fastq.gz fastq fastq 3911878200.0 13039594.0 webin reads Sample KO A05 0:150 1:150 A:1402938003;C:529582691;G:715316068;T:1264010327;N:31111 150 150     1402938003 529582691 715316068 1264010327 31111 ERX14348127 ERS24422869 ERA33119600 UNIVERSITY OF CALIFORNIA - DAVIS|European Nucleotide Archive UNIVERSITY OF CALIFORNIA - DAVIS                       B B biological fallback assumption illumina novaseq_era unknown poly_a unknown sc single_cell_generic generic-scrnaseq-only   United States 2025-05-23 Larval Larval Head Nervous System
19239 19239 ERR14937117 ERX14341361 ERS24422810 ERP166068 PRJEB82358 Human gene duplications 53f6d331-4985-4b69-8ac3-a57d010118dd Other Duplicated genes expanded in the human lineage likely contributed to brain evolution yet challenges exist in their discovery due to sequence assembly errors. We used a complete telomere to telomere genome sequence to identify 213 human specific gene families. From these 362 paralogs were found in all modern human genomes tested and brain transcriptomes making them top candidates contributing to human universal brain features. Choosing a subset of paralogs we used long read DNA sequencing of hundreds of modern humans to reveal previously hidden signatures of selection. To understand their roles in brain development we generated zebrafish CRISPR “knockout” models of nine orthologs and introduced mRNA encoding paralogs effectively “humanizing” larvae. Our findings implicate two new genes in possibly contributing to hallmark features of the human brain: GPR89B in dosage mediated brain expansion and FRMPD2B in altered synapse signaling. Our holistic approach provides new insights and a comprehensive resource for studying gene expansion drivers of human brain evolution. ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23   Single cell RNA sequencing of zebrafish heads from well F11 Humanized Plate 2 Well F11 SAMEA118242636 UNIVERSITY OF CALIFORNIA - DAVIS ENA first public:2025 05 23|INSDC center name:UNIVERSITY OF CALIFORNIA DAVIS|INSDC status:public|Submitter Id:Sample HUM2 F11|collection date:2022 12 21|common name:zebrafish|dev stage:72 hpf|geographic location country and/or sea:USA|sample name:Sample HUM2 F11|scientific name:Danio rerio                 Raw reads: Sample HUM2 F11 webin reads Sample HUM2 F11   unspecified   ENA STATUS ID:4 RNA-Seq TRANSCRIPTOMIC SINGLE CELL cDNA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP166068 Raw reads: Sample HUM2 F11 ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23 F11.R1.fastq.gz F11.R2.fastq.gz fastq fastq 3943764300.0 13145881.0 webin reads Sample HUM2 F11 0:150 1:150 A:1194917338;C:577472498;G:1192413538;T:978942667;N:18259 150 150     1194917338 577472498 1192413538 978942667 18259 ERX14341361 ERS24422810 ERA33115700 UNIVERSITY OF CALIFORNIA - DAVIS|European Nucleotide Archive UNIVERSITY OF CALIFORNIA - DAVIS                       T T mates < 9% mapping rate illumina novaseq_era unknown poly_a unknown sc single_cell_generic generic-scrnaseq-only   United States 2025-05-23 Larval Larval Head Nervous System
19240 19240 ERR14935149 ERX14339391 ERS24360104 ERP166068 PRJEB82358 Human gene duplications 53f6d331-4985-4b69-8ac3-a57d010118dd Other Duplicated genes expanded in the human lineage likely contributed to brain evolution yet challenges exist in their discovery due to sequence assembly errors. We used a complete telomere to telomere genome sequence to identify 213 human specific gene families. From these 362 paralogs were found in all modern human genomes tested and brain transcriptomes making them top candidates contributing to human universal brain features. Choosing a subset of paralogs we used long read DNA sequencing of hundreds of modern humans to reveal previously hidden signatures of selection. To understand their roles in brain development we generated zebrafish CRISPR “knockout” models of nine orthologs and introduced mRNA encoding paralogs effectively “humanizing” larvae. Our findings implicate two new genes in possibly contributing to hallmark features of the human brain: GPR89B in dosage mediated brain expansion and FRMPD2B in altered synapse signaling. Our holistic approach provides new insights and a comprehensive resource for studying gene expansion drivers of human brain evolution. ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23   Single cell RNA sequencing of zebrafish heads from well H11 Humanized Plate 1 Well H11 SAMEA118225027 UNIVERSITY OF CALIFORNIA - DAVIS ENA first public:2025 05 23|INSDC center name:UNIVERSITY OF CALIFORNIA DAVIS|INSDC status:public|Submitter Id:Sample HUM1 H11|collection date:2022 11 14|common name:zebrafish|dev stage:72 hpf|geographic location country and/or sea:USA|sample name:Sample HUM1 H11|scientific name:Danio rerio                 Raw reads: Sample HUM1 H11 webin reads Sample HUM1 H11   unspecified   ENA STATUS ID:4 RNA-Seq TRANSCRIPTOMIC SINGLE CELL cDNA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP166068 Raw reads: Sample HUM1 H11 ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23 H11.R1.fastq.gz H11.R2.fastq.gz fastq fastq 29087400.0 96958.0 webin reads Sample HUM1 H11 0:150 1:150 A:5335277;C:3932942;G:14621885;T:5197119;N:177 150 150     5335277 3932942 14621885 5197119 177 ERX14339391 ERS24360104 ERA33113103 UNIVERSITY OF CALIFORNIA - DAVIS|European Nucleotide Archive UNIVERSITY OF CALIFORNIA - DAVIS                       T T mates < 9% mapping rate illumina novaseq_era unknown poly_a unknown sc single_cell_generic generic-scrnaseq-only   United States 2025-05-23 Larval Larval Head Nervous System
19241 19241 ERR14935025 ERX14339267 ERS24360065 ERP166068 PRJEB82358 Human gene duplications 53f6d331-4985-4b69-8ac3-a57d010118dd Other Duplicated genes expanded in the human lineage likely contributed to brain evolution yet challenges exist in their discovery due to sequence assembly errors. We used a complete telomere to telomere genome sequence to identify 213 human specific gene families. From these 362 paralogs were found in all modern human genomes tested and brain transcriptomes making them top candidates contributing to human universal brain features. Choosing a subset of paralogs we used long read DNA sequencing of hundreds of modern humans to reveal previously hidden signatures of selection. To understand their roles in brain development we generated zebrafish CRISPR “knockout” models of nine orthologs and introduced mRNA encoding paralogs effectively “humanizing” larvae. Our findings implicate two new genes in possibly contributing to hallmark features of the human brain: GPR89B in dosage mediated brain expansion and FRMPD2B in altered synapse signaling. Our holistic approach provides new insights and a comprehensive resource for studying gene expansion drivers of human brain evolution. ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23   Single cell RNA sequencing of zebrafish heads from well E08 Humanized Plate 1 Well E08 SAMEA118224988 UNIVERSITY OF CALIFORNIA - DAVIS ENA first public:2025 05 23|INSDC center name:UNIVERSITY OF CALIFORNIA DAVIS|INSDC status:public|Submitter Id:Sample HUM1 E08|collection date:2022 11 14|common name:zebrafish|dev stage:72 hpf|geographic location country and/or sea:USA|sample name:Sample HUM1 E08|scientific name:Danio rerio                 Raw reads: Sample HUM1 E08 webin reads Sample HUM1 E08   unspecified   ENA STATUS ID:4 RNA-Seq TRANSCRIPTOMIC SINGLE CELL cDNA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP166068 Raw reads: Sample HUM1 E08 ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23 E08.R1.fastq.gz E08.R2.fastq.gz fastq fastq 220002300.0 733341.0 webin reads Sample HUM1 E08 0:150 1:150 A:62013327;C:25647839;G:72394925;T:59944865;N:1344 150 150     62013327 25647839 72394925 59944865 1344 ERX14339267 ERS24360065 ERA33112670 UNIVERSITY OF CALIFORNIA - DAVIS|European Nucleotide Archive UNIVERSITY OF CALIFORNIA - DAVIS                       T T mates < 9% mapping rate illumina novaseq_era unknown poly_a unknown sc single_cell_generic generic-scrnaseq-only   United States 2025-05-23 Larval Larval Head Nervous System
19242 19242 ERR14935108 ERX14339350 ERS24360090 ERP166068 PRJEB82358 Human gene duplications 53f6d331-4985-4b69-8ac3-a57d010118dd Other Duplicated genes expanded in the human lineage likely contributed to brain evolution yet challenges exist in their discovery due to sequence assembly errors. We used a complete telomere to telomere genome sequence to identify 213 human specific gene families. From these 362 paralogs were found in all modern human genomes tested and brain transcriptomes making them top candidates contributing to human universal brain features. Choosing a subset of paralogs we used long read DNA sequencing of hundreds of modern humans to reveal previously hidden signatures of selection. To understand their roles in brain development we generated zebrafish CRISPR “knockout” models of nine orthologs and introduced mRNA encoding paralogs effectively “humanizing” larvae. Our findings implicate two new genes in possibly contributing to hallmark features of the human brain: GPR89B in dosage mediated brain expansion and FRMPD2B in altered synapse signaling. Our holistic approach provides new insights and a comprehensive resource for studying gene expansion drivers of human brain evolution. ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23   Single cell RNA sequencing of zebrafish heads from well G09 Humanized Plate 1 Well G09 SAMEA118225013 UNIVERSITY OF CALIFORNIA - DAVIS ENA first public:2025 05 23|INSDC center name:UNIVERSITY OF CALIFORNIA DAVIS|INSDC status:public|Submitter Id:Sample HUM1 G09|collection date:2022 11 14|common name:zebrafish|dev stage:72 hpf|geographic location country and/or sea:USA|sample name:Sample HUM1 G09|scientific name:Danio rerio                 Raw reads: Sample HUM1 G09 webin reads Sample HUM1 G09   unspecified   ENA STATUS ID:4 RNA-Seq TRANSCRIPTOMIC SINGLE CELL cDNA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP166068 Raw reads: Sample HUM1 G09 ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23 G09.R1.fastq.gz G09.R2.fastq.gz fastq fastq 55286400.0 184288.0 webin reads Sample HUM1 G09 0:150 1:150 A:9253015;C:6978214;G:29393822;T:9661042;N:307 150 150     9253015 6978214 29393822 9661042 307 ERX14339350 ERS24360090 ERA33112953 UNIVERSITY OF CALIFORNIA - DAVIS|European Nucleotide Archive UNIVERSITY OF CALIFORNIA - DAVIS                       T T mates < 9% mapping rate illumina novaseq_era unknown poly_a unknown sc single_cell_generic generic-scrnaseq-only   United States 2025-05-23 Larval Larval Head Nervous System
19243 19243 ERR14935106 ERX14339348 ERS24360089 ERP166068 PRJEB82358 Human gene duplications 53f6d331-4985-4b69-8ac3-a57d010118dd Other Duplicated genes expanded in the human lineage likely contributed to brain evolution yet challenges exist in their discovery due to sequence assembly errors. We used a complete telomere to telomere genome sequence to identify 213 human specific gene families. From these 362 paralogs were found in all modern human genomes tested and brain transcriptomes making them top candidates contributing to human universal brain features. Choosing a subset of paralogs we used long read DNA sequencing of hundreds of modern humans to reveal previously hidden signatures of selection. To understand their roles in brain development we generated zebrafish CRISPR “knockout” models of nine orthologs and introduced mRNA encoding paralogs effectively “humanizing” larvae. Our findings implicate two new genes in possibly contributing to hallmark features of the human brain: GPR89B in dosage mediated brain expansion and FRMPD2B in altered synapse signaling. Our holistic approach provides new insights and a comprehensive resource for studying gene expansion drivers of human brain evolution. ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23   Single cell RNA sequencing of zebrafish heads from well G08 Humanized Plate 1 Well G08 SAMEA118225012 UNIVERSITY OF CALIFORNIA - DAVIS ENA first public:2025 05 23|INSDC center name:UNIVERSITY OF CALIFORNIA DAVIS|INSDC status:public|Submitter Id:Sample HUM1 G08|collection date:2022 11 14|common name:zebrafish|dev stage:72 hpf|geographic location country and/or sea:USA|sample name:Sample HUM1 G08|scientific name:Danio rerio                 Raw reads: Sample HUM1 G08 webin reads Sample HUM1 G08   unspecified   ENA STATUS ID:4 RNA-Seq TRANSCRIPTOMIC SINGLE CELL cDNA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP166068 Raw reads: Sample HUM1 G08 ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23 G08.R1.fastq.gz G08.R2.fastq.gz fastq fastq 90390000.0 301300.0 webin reads Sample HUM1 G08 0:150 1:150 A:14519869;C:11004100;G:49374862;T:15490478;N:691 150 150     14519869 11004100 49374862 15490478 691 ERX14339348 ERS24360089 ERA33112948 UNIVERSITY OF CALIFORNIA - DAVIS|European Nucleotide Archive UNIVERSITY OF CALIFORNIA - DAVIS                       T T mates < 9% mapping rate illumina novaseq_era unknown poly_a unknown sc single_cell_generic generic-scrnaseq-only   United States 2025-05-23 Larval Larval Head Nervous System
19244 19244 ERR14934877 ERX14339119 ERS24360032 ERP166068 PRJEB82358 Human gene duplications 53f6d331-4985-4b69-8ac3-a57d010118dd Other Duplicated genes expanded in the human lineage likely contributed to brain evolution yet challenges exist in their discovery due to sequence assembly errors. We used a complete telomere to telomere genome sequence to identify 213 human specific gene families. From these 362 paralogs were found in all modern human genomes tested and brain transcriptomes making them top candidates contributing to human universal brain features. Choosing a subset of paralogs we used long read DNA sequencing of hundreds of modern humans to reveal previously hidden signatures of selection. To understand their roles in brain development we generated zebrafish CRISPR “knockout” models of nine orthologs and introduced mRNA encoding paralogs effectively “humanizing” larvae. Our findings implicate two new genes in possibly contributing to hallmark features of the human brain: GPR89B in dosage mediated brain expansion and FRMPD2B in altered synapse signaling. Our holistic approach provides new insights and a comprehensive resource for studying gene expansion drivers of human brain evolution. ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23   Single cell RNA sequencing of zebrafish heads from well B11 Humanized Plate 1 Well B11 SAMEA118224955 UNIVERSITY OF CALIFORNIA - DAVIS ENA first public:2025 05 23|INSDC center name:UNIVERSITY OF CALIFORNIA DAVIS|INSDC status:public|Submitter Id:Sample HUM1 B11|collection date:2022 11 14|common name:zebrafish|dev stage:72 hpf|geographic location country and/or sea:USA|sample name:Sample HUM1 B11|scientific name:Danio rerio                 Raw reads: Sample HUM1 B11 webin reads Sample HUM1 B11   unspecified   ENA STATUS ID:4 RNA-Seq TRANSCRIPTOMIC SINGLE CELL cDNA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP166068 Raw reads: Sample HUM1 B11 ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23 B11.R1.fastq.gz B11.R2.fastq.gz fastq fastq 99908700.0 333029.0 webin reads Sample HUM1 B11 0:150 1:150 A:22260827;C:11949991;G:42744522;T:22952623;N:737 150 150     22260827 11949991 42744522 22952623 737 ERX14339119 ERS24360032 ERA33112207 UNIVERSITY OF CALIFORNIA - DAVIS|European Nucleotide Archive UNIVERSITY OF CALIFORNIA - DAVIS                       T T mates < 9% mapping rate illumina novaseq_era unknown poly_a unknown sc single_cell_generic generic-scrnaseq-only   United States 2025-05-23 Larval Larval Head Nervous System
19245 19245 ERR14934885 ERX14339127 ERS24360034 ERP166068 PRJEB82358 Human gene duplications 53f6d331-4985-4b69-8ac3-a57d010118dd Other Duplicated genes expanded in the human lineage likely contributed to brain evolution yet challenges exist in their discovery due to sequence assembly errors. We used a complete telomere to telomere genome sequence to identify 213 human specific gene families. From these 362 paralogs were found in all modern human genomes tested and brain transcriptomes making them top candidates contributing to human universal brain features. Choosing a subset of paralogs we used long read DNA sequencing of hundreds of modern humans to reveal previously hidden signatures of selection. To understand their roles in brain development we generated zebrafish CRISPR “knockout” models of nine orthologs and introduced mRNA encoding paralogs effectively “humanizing” larvae. Our findings implicate two new genes in possibly contributing to hallmark features of the human brain: GPR89B in dosage mediated brain expansion and FRMPD2B in altered synapse signaling. Our holistic approach provides new insights and a comprehensive resource for studying gene expansion drivers of human brain evolution. ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23   Single cell RNA sequencing of zebrafish heads from well C01 Humanized Plate 1 Well C01 SAMEA118224957 UNIVERSITY OF CALIFORNIA - DAVIS ENA first public:2025 05 23|INSDC center name:UNIVERSITY OF CALIFORNIA DAVIS|INSDC status:public|Submitter Id:Sample HUM1 C01|collection date:2022 11 14|common name:zebrafish|dev stage:72 hpf|geographic location country and/or sea:USA|sample name:Sample HUM1 C01|scientific name:Danio rerio                 Raw reads: Sample HUM1 C01 webin reads Sample HUM1 C01   unspecified   ENA STATUS ID:4 RNA-Seq TRANSCRIPTOMIC SINGLE CELL cDNA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP166068 Raw reads: Sample HUM1 C01 ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23 C01.R1.fastq.gz C01.R2.fastq.gz fastq fastq 101124300.0 337081.0 webin reads Sample HUM1 C01 0:150 1:150 A:21597244;C:13549354;G:45547786;T:20429406;N:510 150 150     21597244 13549354 45547786 20429406 510 ERX14339127 ERS24360034 ERA33112235 UNIVERSITY OF CALIFORNIA - DAVIS|European Nucleotide Archive UNIVERSITY OF CALIFORNIA - DAVIS                       T T mates < 9% mapping rate illumina novaseq_era unknown poly_a unknown sc single_cell_generic generic-scrnaseq-only   United States 2025-05-23 Larval Larval Head Nervous System
19246 19246 ERR14943984 ERX14348136 ERS24422880 ERP166068 PRJEB82358 Human gene duplications 53f6d331-4985-4b69-8ac3-a57d010118dd Other Duplicated genes expanded in the human lineage likely contributed to brain evolution yet challenges exist in their discovery due to sequence assembly errors. We used a complete telomere to telomere genome sequence to identify 213 human specific gene families. From these 362 paralogs were found in all modern human genomes tested and brain transcriptomes making them top candidates contributing to human universal brain features. Choosing a subset of paralogs we used long read DNA sequencing of hundreds of modern humans to reveal previously hidden signatures of selection. To understand their roles in brain development we generated zebrafish CRISPR “knockout” models of nine orthologs and introduced mRNA encoding paralogs effectively “humanizing” larvae. Our findings implicate two new genes in possibly contributing to hallmark features of the human brain: GPR89B in dosage mediated brain expansion and FRMPD2B in altered synapse signaling. Our holistic approach provides new insights and a comprehensive resource for studying gene expansion drivers of human brain evolution. ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23   Single cell RNA sequencing of zebrafish heads from well B04 Knockout Plate Well B04 SAMEA118242706 UNIVERSITY OF CALIFORNIA - DAVIS ENA first public:2025 05 23|INSDC center name:UNIVERSITY OF CALIFORNIA DAVIS|INSDC status:public|Submitter Id:Sample KO B04|collection date:2022 05 13|common name:zebrafish|dev stage:72 hpf|geographic location country and/or sea:USA|sample name:Sample KO B04|scientific name:Danio rerio                 Raw reads: Sample KO B04 webin reads Sample KO B04   unspecified   ENA STATUS ID:4 RNA-Seq TRANSCRIPTOMIC SINGLE CELL cDNA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP166068 Raw reads: Sample KO B04 ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23 B04.R1.fastq.gz B04.R2.fastq.gz fastq fastq 561237900.0 1870793.0 webin reads Sample KO B04 0:150 1:150 A:192169170;C:77013107;G:120338699;T:171712356;N:4568 150 150     192169170 77013107 120338699 171712356 4568 ERX14348136 ERS24422880 ERA33119691 UNIVERSITY OF CALIFORNIA - DAVIS|European Nucleotide Archive UNIVERSITY OF CALIFORNIA - DAVIS                       B B biological fallback assumption illumina novaseq_era unknown poly_a unknown sc single_cell_generic generic-scrnaseq-only   United States 2025-05-23 Larval Larval Head Nervous System
19247 19247 ERR14938992 ERX14343236 ERS24422834 ERP166068 PRJEB82358 Human gene duplications 53f6d331-4985-4b69-8ac3-a57d010118dd Other Duplicated genes expanded in the human lineage likely contributed to brain evolution yet challenges exist in their discovery due to sequence assembly errors. We used a complete telomere to telomere genome sequence to identify 213 human specific gene families. From these 362 paralogs were found in all modern human genomes tested and brain transcriptomes making them top candidates contributing to human universal brain features. Choosing a subset of paralogs we used long read DNA sequencing of hundreds of modern humans to reveal previously hidden signatures of selection. To understand their roles in brain development we generated zebrafish CRISPR “knockout” models of nine orthologs and introduced mRNA encoding paralogs effectively “humanizing” larvae. Our findings implicate two new genes in possibly contributing to hallmark features of the human brain: GPR89B in dosage mediated brain expansion and FRMPD2B in altered synapse signaling. Our holistic approach provides new insights and a comprehensive resource for studying gene expansion drivers of human brain evolution. ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23   Single cell RNA sequencing of zebrafish heads from well H11 Humanized Plate 2 Well H11 SAMEA118242660 UNIVERSITY OF CALIFORNIA - DAVIS ENA first public:2025 05 23|INSDC center name:UNIVERSITY OF CALIFORNIA DAVIS|INSDC status:public|Submitter Id:Sample HUM2 H11|collection date:2022 12 21|common name:zebrafish|dev stage:72 hpf|geographic location country and/or sea:USA|sample name:Sample HUM2 H11|scientific name:Danio rerio                 Raw reads: Sample HUM2 H11 webin reads Sample HUM2 H11   unspecified   ENA STATUS ID:4 RNA-Seq TRANSCRIPTOMIC SINGLE CELL cDNA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP166068 Raw reads: Sample HUM2 H11 ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23 H11.R1.fastq.gz H11.R2.fastq.gz fastq fastq 1733814900.0 5779383.0 webin reads Sample HUM2 H11 0:150 1:150 A:378393702;C:284557462;G:721428373;T:349427441;N:7922 150 150     378393702 284557462 721428373 349427441 7922 ERX14343236 ERS24422834 ERA33115755 UNIVERSITY OF CALIFORNIA - DAVIS|European Nucleotide Archive UNIVERSITY OF CALIFORNIA - DAVIS                       T T mates < 9% mapping rate illumina novaseq_era unknown poly_a unknown sc single_cell_generic generic-scrnaseq-only   United States 2025-05-23 Larval Larval Head Nervous System
19248 19248 ERR14937159 ERX14341403 ERS24422829 ERP166068 PRJEB82358 Human gene duplications 53f6d331-4985-4b69-8ac3-a57d010118dd Other Duplicated genes expanded in the human lineage likely contributed to brain evolution yet challenges exist in their discovery due to sequence assembly errors. We used a complete telomere to telomere genome sequence to identify 213 human specific gene families. From these 362 paralogs were found in all modern human genomes tested and brain transcriptomes making them top candidates contributing to human universal brain features. Choosing a subset of paralogs we used long read DNA sequencing of hundreds of modern humans to reveal previously hidden signatures of selection. To understand their roles in brain development we generated zebrafish CRISPR “knockout” models of nine orthologs and introduced mRNA encoding paralogs effectively “humanizing” larvae. Our findings implicate two new genes in possibly contributing to hallmark features of the human brain: GPR89B in dosage mediated brain expansion and FRMPD2B in altered synapse signaling. Our holistic approach provides new insights and a comprehensive resource for studying gene expansion drivers of human brain evolution. ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23   Single cell RNA sequencing of zebrafish heads from well H06 Humanized Plate 2 Well H06 SAMEA118242655 UNIVERSITY OF CALIFORNIA - DAVIS ENA first public:2025 05 23|INSDC center name:UNIVERSITY OF CALIFORNIA DAVIS|INSDC status:public|Submitter Id:Sample HUM2 H06|collection date:2022 12 21|common name:zebrafish|dev stage:72 hpf|geographic location country and/or sea:USA|sample name:Sample HUM2 H06|scientific name:Danio rerio                 Raw reads: Sample HUM2 H06 webin reads Sample HUM2 H06   unspecified   ENA STATUS ID:4 RNA-Seq TRANSCRIPTOMIC SINGLE CELL cDNA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP166068 Raw reads: Sample HUM2 H06 ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23 H06.R1.fastq.gz H06.R2.fastq.gz fastq fastq 8840167200.0 29467224.0 webin reads Sample HUM2 H06 0:150 1:150 A:3070163952;C:1202397032;G:1876790493;T:2690771671;N:44052 150 150     3070163952 1202397032 1876790493 2690771671 44052 ERX14341403 ERS24422829 ERA33115733 UNIVERSITY OF CALIFORNIA - DAVIS|European Nucleotide Archive UNIVERSITY OF CALIFORNIA - DAVIS                       B B mate1-mate2 similar by mapping diff illumina novaseq_era unknown poly_a unknown sc single_cell_generic generic-scrnaseq-only   United States 2025-05-23 Larval Larval Head Nervous System
19249 19249 ERR14934852 ERX14339094 ERS24360023 ERP166068 PRJEB82358 Human gene duplications 53f6d331-4985-4b69-8ac3-a57d010118dd Other Duplicated genes expanded in the human lineage likely contributed to brain evolution yet challenges exist in their discovery due to sequence assembly errors. We used a complete telomere to telomere genome sequence to identify 213 human specific gene families. From these 362 paralogs were found in all modern human genomes tested and brain transcriptomes making them top candidates contributing to human universal brain features. Choosing a subset of paralogs we used long read DNA sequencing of hundreds of modern humans to reveal previously hidden signatures of selection. To understand their roles in brain development we generated zebrafish CRISPR “knockout” models of nine orthologs and introduced mRNA encoding paralogs effectively “humanizing” larvae. Our findings implicate two new genes in possibly contributing to hallmark features of the human brain: GPR89B in dosage mediated brain expansion and FRMPD2B in altered synapse signaling. Our holistic approach provides new insights and a comprehensive resource for studying gene expansion drivers of human brain evolution. ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23   Single cell RNA sequencing of zebrafish heads from well B02 Humanized Plate 1 Well B02 SAMEA118224946 UNIVERSITY OF CALIFORNIA - DAVIS ENA first public:2025 05 23|INSDC center name:UNIVERSITY OF CALIFORNIA DAVIS|INSDC status:public|Submitter Id:Sample HUM1 B02|collection date:2022 11 14|common name:zebrafish|dev stage:72 hpf|geographic location country and/or sea:USA|sample name:Sample HUM1 B02|scientific name:Danio rerio                 Raw reads: Sample HUM1 B02 webin reads Sample HUM1 B02   unspecified   ENA STATUS ID:4 RNA-Seq TRANSCRIPTOMIC SINGLE CELL cDNA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP166068 Raw reads: Sample HUM1 B02 ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23 B02.R1.fastq.gz B02.R2.fastq.gz fastq fastq 123106800.0 410356.0 webin reads Sample HUM1 B02 0:150 1:150 A:24870369;C:15859782;G:60046944;T:22329104;N:601 150 150     24870369 15859782 60046944 22329104 601 ERX14339094 ERS24360023 ERA33112126 UNIVERSITY OF CALIFORNIA - DAVIS|European Nucleotide Archive UNIVERSITY OF CALIFORNIA - DAVIS                       T T mates < 9% mapping rate illumina novaseq_era unknown poly_a unknown sc single_cell_generic generic-scrnaseq-only   United States 2025-05-23 Larval Larval Head Nervous System
19250 19250 ERR14936902 ERX14341144 ERS24422761 ERP166068 PRJEB82358 Human gene duplications 53f6d331-4985-4b69-8ac3-a57d010118dd Other Duplicated genes expanded in the human lineage likely contributed to brain evolution yet challenges exist in their discovery due to sequence assembly errors. We used a complete telomere to telomere genome sequence to identify 213 human specific gene families. From these 362 paralogs were found in all modern human genomes tested and brain transcriptomes making them top candidates contributing to human universal brain features. Choosing a subset of paralogs we used long read DNA sequencing of hundreds of modern humans to reveal previously hidden signatures of selection. To understand their roles in brain development we generated zebrafish CRISPR “knockout” models of nine orthologs and introduced mRNA encoding paralogs effectively “humanizing” larvae. Our findings implicate two new genes in possibly contributing to hallmark features of the human brain: GPR89B in dosage mediated brain expansion and FRMPD2B in altered synapse signaling. Our holistic approach provides new insights and a comprehensive resource for studying gene expansion drivers of human brain evolution. ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23   Single cell RNA sequencing of zebrafish heads from well B10 Humanized Plate 2 Well B10 SAMEA118242587 UNIVERSITY OF CALIFORNIA - DAVIS ENA first public:2025 05 23|INSDC center name:UNIVERSITY OF CALIFORNIA DAVIS|INSDC status:public|Submitter Id:Sample HUM2 B10|collection date:2022 12 21|common name:zebrafish|dev stage:72 hpf|geographic location country and/or sea:USA|sample name:Sample HUM2 B10|scientific name:Danio rerio                 Raw reads: Sample HUM2 B10 webin reads Sample HUM2 B10   unspecified   ENA STATUS ID:4 RNA-Seq TRANSCRIPTOMIC SINGLE CELL cDNA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP166068 Raw reads: Sample HUM2 B10 ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23 B10.R1.fastq.gz B10.R2.fastq.gz fastq fastq 3818756100.0 12729187.0 webin reads Sample HUM2 B10 0:150 1:150 A:801009311;C:582803669;G:1691856038;T:743070146;N:16936 150 150     801009311 582803669 1691856038 743070146 16936 ERX14341144 ERS24422761 ERA33115582 UNIVERSITY OF CALIFORNIA - DAVIS|European Nucleotide Archive UNIVERSITY OF CALIFORNIA - DAVIS                       T T mates < 9% mapping rate illumina novaseq_era unknown poly_a unknown sc single_cell_generic generic-scrnaseq-only   United States 2025-05-23 Larval Larval Head Nervous System
19251 19251 ERR14935145 ERX14339387 ERS24360102 ERP166068 PRJEB82358 Human gene duplications 53f6d331-4985-4b69-8ac3-a57d010118dd Other Duplicated genes expanded in the human lineage likely contributed to brain evolution yet challenges exist in their discovery due to sequence assembly errors. We used a complete telomere to telomere genome sequence to identify 213 human specific gene families. From these 362 paralogs were found in all modern human genomes tested and brain transcriptomes making them top candidates contributing to human universal brain features. Choosing a subset of paralogs we used long read DNA sequencing of hundreds of modern humans to reveal previously hidden signatures of selection. To understand their roles in brain development we generated zebrafish CRISPR “knockout” models of nine orthologs and introduced mRNA encoding paralogs effectively “humanizing” larvae. Our findings implicate two new genes in possibly contributing to hallmark features of the human brain: GPR89B in dosage mediated brain expansion and FRMPD2B in altered synapse signaling. Our holistic approach provides new insights and a comprehensive resource for studying gene expansion drivers of human brain evolution. ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23   Single cell RNA sequencing of zebrafish heads from well H09 Humanized Plate 1 Well H09 SAMEA118225025 UNIVERSITY OF CALIFORNIA - DAVIS ENA first public:2025 05 23|INSDC center name:UNIVERSITY OF CALIFORNIA DAVIS|INSDC status:public|Submitter Id:Sample HUM1 H09|collection date:2022 11 14|common name:zebrafish|dev stage:72 hpf|geographic location country and/or sea:USA|sample name:Sample HUM1 H09|scientific name:Danio rerio                 Raw reads: Sample HUM1 H09 webin reads Sample HUM1 H09   unspecified   ENA STATUS ID:4 RNA-Seq TRANSCRIPTOMIC SINGLE CELL cDNA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP166068 Raw reads: Sample HUM1 H09 ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23 H09.R1.fastq.gz H09.R2.fastq.gz fastq fastq 79435500.0 264785.0 webin reads Sample HUM1 H09 0:150 1:150 A:19325284;C:9616771;G:32084598;T:18408162;N:685 150 150     19325284 9616771 32084598 18408162 685 ERX14339387 ERS24360102 ERA33113089 UNIVERSITY OF CALIFORNIA - DAVIS|European Nucleotide Archive UNIVERSITY OF CALIFORNIA - DAVIS                       T T mates < 9% mapping rate illumina novaseq_era unknown poly_a unknown sc single_cell_generic generic-scrnaseq-only   United States 2025-05-23 Larval Larval Head Nervous System
19252 19252 ERR14935006 ERX14339248 ERS24360059 ERP166068 PRJEB82358 Human gene duplications 53f6d331-4985-4b69-8ac3-a57d010118dd Other Duplicated genes expanded in the human lineage likely contributed to brain evolution yet challenges exist in their discovery due to sequence assembly errors. We used a complete telomere to telomere genome sequence to identify 213 human specific gene families. From these 362 paralogs were found in all modern human genomes tested and brain transcriptomes making them top candidates contributing to human universal brain features. Choosing a subset of paralogs we used long read DNA sequencing of hundreds of modern humans to reveal previously hidden signatures of selection. To understand their roles in brain development we generated zebrafish CRISPR “knockout” models of nine orthologs and introduced mRNA encoding paralogs effectively “humanizing” larvae. Our findings implicate two new genes in possibly contributing to hallmark features of the human brain: GPR89B in dosage mediated brain expansion and FRMPD2B in altered synapse signaling. Our holistic approach provides new insights and a comprehensive resource for studying gene expansion drivers of human brain evolution. ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23   Single cell RNA sequencing of zebrafish heads from well E02 Humanized Plate 1 Well E02 SAMEA118224982 UNIVERSITY OF CALIFORNIA - DAVIS ENA first public:2025 05 23|INSDC center name:UNIVERSITY OF CALIFORNIA DAVIS|INSDC status:public|Submitter Id:Sample HUM1 E02|collection date:2022 11 14|common name:zebrafish|dev stage:72 hpf|geographic location country and/or sea:USA|sample name:Sample HUM1 E02|scientific name:Danio rerio                 Raw reads: Sample HUM1 E02 webin reads Sample HUM1 E02   unspecified   ENA STATUS ID:4 RNA-Seq TRANSCRIPTOMIC SINGLE CELL cDNA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP166068 Raw reads: Sample HUM1 E02 ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23 E02.R1.fastq.gz E02.R2.fastq.gz fastq fastq 184473600.0 614912.0 webin reads Sample HUM1 E02 0:150 1:150 A:47275758;C:21941025;G:68635035;T:46620684;N:1098 150 150     47275758 21941025 68635035 46620684 1098 ERX14339248 ERS24360059 ERA33112606 UNIVERSITY OF CALIFORNIA - DAVIS|European Nucleotide Archive UNIVERSITY OF CALIFORNIA - DAVIS                       T T mates < 9% mapping rate illumina novaseq_era unknown poly_a unknown sc single_cell_generic generic-scrnaseq-only   United States 2025-05-23 Larval Larval Head Nervous System
19253 19253 ERR14937114 ERX14341358 ERS24422807 ERP166068 PRJEB82358 Human gene duplications 53f6d331-4985-4b69-8ac3-a57d010118dd Other Duplicated genes expanded in the human lineage likely contributed to brain evolution yet challenges exist in their discovery due to sequence assembly errors. We used a complete telomere to telomere genome sequence to identify 213 human specific gene families. From these 362 paralogs were found in all modern human genomes tested and brain transcriptomes making them top candidates contributing to human universal brain features. Choosing a subset of paralogs we used long read DNA sequencing of hundreds of modern humans to reveal previously hidden signatures of selection. To understand their roles in brain development we generated zebrafish CRISPR “knockout” models of nine orthologs and introduced mRNA encoding paralogs effectively “humanizing” larvae. Our findings implicate two new genes in possibly contributing to hallmark features of the human brain: GPR89B in dosage mediated brain expansion and FRMPD2B in altered synapse signaling. Our holistic approach provides new insights and a comprehensive resource for studying gene expansion drivers of human brain evolution. ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23   Single cell RNA sequencing of zebrafish heads from well F08 Humanized Plate 2 Well F08 SAMEA118242633 UNIVERSITY OF CALIFORNIA - DAVIS ENA first public:2025 05 23|INSDC center name:UNIVERSITY OF CALIFORNIA DAVIS|INSDC status:public|Submitter Id:Sample HUM2 F08|collection date:2022 12 21|common name:zebrafish|dev stage:72 hpf|geographic location country and/or sea:USA|sample name:Sample HUM2 F08|scientific name:Danio rerio                 Raw reads: Sample HUM2 F08 webin reads Sample HUM2 F08   unspecified   ENA STATUS ID:4 RNA-Seq TRANSCRIPTOMIC SINGLE CELL cDNA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP166068 Raw reads: Sample HUM2 F08 ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23 F08.R1.fastq.gz F08.R2.fastq.gz fastq fastq 5604971400.0 18683238.0 webin reads Sample HUM2 F08 0:150 1:150 A:1272096391;C:927796029;G:2253030240;T:1152025287;N:23453 150 150     1272096391 927796029 2253030240 1152025287 23453 ERX14341358 ERS24422807 ERA33115697 UNIVERSITY OF CALIFORNIA - DAVIS|European Nucleotide Archive UNIVERSITY OF CALIFORNIA - DAVIS                       T T mates < 9% mapping rate illumina novaseq_era unknown poly_a unknown sc single_cell_generic generic-scrnaseq-only   United States 2025-05-23 Larval Larval Head Nervous System
19254 19254 ERR14935115 ERX14339357 ERS24360092 ERP166068 PRJEB82358 Human gene duplications 53f6d331-4985-4b69-8ac3-a57d010118dd Other Duplicated genes expanded in the human lineage likely contributed to brain evolution yet challenges exist in their discovery due to sequence assembly errors. We used a complete telomere to telomere genome sequence to identify 213 human specific gene families. From these 362 paralogs were found in all modern human genomes tested and brain transcriptomes making them top candidates contributing to human universal brain features. Choosing a subset of paralogs we used long read DNA sequencing of hundreds of modern humans to reveal previously hidden signatures of selection. To understand their roles in brain development we generated zebrafish CRISPR “knockout” models of nine orthologs and introduced mRNA encoding paralogs effectively “humanizing” larvae. Our findings implicate two new genes in possibly contributing to hallmark features of the human brain: GPR89B in dosage mediated brain expansion and FRMPD2B in altered synapse signaling. Our holistic approach provides new insights and a comprehensive resource for studying gene expansion drivers of human brain evolution. ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23   Single cell RNA sequencing of zebrafish heads from well G11 Humanized Plate 1 Well G11 SAMEA118225015 UNIVERSITY OF CALIFORNIA - DAVIS ENA first public:2025 05 23|INSDC center name:UNIVERSITY OF CALIFORNIA DAVIS|INSDC status:public|Submitter Id:Sample HUM1 G11|collection date:2022 11 14|common name:zebrafish|dev stage:72 hpf|geographic location country and/or sea:USA|sample name:Sample HUM1 G11|scientific name:Danio rerio                 Raw reads: Sample HUM1 G11 webin reads Sample HUM1 G11   unspecified   ENA STATUS ID:4 RNA-Seq TRANSCRIPTOMIC SINGLE CELL cDNA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP166068 Raw reads: Sample HUM1 G11 ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23 G11.R1.fastq.gz G11.R2.fastq.gz fastq fastq 18225600.0 60752.0 webin reads Sample HUM1 G11 0:150 1:150 A:3396385;C:2248165;G:9171340;T:3409593;N:117 150 150     3396385 2248165 9171340 3409593 117 ERX14339357 ERS24360092 ERA33112973 UNIVERSITY OF CALIFORNIA - DAVIS|European Nucleotide Archive UNIVERSITY OF CALIFORNIA - DAVIS                       T T mates < 9% mapping rate illumina novaseq_era unknown poly_a unknown sc single_cell_generic generic-scrnaseq-only   United States 2025-05-23 Larval Larval Head Nervous System
19255 19255 ERR14950748 ERX14354872 ERS24422916 ERP166068 PRJEB82358 Human gene duplications 53f6d331-4985-4b69-8ac3-a57d010118dd Other Duplicated genes expanded in the human lineage likely contributed to brain evolution yet challenges exist in their discovery due to sequence assembly errors. We used a complete telomere to telomere genome sequence to identify 213 human specific gene families. From these 362 paralogs were found in all modern human genomes tested and brain transcriptomes making them top candidates contributing to human universal brain features. Choosing a subset of paralogs we used long read DNA sequencing of hundreds of modern humans to reveal previously hidden signatures of selection. To understand their roles in brain development we generated zebrafish CRISPR “knockout” models of nine orthologs and introduced mRNA encoding paralogs effectively “humanizing” larvae. Our findings implicate two new genes in possibly contributing to hallmark features of the human brain: GPR89B in dosage mediated brain expansion and FRMPD2B in altered synapse signaling. Our holistic approach provides new insights and a comprehensive resource for studying gene expansion drivers of human brain evolution. ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23   Single cell RNA sequencing of zebrafish heads from well F01 Knockout Plate Well F01 SAMEA118242742 UNIVERSITY OF CALIFORNIA - DAVIS ENA first public:2025 05 23|INSDC center name:UNIVERSITY OF CALIFORNIA DAVIS|INSDC status:public|Submitter Id:Sample KO F01|collection date:2022 05 13|common name:zebrafish|dev stage:72 hpf|geographic location country and/or sea:USA|sample name:Sample KO F01|scientific name:Danio rerio                 Raw reads: Sample KO F01 webin reads Sample KO F01   unspecified   ENA STATUS ID:4 RNA-Seq TRANSCRIPTOMIC SINGLE CELL cDNA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP166068 Raw reads: Sample KO F01 ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23 F01.R1.fastq.gz F01.R2.fastq.gz fastq fastq 3161931900.0 10539773.0 webin reads Sample KO F01 0:150 1:150 A:1111325789;C:460593692;G:495389420;T:1094598021;N:24978 150 150     1111325789 460593692 495389420 1094598021 24978 ERX14354872 ERS24422916 ERA33121243 UNIVERSITY OF CALIFORNIA - DAVIS|European Nucleotide Archive UNIVERSITY OF CALIFORNIA - DAVIS                       T B mate1 technical by mapping diff illumina novaseq_era unknown poly_a unknown sc single_cell_generic generic-scrnaseq-only   United States 2025-05-23 Larval Larval Head Nervous System
19256 19256 ERR14934881 ERX14339123 ERS24360033 ERP166068 PRJEB82358 Human gene duplications 53f6d331-4985-4b69-8ac3-a57d010118dd Other Duplicated genes expanded in the human lineage likely contributed to brain evolution yet challenges exist in their discovery due to sequence assembly errors. We used a complete telomere to telomere genome sequence to identify 213 human specific gene families. From these 362 paralogs were found in all modern human genomes tested and brain transcriptomes making them top candidates contributing to human universal brain features. Choosing a subset of paralogs we used long read DNA sequencing of hundreds of modern humans to reveal previously hidden signatures of selection. To understand their roles in brain development we generated zebrafish CRISPR “knockout” models of nine orthologs and introduced mRNA encoding paralogs effectively “humanizing” larvae. Our findings implicate two new genes in possibly contributing to hallmark features of the human brain: GPR89B in dosage mediated brain expansion and FRMPD2B in altered synapse signaling. Our holistic approach provides new insights and a comprehensive resource for studying gene expansion drivers of human brain evolution. ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23   Single cell RNA sequencing of zebrafish heads from well B12 Humanized Plate 1 Well B12 SAMEA118224956 UNIVERSITY OF CALIFORNIA - DAVIS ENA first public:2025 05 23|INSDC center name:UNIVERSITY OF CALIFORNIA DAVIS|INSDC status:public|Submitter Id:Sample HUM1 B12|collection date:2022 11 14|common name:zebrafish|dev stage:72 hpf|geographic location country and/or sea:USA|sample name:Sample HUM1 B12|scientific name:Danio rerio                 Raw reads: Sample HUM1 B12 webin reads Sample HUM1 B12   unspecified   ENA STATUS ID:4 RNA-Seq TRANSCRIPTOMIC SINGLE CELL cDNA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP166068 Raw reads: Sample HUM1 B12 ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23 B12.R1.fastq.gz B12.R2.fastq.gz fastq fastq 116537700.0 388459.0 webin reads Sample HUM1 B12 0:150 1:150 A:27658956;C:13844738;G:48483886;T:26549255;N:865 150 150     27658956 13844738 48483886 26549255 865 ERX14339123 ERS24360033 ERA33112224 UNIVERSITY OF CALIFORNIA - DAVIS|European Nucleotide Archive UNIVERSITY OF CALIFORNIA - DAVIS                       T T mates < 9% mapping rate illumina novaseq_era unknown poly_a unknown sc single_cell_generic generic-scrnaseq-only   United States 2025-05-23 Larval Larval Head Nervous System
19257 19257 ERR14934824 ERX14339066 ERS24360013 ERP166068 PRJEB82358 Human gene duplications 53f6d331-4985-4b69-8ac3-a57d010118dd Other Duplicated genes expanded in the human lineage likely contributed to brain evolution yet challenges exist in their discovery due to sequence assembly errors. We used a complete telomere to telomere genome sequence to identify 213 human specific gene families. From these 362 paralogs were found in all modern human genomes tested and brain transcriptomes making them top candidates contributing to human universal brain features. Choosing a subset of paralogs we used long read DNA sequencing of hundreds of modern humans to reveal previously hidden signatures of selection. To understand their roles in brain development we generated zebrafish CRISPR “knockout” models of nine orthologs and introduced mRNA encoding paralogs effectively “humanizing” larvae. Our findings implicate two new genes in possibly contributing to hallmark features of the human brain: GPR89B in dosage mediated brain expansion and FRMPD2B in altered synapse signaling. Our holistic approach provides new insights and a comprehensive resource for studying gene expansion drivers of human brain evolution. ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23   Single cell RNA sequencing of zebrafish heads from well A04 Humanized Plate 1 Well A04 SAMEA118224936 UNIVERSITY OF CALIFORNIA - DAVIS ENA first public:2025 05 23|INSDC center name:UNIVERSITY OF CALIFORNIA DAVIS|INSDC status:public|Submitter Id:Sample HUM1 A04|collection date:2022 11 14|common name:zebrafish|dev stage:72 hpf|geographic location country and/or sea:USA|sample name:Sample HUM1 A04|scientific name:Danio rerio                 Raw reads: Sample HUM1 A04 webin reads Sample HUM1 A04   unspecified   ENA STATUS ID:4 RNA-Seq TRANSCRIPTOMIC SINGLE CELL cDNA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP166068 Raw reads: Sample HUM1 A04 ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23 A04.R1.fastq.gz A04.R2.fastq.gz fastq fastq 190861200.0 636204.0 webin reads Sample HUM1 A04 0:150 1:150 A:51866429;C:22469460;G:65825429;T:50698008;N:1874 150 150     51866429 22469460 65825429 50698008 1874 ERX14339066 ERS24360013 ERA33112023 UNIVERSITY OF CALIFORNIA - DAVIS|European Nucleotide Archive UNIVERSITY OF CALIFORNIA - DAVIS                       B B biological fallback assumption illumina novaseq_era unknown poly_a unknown sc single_cell_generic generic-scrnaseq-only   United States 2025-05-23 Larval Larval Head Nervous System
19258 19258 ERR14934950 ERX14339192 ERS24360041 ERP166068 PRJEB82358 Human gene duplications 53f6d331-4985-4b69-8ac3-a57d010118dd Other Duplicated genes expanded in the human lineage likely contributed to brain evolution yet challenges exist in their discovery due to sequence assembly errors. We used a complete telomere to telomere genome sequence to identify 213 human specific gene families. From these 362 paralogs were found in all modern human genomes tested and brain transcriptomes making them top candidates contributing to human universal brain features. Choosing a subset of paralogs we used long read DNA sequencing of hundreds of modern humans to reveal previously hidden signatures of selection. To understand their roles in brain development we generated zebrafish CRISPR “knockout” models of nine orthologs and introduced mRNA encoding paralogs effectively “humanizing” larvae. Our findings implicate two new genes in possibly contributing to hallmark features of the human brain: GPR89B in dosage mediated brain expansion and FRMPD2B in altered synapse signaling. Our holistic approach provides new insights and a comprehensive resource for studying gene expansion drivers of human brain evolution. ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23   Single cell RNA sequencing of zebrafish heads from well C08 Humanized Plate 1 Well C08 SAMEA118224964 UNIVERSITY OF CALIFORNIA - DAVIS ENA first public:2025 05 23|INSDC center name:UNIVERSITY OF CALIFORNIA DAVIS|INSDC status:public|Submitter Id:Sample HUM1 C08|collection date:2022 11 14|common name:zebrafish|dev stage:72 hpf|geographic location country and/or sea:USA|sample name:Sample HUM1 C08|scientific name:Danio rerio                 Raw reads: Sample HUM1 C08 webin reads Sample HUM1 C08   unspecified   ENA STATUS ID:4 RNA-Seq TRANSCRIPTOMIC SINGLE CELL cDNA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP166068 Raw reads: Sample HUM1 C08 ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23 C08.R1.fastq.gz C08.R2.fastq.gz fastq fastq 347655600.0 1158852.0 webin reads Sample HUM1 C08 0:150 1:150 A:111273717;C:41410769;G:81188146;T:113779846;N:3122 150 150     111273717 41410769 81188146 113779846 3122 ERX14339192 ERS24360041 ERA33112408 UNIVERSITY OF CALIFORNIA - DAVIS|European Nucleotide Archive UNIVERSITY OF CALIFORNIA - DAVIS                       B B mate1-mate2 similar by mapping diff illumina novaseq_era unknown poly_a unknown sc single_cell_generic generic-scrnaseq-only   United States 2025-05-23 Larval Larval Head Nervous System
19259 19259 ERR14936959 ERX14341201 ERS24422772 ERP166068 PRJEB82358 Human gene duplications 53f6d331-4985-4b69-8ac3-a57d010118dd Other Duplicated genes expanded in the human lineage likely contributed to brain evolution yet challenges exist in their discovery due to sequence assembly errors. We used a complete telomere to telomere genome sequence to identify 213 human specific gene families. From these 362 paralogs were found in all modern human genomes tested and brain transcriptomes making them top candidates contributing to human universal brain features. Choosing a subset of paralogs we used long read DNA sequencing of hundreds of modern humans to reveal previously hidden signatures of selection. To understand their roles in brain development we generated zebrafish CRISPR “knockout” models of nine orthologs and introduced mRNA encoding paralogs effectively “humanizing” larvae. Our findings implicate two new genes in possibly contributing to hallmark features of the human brain: GPR89B in dosage mediated brain expansion and FRMPD2B in altered synapse signaling. Our holistic approach provides new insights and a comprehensive resource for studying gene expansion drivers of human brain evolution. ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23   Single cell RNA sequencing of zebrafish heads from well C09 Humanized Plate 2 Well C09 SAMEA118242598 UNIVERSITY OF CALIFORNIA - DAVIS ENA first public:2025 05 23|INSDC center name:UNIVERSITY OF CALIFORNIA DAVIS|INSDC status:public|Submitter Id:Sample HUM2 C09|collection date:2022 12 21|common name:zebrafish|dev stage:72 hpf|geographic location country and/or sea:USA|sample name:Sample HUM2 C09|scientific name:Danio rerio                 Raw reads: Sample HUM2 C09 webin reads Sample HUM2 C09   unspecified   ENA STATUS ID:4 RNA-Seq TRANSCRIPTOMIC SINGLE CELL cDNA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP166068 Raw reads: Sample HUM2 C09 ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23 C09.R1.fastq.gz C09.R2.fastq.gz fastq fastq 3716150400.0 12387168.0 webin reads Sample HUM2 C09 0:150 1:150 A:950093356;C:589554852;G:1341746189;T:834739539;N:16464 150 150     950093356 589554852 1341746189 834739539 16464 ERX14341201 ERS24422772 ERA33115600 UNIVERSITY OF CALIFORNIA - DAVIS|European Nucleotide Archive UNIVERSITY OF CALIFORNIA - DAVIS                       T T mates < 9% mapping rate illumina novaseq_era unknown poly_a unknown sc single_cell_generic generic-scrnaseq-only   United States 2025-05-23 Larval Larval Head 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");;