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4,709 rows where experiment.library_layout = "SINGLE", experiment.platform = "ILLUMINA" and tissue_curation_coarse = "Nervous System"

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experiment.library_selection 10

devstage_curation 8

technology 7

devstage_curation_coarse 6

experiment.library_strategy 5

tissue_curation 3

experiment.library_source 2

tissue_curation_coarse 1

  • Nervous System · 4,709 ✖

experiment.platform 1

  • ILLUMINA · 4,709 ✖

experiment.library_layout 1

  • SINGLE · 4,709 ✖
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
101 101 DRR189403 DRX179868 DRS200418 DRP003977 PRJDB4470 Gene expression analysis of the zebrafish brain DRP003977 Other Gene expression profiling by RNA seq of specific regions and subpopulations of neurons in the zebrafish brain that control behaviors.       Telencephalon of adult zebrafrish 30 min post test session of 2 weeks memory test in non trace 2 Way Active Avoidance coditioning 3 SAMD00182246   sample name:CSUS Tel 30 2w memory 3|genotype:wild type|tissue:brain                 Illumina HiSeq 3000 sequencing of SAMD00182246 DRX179868 CSUS Tel 30 2w memory 3 1 SureSelect Strand Specific RNA Library Prep Kit   RNA-Seq TRANSCRIPTOMIC PolyA SINGLE ILLUMINA Illumina HiSeq 3000 <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>36</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR> DRP003977 Illumina HiSeq 3000 sequencing of SAMD00182246       2791119960.0 77531110.0 DRR189403 0:36 A:685050951;C:641519684;G:664655385;T:799677669;N:216271 36       685050951 641519684 664655385 799677669 216271 DRX179868 DRS200418 DRA008865 NIG|National Institute of Genetics (Japan) National Institute of Genetics (Japan) 1 0.89653   0.1773   0.70725   0.49873   36   B   usable mapping rate illumina hiseq_era unknown poly_a unknown bulk unknown unknown   Japan 2021-08-08 Larval Larval Brain Nervous System
102 102 DRR189402 DRX179867 DRS200417 DRP003977 PRJDB4470 Gene expression analysis of the zebrafish brain DRP003977 Other Gene expression profiling by RNA seq of specific regions and subpopulations of neurons in the zebrafish brain that control behaviors.       Telencephalon of adult zebrafrish 30 min post test session of 2 weeks memory test in non trace 2 Way Active Avoidance coditioning 2 SAMD00182245   sample name:CSUS Tel 30 2w memory 2|genotype:wild type|tissue:brain                 Illumina HiSeq 3000 sequencing of SAMD00182245 DRX179867 CSUS Tel 30 2w memory 2 1 SureSelect Strand Specific RNA Library Prep Kit   RNA-Seq TRANSCRIPTOMIC PolyA SINGLE ILLUMINA Illumina HiSeq 3000 <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>36</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR> DRP003977 Illumina HiSeq 3000 sequencing of SAMD00182245       1505449224.0 41818034.0 DRR189402 0:36 A:369895057;C:346914787;G:358624651;T:429897489;N:117240 36       369895057 346914787 358624651 429897489 117240 DRX179867 DRS200417 DRA008865 NIG|National Institute of Genetics (Japan) National Institute of Genetics (Japan) 1 0.89514   0.17677   0.7025   0.49571   36   B   usable mapping rate illumina hiseq_era unknown poly_a unknown bulk unknown unknown   Japan 2021-08-08 Larval Larval Brain Nervous System
103 103 DRR189401 DRX179866 DRS200416 DRP003977 PRJDB4470 Gene expression analysis of the zebrafish brain DRP003977 Other Gene expression profiling by RNA seq of specific regions and subpopulations of neurons in the zebrafish brain that control behaviors.       Telencephalon of adult zebrafrish 30 min post test session of 2 weeks memory test in non trace 2 Way Active Avoidance coditioning 1 SAMD00182244   sample name:CSUS Tel 30 2w memory 1|genotype:wild type|tissue:brain                 Illumina HiSeq 3000 sequencing of SAMD00182244 DRX179866 CSUS Tel 30 2w memory 1 1 SureSelect Strand Specific RNA Library Prep Kit   RNA-Seq TRANSCRIPTOMIC PolyA SINGLE ILLUMINA Illumina HiSeq 3000 <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>36</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR> DRP003977 Illumina HiSeq 3000 sequencing of SAMD00182244       2088507024.0 58014084.0 DRR189401 0:36 A:516255405;C:478036869;G:496415722;T:597637091;N:161937 36       516255405 478036869 496415722 597637091 161937 DRX179866 DRS200416 DRA008865 NIG|National Institute of Genetics (Japan) National Institute of Genetics (Japan) 1 0.89533   0.18553   0.70981   0.49554   36   B   usable mapping rate illumina hiseq_era unknown poly_a unknown bulk unknown unknown   Japan 2021-08-08 Larval Larval Brain Nervous System
104 104 DRR189400 DRX179865 DRS200401 DRP003977 PRJDB4470 Gene expression analysis of the zebrafish brain DRP003977 Other Gene expression profiling by RNA seq of specific regions and subpopulations of neurons in the zebrafish brain that control behaviors.       Telencephalon of adult zebrafrish 30 min post test session of 1 day memory test in non trace 2 Way Active Avoidance coditioning 3 SAMD00182243   sample name:CSUS Tel 30 1d memory 3|genotype:wild type|tissue:brain                 Illumina HiSeq 3000 sequencing of SAMD00182243 DRX179865 CSUS Tel 30 1d memory 3 1 SureSelect Strand Specific RNA Library Prep Kit   RNA-Seq TRANSCRIPTOMIC PolyA SINGLE ILLUMINA Illumina HiSeq 3000 <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>36</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR> DRP003977 Illumina HiSeq 3000 sequencing of SAMD00182243       1340808120.0 37244670.0 DRR189400 0:36 A:330513975;C:306935584;G:320089399;T:383165274;N:103888 36       330513975 306935584 320089399 383165274 103888 DRX179865 DRS200401 DRA008864 NIG|National Institute of Genetics (Japan) National Institute of Genetics (Japan) 1 0.89272   0.19494   0.70335   0.49456   36   B   usable mapping rate illumina hiseq_era unknown poly_a unknown bulk unknown unknown   Japan 2021-08-08 Adult Adult Brain Nervous System
105 105 DRR189399 DRX179864 DRS200400 DRP003977 PRJDB4470 Gene expression analysis of the zebrafish brain DRP003977 Other Gene expression profiling by RNA seq of specific regions and subpopulations of neurons in the zebrafish brain that control behaviors.       Telencephalon of adult zebrafrish 30 min post test session of 1 day memory test in non trace 2 Way Active Avoidance coditioning 2 SAMD00182242   sample name:CSUS Tel 30 1d memory 2|genotype:wild type|tissue:brain                 Illumina HiSeq 3000 sequencing of SAMD00182242 DRX179864 CSUS Tel 30 1d memory 2 1 SureSelect Strand Specific RNA Library Prep Kit   RNA-Seq TRANSCRIPTOMIC PolyA SINGLE ILLUMINA Illumina HiSeq 3000 <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>36</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR> DRP003977 Illumina HiSeq 3000 sequencing of SAMD00182242       1279740096.0 35548336.0 DRR189399 0:36 A:314850837;C:294188093;G:304654881;T:365946483;N:99802 36       314850837 294188093 304654881 365946483 99802 DRX179864 DRS200400 DRA008864 NIG|National Institute of Genetics (Japan) National Institute of Genetics (Japan) 1 0.89485   0.18205   0.70593   0.49333   36   B   usable mapping rate illumina hiseq_era unknown poly_a unknown bulk unknown unknown   Japan 2021-08-08 Adult Adult Brain Nervous System
106 106 DRR189398 DRX179863 DRS200399 DRP003977 PRJDB4470 Gene expression analysis of the zebrafish brain DRP003977 Other Gene expression profiling by RNA seq of specific regions and subpopulations of neurons in the zebrafish brain that control behaviors.       Telencephalon of adult zebrafrish 30 min post test session of 1 day memory test in non trace 2 Way Active Avoidance coditioning 1 SAMD00182241   sample name:CSUS Tel 30 1d memory 1|genotype:wild type|tissue:brain                 Illumina HiSeq 3000 sequencing of SAMD00182241 DRX179863 CSUS Tel 30 1d memory 1 1 SureSelect Strand Specific RNA Library Prep Kit   RNA-Seq TRANSCRIPTOMIC PolyA SINGLE ILLUMINA Illumina HiSeq 3000 <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>36</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR> DRP003977 Illumina HiSeq 3000 sequencing of SAMD00182241       3012353100.0 83676475.0 DRR189398 0:36 A:740795057;C:693120664;G:717419185;T:860784745;N:233449 36       740795057 693120664 717419185 860784745 233449 DRX179863 DRS200399 DRA008864 NIG|National Institute of Genetics (Japan) National Institute of Genetics (Japan) 1 0.89676   0.1791   0.70569   0.49835   36   B   usable mapping rate illumina hiseq_era unknown poly_a unknown bulk unknown unknown   Japan 2021-08-08 Adult Adult Brain Nervous System
107 107 DRR189397 DRX179862 DRS200428 DRP003977 PRJDB4470 Gene expression analysis of the zebrafish brain DRP003977 Other Gene expression profiling by RNA seq of specific regions and subpopulations of neurons in the zebrafish brain that control behaviors.       Telencephalon of adult zebrafrish 60 min post exposure to the conditioning tank 3 SAMD00182240   sample name:Cont Tel 60 3|genotype:wild type|tissue:brain                 Illumina HiSeq 3000 sequencing of SAMD00182240 DRX179862 Cont Tel 60 3 1 SureSelect Strand Specific RNA Library Prep Kit   RNA-Seq TRANSCRIPTOMIC PolyA SINGLE ILLUMINA Illumina HiSeq 3000 <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>50</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR> DRP003977 Illumina HiSeq 3000 sequencing of SAMD00182240       5590147750.0 111802955.0 DRR189397 0:50 A:1365131560;C:1269631295;G:1366791321;T:1588422020;N:171554 50       1365131560 1269631295 1366791321 1588422020 171554 DRX179862 DRS200428 DRA008863 NIG|National Institute of Genetics (Japan) National Institute of Genetics (Japan) 1 0.89334   0.16354   0.7011   0.49383   50   B   usable mapping rate illumina hiseq_era unknown poly_a unknown bulk unknown unknown   Japan 2021-08-08 Adult Adult Brain Nervous System
108 108 DRR189396 DRX179861 DRS200427 DRP003977 PRJDB4470 Gene expression analysis of the zebrafish brain DRP003977 Other Gene expression profiling by RNA seq of specific regions and subpopulations of neurons in the zebrafish brain that control behaviors.       Telencephalon of adult zebrafrish 60 min post exposure to the conditioning tank 2 SAMD00182239   sample name:Cont Tel 60 2|genotype:wild type|tissue:brain                 Illumina HiSeq 3000 sequencing of SAMD00182239 DRX179861 Cont Tel 60 2 1 SureSelect Strand Specific RNA Library Prep Kit   RNA-Seq TRANSCRIPTOMIC PolyA SINGLE ILLUMINA Illumina HiSeq 3000 <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>50</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR> DRP003977 Illumina HiSeq 3000 sequencing of SAMD00182239       6429019650.0 128580393.0 DRR189396 0:50 A:1570141412;C:1457539089;G:1572785681;T:1828358007;N:195461 50       1570141412 1457539089 1572785681 1828358007 195461 DRX179861 DRS200427 DRA008863 NIG|National Institute of Genetics (Japan) National Institute of Genetics (Japan) 1 0.89595   0.16204   0.70743   0.49805   50   B   usable mapping rate illumina hiseq_era unknown poly_a unknown bulk unknown unknown   Japan 2021-08-08 Adult Adult Brain Nervous System
109 109 DRR189395 DRX179860 DRS200426 DRP003977 PRJDB4470 Gene expression analysis of the zebrafish brain DRP003977 Other Gene expression profiling by RNA seq of specific regions and subpopulations of neurons in the zebrafish brain that control behaviors.       Telencephalon of adult zebrafrish 60 min post exposure to the conditioning tank 1 SAMD00182238   sample name:Cont Tel 60 1|genotype:wild type|tissue:brain                 Illumina HiSeq 3000 sequencing of SAMD00182238 DRX179860 Cont Tel 60 1 1 SureSelect Strand Specific RNA Library Prep Kit   RNA-Seq TRANSCRIPTOMIC PolyA SINGLE ILLUMINA Illumina HiSeq 3000 <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>50</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR> DRP003977 Illumina HiSeq 3000 sequencing of SAMD00182238       6644185850.0 132883717.0 DRR189395 0:50 A:1637322491;C:1498943556;G:1616212676;T:1891505597;N:201530 50       1637322491 1498943556 1616212676 1891505597 201530 DRX179860 DRS200426 DRA008863 NIG|National Institute of Genetics (Japan) National Institute of Genetics (Japan) 1 0.89573   0.16421   0.7037   0.49805   50   B   usable mapping rate illumina hiseq_era unknown poly_a unknown bulk unknown unknown   Japan 2021-08-08 Adult Adult Brain Nervous System
110 110 DRR189394 DRX179859 DRS200407 DRP003977 PRJDB4470 Gene expression analysis of the zebrafish brain DRP003977 Other Gene expression profiling by RNA seq of specific regions and subpopulations of neurons in the zebrafish brain that control behaviors.       Telencephalon of adult zebrafrish 60 min post light stimulation in the conditioning tank 3 SAMD00182237   sample name:CS Tel 60 3|genotype:wild type|tissue:brain                 Illumina HiSeq 3000 sequencing of SAMD00182237 DRX179859 CS Tel 60 3 1 SureSelect Strand Specific RNA Library Prep Kit   RNA-Seq TRANSCRIPTOMIC PolyA SINGLE ILLUMINA Illumina HiSeq 3000 <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>36</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR> DRP003977 Illumina HiSeq 3000 sequencing of SAMD00182237       1387078956.0 38529971.0 DRR189394 0:36 A:333990578;C:315361737;G:337599372;T:400057968;N:69301 36       333990578 315361737 337599372 400057968 69301 DRX179859 DRS200407 DRA008862 NIG|National Institute of Genetics (Japan) National Institute of Genetics (Japan) 1 0.88133   0.18418   0.70747   0.4971   36   B   usable mapping rate illumina hiseq_era unknown poly_a unknown bulk unknown unknown   Japan 2021-08-08 Adult Adult Brain Nervous System
111 111 DRR189393 DRX179858 DRS200406 DRP003977 PRJDB4470 Gene expression analysis of the zebrafish brain DRP003977 Other Gene expression profiling by RNA seq of specific regions and subpopulations of neurons in the zebrafish brain that control behaviors.       Telencephalon of adult zebrafrish 60 min post light stimulation in the conditioning tank 2 SAMD00182236   sample name:CS Tel 60 2|genotype:wild type|tissue:brain                 Illumina HiSeq 3000 sequencing of SAMD00182236 DRX179858 CS Tel 60 2 1 SureSelect Strand Specific RNA Library Prep Kit   RNA-Seq TRANSCRIPTOMIC PolyA SINGLE ILLUMINA Illumina HiSeq 3000 <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>36</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR> DRP003977 Illumina HiSeq 3000 sequencing of SAMD00182236       537029424.0 14917484.0 DRR189393 0:36 A:127421487;C:122494467;G:132164579;T:154921150;N:27741 36       127421487 122494467 132164579 154921150 27741 DRX179858 DRS200406 DRA008862 NIG|National Institute of Genetics (Japan) National Institute of Genetics (Japan) 1 0.88264   0.17793   0.7083   0.49123   36   B   usable mapping rate illumina hiseq_era unknown poly_a unknown bulk unknown unknown   Japan 2021-08-08 Adult Adult Brain Nervous System
112 112 DRR189392 DRX179857 DRS200405 DRP003977 PRJDB4470 Gene expression analysis of the zebrafish brain DRP003977 Other Gene expression profiling by RNA seq of specific regions and subpopulations of neurons in the zebrafish brain that control behaviors.       Telencephalon of adult zebrafrish 60 min post light stimulation in the conditioning tank 1 SAMD00182235   sample name:CS Tel 60 1|genotype:wild type|tissue:brain                 Illumina HiSeq 3000 sequencing of SAMD00182235 DRX179857 CS Tel 60 1 1 SureSelect Strand Specific RNA Library Prep Kit   RNA-Seq TRANSCRIPTOMIC PolyA SINGLE ILLUMINA Illumina HiSeq 3000 <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>36</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR> DRP003977 Illumina HiSeq 3000 sequencing of SAMD00182235       3163663656.0 87879546.0 DRR189392 0:36 A:766146692;C:714108562;G:771785405;T:911468887;N:154110 36       766146692 714108562 771785405 911468887 154110 DRX179857 DRS200405 DRA008862 NIG|National Institute of Genetics (Japan) National Institute of Genetics (Japan) 1 0.88114   0.1803   0.7052   0.4917   36   B   usable mapping rate illumina hiseq_era unknown poly_a unknown bulk unknown unknown   Japan 2021-08-08 Adult Adult Brain Nervous System
113 113 DRR189391 DRX179856 DRS200404 DRP003977 PRJDB4470 Gene expression analysis of the zebrafish brain DRP003977 Other Gene expression profiling by RNA seq of specific regions and subpopulations of neurons in the zebrafish brain that control behaviors.       Telencephalon of adult zebrafrish 60 min post electrical shock delivery in the conditioning tank 3 SAMD00182234   sample name:US Tel 60 3|genotype:wild type|tissue:brain                 Illumina HiSeq 3000 sequencing of SAMD00182234 DRX179856 US Tel 60 3 1 SureSelect Strand Specific RNA Library Prep Kit   RNA-Seq TRANSCRIPTOMIC PolyA SINGLE ILLUMINA Illumina HiSeq 3000 <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>36</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR> DRP003977 Illumina HiSeq 3000 sequencing of SAMD00182234       1535884704.0 42663464.0 DRR189391 0:36 A:367444721;C:350978310;G:375524359;T:441859454;N:77860 36       367444721 350978310 375524359 441859454 77860 DRX179856 DRS200404 DRA008861 NIG|National Institute of Genetics (Japan) National Institute of Genetics (Japan) 1 0.88103   0.1788   0.7082   0.49462   36   B   usable mapping rate illumina hiseq_era unknown poly_a unknown bulk unknown unknown   Japan 2021-08-08 Adult Adult Brain Nervous System
114 114 DRR189390 DRX179855 DRS200403 DRP003977 PRJDB4470 Gene expression analysis of the zebrafish brain DRP003977 Other Gene expression profiling by RNA seq of specific regions and subpopulations of neurons in the zebrafish brain that control behaviors.       Telencephalon of adult zebrafrish 60 min post electrical shock delivery in the conditioning tank 2 SAMD00182233   sample name:US Tel 60 2|genotype:wild type|tissue:brain                 Illumina HiSeq 3000 sequencing of SAMD00182233 DRX179855 US Tel 60 2 1 SureSelect Strand Specific RNA Library Prep Kit   RNA-Seq TRANSCRIPTOMIC PolyA SINGLE ILLUMINA Illumina HiSeq 3000 <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>36</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR> DRP003977 Illumina HiSeq 3000 sequencing of SAMD00182233       737309916.0 20480831.0 DRR189390 0:36 A:176982713;C:168284406;G:179343270;T:212662841;N:36686 36       176982713 168284406 179343270 212662841 36686 DRX179855 DRS200403 DRA008861 NIG|National Institute of Genetics (Japan) National Institute of Genetics (Japan) 1 0.87995   0.18515   0.70816   0.49393   36   B   usable mapping rate illumina hiseq_era unknown poly_a unknown bulk unknown unknown   Japan 2021-08-08 Adult Adult Brain Nervous System
115 115 DRR189389 DRX179854 DRS200402 DRP003977 PRJDB4470 Gene expression analysis of the zebrafish brain DRP003977 Other Gene expression profiling by RNA seq of specific regions and subpopulations of neurons in the zebrafish brain that control behaviors.       Telencephalon of adult zebrafrish 60 min post electrical shock delivery in the conditioning tank 1 SAMD00182232   sample name:US Tel 60 1|genotype:wild type|tissue:brain                 Illumina HiSeq 3000 sequencing of SAMD00182232 DRX179854 US Tel 60 1 1 SureSelect Strand Specific RNA Library Prep Kit   RNA-Seq TRANSCRIPTOMIC PolyA SINGLE ILLUMINA Illumina HiSeq 3000 <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>36</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR> DRP003977 Illumina HiSeq 3000 sequencing of SAMD00182232       595837404.0 16551039.0 DRR189389 0:36 A:143956004;C:134783754;G:145443580;T:171624939;N:29127 36       143956004 134783754 145443580 171624939 29127 DRX179854 DRS200402 DRA008861 NIG|National Institute of Genetics (Japan) National Institute of Genetics (Japan) 1 0.87682   0.18328   0.70309   0.49081   36   B   usable mapping rate illumina hiseq_era unknown poly_a unknown bulk unknown unknown   Japan 2021-08-08 Adult Adult Brain Nervous System
116 116 DRR189388 DRX179853 DRS200452 DRP003977 PRJDB4470 Gene expression analysis of the zebrafish brain DRP003977 Other Gene expression profiling by RNA seq of specific regions and subpopulations of neurons in the zebrafish brain that control behaviors.       Telencephalon of adult zebrafrish 60 min post light and electrical shock association in non trace 2 Way Active Avoidance coditioning 3 SAMD00182231   sample name:CSUS Tel 60 3|genotype:wild type|tissue:brain                 Illumina HiSeq 3000 sequencing of SAMD00182231 DRX179853 CSUS Tel 60 3 1 SureSelect Strand Specific RNA Library Prep Kit   RNA-Seq TRANSCRIPTOMIC PolyA SINGLE ILLUMINA Illumina HiSeq 3000 <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>36</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR> DRP003977 Illumina HiSeq 3000 sequencing of SAMD00182231       608050044.0 16890279.0 DRR189388 0:36 A:145025778;C:137906052;G:149542672;T:175545338;N:30204 36       145025778 137906052 149542672 175545338 30204 DRX179853 DRS200452 DRA008860 NIG|National Institute of Genetics (Japan) National Institute of Genetics (Japan) 1 0.87983   0.18602   0.70445   0.49195   36   B   usable mapping rate illumina hiseq_era unknown poly_a unknown bulk unknown unknown   Japan 2021-08-08 Adult Adult Brain Nervous System
117 117 DRR189387 DRX179852 DRS200451 DRP003977 PRJDB4470 Gene expression analysis of the zebrafish brain DRP003977 Other Gene expression profiling by RNA seq of specific regions and subpopulations of neurons in the zebrafish brain that control behaviors.       Telencephalon of adult zebrafrish 60 min post light and electrical shock association in non trace 2 Way Active Avoidance coditioning 2 SAMD00182230   sample name:CSUS Tel 60 2|genotype:wild type|tissue:brain                 Illumina HiSeq 3000 sequencing of SAMD00182230 DRX179852 CSUS Tel 60 2 1 SureSelect Strand Specific RNA Library Prep Kit   RNA-Seq TRANSCRIPTOMIC PolyA SINGLE ILLUMINA Illumina HiSeq 3000 <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>36</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR> DRP003977 Illumina HiSeq 3000 sequencing of SAMD00182230       777589452.0 21599707.0 DRR189387 0:36 A:185463269;C:177742981;G:190443063;T:223900096;N:40043 36       185463269 177742981 190443063 223900096 40043 DRX179852 DRS200451 DRA008860 NIG|National Institute of Genetics (Japan) National Institute of Genetics (Japan) 1 0.88331   0.17918   0.70516   0.48956   36   B   usable mapping rate illumina hiseq_era unknown poly_a unknown bulk unknown unknown   Japan 2021-08-08 Adult Adult Brain Nervous System
118 118 DRR189386 DRX179851 DRS200450 DRP003977 PRJDB4470 Gene expression analysis of the zebrafish brain DRP003977 Other Gene expression profiling by RNA seq of specific regions and subpopulations of neurons in the zebrafish brain that control behaviors.       Telencephalon of adult zebrafrish 60 min post light and electrical shock association in non trace 2 Way Active Avoidance coditioning 1 SAMD00182229   sample name:CSUS Tel 60 1|genotype:wild type|tissue:brain                 Illumina HiSeq 3000 sequencing of SAMD00182229 DRX179851 CSUS Tel 60 1 1 SureSelect Strand Specific RNA Library Prep Kit   RNA-Seq TRANSCRIPTOMIC PolyA SINGLE ILLUMINA Illumina HiSeq 3000 <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>36</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR> DRP003977 Illumina HiSeq 3000 sequencing of SAMD00182229       2738622348.0 76072843.0 DRR189386 0:36 A:662989485;C:622023190;G:663013857;T:790459930;N:135886 36       662989485 622023190 663013857 790459930 135886 DRX179851 DRS200450 DRA008860 NIG|National Institute of Genetics (Japan) National Institute of Genetics (Japan) 1 0.87743   0.19164   0.70025   0.49073   36   B   usable mapping rate illumina hiseq_era unknown poly_a unknown bulk unknown unknown   Japan 2021-08-08 Adult Adult Brain Nervous System
119 119 DRR189385 DRX179850 DRS200435 DRP003977 PRJDB4470 Gene expression analysis of the zebrafish brain DRP003977 Other Gene expression profiling by RNA seq of specific regions and subpopulations of neurons in the zebrafish brain that control behaviors.       Telencephalon of EMX3 / adult zebrafish 3 SAMD00182228   sample name:Emx3 Adult Tel 3|genotype:Emx3 / |tissue:brain                 Illumina HiSeq 3000 sequencing of SAMD00182228 DRX179850 Emx3 / Adult Tel 3 1 SureSelect Strand Specific RNA Library Prep Kit   RNA-Seq TRANSCRIPTOMIC PolyA SINGLE ILLUMINA Illumina HiSeq 3000 <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>36</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR> DRP003977 Illumina HiSeq 3000 sequencing of SAMD00182228       1323636552.0 36767682.0 DRR189385 0:36 A:309582925;C:310206951;G:325673647;T:378136039;N:36990 36       309582925 310206951 325673647 378136039 36990 DRX179850 DRS200435 DRA008859 NIG|National Institute of Genetics (Japan) National Institute of Genetics (Japan) 1 0.8932   0.19244   0.71334   0.50591   36   B   usable mapping rate illumina hiseq_era unknown poly_a unknown bulk unknown unknown   Japan 2021-08-08 Adult Adult Brain Nervous System
120 120 DRR189384 DRX179849 DRS200434 DRP003977 PRJDB4470 Gene expression analysis of the zebrafish brain DRP003977 Other Gene expression profiling by RNA seq of specific regions and subpopulations of neurons in the zebrafish brain that control behaviors.       Telencephalon of EMX3 / adult zebrafish 2 SAMD00182227   sample name:Emx3 Adult Tel 2|genotype:Emx3 / |tissue:brain                 Illumina HiSeq 3000 sequencing of SAMD00182227 DRX179849 Emx3 / Adult Tel 2 1 SureSelect Strand Specific RNA Library Prep Kit   RNA-Seq TRANSCRIPTOMIC PolyA SINGLE ILLUMINA Illumina HiSeq 3000 <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>36</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR> DRP003977 Illumina HiSeq 3000 sequencing of SAMD00182227       2994105168.0 83169588.0 DRR189384 0:36 A:709730692;C:691531995;G:727245229;T:865514929;N:82323 36       709730692 691531995 727245229 865514929 82323 DRX179849 DRS200434 DRA008859 NIG|National Institute of Genetics (Japan) National Institute of Genetics (Japan) 1 0.90382   0.1826   0.70197   0.49719   36   B   usable mapping rate illumina hiseq_era unknown poly_a unknown bulk unknown unknown   Japan 2021-08-08 Adult Adult Brain Nervous System
121 121 DRR189383 DRX179848 DRS200433 DRP003977 PRJDB4470 Gene expression analysis of the zebrafish brain DRP003977 Other Gene expression profiling by RNA seq of specific regions and subpopulations of neurons in the zebrafish brain that control behaviors.       Telencephalon of EMX3 / adult zebrafish 1 SAMD00182226   sample name:Emx3 Adult Tel 1|genotype:Emx3 / |tissue:brain                 Illumina HiSeq 3000 sequencing of SAMD00182226 DRX179848 Emx3 / Adult Tel 1 1 SureSelect Strand Specific RNA Library Prep Kit   RNA-Seq TRANSCRIPTOMIC PolyA SINGLE ILLUMINA Illumina HiSeq 3000 <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>36</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR> DRP003977 Illumina HiSeq 3000 sequencing of SAMD00182226       1151464896.0 31985136.0 DRR189383 0:36 A:272427216;C:266708394;G:280781178;T:331515997;N:32111 36       272427216 266708394 280781178 331515997 32111 DRX179848 DRS200433 DRA008859 NIG|National Institute of Genetics (Japan) National Institute of Genetics (Japan) 1 0.89942   0.17402   0.70364   0.49438   36   B   usable mapping rate illumina hiseq_era unknown poly_a unknown bulk unknown unknown   Japan 2021-08-08 Adult Adult Brain Nervous System
122 122 DRR189382 DRX179847 DRS200421 DRP003977 PRJDB4470 Gene expression analysis of the zebrafish brain DRP003977 Other Gene expression profiling by RNA seq of specific regions and subpopulations of neurons in the zebrafish brain that control behaviors.       Telencephalon of wild type adult zebrafish 3 SAMD00182225   sample name:WT Adult Tel 3|genotype:wild type|tissue:brain                 Illumina HiSeq 3000 sequencing of SAMD00182225 DRX179847 WT Adult Tel 3 1 SureSelect Strand Specific RNA Library Prep Kit   RNA-Seq TRANSCRIPTOMIC PolyA SINGLE ILLUMINA Illumina HiSeq 3000 <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>36</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR> DRP003977 Illumina HiSeq 3000 sequencing of SAMD00182225       2837488824.0 78819134.0 DRR189382 0:36 A:678395895;C:655098137;G:687520693;T:816395518;N:78581 36       678395895 655098137 687520693 816395518 78581 DRX179847 DRS200421 DRA008858 NIG|National Institute of Genetics (Japan) National Institute of Genetics (Japan) 1 0.89483   0.18623   0.70544   0.49839   36   B   usable mapping rate illumina hiseq_era unknown poly_a unknown bulk unknown unknown   Japan 2021-08-08 Adult Adult Brain Nervous System
123 123 DRR189381 DRX179846 DRS200420 DRP003977 PRJDB4470 Gene expression analysis of the zebrafish brain DRP003977 Other Gene expression profiling by RNA seq of specific regions and subpopulations of neurons in the zebrafish brain that control behaviors.       Telencephalon of wild type adult zebrafish 2 SAMD00182224   sample name:WT Adult Tel 2|genotype:wild type|tissue:brain                 Illumina HiSeq 3000 sequencing of SAMD00182224 DRX179846 WT Adult Tel 2 1 SureSelect Strand Specific RNA Library Prep Kit   RNA-Seq TRANSCRIPTOMIC PolyA SINGLE ILLUMINA Illumina HiSeq 3000 <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>36</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR> DRP003977 Illumina HiSeq 3000 sequencing of SAMD00182224       1456800264.0 40466674.0 DRR189381 0:36 A:345320431;C:336838149;G:356264798;T:418336552;N:40334 36       345320431 336838149 356264798 418336552 40334 DRX179846 DRS200420 DRA008858 NIG|National Institute of Genetics (Japan) National Institute of Genetics (Japan) 1 0.89496   0.18691   0.70802   0.49721   36   B   usable mapping rate illumina hiseq_era unknown poly_a unknown bulk unknown unknown   Japan 2021-08-08 Adult Adult Brain Nervous System
124 124 DRR189380 DRX179845 DRS200419 DRP003977 PRJDB4470 Gene expression analysis of the zebrafish brain DRP003977 Other Gene expression profiling by RNA seq of specific regions and subpopulations of neurons in the zebrafish brain that control behaviors.       Telencephalon of wild type adult zebrafish 1 SAMD00182223   sample name:WT Adult Tel 1|genotype:wild type|tissue:brain                 Illumina HiSeq 3000 sequencing of SAMD00182223 DRX179845 WT Adult Tel 1 1 SureSelect Strand Specific RNA Library Prep Kit   RNA-Seq TRANSCRIPTOMIC PolyA SINGLE ILLUMINA Illumina HiSeq 3000 <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>36</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR> DRP003977 Illumina HiSeq 3000 sequencing of SAMD00182223       2533282452.0 70368957.0 DRR189380 0:36 A:602595083;C:585466052;G:616064286;T:729086926;N:70105 36       602595083 585466052 616064286 729086926 70105 DRX179845 DRS200419 DRA008858 NIG|National Institute of Genetics (Japan) National Institute of Genetics (Japan) 1 0.89412   0.19005   0.70816   0.49843   36   B   usable mapping rate illumina hiseq_era unknown poly_a unknown bulk unknown unknown   Japan 2021-08-08 Adult Adult Brain Nervous System
10237 10237 ERR7131169 ERX6698608 ERS8070397 ERP132560 PRJEB48218 Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E-MTAB-11083 Transcriptome Analysis To investigate the effects of rabies infection on neuronal gene expression we compared gene profiles of rabies infected and non infected GABAergic neurons in the Zebrafish olfactory bulb. ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07   Protocols: EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. F8 Nega SAMEA10418613 Friedrich Miescher Institute for Biomedical Research ENA first public:2021 12 01|ENA last update:2021 12 01|External Id:SAMEA10418613|INSDC center alias:Friedrich Miescher Institute for Biomedical Research|INSDC center name:Friedrich Miescher Institute for Biomedical Research|INSDC first public:2021 12 01T00:23:59Z|INSDC last update:2021 12 01T00:23:59Z|INSDC status:public|Submitter Id:E MTAB 11083:F8 Nega|age:9|broker name:ArrayExpress|cell type:GABAergic neuron|common name:zebrafish|developmental stage:adult|fraction:mCherry /GFP |genotype:Tg[gad1b:Gal4 UAS:TVA mCherry]|individual:pool 8|organism part:olfactory bulb|sample name:E MTAB 11083:F8 Nega|sex:mixed|stimulus:injected with EnvA RV GFP|strain:Ab x Tu x TL x WIK                 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E MTAB 11083:F8 Nega s F8 Nega s Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. Experimental Factor: fraction:mCherry /GFP RNA-Seq TRANSCRIPTOMIC Oligo-dT SINGLE ILLUMINA Illumina HiSeq 2500   ERP132560 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07 2874F22-1_210715_D00404_0538_BCD91CANXX_TCGACGTC-CTAAGCCT_L006_R1_001.fastq.gz fastq 658093749.0 12903799.0 E MTAB 11083:2874F22 1 210715 D00404 0538 BCD91CANXX TCGACGTC CTAAGCCT L006 0:51 1:0 A:173355262;C:152464129;G:147489024;T:184739885;N:45449 51 0     173355262 152464129 147489024 184739885 45449 ERX6698608 ERS8070397 ERA6757553 Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive 1 0.78328   0.15147   0.71289   0.53671   51   B   usable mapping rate illumina hiseq_era unknown poly_a nextera sc single_cell_plate smartseq   Switzerland 2021-12-01 Adult Adult Brain Nervous System
10238 10238 ERR7131170 ERX6698608 ERS8070397 ERP132560 PRJEB48218 Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E-MTAB-11083 Transcriptome Analysis To investigate the effects of rabies infection on neuronal gene expression we compared gene profiles of rabies infected and non infected GABAergic neurons in the Zebrafish olfactory bulb. ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07   Protocols: EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. F8 Nega SAMEA10418613 Friedrich Miescher Institute for Biomedical Research ENA first public:2021 12 01|ENA last update:2021 12 01|External Id:SAMEA10418613|INSDC center alias:Friedrich Miescher Institute for Biomedical Research|INSDC center name:Friedrich Miescher Institute for Biomedical Research|INSDC first public:2021 12 01T00:23:59Z|INSDC last update:2021 12 01T00:23:59Z|INSDC status:public|Submitter Id:E MTAB 11083:F8 Nega|age:9|broker name:ArrayExpress|cell type:GABAergic neuron|common name:zebrafish|developmental stage:adult|fraction:mCherry /GFP |genotype:Tg[gad1b:Gal4 UAS:TVA mCherry]|individual:pool 8|organism part:olfactory bulb|sample name:E MTAB 11083:F8 Nega|sex:mixed|stimulus:injected with EnvA RV GFP|strain:Ab x Tu x TL x WIK                 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E MTAB 11083:F8 Nega s F8 Nega s Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. Experimental Factor: fraction:mCherry /GFP RNA-Seq TRANSCRIPTOMIC Oligo-dT SINGLE ILLUMINA Illumina HiSeq 2500   ERP132560 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07 2874F22-2_210715_D00404_0538_BCD91CANXX_TCGACGTC-CTAAGCCT_L007_R1_001.fastq.gz fastq 661103769.0 12962819.0 E MTAB 11083:2874F22 2 210715 D00404 0538 BCD91CANXX TCGACGTC CTAAGCCT L007 0:51 1:0 A:174223249;C:153223284;G:148276805;T:185335092;N:45339 51 0     174223249 153223284 148276805 185335092 45339 ERX6698608 ERS8070397 ERA6757553 Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive 1 0.78539   0.15054   0.70897   0.5322   51   B   usable mapping rate illumina hiseq_era unknown poly_a nextera sc single_cell_plate smartseq   Switzerland 2021-12-01 Adult Adult Brain Nervous System
10239 10239 ERR7131167 ERX6698607 ERS8070396 ERP132560 PRJEB48218 Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E-MTAB-11083 Transcriptome Analysis To investigate the effects of rabies infection on neuronal gene expression we compared gene profiles of rabies infected and non infected GABAergic neurons in the Zebrafish olfactory bulb. ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07   Protocols: EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. F8 mCherry GFP SAMEA10418612 Friedrich Miescher Institute for Biomedical Research ENA first public:2021 12 01|ENA last update:2021 12 01|External Id:SAMEA10418612|INSDC center alias:Friedrich Miescher Institute for Biomedical Research|INSDC center name:Friedrich Miescher Institute for Biomedical Research|INSDC first public:2021 12 01T00:23:59Z|INSDC last update:2021 12 01T00:23:59Z|INSDC status:public|Submitter Id:E MTAB 11083:F8 mCherry GFP|age:9|broker name:ArrayExpress|cell type:GABAergic neuron|common name:zebrafish|developmental stage:adult|fraction:mCherry+/GFP+|genotype:Tg[gad1b:Gal4 UAS:TVA mCherry]|individual:pool 8|organism part:olfactory bulb|sample name:E MTAB 11083:F8 mCherry GFP|sex:mixed|stimulus:injected with EnvA RV GFP|strain:Ab x Tu x TL x WIK                 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E MTAB 11083:F8 mCherry GFP s F8 mCherry GFP s Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. Experimental Factor: fraction:mCherry+/GFP+ RNA-Seq TRANSCRIPTOMIC Oligo-dT SINGLE ILLUMINA Illumina HiSeq 2500   ERP132560 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07 2874F24-1_210715_D00404_0538_BCD91CANXX_TCGACGTC-TCTCTCCG_L006_R1_001.fastq.gz fastq 693183636.0 13591836.0 E MTAB 11083:2874F24 1 210715 D00404 0538 BCD91CANXX TCGACGTC TCTCTCCG L006 0:51 1:0 A:183977687;C:159275153;G:153149826;T:196732022;N:48948 51 0     183977687 159275153 153149826 196732022 48948 ERX6698607 ERS8070396 ERA6757553 Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive 1 0.68942   0.15593   0.75828   0.51858   51   B   usable mapping rate illumina hiseq_era unknown poly_a nextera sc single_cell_plate smartseq   Switzerland 2021-12-01 Adult Adult Brain Nervous System
10240 10240 ERR7131168 ERX6698607 ERS8070396 ERP132560 PRJEB48218 Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E-MTAB-11083 Transcriptome Analysis To investigate the effects of rabies infection on neuronal gene expression we compared gene profiles of rabies infected and non infected GABAergic neurons in the Zebrafish olfactory bulb. ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07   Protocols: EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. F8 mCherry GFP SAMEA10418612 Friedrich Miescher Institute for Biomedical Research ENA first public:2021 12 01|ENA last update:2021 12 01|External Id:SAMEA10418612|INSDC center alias:Friedrich Miescher Institute for Biomedical Research|INSDC center name:Friedrich Miescher Institute for Biomedical Research|INSDC first public:2021 12 01T00:23:59Z|INSDC last update:2021 12 01T00:23:59Z|INSDC status:public|Submitter Id:E MTAB 11083:F8 mCherry GFP|age:9|broker name:ArrayExpress|cell type:GABAergic neuron|common name:zebrafish|developmental stage:adult|fraction:mCherry+/GFP+|genotype:Tg[gad1b:Gal4 UAS:TVA mCherry]|individual:pool 8|organism part:olfactory bulb|sample name:E MTAB 11083:F8 mCherry GFP|sex:mixed|stimulus:injected with EnvA RV GFP|strain:Ab x Tu x TL x WIK                 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E MTAB 11083:F8 mCherry GFP s F8 mCherry GFP s Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. Experimental Factor: fraction:mCherry+/GFP+ RNA-Seq TRANSCRIPTOMIC Oligo-dT SINGLE ILLUMINA Illumina HiSeq 2500   ERP132560 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07 2874F24-2_210715_D00404_0538_BCD91CANXX_TCGACGTC-TCTCTCCG_L007_R1_001.fastq.gz fastq 696648678.0 13659778.0 E MTAB 11083:2874F24 2 210715 D00404 0538 BCD91CANXX TCGACGTC TCTCTCCG L007 0:51 1:0 A:184971832;C:160126524;G:154012023;T:197490098;N:48201 51 0     184971832 160126524 154012023 197490098 48201 ERX6698607 ERS8070396 ERA6757553 Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive 1 0.6906   0.15634   0.75909   0.51346   51   B   usable mapping rate illumina hiseq_era unknown poly_a nextera sc single_cell_plate smartseq   Switzerland 2021-12-01 Adult Adult Brain Nervous System
10241 10241 ERR7131165 ERX6698606 ERS8070395 ERP132560 PRJEB48218 Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E-MTAB-11083 Transcriptome Analysis To investigate the effects of rabies infection on neuronal gene expression we compared gene profiles of rabies infected and non infected GABAergic neurons in the Zebrafish olfactory bulb. ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07   Protocols: EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. F8 mCherry SAMEA10418611 Friedrich Miescher Institute for Biomedical Research ENA first public:2021 12 01|ENA last update:2021 12 01|External Id:SAMEA10418611|INSDC center alias:Friedrich Miescher Institute for Biomedical Research|INSDC center name:Friedrich Miescher Institute for Biomedical Research|INSDC first public:2021 12 01T00:23:59Z|INSDC last update:2021 12 01T00:23:59Z|INSDC status:public|Submitter Id:E MTAB 11083:F8 mCherry|age:9|broker name:ArrayExpress|cell type:GABAergic neuron|common name:zebrafish|developmental stage:adult|fraction:mCherry+/GFP |genotype:Tg[gad1b:Gal4 UAS:TVA mCherry]|individual:pool 8|organism part:olfactory bulb|sample name:E MTAB 11083:F8 mCherry|sex:mixed|stimulus:injected with EnvA RV GFP|strain:Ab x Tu x TL x WIK                 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E MTAB 11083:F8 mCherry s F8 mCherry s Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. Experimental Factor: fraction:mCherry+/GFP RNA-Seq TRANSCRIPTOMIC Oligo-dT SINGLE ILLUMINA Illumina HiSeq 2500   ERP132560 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07 2874F23-1_210715_D00404_0538_BCD91CANXX_TCGACGTC-CGTCTAAT_L006_R1_001.fastq.gz fastq 667760646.0 13093346.0 E MTAB 11083:2874F23 1 210715 D00404 0538 BCD91CANXX TCGACGTC CGTCTAAT L006 0:51 1:0 A:179948739;C:150541918;G:145038845;T:192184092;N:47052 51 0     179948739 150541918 145038845 192184092 47052 ERX6698606 ERS8070395 ERA6757553 Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive 1 0.71661   0.19774   0.74576   0.52117   51   B   usable mapping rate illumina hiseq_era unknown poly_a nextera sc single_cell_plate smartseq   Switzerland 2021-12-01 Adult Adult Brain Nervous System
10242 10242 ERR7131166 ERX6698606 ERS8070395 ERP132560 PRJEB48218 Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E-MTAB-11083 Transcriptome Analysis To investigate the effects of rabies infection on neuronal gene expression we compared gene profiles of rabies infected and non infected GABAergic neurons in the Zebrafish olfactory bulb. ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07   Protocols: EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. F8 mCherry SAMEA10418611 Friedrich Miescher Institute for Biomedical Research ENA first public:2021 12 01|ENA last update:2021 12 01|External Id:SAMEA10418611|INSDC center alias:Friedrich Miescher Institute for Biomedical Research|INSDC center name:Friedrich Miescher Institute for Biomedical Research|INSDC first public:2021 12 01T00:23:59Z|INSDC last update:2021 12 01T00:23:59Z|INSDC status:public|Submitter Id:E MTAB 11083:F8 mCherry|age:9|broker name:ArrayExpress|cell type:GABAergic neuron|common name:zebrafish|developmental stage:adult|fraction:mCherry+/GFP |genotype:Tg[gad1b:Gal4 UAS:TVA mCherry]|individual:pool 8|organism part:olfactory bulb|sample name:E MTAB 11083:F8 mCherry|sex:mixed|stimulus:injected with EnvA RV GFP|strain:Ab x Tu x TL x WIK                 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E MTAB 11083:F8 mCherry s F8 mCherry s Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. Experimental Factor: fraction:mCherry+/GFP RNA-Seq TRANSCRIPTOMIC Oligo-dT SINGLE ILLUMINA Illumina HiSeq 2500   ERP132560 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07 2874F23-2_210715_D00404_0538_BCD91CANXX_TCGACGTC-CGTCTAAT_L007_R1_001.fastq.gz fastq 670970484.0 13156284.0 E MTAB 11083:2874F23 2 210715 D00404 0538 BCD91CANXX TCGACGTC CGTCTAAT L007 0:51 1:0 A:180906557;C:151329492;G:145816347;T:192872804;N:45284 51 0     180906557 151329492 145816347 192872804 45284 ERX6698606 ERS8070395 ERA6757553 Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive 1 0.71682   0.19902   0.74517   0.52618   51   B   usable mapping rate illumina hiseq_era unknown poly_a nextera sc single_cell_plate smartseq   Switzerland 2021-12-01 Adult Adult Brain Nervous System
10243 10243 ERR7131163 ERX6698605 ERS8070394 ERP132560 PRJEB48218 Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E-MTAB-11083 Transcriptome Analysis To investigate the effects of rabies infection on neuronal gene expression we compared gene profiles of rabies infected and non infected GABAergic neurons in the Zebrafish olfactory bulb. ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07   Protocols: EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. F7 Nega SAMEA10418610 Friedrich Miescher Institute for Biomedical Research ENA first public:2021 12 01|ENA last update:2021 12 01|External Id:SAMEA10418610|INSDC center alias:Friedrich Miescher Institute for Biomedical Research|INSDC center name:Friedrich Miescher Institute for Biomedical Research|INSDC first public:2021 12 01T00:23:59Z|INSDC last update:2021 12 01T00:23:59Z|INSDC status:public|Submitter Id:E MTAB 11083:F7 Nega|age:9|broker name:ArrayExpress|cell type:GABAergic neuron|common name:zebrafish|developmental stage:adult|fraction:mCherry /GFP |genotype:Tg[gad1b:Gal4 UAS:TVA mCherry]|individual:pool 7|organism part:olfactory bulb|sample name:E MTAB 11083:F7 Nega|sex:mixed|stimulus:injected with EnvA RV GFP|strain:Ab x Tu x TL x WIK                 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E MTAB 11083:F7 Nega s F7 Nega s Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. Experimental Factor: fraction:mCherry /GFP RNA-Seq TRANSCRIPTOMIC Oligo-dT SINGLE ILLUMINA Illumina HiSeq 2500   ERP132560 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07 2874F19-1_210715_D00404_0538_BCD91CANXX_TCGACGTC-GTAAGGAG_L006_R1_001.fastq.gz fastq 652205238.0 12788338.0 E MTAB 11083:2874F19 1 210715 D00404 0538 BCD91CANXX TCGACGTC GTAAGGAG L006 0:51 1:0 A:173730405;C:149044598;G:145436777;T:183946928;N:46530 51 0     173730405 149044598 145436777 183946928 46530 ERX6698605 ERS8070394 ERA6757553 Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive 1 0.80595   0.17309   0.71003   0.53696   51   B   usable mapping rate illumina hiseq_era unknown poly_a nextera sc single_cell_plate smartseq   Switzerland 2021-12-01 Adult Adult Brain Nervous System
10244 10244 ERR7131164 ERX6698605 ERS8070394 ERP132560 PRJEB48218 Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E-MTAB-11083 Transcriptome Analysis To investigate the effects of rabies infection on neuronal gene expression we compared gene profiles of rabies infected and non infected GABAergic neurons in the Zebrafish olfactory bulb. ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07   Protocols: EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. F7 Nega SAMEA10418610 Friedrich Miescher Institute for Biomedical Research ENA first public:2021 12 01|ENA last update:2021 12 01|External Id:SAMEA10418610|INSDC center alias:Friedrich Miescher Institute for Biomedical Research|INSDC center name:Friedrich Miescher Institute for Biomedical Research|INSDC first public:2021 12 01T00:23:59Z|INSDC last update:2021 12 01T00:23:59Z|INSDC status:public|Submitter Id:E MTAB 11083:F7 Nega|age:9|broker name:ArrayExpress|cell type:GABAergic neuron|common name:zebrafish|developmental stage:adult|fraction:mCherry /GFP |genotype:Tg[gad1b:Gal4 UAS:TVA mCherry]|individual:pool 7|organism part:olfactory bulb|sample name:E MTAB 11083:F7 Nega|sex:mixed|stimulus:injected with EnvA RV GFP|strain:Ab x Tu x TL x WIK                 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E MTAB 11083:F7 Nega s F7 Nega s Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. Experimental Factor: fraction:mCherry /GFP RNA-Seq TRANSCRIPTOMIC Oligo-dT SINGLE ILLUMINA Illumina HiSeq 2500   ERP132560 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07 2874F19-2_210715_D00404_0538_BCD91CANXX_TCGACGTC-GTAAGGAG_L007_R1_001.fastq.gz fastq 655593423.0 12854773.0 E MTAB 11083:2874F19 2 210715 D00404 0538 BCD91CANXX TCGACGTC GTAAGGAG L007 0:51 1:0 A:174715119;C:149844974;G:146250446;T:184737535;N:45349 51 0     174715119 149844974 146250446 184737535 45349 ERX6698605 ERS8070394 ERA6757553 Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive 1 0.80585   0.17497   0.71078   0.53767   51   B   usable mapping rate illumina hiseq_era unknown poly_a nextera sc single_cell_plate smartseq   Switzerland 2021-12-01 Adult Adult Brain Nervous System
10245 10245 ERR7131161 ERX6698604 ERS8070393 ERP132560 PRJEB48218 Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E-MTAB-11083 Transcriptome Analysis To investigate the effects of rabies infection on neuronal gene expression we compared gene profiles of rabies infected and non infected GABAergic neurons in the Zebrafish olfactory bulb. ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07   Protocols: EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. F7 mCherry GFP SAMEA10418609 Friedrich Miescher Institute for Biomedical Research ENA first public:2021 12 01|ENA last update:2021 12 01|External Id:SAMEA10418609|INSDC center alias:Friedrich Miescher Institute for Biomedical Research|INSDC center name:Friedrich Miescher Institute for Biomedical Research|INSDC first public:2021 12 01T00:23:59Z|INSDC last update:2021 12 01T00:23:59Z|INSDC status:public|Submitter Id:E MTAB 11083:F7 mCherry GFP|age:9|broker name:ArrayExpress|cell type:GABAergic neuron|common name:zebrafish|developmental stage:adult|fraction:mCherry+/GFP+|genotype:Tg[gad1b:Gal4 UAS:TVA mCherry]|individual:pool 7|organism part:olfactory bulb|sample name:E MTAB 11083:F7 mCherry GFP|sex:mixed|stimulus:injected with EnvA RV GFP|strain:Ab x Tu x TL x WIK                 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E MTAB 11083:F7 mCherry GFP s F7 mCherry GFP s Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. Experimental Factor: fraction:mCherry+/GFP+ RNA-Seq TRANSCRIPTOMIC Oligo-dT SINGLE ILLUMINA Illumina HiSeq 2500   ERP132560 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07 2874F21-1_210715_D00404_0538_BCD91CANXX_TCGACGTC-AAGGAGTA_L006_R1_001.fastq.gz fastq 661067151.0 12962101.0 E MTAB 11083:2874F21 1 210715 D00404 0538 BCD91CANXX TCGACGTC AAGGAGTA L006 0:51 1:0 A:168281419;C:157701209;G:153487197;T:181550252;N:47074 51 0     168281419 157701209 153487197 181550252 47074 ERX6698604 ERS8070393 ERA6757553 Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive 1 0.39074   0.11592   0.82615   0.5252   51   B   usable mapping rate illumina hiseq_era unknown poly_a nextera sc single_cell_plate smartseq   Switzerland 2021-12-01 Adult Adult Brain Nervous System
10246 10246 ERR7131162 ERX6698604 ERS8070393 ERP132560 PRJEB48218 Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E-MTAB-11083 Transcriptome Analysis To investigate the effects of rabies infection on neuronal gene expression we compared gene profiles of rabies infected and non infected GABAergic neurons in the Zebrafish olfactory bulb. ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07   Protocols: EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. F7 mCherry GFP SAMEA10418609 Friedrich Miescher Institute for Biomedical Research ENA first public:2021 12 01|ENA last update:2021 12 01|External Id:SAMEA10418609|INSDC center alias:Friedrich Miescher Institute for Biomedical Research|INSDC center name:Friedrich Miescher Institute for Biomedical Research|INSDC first public:2021 12 01T00:23:59Z|INSDC last update:2021 12 01T00:23:59Z|INSDC status:public|Submitter Id:E MTAB 11083:F7 mCherry GFP|age:9|broker name:ArrayExpress|cell type:GABAergic neuron|common name:zebrafish|developmental stage:adult|fraction:mCherry+/GFP+|genotype:Tg[gad1b:Gal4 UAS:TVA mCherry]|individual:pool 7|organism part:olfactory bulb|sample name:E MTAB 11083:F7 mCherry GFP|sex:mixed|stimulus:injected with EnvA RV GFP|strain:Ab x Tu x TL x WIK                 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E MTAB 11083:F7 mCherry GFP s F7 mCherry GFP s Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. Experimental Factor: fraction:mCherry+/GFP+ RNA-Seq TRANSCRIPTOMIC Oligo-dT SINGLE ILLUMINA Illumina HiSeq 2500   ERP132560 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07 2874F21-2_210715_D00404_0538_BCD91CANXX_TCGACGTC-AAGGAGTA_L007_R1_001.fastq.gz fastq 665709018.0 13053118.0 E MTAB 11083:2874F21 2 210715 D00404 0538 BCD91CANXX TCGACGTC AAGGAGTA L007 0:51 1:0 A:169539998;C:158884603;G:154624803;T:182614264;N:45350 51 0     169539998 158884603 154624803 182614264 45350 ERX6698604 ERS8070393 ERA6757553 Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive 1 0.38966   0.1152   0.8258   0.53305   51   B   usable mapping rate illumina hiseq_era unknown poly_a nextera sc single_cell_plate smartseq   Switzerland 2021-12-01 Adult Adult Brain Nervous System
10247 10247 ERR7131159 ERX6698603 ERS8070392 ERP132560 PRJEB48218 Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E-MTAB-11083 Transcriptome Analysis To investigate the effects of rabies infection on neuronal gene expression we compared gene profiles of rabies infected and non infected GABAergic neurons in the Zebrafish olfactory bulb. ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07   Protocols: EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. F7 mCherry SAMEA10418608 Friedrich Miescher Institute for Biomedical Research ENA first public:2021 12 01|ENA last update:2021 12 01|External Id:SAMEA10418608|INSDC center alias:Friedrich Miescher Institute for Biomedical Research|INSDC center name:Friedrich Miescher Institute for Biomedical Research|INSDC first public:2021 12 01T00:23:59Z|INSDC last update:2021 12 01T00:23:59Z|INSDC status:public|Submitter Id:E MTAB 11083:F7 mCherry|age:9|broker name:ArrayExpress|cell type:GABAergic neuron|common name:zebrafish|developmental stage:adult|fraction:mCherry+/GFP |genotype:Tg[gad1b:Gal4 UAS:TVA mCherry]|individual:pool 7|organism part:olfactory bulb|sample name:E MTAB 11083:F7 mCherry|sex:mixed|stimulus:injected with EnvA RV GFP|strain:Ab x Tu x TL x WIK                 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E MTAB 11083:F7 mCherry s F7 mCherry s Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. Experimental Factor: fraction:mCherry+/GFP RNA-Seq TRANSCRIPTOMIC Oligo-dT SINGLE ILLUMINA Illumina HiSeq 2500   ERP132560 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07 2874F20-1_210715_D00404_0538_BCD91CANXX_TCGACGTC-ACTGCATA_L006_R1_001.fastq.gz fastq 657813402.0 12898302.0 E MTAB 11083:2874F20 1 210715 D00404 0538 BCD91CANXX TCGACGTC ACTGCATA L006 0:51 1:0 A:175873489;C:149476129;G:143987770;T:188429588;N:46426 51 0     175873489 149476129 143987770 188429588 46426 ERX6698603 ERS8070392 ERA6757553 Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive 1 0.70507   0.2048   0.75923   0.52828   51   B   usable mapping rate illumina hiseq_era unknown poly_a nextera sc single_cell_plate smartseq   Switzerland 2021-12-01 Adult Adult Brain Nervous System
10248 10248 ERR7131160 ERX6698603 ERS8070392 ERP132560 PRJEB48218 Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E-MTAB-11083 Transcriptome Analysis To investigate the effects of rabies infection on neuronal gene expression we compared gene profiles of rabies infected and non infected GABAergic neurons in the Zebrafish olfactory bulb. ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07   Protocols: EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. F7 mCherry SAMEA10418608 Friedrich Miescher Institute for Biomedical Research ENA first public:2021 12 01|ENA last update:2021 12 01|External Id:SAMEA10418608|INSDC center alias:Friedrich Miescher Institute for Biomedical Research|INSDC center name:Friedrich Miescher Institute for Biomedical Research|INSDC first public:2021 12 01T00:23:59Z|INSDC last update:2021 12 01T00:23:59Z|INSDC status:public|Submitter Id:E MTAB 11083:F7 mCherry|age:9|broker name:ArrayExpress|cell type:GABAergic neuron|common name:zebrafish|developmental stage:adult|fraction:mCherry+/GFP |genotype:Tg[gad1b:Gal4 UAS:TVA mCherry]|individual:pool 7|organism part:olfactory bulb|sample name:E MTAB 11083:F7 mCherry|sex:mixed|stimulus:injected with EnvA RV GFP|strain:Ab x Tu x TL x WIK                 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E MTAB 11083:F7 mCherry s F7 mCherry s Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. Experimental Factor: fraction:mCherry+/GFP RNA-Seq TRANSCRIPTOMIC Oligo-dT SINGLE ILLUMINA Illumina HiSeq 2500   ERP132560 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07 2874F20-2_210715_D00404_0538_BCD91CANXX_TCGACGTC-ACTGCATA_L007_R1_001.fastq.gz fastq 660303426.0 12947126.0 E MTAB 11083:2874F20 2 210715 D00404 0538 BCD91CANXX TCGACGTC ACTGCATA L007 0:51 1:0 A:176607119;C:150065781;G:144613110;T:188972809;N:44607 51 0     176607119 150065781 144613110 188972809 44607 ERX6698603 ERS8070392 ERA6757553 Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive 1 0.70705   0.20314   0.75852   0.52949   51   B   usable mapping rate illumina hiseq_era unknown poly_a nextera sc single_cell_plate smartseq   Switzerland 2021-12-01 Adult Adult Brain Nervous System
10249 10249 ERR7131157 ERX6698602 ERS8070391 ERP132560 PRJEB48218 Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E-MTAB-11083 Transcriptome Analysis To investigate the effects of rabies infection on neuronal gene expression we compared gene profiles of rabies infected and non infected GABAergic neurons in the Zebrafish olfactory bulb. ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07   Protocols: EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. F6 Nega SAMEA10418607 Friedrich Miescher Institute for Biomedical Research ENA first public:2021 12 01|ENA last update:2021 12 01|External Id:SAMEA10418607|INSDC center alias:Friedrich Miescher Institute for Biomedical Research|INSDC center name:Friedrich Miescher Institute for Biomedical Research|INSDC first public:2021 12 01T00:23:59Z|INSDC last update:2021 12 01T00:23:59Z|INSDC status:public|Submitter Id:E MTAB 11083:F6 Nega|age:9|broker name:ArrayExpress|cell type:GABAergic neuron|common name:zebrafish|developmental stage:adult|fraction:mCherry /GFP |genotype:Tg[gad1b:Gal4 UAS:TVA mCherry]|individual:pool 6|organism part:olfactory bulb|sample name:E MTAB 11083:F6 Nega|sex:mixed|stimulus:injected with EnvA RV GFP|strain:Ab x Tu x TL x WIK                 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E MTAB 11083:F6 Nega s F6 Nega s Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. Experimental Factor: fraction:mCherry /GFP RNA-Seq TRANSCRIPTOMIC Oligo-dT SINGLE ILLUMINA Illumina HiSeq 2500   ERP132560 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07 2874F16-1_210715_D00404_0538_BCD91CANXX_TGCAGCTA-TCTCTCCG_L006_R1_001.fastq.gz fastq 669627450.0 13129950.0 E MTAB 11083:2874F16 1 210715 D00404 0538 BCD91CANXX TGCAGCTA TCTCTCCG L006 0:51 1:0 A:177483937;C:154097051;G:148063012;T:189935690;N:47760 51 0     177483937 154097051 148063012 189935690 47760 ERX6698602 ERS8070391 ERA6757553 Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive 1 0.77183   0.16001   0.71467   0.53352   51   B   usable mapping rate illumina hiseq_era unknown poly_a nextera sc single_cell_plate smartseq   Switzerland 2021-12-01 Adult Adult Brain Nervous System
10250 10250 ERR7131158 ERX6698602 ERS8070391 ERP132560 PRJEB48218 Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E-MTAB-11083 Transcriptome Analysis To investigate the effects of rabies infection on neuronal gene expression we compared gene profiles of rabies infected and non infected GABAergic neurons in the Zebrafish olfactory bulb. ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07   Protocols: EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. F6 Nega SAMEA10418607 Friedrich Miescher Institute for Biomedical Research ENA first public:2021 12 01|ENA last update:2021 12 01|External Id:SAMEA10418607|INSDC center alias:Friedrich Miescher Institute for Biomedical Research|INSDC center name:Friedrich Miescher Institute for Biomedical Research|INSDC first public:2021 12 01T00:23:59Z|INSDC last update:2021 12 01T00:23:59Z|INSDC status:public|Submitter Id:E MTAB 11083:F6 Nega|age:9|broker name:ArrayExpress|cell type:GABAergic neuron|common name:zebrafish|developmental stage:adult|fraction:mCherry /GFP |genotype:Tg[gad1b:Gal4 UAS:TVA mCherry]|individual:pool 6|organism part:olfactory bulb|sample name:E MTAB 11083:F6 Nega|sex:mixed|stimulus:injected with EnvA RV GFP|strain:Ab x Tu x TL x WIK                 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E MTAB 11083:F6 Nega s F6 Nega s Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. Experimental Factor: fraction:mCherry /GFP RNA-Seq TRANSCRIPTOMIC Oligo-dT SINGLE ILLUMINA Illumina HiSeq 2500   ERP132560 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07 2874F16-2_210715_D00404_0538_BCD91CANXX_TGCAGCTA-TCTCTCCG_L007_R1_001.fastq.gz fastq 671615073.0 13168923.0 E MTAB 11083:2874F16 2 210715 D00404 0538 BCD91CANXX TGCAGCTA TCTCTCCG L007 0:51 1:0 A:178109157;C:154619024;G:148595207;T:190246469;N:45216 51 0     178109157 154619024 148595207 190246469 45216 ERX6698602 ERS8070391 ERA6757553 Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive 1 0.77284   0.15963   0.71569   0.53038   51   B   usable mapping rate illumina hiseq_era unknown poly_a nextera sc single_cell_plate smartseq   Switzerland 2021-12-01 Adult Adult Brain Nervous System
10251 10251 ERR7131155 ERX6698601 ERS8070390 ERP132560 PRJEB48218 Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E-MTAB-11083 Transcriptome Analysis To investigate the effects of rabies infection on neuronal gene expression we compared gene profiles of rabies infected and non infected GABAergic neurons in the Zebrafish olfactory bulb. ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07   Protocols: EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. F6 mCherry GFP SAMEA10418606 Friedrich Miescher Institute for Biomedical Research ENA first public:2021 12 01|ENA last update:2021 12 01|External Id:SAMEA10418606|INSDC center alias:Friedrich Miescher Institute for Biomedical Research|INSDC center name:Friedrich Miescher Institute for Biomedical Research|INSDC first public:2021 12 01T00:23:59Z|INSDC last update:2021 12 01T00:23:59Z|INSDC status:public|Submitter Id:E MTAB 11083:F6 mCherry GFP|age:9|broker name:ArrayExpress|cell type:GABAergic neuron|common name:zebrafish|developmental stage:adult|fraction:mCherry+/GFP+|genotype:Tg[gad1b:Gal4 UAS:TVA mCherry]|individual:pool 6|organism part:olfactory bulb|sample name:E MTAB 11083:F6 mCherry GFP|sex:mixed|stimulus:injected with EnvA RV GFP|strain:Ab x Tu x TL x WIK                 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E MTAB 11083:F6 mCherry GFP s F6 mCherry GFP s Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. Experimental Factor: fraction:mCherry+/GFP+ RNA-Seq TRANSCRIPTOMIC Oligo-dT SINGLE ILLUMINA Illumina HiSeq 2500   ERP132560 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07 2874F18-1_210715_D00404_0538_BCD91CANXX_TCGACGTC-TATCCTCT_L006_R1_001.fastq.gz fastq 667663542.0 13091442.0 E MTAB 11083:2874F18 1 210715 D00404 0538 BCD91CANXX TCGACGTC TATCCTCT L006 0:51 1:0 A:177646483;C:152747528;G:146388226;T:190833951;N:47354 51 0     177646483 152747528 146388226 190833951 47354 ERX6698601 ERS8070390 ERA6757553 Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive 1 0.67964   0.18123   0.77193   0.53313   51   B   usable mapping rate illumina hiseq_era unknown poly_a nextera sc single_cell_plate smartseq   Switzerland 2021-12-01 Adult Adult Brain Nervous System
10252 10252 ERR7131156 ERX6698601 ERS8070390 ERP132560 PRJEB48218 Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E-MTAB-11083 Transcriptome Analysis To investigate the effects of rabies infection on neuronal gene expression we compared gene profiles of rabies infected and non infected GABAergic neurons in the Zebrafish olfactory bulb. ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07   Protocols: EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. F6 mCherry GFP SAMEA10418606 Friedrich Miescher Institute for Biomedical Research ENA first public:2021 12 01|ENA last update:2021 12 01|External Id:SAMEA10418606|INSDC center alias:Friedrich Miescher Institute for Biomedical Research|INSDC center name:Friedrich Miescher Institute for Biomedical Research|INSDC first public:2021 12 01T00:23:59Z|INSDC last update:2021 12 01T00:23:59Z|INSDC status:public|Submitter Id:E MTAB 11083:F6 mCherry GFP|age:9|broker name:ArrayExpress|cell type:GABAergic neuron|common name:zebrafish|developmental stage:adult|fraction:mCherry+/GFP+|genotype:Tg[gad1b:Gal4 UAS:TVA mCherry]|individual:pool 6|organism part:olfactory bulb|sample name:E MTAB 11083:F6 mCherry GFP|sex:mixed|stimulus:injected with EnvA RV GFP|strain:Ab x Tu x TL x WIK                 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E MTAB 11083:F6 mCherry GFP s F6 mCherry GFP s Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. Experimental Factor: fraction:mCherry+/GFP+ RNA-Seq TRANSCRIPTOMIC Oligo-dT SINGLE ILLUMINA Illumina HiSeq 2500   ERP132560 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07 2874F18-2_210715_D00404_0538_BCD91CANXX_TCGACGTC-TATCCTCT_L007_R1_001.fastq.gz fastq 670170141.0 13140591.0 E MTAB 11083:2874F18 2 210715 D00404 0538 BCD91CANXX TCGACGTC TATCCTCT L007 0:51 1:0 A:178425395;C:153363855;G:147033779;T:191300976;N:46136 51 0     178425395 153363855 147033779 191300976 46136 ERX6698601 ERS8070390 ERA6757553 Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive 1 0.67922   0.18101   0.77141   0.53601   51   B   usable mapping rate illumina hiseq_era unknown poly_a nextera sc single_cell_plate smartseq   Switzerland 2021-12-01 Adult Adult Brain Nervous System
10253 10253 ERR7131153 ERX6698600 ERS8070389 ERP132560 PRJEB48218 Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E-MTAB-11083 Transcriptome Analysis To investigate the effects of rabies infection on neuronal gene expression we compared gene profiles of rabies infected and non infected GABAergic neurons in the Zebrafish olfactory bulb. ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07   Protocols: EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. F6 mCherry SAMEA10418605 Friedrich Miescher Institute for Biomedical Research ENA first public:2021 12 01|ENA last update:2021 12 01|External Id:SAMEA10418605|INSDC center alias:Friedrich Miescher Institute for Biomedical Research|INSDC center name:Friedrich Miescher Institute for Biomedical Research|INSDC first public:2021 12 01T00:23:59Z|INSDC last update:2021 12 01T00:23:59Z|INSDC status:public|Submitter Id:E MTAB 11083:F6 mCherry|age:9|broker name:ArrayExpress|cell type:GABAergic neuron|common name:zebrafish|developmental stage:adult|fraction:mCherry+/GFP |genotype:Tg[gad1b:Gal4 UAS:TVA mCherry]|individual:pool 6|organism part:olfactory bulb|sample name:E MTAB 11083:F6 mCherry|sex:mixed|stimulus:injected with EnvA RV GFP|strain:Ab x Tu x TL x WIK                 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E MTAB 11083:F6 mCherry s F6 mCherry s Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. Experimental Factor: fraction:mCherry+/GFP RNA-Seq TRANSCRIPTOMIC Oligo-dT SINGLE ILLUMINA Illumina HiSeq 2500   ERP132560 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07 2874F17-1_210715_D00404_0538_BCD91CANXX_TCGACGTC-CTCTCTAT_L006_R1_001.fastq.gz fastq 677617008.0 13286608.0 E MTAB 11083:2874F17 1 210715 D00404 0538 BCD91CANXX TCGACGTC CTCTCTAT L006 0:51 1:0 A:181785899;C:152797687;G:147070676;T:195914808;N:47938 51 0     181785899 152797687 147070676 195914808 47938 ERX6698600 ERS8070389 ERA6757553 Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive 1 0.68298   0.1953   0.76292   0.5395   51   B   usable mapping rate illumina hiseq_era unknown poly_a nextera sc single_cell_plate smartseq   Switzerland 2021-12-01 Adult Adult Brain Nervous System
10254 10254 ERR7131154 ERX6698600 ERS8070389 ERP132560 PRJEB48218 Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E-MTAB-11083 Transcriptome Analysis To investigate the effects of rabies infection on neuronal gene expression we compared gene profiles of rabies infected and non infected GABAergic neurons in the Zebrafish olfactory bulb. ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07   Protocols: EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. F6 mCherry SAMEA10418605 Friedrich Miescher Institute for Biomedical Research ENA first public:2021 12 01|ENA last update:2021 12 01|External Id:SAMEA10418605|INSDC center alias:Friedrich Miescher Institute for Biomedical Research|INSDC center name:Friedrich Miescher Institute for Biomedical Research|INSDC first public:2021 12 01T00:23:59Z|INSDC last update:2021 12 01T00:23:59Z|INSDC status:public|Submitter Id:E MTAB 11083:F6 mCherry|age:9|broker name:ArrayExpress|cell type:GABAergic neuron|common name:zebrafish|developmental stage:adult|fraction:mCherry+/GFP |genotype:Tg[gad1b:Gal4 UAS:TVA mCherry]|individual:pool 6|organism part:olfactory bulb|sample name:E MTAB 11083:F6 mCherry|sex:mixed|stimulus:injected with EnvA RV GFP|strain:Ab x Tu x TL x WIK                 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E MTAB 11083:F6 mCherry s F6 mCherry s Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. Experimental Factor: fraction:mCherry+/GFP RNA-Seq TRANSCRIPTOMIC Oligo-dT SINGLE ILLUMINA Illumina HiSeq 2500   ERP132560 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07 2874F17-2_210715_D00404_0538_BCD91CANXX_TCGACGTC-CTCTCTAT_L007_R1_001.fastq.gz fastq 679922973.0 13331823.0 E MTAB 11083:2874F17 2 210715 D00404 0538 BCD91CANXX TCGACGTC CTCTCTAT L007 0:51 1:0 A:182567819;C:153380607;G:147589890;T:196337722;N:46935 51 0     182567819 153380607 147589890 196337722 46935 ERX6698600 ERS8070389 ERA6757553 Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive 1 0.68391   0.19726   0.76299   0.54099   51   B   usable mapping rate illumina hiseq_era unknown poly_a nextera sc single_cell_plate smartseq   Switzerland 2021-12-01 Adult Adult Brain Nervous System
10255 10255 ERR7131151 ERX6698599 ERS8070388 ERP132560 PRJEB48218 Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E-MTAB-11083 Transcriptome Analysis To investigate the effects of rabies infection on neuronal gene expression we compared gene profiles of rabies infected and non infected GABAergic neurons in the Zebrafish olfactory bulb. ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07   Protocols: EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. F5 Nega SAMEA10418604 Friedrich Miescher Institute for Biomedical Research ENA first public:2021 12 01|ENA last update:2021 12 01|External Id:SAMEA10418604|INSDC center alias:Friedrich Miescher Institute for Biomedical Research|INSDC center name:Friedrich Miescher Institute for Biomedical Research|INSDC first public:2021 12 01T00:23:59Z|INSDC last update:2021 12 01T00:23:59Z|INSDC status:public|Submitter Id:E MTAB 11083:F5 Nega|age:9|broker name:ArrayExpress|cell type:GABAergic neuron|common name:zebrafish|developmental stage:adult|fraction:mCherry /GFP |genotype:Tg[gad1b:Gal4 UAS:TVA mCherry]|individual:pool 5|organism part:olfactory bulb|sample name:E MTAB 11083:F5 Nega|sex:mixed|stimulus:injected with EnvA RV GFP|strain:Ab x Tu x TL x WIK                 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E MTAB 11083:F5 Nega s F5 Nega s Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. Experimental Factor: fraction:mCherry /GFP RNA-Seq TRANSCRIPTOMIC Oligo-dT SINGLE ILLUMINA Illumina HiSeq 2500   ERP132560 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07 2874F13-1_210715_D00404_0538_BCD91CANXX_TGCAGCTA-AAGGAGTA_L006_R1_001.fastq.gz fastq 620316315.0 12163065.0 E MTAB 11083:2874F13 1 210715 D00404 0538 BCD91CANXX TGCAGCTA AAGGAGTA L006 0:51 1:0 A:165967355;C:141072216;G:136931219;T:176301963;N:43562 51 0     165967355 141072216 136931219 176301963 43562 ERX6698599 ERS8070388 ERA6757553 Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive 1 0.78924   0.17457   0.71934   0.53563   51   B   usable mapping rate illumina hiseq_era unknown poly_a nextera sc single_cell_plate smartseq   Switzerland 2021-12-01 Adult Adult Brain Nervous System
10256 10256 ERR7131152 ERX6698599 ERS8070388 ERP132560 PRJEB48218 Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E-MTAB-11083 Transcriptome Analysis To investigate the effects of rabies infection on neuronal gene expression we compared gene profiles of rabies infected and non infected GABAergic neurons in the Zebrafish olfactory bulb. ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07   Protocols: EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. F5 Nega SAMEA10418604 Friedrich Miescher Institute for Biomedical Research ENA first public:2021 12 01|ENA last update:2021 12 01|External Id:SAMEA10418604|INSDC center alias:Friedrich Miescher Institute for Biomedical Research|INSDC center name:Friedrich Miescher Institute for Biomedical Research|INSDC first public:2021 12 01T00:23:59Z|INSDC last update:2021 12 01T00:23:59Z|INSDC status:public|Submitter Id:E MTAB 11083:F5 Nega|age:9|broker name:ArrayExpress|cell type:GABAergic neuron|common name:zebrafish|developmental stage:adult|fraction:mCherry /GFP |genotype:Tg[gad1b:Gal4 UAS:TVA mCherry]|individual:pool 5|organism part:olfactory bulb|sample name:E MTAB 11083:F5 Nega|sex:mixed|stimulus:injected with EnvA RV GFP|strain:Ab x Tu x TL x WIK                 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E MTAB 11083:F5 Nega s F5 Nega s Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. Experimental Factor: fraction:mCherry /GFP RNA-Seq TRANSCRIPTOMIC Oligo-dT SINGLE ILLUMINA Illumina HiSeq 2500   ERP132560 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07 2874F13-2_210715_D00404_0538_BCD91CANXX_TGCAGCTA-AAGGAGTA_L007_R1_001.fastq.gz fastq 623905338.0 12233438.0 E MTAB 11083:2874F13 2 210715 D00404 0538 BCD91CANXX TGCAGCTA AAGGAGTA L007 0:51 1:0 A:166996253;C:141937637;G:137825206;T:177103504;N:42738 51 0     166996253 141937637 137825206 177103504 42738 ERX6698599 ERS8070388 ERA6757553 Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive 1 0.78975   0.17387   0.72153   0.54149   51   B   usable mapping rate illumina hiseq_era unknown poly_a nextera sc single_cell_plate smartseq   Switzerland 2021-12-01 Adult Adult Brain Nervous System
10257 10257 ERR7131149 ERX6698598 ERS8070387 ERP132560 PRJEB48218 Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E-MTAB-11083 Transcriptome Analysis To investigate the effects of rabies infection on neuronal gene expression we compared gene profiles of rabies infected and non infected GABAergic neurons in the Zebrafish olfactory bulb. ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07   Protocols: EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. F5 mCherry GFP SAMEA10418603 Friedrich Miescher Institute for Biomedical Research ENA first public:2021 12 01|ENA last update:2021 12 01|External Id:SAMEA10418603|INSDC center alias:Friedrich Miescher Institute for Biomedical Research|INSDC center name:Friedrich Miescher Institute for Biomedical Research|INSDC first public:2021 12 01T00:23:59Z|INSDC last update:2021 12 01T00:23:59Z|INSDC status:public|Submitter Id:E MTAB 11083:F5 mCherry GFP|age:9|broker name:ArrayExpress|cell type:GABAergic neuron|common name:zebrafish|developmental stage:adult|fraction:mCherry+/GFP+|genotype:Tg[gad1b:Gal4 UAS:TVA mCherry]|individual:pool 5|organism part:olfactory bulb|sample name:E MTAB 11083:F5 mCherry GFP|sex:mixed|stimulus:injected with EnvA RV GFP|strain:Ab x Tu x TL x WIK                 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E MTAB 11083:F5 mCherry GFP s F5 mCherry GFP s Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. Experimental Factor: fraction:mCherry+/GFP+ RNA-Seq TRANSCRIPTOMIC Oligo-dT SINGLE ILLUMINA Illumina HiSeq 2500   ERP132560 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07 2874F15-1_210715_D00404_0538_BCD91CANXX_TGCAGCTA-CGTCTAAT_L006_R1_001.fastq.gz fastq 670154841.0 13140291.0 E MTAB 11083:2874F15 1 210715 D00404 0538 BCD91CANXX TGCAGCTA CGTCTAAT L006 0:51 1:0 A:182457480;C:149175456;G:144548173;T:193927470;N:46262 51 0     182457480 149175456 144548173 193927470 46262 ERX6698598 ERS8070387 ERA6757553 Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive 1 0.71875   0.18671   0.76047   0.52398   51   B   usable mapping rate illumina hiseq_era unknown poly_a nextera sc single_cell_plate smartseq   Switzerland 2021-12-01 Adult Adult Brain Nervous System
10258 10258 ERR7131150 ERX6698598 ERS8070387 ERP132560 PRJEB48218 Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E-MTAB-11083 Transcriptome Analysis To investigate the effects of rabies infection on neuronal gene expression we compared gene profiles of rabies infected and non infected GABAergic neurons in the Zebrafish olfactory bulb. ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07   Protocols: EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. F5 mCherry GFP SAMEA10418603 Friedrich Miescher Institute for Biomedical Research ENA first public:2021 12 01|ENA last update:2021 12 01|External Id:SAMEA10418603|INSDC center alias:Friedrich Miescher Institute for Biomedical Research|INSDC center name:Friedrich Miescher Institute for Biomedical Research|INSDC first public:2021 12 01T00:23:59Z|INSDC last update:2021 12 01T00:23:59Z|INSDC status:public|Submitter Id:E MTAB 11083:F5 mCherry GFP|age:9|broker name:ArrayExpress|cell type:GABAergic neuron|common name:zebrafish|developmental stage:adult|fraction:mCherry+/GFP+|genotype:Tg[gad1b:Gal4 UAS:TVA mCherry]|individual:pool 5|organism part:olfactory bulb|sample name:E MTAB 11083:F5 mCherry GFP|sex:mixed|stimulus:injected with EnvA RV GFP|strain:Ab x Tu x TL x WIK                 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E MTAB 11083:F5 mCherry GFP s F5 mCherry GFP s Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. Experimental Factor: fraction:mCherry+/GFP+ RNA-Seq TRANSCRIPTOMIC Oligo-dT SINGLE ILLUMINA Illumina HiSeq 2500   ERP132560 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07 2874F15-2_210715_D00404_0538_BCD91CANXX_TGCAGCTA-CGTCTAAT_L007_R1_001.fastq.gz fastq 674202048.0 13219648.0 E MTAB 11083:2874F15 2 210715 D00404 0538 BCD91CANXX TGCAGCTA CGTCTAAT L007 0:51 1:0 A:183639511;C:150168226;G:145502071;T:194847755;N:44485 51 0     183639511 150168226 145502071 194847755 44485 ERX6698598 ERS8070387 ERA6757553 Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive 1 0.72111   0.18813   0.76378   0.5258   51   B   usable mapping rate illumina hiseq_era unknown poly_a nextera sc single_cell_plate smartseq   Switzerland 2021-12-01 Adult Adult Brain Nervous System
10259 10259 ERR7131147 ERX6698597 ERS8070386 ERP132560 PRJEB48218 Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E-MTAB-11083 Transcriptome Analysis To investigate the effects of rabies infection on neuronal gene expression we compared gene profiles of rabies infected and non infected GABAergic neurons in the Zebrafish olfactory bulb. ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07   Protocols: EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. F5 mCherry SAMEA10418602 Friedrich Miescher Institute for Biomedical Research ENA first public:2021 12 01|ENA last update:2021 12 01|External Id:SAMEA10418602|INSDC center alias:Friedrich Miescher Institute for Biomedical Research|INSDC center name:Friedrich Miescher Institute for Biomedical Research|INSDC first public:2021 12 01T00:23:59Z|INSDC last update:2021 12 01T00:23:59Z|INSDC status:public|Submitter Id:E MTAB 11083:F5 mCherry|age:9|broker name:ArrayExpress|cell type:GABAergic neuron|common name:zebrafish|developmental stage:adult|fraction:mCherry+/GFP |genotype:Tg[gad1b:Gal4 UAS:TVA mCherry]|individual:pool 5|organism part:olfactory bulb|sample name:E MTAB 11083:F5 mCherry|sex:mixed|stimulus:injected with EnvA RV GFP|strain:Ab x Tu x TL x WIK                 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E MTAB 11083:F5 mCherry s F5 mCherry s Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. Experimental Factor: fraction:mCherry+/GFP RNA-Seq TRANSCRIPTOMIC Oligo-dT SINGLE ILLUMINA Illumina HiSeq 2500   ERP132560 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07 2874F14-1_210715_D00404_0538_BCD91CANXX_TGCAGCTA-CTAAGCCT_L006_R1_001.fastq.gz fastq 615458259.0 12067809.0 E MTAB 11083:2874F14 1 210715 D00404 0538 BCD91CANXX TGCAGCTA CTAAGCCT L006 0:51 1:0 A:165108582;C:139178883;G:134070672;T:177059757;N:40365 51 0     165108582 139178883 134070672 177059757 40365 ERX6698597 ERS8070386 ERA6757553 Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive 1 0.69017   0.1977   0.77193   0.53352   51   B   usable mapping rate illumina hiseq_era unknown poly_a nextera sc single_cell_plate smartseq   Switzerland 2021-12-01 Adult Adult Brain Nervous System
10260 10260 ERR7131148 ERX6698597 ERS8070386 ERP132560 PRJEB48218 Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E-MTAB-11083 Transcriptome Analysis To investigate the effects of rabies infection on neuronal gene expression we compared gene profiles of rabies infected and non infected GABAergic neurons in the Zebrafish olfactory bulb. ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07   Protocols: EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. F5 mCherry SAMEA10418602 Friedrich Miescher Institute for Biomedical Research ENA first public:2021 12 01|ENA last update:2021 12 01|External Id:SAMEA10418602|INSDC center alias:Friedrich Miescher Institute for Biomedical Research|INSDC center name:Friedrich Miescher Institute for Biomedical Research|INSDC first public:2021 12 01T00:23:59Z|INSDC last update:2021 12 01T00:23:59Z|INSDC status:public|Submitter Id:E MTAB 11083:F5 mCherry|age:9|broker name:ArrayExpress|cell type:GABAergic neuron|common name:zebrafish|developmental stage:adult|fraction:mCherry+/GFP |genotype:Tg[gad1b:Gal4 UAS:TVA mCherry]|individual:pool 5|organism part:olfactory bulb|sample name:E MTAB 11083:F5 mCherry|sex:mixed|stimulus:injected with EnvA RV GFP|strain:Ab x Tu x TL x WIK                 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E MTAB 11083:F5 mCherry s F5 mCherry s Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. Experimental Factor: fraction:mCherry+/GFP RNA-Seq TRANSCRIPTOMIC Oligo-dT SINGLE ILLUMINA Illumina HiSeq 2500   ERP132560 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07 2874F14-2_210715_D00404_0538_BCD91CANXX_TGCAGCTA-CTAAGCCT_L007_R1_001.fastq.gz fastq 619061613.0 12138463.0 E MTAB 11083:2874F14 2 210715 D00404 0538 BCD91CANXX TGCAGCTA CTAAGCCT L007 0:51 1:0 A:166167516;C:140058774;G:134972850;T:177822733;N:39740 51 0     166167516 140058774 134972850 177822733 39740 ERX6698597 ERS8070386 ERA6757553 Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive 1 0.69118   0.20019   0.7707   0.52174   51   B   usable mapping rate illumina hiseq_era unknown poly_a nextera sc single_cell_plate smartseq   Switzerland 2021-12-01 Adult Adult Brain Nervous System
10261 10261 ERR7131145 ERX6698596 ERS8070385 ERP132560 PRJEB48218 Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E-MTAB-11083 Transcriptome Analysis To investigate the effects of rabies infection on neuronal gene expression we compared gene profiles of rabies infected and non infected GABAergic neurons in the Zebrafish olfactory bulb. ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07   Protocols: EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. F4 Nega SAMEA10418601 Friedrich Miescher Institute for Biomedical Research ENA first public:2021 12 01|ENA last update:2021 12 01|External Id:SAMEA10418601|INSDC center alias:Friedrich Miescher Institute for Biomedical Research|INSDC center name:Friedrich Miescher Institute for Biomedical Research|INSDC first public:2021 12 01T00:23:59Z|INSDC last update:2021 12 01T00:23:59Z|INSDC status:public|Submitter Id:E MTAB 11083:F4 Nega|age:9|broker name:ArrayExpress|cell type:GABAergic neuron|common name:zebrafish|developmental stage:adult|fraction:mCherry /GFP |genotype:Tg[gad1b:Gal4 UAS:TVA mCherry]|individual:pool 4|organism part:olfactory bulb|sample name:E MTAB 11083:F4 Nega|sex:mixed|stimulus:injected with EnvA RV GFP|strain:Ab x Tu x TL x WIK                 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E MTAB 11083:F4 Nega s F4 Nega s Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. Experimental Factor: fraction:mCherry /GFP RNA-Seq TRANSCRIPTOMIC Oligo-dT SINGLE ILLUMINA Illumina HiSeq 2500   ERP132560 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07 2874F10-1_210715_D00404_0538_BCD91CANXX_TGCAGCTA-TATCCTCT_L006_R1_001.fastq.gz fastq 652536687.0 12794837.0 E MTAB 11083:2874F10 1 210715 D00404 0538 BCD91CANXX TGCAGCTA TATCCTCT L006 0:51 1:0 A:178033231;C:144661707;G:139876661;T:189921085;N:44003 51 0     178033231 144661707 139876661 189921085 44003 ERX6698596 ERS8070385 ERA6757553 Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive 1 0.76201   0.2508   0.71299   0.53379   51   B   usable mapping rate illumina hiseq_era unknown poly_a nextera sc single_cell_plate smartseq   Switzerland 2021-12-01 Adult Adult Brain Nervous System
10262 10262 ERR7131146 ERX6698596 ERS8070385 ERP132560 PRJEB48218 Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E-MTAB-11083 Transcriptome Analysis To investigate the effects of rabies infection on neuronal gene expression we compared gene profiles of rabies infected and non infected GABAergic neurons in the Zebrafish olfactory bulb. ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07   Protocols: EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. F4 Nega SAMEA10418601 Friedrich Miescher Institute for Biomedical Research ENA first public:2021 12 01|ENA last update:2021 12 01|External Id:SAMEA10418601|INSDC center alias:Friedrich Miescher Institute for Biomedical Research|INSDC center name:Friedrich Miescher Institute for Biomedical Research|INSDC first public:2021 12 01T00:23:59Z|INSDC last update:2021 12 01T00:23:59Z|INSDC status:public|Submitter Id:E MTAB 11083:F4 Nega|age:9|broker name:ArrayExpress|cell type:GABAergic neuron|common name:zebrafish|developmental stage:adult|fraction:mCherry /GFP |genotype:Tg[gad1b:Gal4 UAS:TVA mCherry]|individual:pool 4|organism part:olfactory bulb|sample name:E MTAB 11083:F4 Nega|sex:mixed|stimulus:injected with EnvA RV GFP|strain:Ab x Tu x TL x WIK                 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E MTAB 11083:F4 Nega s F4 Nega s Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. Experimental Factor: fraction:mCherry /GFP RNA-Seq TRANSCRIPTOMIC Oligo-dT SINGLE ILLUMINA Illumina HiSeq 2500   ERP132560 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07 2874F10-2_210715_D00404_0538_BCD91CANXX_TGCAGCTA-TATCCTCT_L007_R1_001.fastq.gz fastq 655278957.0 12848607.0 E MTAB 11083:2874F10 2 210715 D00404 0538 BCD91CANXX TGCAGCTA TATCCTCT L007 0:51 1:0 A:178938002;C:145332613;G:140527756;T:190437189;N:43397 51 0     178938002 145332613 140527756 190437189 43397 ERX6698596 ERS8070385 ERA6757553 Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive 1 0.76188   0.25356   0.71344   0.53081   51   B   usable mapping rate illumina hiseq_era unknown poly_a nextera sc single_cell_plate smartseq   Switzerland 2021-12-01 Adult Adult Brain Nervous System
10263 10263 ERR7131143 ERX6698595 ERS8070384 ERP132560 PRJEB48218 Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E-MTAB-11083 Transcriptome Analysis To investigate the effects of rabies infection on neuronal gene expression we compared gene profiles of rabies infected and non infected GABAergic neurons in the Zebrafish olfactory bulb. ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07   Protocols: EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. F4 mCherry GFP SAMEA10418600 Friedrich Miescher Institute for Biomedical Research ENA first public:2021 12 01|ENA last update:2021 12 01|External Id:SAMEA10418600|INSDC center alias:Friedrich Miescher Institute for Biomedical Research|INSDC center name:Friedrich Miescher Institute for Biomedical Research|INSDC first public:2021 12 01T00:23:59Z|INSDC last update:2021 12 01T00:23:59Z|INSDC status:public|Submitter Id:E MTAB 11083:F4 mCherry GFP|age:9|broker name:ArrayExpress|cell type:GABAergic neuron|common name:zebrafish|developmental stage:adult|fraction:mCherry+/GFP+|genotype:Tg[gad1b:Gal4 UAS:TVA mCherry]|individual:pool 4|organism part:olfactory bulb|sample name:E MTAB 11083:F4 mCherry GFP|sex:mixed|stimulus:injected with EnvA RV GFP|strain:Ab x Tu x TL x WIK                 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E MTAB 11083:F4 mCherry GFP s F4 mCherry GFP s Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. Experimental Factor: fraction:mCherry+/GFP+ RNA-Seq TRANSCRIPTOMIC Oligo-dT SINGLE ILLUMINA Illumina HiSeq 2500   ERP132560 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07 2874F12-1_210715_D00404_0538_BCD91CANXX_TGCAGCTA-ACTGCATA_L006_R1_001.fastq.gz fastq 297921855.0 5841605.0 E MTAB 11083:2874F12 1 210715 D00404 0538 BCD91CANXX TGCAGCTA ACTGCATA L006 0:51 1:0 A:82400724;C:65517496;G:64603058;T:85384480;N:16097 51 0     82400724 65517496 64603058 85384480 16097 ERX6698595 ERS8070384 ERA6757553 Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive 1 0.72496   0.20794   0.81223   0.52529   51   B   usable mapping rate illumina hiseq_era unknown poly_a nextera sc single_cell_plate smartseq   Switzerland 2021-12-01 Adult Adult Brain Nervous System
10264 10264 ERR7131144 ERX6698595 ERS8070384 ERP132560 PRJEB48218 Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E-MTAB-11083 Transcriptome Analysis To investigate the effects of rabies infection on neuronal gene expression we compared gene profiles of rabies infected and non infected GABAergic neurons in the Zebrafish olfactory bulb. ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07   Protocols: EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. F4 mCherry GFP SAMEA10418600 Friedrich Miescher Institute for Biomedical Research ENA first public:2021 12 01|ENA last update:2021 12 01|External Id:SAMEA10418600|INSDC center alias:Friedrich Miescher Institute for Biomedical Research|INSDC center name:Friedrich Miescher Institute for Biomedical Research|INSDC first public:2021 12 01T00:23:59Z|INSDC last update:2021 12 01T00:23:59Z|INSDC status:public|Submitter Id:E MTAB 11083:F4 mCherry GFP|age:9|broker name:ArrayExpress|cell type:GABAergic neuron|common name:zebrafish|developmental stage:adult|fraction:mCherry+/GFP+|genotype:Tg[gad1b:Gal4 UAS:TVA mCherry]|individual:pool 4|organism part:olfactory bulb|sample name:E MTAB 11083:F4 mCherry GFP|sex:mixed|stimulus:injected with EnvA RV GFP|strain:Ab x Tu x TL x WIK                 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E MTAB 11083:F4 mCherry GFP s F4 mCherry GFP s Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. Experimental Factor: fraction:mCherry+/GFP+ RNA-Seq TRANSCRIPTOMIC Oligo-dT SINGLE ILLUMINA Illumina HiSeq 2500   ERP132560 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07 2874F12-2_210715_D00404_0538_BCD91CANXX_TGCAGCTA-ACTGCATA_L007_R1_001.fastq.gz fastq 309412971.0 6066921.0 E MTAB 11083:2874F12 2 210715 D00404 0538 BCD91CANXX TGCAGCTA ACTGCATA L007 0:51 1:0 A:85531271;C:68164437;G:67129209;T:88573210;N:14844 51 0     85531271 68164437 67129209 88573210 14844 ERX6698595 ERS8070384 ERA6757553 Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive 1 0.7245   0.20724   0.80468   0.52791   51   B   usable mapping rate illumina hiseq_era unknown poly_a nextera sc single_cell_plate smartseq   Switzerland 2021-12-01 Adult Adult Brain Nervous System
10265 10265 ERR7131141 ERX6698594 ERS8070383 ERP132560 PRJEB48218 Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E-MTAB-11083 Transcriptome Analysis To investigate the effects of rabies infection on neuronal gene expression we compared gene profiles of rabies infected and non infected GABAergic neurons in the Zebrafish olfactory bulb. ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07   Protocols: EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. F4 mCherry SAMEA10418599 Friedrich Miescher Institute for Biomedical Research ENA first public:2021 12 01|ENA last update:2021 12 01|External Id:SAMEA10418599|INSDC center alias:Friedrich Miescher Institute for Biomedical Research|INSDC center name:Friedrich Miescher Institute for Biomedical Research|INSDC first public:2021 12 01T00:23:59Z|INSDC last update:2021 12 01T00:23:59Z|INSDC status:public|Submitter Id:E MTAB 11083:F4 mCherry|age:9|broker name:ArrayExpress|cell type:GABAergic neuron|common name:zebrafish|developmental stage:adult|fraction:mCherry+/GFP |genotype:Tg[gad1b:Gal4 UAS:TVA mCherry]|individual:pool 4|organism part:olfactory bulb|sample name:E MTAB 11083:F4 mCherry|sex:mixed|stimulus:injected with EnvA RV GFP|strain:Ab x Tu x TL x WIK                 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E MTAB 11083:F4 mCherry s F4 mCherry s Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. Experimental Factor: fraction:mCherry+/GFP RNA-Seq TRANSCRIPTOMIC Oligo-dT SINGLE ILLUMINA Illumina HiSeq 2500   ERP132560 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07 2874F11-1_210715_D00404_0538_BCD91CANXX_TGCAGCTA-GTAAGGAG_L006_R1_001.fastq.gz fastq 672319791.0 13182741.0 E MTAB 11083:2874F11 1 210715 D00404 0538 BCD91CANXX TGCAGCTA GTAAGGAG L006 0:51 1:0 A:181508034;C:150928549;G:146124085;T:193711358;N:47765 51 0     181508034 150928549 146124085 193711358 47765 ERX6698594 ERS8070383 ERA6757553 Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive 1 0.71726   0.19842   0.74986   0.53363   51   B   usable mapping rate illumina hiseq_era unknown poly_a nextera sc single_cell_plate smartseq   Switzerland 2021-12-01 Adult Adult Brain Nervous System
10266 10266 ERR7131142 ERX6698594 ERS8070383 ERP132560 PRJEB48218 Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E-MTAB-11083 Transcriptome Analysis To investigate the effects of rabies infection on neuronal gene expression we compared gene profiles of rabies infected and non infected GABAergic neurons in the Zebrafish olfactory bulb. ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07   Protocols: EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. F4 mCherry SAMEA10418599 Friedrich Miescher Institute for Biomedical Research ENA first public:2021 12 01|ENA last update:2021 12 01|External Id:SAMEA10418599|INSDC center alias:Friedrich Miescher Institute for Biomedical Research|INSDC center name:Friedrich Miescher Institute for Biomedical Research|INSDC first public:2021 12 01T00:23:59Z|INSDC last update:2021 12 01T00:23:59Z|INSDC status:public|Submitter Id:E MTAB 11083:F4 mCherry|age:9|broker name:ArrayExpress|cell type:GABAergic neuron|common name:zebrafish|developmental stage:adult|fraction:mCherry+/GFP |genotype:Tg[gad1b:Gal4 UAS:TVA mCherry]|individual:pool 4|organism part:olfactory bulb|sample name:E MTAB 11083:F4 mCherry|sex:mixed|stimulus:injected with EnvA RV GFP|strain:Ab x Tu x TL x WIK                 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E MTAB 11083:F4 mCherry s F4 mCherry s Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. Experimental Factor: fraction:mCherry+/GFP RNA-Seq TRANSCRIPTOMIC Oligo-dT SINGLE ILLUMINA Illumina HiSeq 2500   ERP132560 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07 2874F11-2_210715_D00404_0538_BCD91CANXX_TGCAGCTA-GTAAGGAG_L007_R1_001.fastq.gz fastq 675486075.0 13244825.0 E MTAB 11083:2874F11 2 210715 D00404 0538 BCD91CANXX TGCAGCTA GTAAGGAG L007 0:51 1:0 A:182462261;C:151688554;G:146902713;T:194385945;N:46602 51 0     182462261 151688554 146902713 194385945 46602 ERX6698594 ERS8070383 ERA6757553 Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive 1 0.71745   0.19727   0.74805   0.53092   51   B   usable mapping rate illumina hiseq_era unknown poly_a nextera sc single_cell_plate smartseq   Switzerland 2021-12-01 Adult Adult Brain Nervous System
10267 10267 ERR7131139 ERX6698593 ERS8070382 ERP132560 PRJEB48218 Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E-MTAB-11083 Transcriptome Analysis To investigate the effects of rabies infection on neuronal gene expression we compared gene profiles of rabies infected and non infected GABAergic neurons in the Zebrafish olfactory bulb. ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07   Protocols: EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. F3 Nega SAMEA10418598 Friedrich Miescher Institute for Biomedical Research ENA first public:2021 12 01|ENA last update:2021 12 01|External Id:SAMEA10418598|INSDC center alias:Friedrich Miescher Institute for Biomedical Research|INSDC center name:Friedrich Miescher Institute for Biomedical Research|INSDC first public:2021 12 01T00:23:59Z|INSDC last update:2021 12 01T00:23:59Z|INSDC status:public|Submitter Id:E MTAB 11083:F3 Nega|age:9|broker name:ArrayExpress|cell type:GABAergic neuron|common name:zebrafish|developmental stage:adult|fraction:mCherry /GFP |genotype:Tg[gad1b:Gal4 UAS:TVA mCherry]|individual:pool 3|organism part:olfactory bulb|sample name:E MTAB 11083:F3 Nega|sex:mixed|stimulus:injected with EnvA RV GFP|strain:Ab x Tu x TL x WIK                 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E MTAB 11083:F3 Nega s F3 Nega s Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. Experimental Factor: fraction:mCherry /GFP RNA-Seq TRANSCRIPTOMIC Oligo-dT SINGLE ILLUMINA Illumina HiSeq 2500   ERP132560 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07 2874F7-1_210715_D00404_0538_BCD91CANXX_CGATCAGT-CGTCTAAT_L006_R1_001.fastq.gz fastq 630093627.0 12354777.0 E MTAB 11083:2874F7 1 210715 D00404 0538 BCD91CANXX CGATCAGT CGTCTAAT L006 0:51 1:0 A:165132739;C:146179836;G:142796880;T:175940613;N:43559 51 0     165132739 146179836 142796880 175940613 43559 ERX6698593 ERS8070382 ERA6757553 Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive 1 0.81672   0.15219   0.71277   0.52461   51   B   usable mapping rate illumina hiseq_era unknown poly_a nextera sc single_cell_plate smartseq   Switzerland 2021-12-01 Adult Adult Brain Nervous System
10268 10268 ERR7131140 ERX6698593 ERS8070382 ERP132560 PRJEB48218 Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E-MTAB-11083 Transcriptome Analysis To investigate the effects of rabies infection on neuronal gene expression we compared gene profiles of rabies infected and non infected GABAergic neurons in the Zebrafish olfactory bulb. ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07   Protocols: EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. F3 Nega SAMEA10418598 Friedrich Miescher Institute for Biomedical Research ENA first public:2021 12 01|ENA last update:2021 12 01|External Id:SAMEA10418598|INSDC center alias:Friedrich Miescher Institute for Biomedical Research|INSDC center name:Friedrich Miescher Institute for Biomedical Research|INSDC first public:2021 12 01T00:23:59Z|INSDC last update:2021 12 01T00:23:59Z|INSDC status:public|Submitter Id:E MTAB 11083:F3 Nega|age:9|broker name:ArrayExpress|cell type:GABAergic neuron|common name:zebrafish|developmental stage:adult|fraction:mCherry /GFP |genotype:Tg[gad1b:Gal4 UAS:TVA mCherry]|individual:pool 3|organism part:olfactory bulb|sample name:E MTAB 11083:F3 Nega|sex:mixed|stimulus:injected with EnvA RV GFP|strain:Ab x Tu x TL x WIK                 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E MTAB 11083:F3 Nega s F3 Nega s Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. Experimental Factor: fraction:mCherry /GFP RNA-Seq TRANSCRIPTOMIC Oligo-dT SINGLE ILLUMINA Illumina HiSeq 2500   ERP132560 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07 2874F7-2_210715_D00404_0538_BCD91CANXX_CGATCAGT-CGTCTAAT_L007_R1_001.fastq.gz fastq 632305242.0 12398142.0 E MTAB 11083:2874F7 2 210715 D00404 0538 BCD91CANXX CGATCAGT CGTCTAAT L007 0:51 1:0 A:165832174;C:146751895;G:143384539;T:176293313;N:43321 51 0     165832174 146751895 143384539 176293313 43321 ERX6698593 ERS8070382 ERA6757553 Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive 1 0.81791   0.15444   0.7151   0.52585   51   B   usable mapping rate illumina hiseq_era unknown poly_a nextera sc single_cell_plate smartseq   Switzerland 2021-12-01 Adult Adult Brain Nervous System
10269 10269 ERR7131137 ERX6698592 ERS8070381 ERP132560 PRJEB48218 Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E-MTAB-11083 Transcriptome Analysis To investigate the effects of rabies infection on neuronal gene expression we compared gene profiles of rabies infected and non infected GABAergic neurons in the Zebrafish olfactory bulb. ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07   Protocols: EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. F3 mCherry GFP SAMEA10418597 Friedrich Miescher Institute for Biomedical Research ENA first public:2021 12 01|ENA last update:2021 12 01|External Id:SAMEA10418597|INSDC center alias:Friedrich Miescher Institute for Biomedical Research|INSDC center name:Friedrich Miescher Institute for Biomedical Research|INSDC first public:2021 12 01T00:23:59Z|INSDC last update:2021 12 01T00:23:59Z|INSDC status:public|Submitter Id:E MTAB 11083:F3 mCherry GFP|age:9|broker name:ArrayExpress|cell type:GABAergic neuron|common name:zebrafish|developmental stage:adult|fraction:mCherry+/GFP+|genotype:Tg[gad1b:Gal4 UAS:TVA mCherry]|individual:pool 3|organism part:olfactory bulb|sample name:E MTAB 11083:F3 mCherry GFP|sex:mixed|stimulus:injected with EnvA RV GFP|strain:Ab x Tu x TL x WIK                 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E MTAB 11083:F3 mCherry GFP s F3 mCherry GFP s Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. Experimental Factor: fraction:mCherry+/GFP+ RNA-Seq TRANSCRIPTOMIC Oligo-dT SINGLE ILLUMINA Illumina HiSeq 2500   ERP132560 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07 2874F9-1_210715_D00404_0538_BCD91CANXX_TGCAGCTA-CTCTCTAT_L006_R1_001.fastq.gz fastq 660379620.0 12948620.0 E MTAB 11083:2874F9 1 210715 D00404 0538 BCD91CANXX TGCAGCTA CTCTCTAT L006 0:51 1:0 A:178482695;C:147417787;G:143797476;T:190635173;N:46489 51 0     178482695 147417787 143797476 190635173 46489 ERX6698592 ERS8070381 ERA6757553 Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive 1 0.65635   0.17778   0.76899   0.52957   51   B   usable mapping rate illumina hiseq_era unknown poly_a nextera sc single_cell_plate smartseq   Switzerland 2021-12-01 Adult Adult Brain Nervous System
10270 10270 ERR7131138 ERX6698592 ERS8070381 ERP132560 PRJEB48218 Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E-MTAB-11083 Transcriptome Analysis To investigate the effects of rabies infection on neuronal gene expression we compared gene profiles of rabies infected and non infected GABAergic neurons in the Zebrafish olfactory bulb. ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07   Protocols: EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. F3 mCherry GFP SAMEA10418597 Friedrich Miescher Institute for Biomedical Research ENA first public:2021 12 01|ENA last update:2021 12 01|External Id:SAMEA10418597|INSDC center alias:Friedrich Miescher Institute for Biomedical Research|INSDC center name:Friedrich Miescher Institute for Biomedical Research|INSDC first public:2021 12 01T00:23:59Z|INSDC last update:2021 12 01T00:23:59Z|INSDC status:public|Submitter Id:E MTAB 11083:F3 mCherry GFP|age:9|broker name:ArrayExpress|cell type:GABAergic neuron|common name:zebrafish|developmental stage:adult|fraction:mCherry+/GFP+|genotype:Tg[gad1b:Gal4 UAS:TVA mCherry]|individual:pool 3|organism part:olfactory bulb|sample name:E MTAB 11083:F3 mCherry GFP|sex:mixed|stimulus:injected with EnvA RV GFP|strain:Ab x Tu x TL x WIK                 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E MTAB 11083:F3 mCherry GFP s F3 mCherry GFP s Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. Experimental Factor: fraction:mCherry+/GFP+ RNA-Seq TRANSCRIPTOMIC Oligo-dT SINGLE ILLUMINA Illumina HiSeq 2500   ERP132560 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07 2874F9-2_210715_D00404_0538_BCD91CANXX_TGCAGCTA-CTCTCTAT_L007_R1_001.fastq.gz fastq 662411307.0 12988457.0 E MTAB 11083:2874F9 2 210715 D00404 0538 BCD91CANXX TGCAGCTA CTCTCTAT L007 0:51 1:0 A:179158323;C:147942300;G:144319925;T:190945370;N:45389 51 0     179158323 147942300 144319925 190945370 45389 ERX6698592 ERS8070381 ERA6757553 Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive 1 0.65813   0.17896   0.77076   0.52835   51   B   usable mapping rate illumina hiseq_era unknown poly_a nextera sc single_cell_plate smartseq   Switzerland 2021-12-01 Adult Adult Brain Nervous System
10271 10271 ERR7131135 ERX6698591 ERS8070380 ERP132560 PRJEB48218 Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E-MTAB-11083 Transcriptome Analysis To investigate the effects of rabies infection on neuronal gene expression we compared gene profiles of rabies infected and non infected GABAergic neurons in the Zebrafish olfactory bulb. ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07   Protocols: EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. F3 mCherry SAMEA10418596 Friedrich Miescher Institute for Biomedical Research ENA first public:2021 12 01|ENA last update:2021 12 01|External Id:SAMEA10418596|INSDC center alias:Friedrich Miescher Institute for Biomedical Research|INSDC center name:Friedrich Miescher Institute for Biomedical Research|INSDC first public:2021 12 01T00:23:59Z|INSDC last update:2021 12 01T00:23:59Z|INSDC status:public|Submitter Id:E MTAB 11083:F3 mCherry|age:9|broker name:ArrayExpress|cell type:GABAergic neuron|common name:zebrafish|developmental stage:adult|fraction:mCherry+/GFP |genotype:Tg[gad1b:Gal4 UAS:TVA mCherry]|individual:pool 3|organism part:olfactory bulb|sample name:E MTAB 11083:F3 mCherry|sex:mixed|stimulus:injected with EnvA RV GFP|strain:Ab x Tu x TL x WIK                 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E MTAB 11083:F3 mCherry s F3 mCherry s Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. Experimental Factor: fraction:mCherry+/GFP RNA-Seq TRANSCRIPTOMIC Oligo-dT SINGLE ILLUMINA Illumina HiSeq 2500   ERP132560 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07 2874F8-1_210715_D00404_0538_BCD91CANXX_CGATCAGT-TCTCTCCG_L006_R1_001.fastq.gz fastq 698608353.0 13698203.0 E MTAB 11083:2874F8 1 210715 D00404 0538 BCD91CANXX CGATCAGT TCTCTCCG L006 0:51 1:0 A:188718612;C:156814081;G:151125083;T:201901570;N:49007 51 0     188718612 156814081 151125083 201901570 49007 ERX6698591 ERS8070380 ERA6757553 Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive 1 0.70185   0.21547   0.75588   0.53853   51   B   usable mapping rate illumina hiseq_era unknown poly_a nextera sc single_cell_plate smartseq   Switzerland 2021-12-01 Adult Adult Brain Nervous System
10272 10272 ERR7131136 ERX6698591 ERS8070380 ERP132560 PRJEB48218 Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E-MTAB-11083 Transcriptome Analysis To investigate the effects of rabies infection on neuronal gene expression we compared gene profiles of rabies infected and non infected GABAergic neurons in the Zebrafish olfactory bulb. ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07   Protocols: EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. F3 mCherry SAMEA10418596 Friedrich Miescher Institute for Biomedical Research ENA first public:2021 12 01|ENA last update:2021 12 01|External Id:SAMEA10418596|INSDC center alias:Friedrich Miescher Institute for Biomedical Research|INSDC center name:Friedrich Miescher Institute for Biomedical Research|INSDC first public:2021 12 01T00:23:59Z|INSDC last update:2021 12 01T00:23:59Z|INSDC status:public|Submitter Id:E MTAB 11083:F3 mCherry|age:9|broker name:ArrayExpress|cell type:GABAergic neuron|common name:zebrafish|developmental stage:adult|fraction:mCherry+/GFP |genotype:Tg[gad1b:Gal4 UAS:TVA mCherry]|individual:pool 3|organism part:olfactory bulb|sample name:E MTAB 11083:F3 mCherry|sex:mixed|stimulus:injected with EnvA RV GFP|strain:Ab x Tu x TL x WIK                 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E MTAB 11083:F3 mCherry s F3 mCherry s Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. Experimental Factor: fraction:mCherry+/GFP RNA-Seq TRANSCRIPTOMIC Oligo-dT SINGLE ILLUMINA Illumina HiSeq 2500   ERP132560 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07 2874F8-2_210715_D00404_0538_BCD91CANXX_CGATCAGT-TCTCTCCG_L007_R1_001.fastq.gz fastq 699869175.0 13722925.0 E MTAB 11083:2874F8 2 210715 D00404 0538 BCD91CANXX CGATCAGT TCTCTCCG L007 0:51 1:0 A:189192315;C:157176897;G:151498983;T:201952867;N:48113 51 0     189192315 157176897 151498983 201952867 48113 ERX6698591 ERS8070380 ERA6757553 Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive 1 0.70221   0.21684   0.75621   0.53787   51   B   usable mapping rate illumina hiseq_era unknown poly_a nextera sc single_cell_plate smartseq   Switzerland 2021-12-01 Adult Adult Brain Nervous System
10273 10273 ERR7131133 ERX6698590 ERS8070379 ERP132560 PRJEB48218 Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E-MTAB-11083 Transcriptome Analysis To investigate the effects of rabies infection on neuronal gene expression we compared gene profiles of rabies infected and non infected GABAergic neurons in the Zebrafish olfactory bulb. ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07   Protocols: EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. F2 Nega SAMEA10418595 Friedrich Miescher Institute for Biomedical Research ENA first public:2021 12 01|ENA last update:2021 12 01|External Id:SAMEA10418595|INSDC center alias:Friedrich Miescher Institute for Biomedical Research|INSDC center name:Friedrich Miescher Institute for Biomedical Research|INSDC first public:2021 12 01T00:23:59Z|INSDC last update:2021 12 01T00:23:59Z|INSDC status:public|Submitter Id:E MTAB 11083:F2 Nega|age:9|broker name:ArrayExpress|cell type:GABAergic neuron|common name:zebrafish|developmental stage:adult|fraction:mCherry /GFP |genotype:Tg[gad1b:Gal4 UAS:TVA mCherry]|individual:pool 2|organism part:olfactory bulb|sample name:E MTAB 11083:F2 Nega|sex:mixed|stimulus:injected with EnvA RV GFP|strain:Ab x Tu x TL x WIK                 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E MTAB 11083:F2 Nega s F2 Nega s Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. Experimental Factor: fraction:mCherry /GFP RNA-Seq TRANSCRIPTOMIC Oligo-dT SINGLE ILLUMINA Illumina HiSeq 2500   ERP132560 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07 2874F4-1_210715_D00404_0538_BCD91CANXX_CGATCAGT-ACTGCATA_L006_R1_001.fastq.gz fastq 573812985.0 11251235.0 E MTAB 11083:2874F4 1 210715 D00404 0538 BCD91CANXX CGATCAGT ACTGCATA L006 0:51 1:0 A:150716404;C:132203167;G:129732968;T:161120057;N:40389 51 0     150716404 132203167 129732968 161120057 40389 ERX6698590 ERS8070379 ERA6757553 Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive 1 0.81899   0.17302   0.72281   0.54315   51   B   usable mapping rate illumina hiseq_era unknown poly_a nextera sc single_cell_plate smartseq   Switzerland 2021-12-01 Adult Adult Brain Nervous System
10274 10274 ERR7131134 ERX6698590 ERS8070379 ERP132560 PRJEB48218 Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E-MTAB-11083 Transcriptome Analysis To investigate the effects of rabies infection on neuronal gene expression we compared gene profiles of rabies infected and non infected GABAergic neurons in the Zebrafish olfactory bulb. ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07   Protocols: EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. F2 Nega SAMEA10418595 Friedrich Miescher Institute for Biomedical Research ENA first public:2021 12 01|ENA last update:2021 12 01|External Id:SAMEA10418595|INSDC center alias:Friedrich Miescher Institute for Biomedical Research|INSDC center name:Friedrich Miescher Institute for Biomedical Research|INSDC first public:2021 12 01T00:23:59Z|INSDC last update:2021 12 01T00:23:59Z|INSDC status:public|Submitter Id:E MTAB 11083:F2 Nega|age:9|broker name:ArrayExpress|cell type:GABAergic neuron|common name:zebrafish|developmental stage:adult|fraction:mCherry /GFP |genotype:Tg[gad1b:Gal4 UAS:TVA mCherry]|individual:pool 2|organism part:olfactory bulb|sample name:E MTAB 11083:F2 Nega|sex:mixed|stimulus:injected with EnvA RV GFP|strain:Ab x Tu x TL x WIK                 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E MTAB 11083:F2 Nega s F2 Nega s Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. Experimental Factor: fraction:mCherry /GFP RNA-Seq TRANSCRIPTOMIC Oligo-dT SINGLE ILLUMINA Illumina HiSeq 2500   ERP132560 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07 2874F4-2_210715_D00404_0538_BCD91CANXX_CGATCAGT-ACTGCATA_L007_R1_001.fastq.gz fastq 576184587.0 11297737.0 E MTAB 11083:2874F4 2 210715 D00404 0538 BCD91CANXX CGATCAGT ACTGCATA L007 0:51 1:0 A:151387408;C:132788210;G:130392043;T:161577529;N:39397 51 0     151387408 132788210 130392043 161577529 39397 ERX6698590 ERS8070379 ERA6757553 Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive 1 0.81999   0.17082   0.72196   0.54505   51   B   usable mapping rate illumina hiseq_era unknown poly_a nextera sc single_cell_plate smartseq   Switzerland 2021-12-01 Adult Adult Brain Nervous System
10275 10275 ERR7131131 ERX6698589 ERS8070378 ERP132560 PRJEB48218 Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E-MTAB-11083 Transcriptome Analysis To investigate the effects of rabies infection on neuronal gene expression we compared gene profiles of rabies infected and non infected GABAergic neurons in the Zebrafish olfactory bulb. ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07   Protocols: EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. F2 mCherry GFP SAMEA10418594 Friedrich Miescher Institute for Biomedical Research ENA first public:2021 12 01|ENA last update:2021 12 01|External Id:SAMEA10418594|INSDC center alias:Friedrich Miescher Institute for Biomedical Research|INSDC center name:Friedrich Miescher Institute for Biomedical Research|INSDC first public:2021 12 01T00:23:59Z|INSDC last update:2021 12 01T00:23:59Z|INSDC status:public|Submitter Id:E MTAB 11083:F2 mCherry GFP|age:9|broker name:ArrayExpress|cell type:GABAergic neuron|common name:zebrafish|developmental stage:adult|fraction:mCherry+/GFP+|genotype:Tg[gad1b:Gal4 UAS:TVA mCherry]|individual:pool 2|organism part:olfactory bulb|sample name:E MTAB 11083:F2 mCherry GFP|sex:mixed|stimulus:injected with EnvA RV GFP|strain:Ab x Tu x TL x WIK                 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E MTAB 11083:F2 mCherry GFP s F2 mCherry GFP s Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. Experimental Factor: fraction:mCherry+/GFP+ RNA-Seq TRANSCRIPTOMIC Oligo-dT SINGLE ILLUMINA Illumina HiSeq 2500   ERP132560 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07 2874F6-1_210715_D00404_0538_BCD91CANXX_CGATCAGT-CTAAGCCT_L006_R1_001.fastq.gz fastq 654811032.0 12839432.0 E MTAB 11083:2874F6 1 210715 D00404 0538 BCD91CANXX CGATCAGT CTAAGCCT L006 0:51 1:0 A:177403486;C:146202733;G:142207545;T:188951373;N:45895 51 0     177403486 146202733 142207545 188951373 45895 ERX6698589 ERS8070378 ERA6757553 Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive 1 0.67854   0.21407   0.76104   0.52713   51   B   usable mapping rate illumina hiseq_era unknown poly_a nextera sc single_cell_plate smartseq   Switzerland 2021-12-01 Adult Adult Brain Nervous System
10276 10276 ERR7131132 ERX6698589 ERS8070378 ERP132560 PRJEB48218 Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E-MTAB-11083 Transcriptome Analysis To investigate the effects of rabies infection on neuronal gene expression we compared gene profiles of rabies infected and non infected GABAergic neurons in the Zebrafish olfactory bulb. ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07   Protocols: EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. F2 mCherry GFP SAMEA10418594 Friedrich Miescher Institute for Biomedical Research ENA first public:2021 12 01|ENA last update:2021 12 01|External Id:SAMEA10418594|INSDC center alias:Friedrich Miescher Institute for Biomedical Research|INSDC center name:Friedrich Miescher Institute for Biomedical Research|INSDC first public:2021 12 01T00:23:59Z|INSDC last update:2021 12 01T00:23:59Z|INSDC status:public|Submitter Id:E MTAB 11083:F2 mCherry GFP|age:9|broker name:ArrayExpress|cell type:GABAergic neuron|common name:zebrafish|developmental stage:adult|fraction:mCherry+/GFP+|genotype:Tg[gad1b:Gal4 UAS:TVA mCherry]|individual:pool 2|organism part:olfactory bulb|sample name:E MTAB 11083:F2 mCherry GFP|sex:mixed|stimulus:injected with EnvA RV GFP|strain:Ab x Tu x TL x WIK                 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E MTAB 11083:F2 mCherry GFP s F2 mCherry GFP s Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. Experimental Factor: fraction:mCherry+/GFP+ RNA-Seq TRANSCRIPTOMIC Oligo-dT SINGLE ILLUMINA Illumina HiSeq 2500   ERP132560 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07 2874F6-2_210715_D00404_0538_BCD91CANXX_CGATCAGT-CTAAGCCT_L007_R1_001.fastq.gz fastq 656911926.0 12880626.0 E MTAB 11083:2874F6 2 210715 D00404 0538 BCD91CANXX CGATCAGT CTAAGCCT L007 0:51 1:0 A:178119212;C:146730132;G:142725348;T:189293212;N:44022 51 0     178119212 146730132 142725348 189293212 44022 ERX6698589 ERS8070378 ERA6757553 Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive 1 0.68162   0.21431   0.761   0.5071   51   B   usable mapping rate illumina hiseq_era unknown poly_a nextera sc single_cell_plate smartseq   Switzerland 2021-12-01 Adult Adult Brain Nervous System
10277 10277 ERR7131129 ERX6698588 ERS8070377 ERP132560 PRJEB48218 Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E-MTAB-11083 Transcriptome Analysis To investigate the effects of rabies infection on neuronal gene expression we compared gene profiles of rabies infected and non infected GABAergic neurons in the Zebrafish olfactory bulb. ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07   Protocols: EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. F2 mCherry SAMEA10418593 Friedrich Miescher Institute for Biomedical Research ENA first public:2021 12 01|ENA last update:2021 12 01|External Id:SAMEA10418593|INSDC center alias:Friedrich Miescher Institute for Biomedical Research|INSDC center name:Friedrich Miescher Institute for Biomedical Research|INSDC first public:2021 12 01T00:23:59Z|INSDC last update:2021 12 01T00:23:59Z|INSDC status:public|Submitter Id:E MTAB 11083:F2 mCherry|age:9|broker name:ArrayExpress|cell type:GABAergic neuron|common name:zebrafish|developmental stage:adult|fraction:mCherry+/GFP |genotype:Tg[gad1b:Gal4 UAS:TVA mCherry]|individual:pool 2|organism part:olfactory bulb|sample name:E MTAB 11083:F2 mCherry|sex:mixed|stimulus:injected with EnvA RV GFP|strain:Ab x Tu x TL x WIK                 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E MTAB 11083:F2 mCherry s F2 mCherry s Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. Experimental Factor: fraction:mCherry+/GFP RNA-Seq TRANSCRIPTOMIC Oligo-dT SINGLE ILLUMINA Illumina HiSeq 2500   ERP132560 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07 2874F5-1_210715_D00404_0538_BCD91CANXX_CGATCAGT-AAGGAGTA_L006_R1_001.fastq.gz fastq 607851558.0 11918658.0 E MTAB 11083:2874F5 1 210715 D00404 0538 BCD91CANXX CGATCAGT AAGGAGTA L006 0:51 1:0 A:164814138;C:136071648;G:132945950;T:173976881;N:42941 51 0     164814138 136071648 132945950 173976881 42941 ERX6698588 ERS8070377 ERA6757553 Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive 1 0.78967   0.18905   0.73241   0.52347   51   B   usable mapping rate illumina hiseq_era unknown poly_a nextera sc single_cell_plate smartseq   Switzerland 2021-12-01 Adult Adult Brain Nervous System
10278 10278 ERR7131130 ERX6698588 ERS8070377 ERP132560 PRJEB48218 Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E-MTAB-11083 Transcriptome Analysis To investigate the effects of rabies infection on neuronal gene expression we compared gene profiles of rabies infected and non infected GABAergic neurons in the Zebrafish olfactory bulb. ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07   Protocols: EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. F2 mCherry SAMEA10418593 Friedrich Miescher Institute for Biomedical Research ENA first public:2021 12 01|ENA last update:2021 12 01|External Id:SAMEA10418593|INSDC center alias:Friedrich Miescher Institute for Biomedical Research|INSDC center name:Friedrich Miescher Institute for Biomedical Research|INSDC first public:2021 12 01T00:23:59Z|INSDC last update:2021 12 01T00:23:59Z|INSDC status:public|Submitter Id:E MTAB 11083:F2 mCherry|age:9|broker name:ArrayExpress|cell type:GABAergic neuron|common name:zebrafish|developmental stage:adult|fraction:mCherry+/GFP |genotype:Tg[gad1b:Gal4 UAS:TVA mCherry]|individual:pool 2|organism part:olfactory bulb|sample name:E MTAB 11083:F2 mCherry|sex:mixed|stimulus:injected with EnvA RV GFP|strain:Ab x Tu x TL x WIK                 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E MTAB 11083:F2 mCherry s F2 mCherry s Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. Experimental Factor: fraction:mCherry+/GFP RNA-Seq TRANSCRIPTOMIC Oligo-dT SINGLE ILLUMINA Illumina HiSeq 2500   ERP132560 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07 2874F5-2_210715_D00404_0538_BCD91CANXX_CGATCAGT-AAGGAGTA_L007_R1_001.fastq.gz fastq 610931805.0 11979055.0 E MTAB 11083:2874F5 2 210715 D00404 0538 BCD91CANXX CGATCAGT AAGGAGTA L007 0:51 1:0 A:165714775;C:136822925;G:133684294;T:174667814;N:41997 51 0     165714775 136822925 133684294 174667814 41997 ERX6698588 ERS8070377 ERA6757553 Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive 1 0.78869   0.18885   0.73156   0.51691   51   B   usable mapping rate illumina hiseq_era unknown poly_a nextera sc single_cell_plate smartseq   Switzerland 2021-12-01 Adult Adult Brain Nervous System
10279 10279 ERR7131127 ERX6698587 ERS8070376 ERP132560 PRJEB48218 Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E-MTAB-11083 Transcriptome Analysis To investigate the effects of rabies infection on neuronal gene expression we compared gene profiles of rabies infected and non infected GABAergic neurons in the Zebrafish olfactory bulb. ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07   Protocols: EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. F1 Nega SAMEA10418592 Friedrich Miescher Institute for Biomedical Research ENA first public:2021 12 01|ENA last update:2021 12 01|External Id:SAMEA10418592|INSDC center alias:Friedrich Miescher Institute for Biomedical Research|INSDC center name:Friedrich Miescher Institute for Biomedical Research|INSDC first public:2021 12 01T00:23:59Z|INSDC last update:2021 12 01T00:23:59Z|INSDC status:public|Submitter Id:E MTAB 11083:F1 Nega|age:9|broker name:ArrayExpress|cell type:GABAergic neuron|common name:zebrafish|developmental stage:adult|fraction:mCherry /GFP |genotype:Tg[gad1b:Gal4 UAS:TVA mCherry]|individual:pool 1|organism part:olfactory bulb|sample name:E MTAB 11083:F1 Nega|sex:mixed|stimulus:injected with EnvA RV GFP|strain:Ab x Tu x TL x WIK                 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E MTAB 11083:F1 Nega s F1 Nega s Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. Experimental Factor: fraction:mCherry /GFP RNA-Seq TRANSCRIPTOMIC Oligo-dT SINGLE ILLUMINA Illumina HiSeq 2500   ERP132560 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07 2874F1-1_210715_D00404_0538_BCD91CANXX_CGATCAGT-CTCTCTAT_L006_R1_001.fastq.gz fastq 619561872.0 12148272.0 E MTAB 11083:2874F1 1 210715 D00404 0538 BCD91CANXX CGATCAGT CTCTCTAT L006 0:51 1:0 A:164385545;C:141746313;G:138163219;T:175223323;N:43472 51 0     164385545 141746313 138163219 175223323 43472 ERX6698587 ERS8070376 ERA6757553 Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive 1 0.80258   0.17703   0.72614   0.53483   51   B   usable mapping rate illumina hiseq_era unknown poly_a nextera sc single_cell_plate smartseq   Switzerland 2021-12-01 Adult Adult Brain Nervous System
10280 10280 ERR7131128 ERX6698587 ERS8070376 ERP132560 PRJEB48218 Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E-MTAB-11083 Transcriptome Analysis To investigate the effects of rabies infection on neuronal gene expression we compared gene profiles of rabies infected and non infected GABAergic neurons in the Zebrafish olfactory bulb. ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07   Protocols: EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. F1 Nega SAMEA10418592 Friedrich Miescher Institute for Biomedical Research ENA first public:2021 12 01|ENA last update:2021 12 01|External Id:SAMEA10418592|INSDC center alias:Friedrich Miescher Institute for Biomedical Research|INSDC center name:Friedrich Miescher Institute for Biomedical Research|INSDC first public:2021 12 01T00:23:59Z|INSDC last update:2021 12 01T00:23:59Z|INSDC status:public|Submitter Id:E MTAB 11083:F1 Nega|age:9|broker name:ArrayExpress|cell type:GABAergic neuron|common name:zebrafish|developmental stage:adult|fraction:mCherry /GFP |genotype:Tg[gad1b:Gal4 UAS:TVA mCherry]|individual:pool 1|organism part:olfactory bulb|sample name:E MTAB 11083:F1 Nega|sex:mixed|stimulus:injected with EnvA RV GFP|strain:Ab x Tu x TL x WIK                 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E MTAB 11083:F1 Nega s F1 Nega s Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. Experimental Factor: fraction:mCherry /GFP RNA-Seq TRANSCRIPTOMIC Oligo-dT SINGLE ILLUMINA Illumina HiSeq 2500   ERP132560 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07 2874F1-2_210715_D00404_0538_BCD91CANXX_CGATCAGT-CTCTCTAT_L007_R1_001.fastq.gz fastq 621481971.0 12185921.0 E MTAB 11083:2874F1 2 210715 D00404 0538 BCD91CANXX CGATCAGT CTCTCTAT L007 0:51 1:0 A:165030774;C:142231469;G:138651078;T:175527080;N:41570 51 0     165030774 142231469 138651078 175527080 41570 ERX6698587 ERS8070376 ERA6757553 Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive 1 0.80248   0.17699   0.726   0.53711   51   B   usable mapping rate illumina hiseq_era unknown poly_a nextera sc single_cell_plate smartseq   Switzerland 2021-12-01 Adult Adult Brain Nervous System
10281 10281 ERR7131125 ERX6698586 ERS8070375 ERP132560 PRJEB48218 Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E-MTAB-11083 Transcriptome Analysis To investigate the effects of rabies infection on neuronal gene expression we compared gene profiles of rabies infected and non infected GABAergic neurons in the Zebrafish olfactory bulb. ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07   Protocols: EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. F1 mCherry GFP SAMEA10418591 Friedrich Miescher Institute for Biomedical Research ENA first public:2021 12 01|ENA last update:2021 12 01|External Id:SAMEA10418591|INSDC center alias:Friedrich Miescher Institute for Biomedical Research|INSDC center name:Friedrich Miescher Institute for Biomedical Research|INSDC first public:2021 12 01T00:23:59Z|INSDC last update:2021 12 01T00:23:59Z|INSDC status:public|Submitter Id:E MTAB 11083:F1 mCherry GFP|age:9|broker name:ArrayExpress|cell type:GABAergic neuron|common name:zebrafish|developmental stage:adult|fraction:mCherry+/GFP+|genotype:Tg[gad1b:Gal4 UAS:TVA mCherry]|individual:pool 1|organism part:olfactory bulb|sample name:E MTAB 11083:F1 mCherry GFP|sex:mixed|stimulus:injected with EnvA RV GFP|strain:Ab x Tu x TL x WIK                 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E MTAB 11083:F1 mCherry GFP s F1 mCherry GFP s Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. Experimental Factor: fraction:mCherry+/GFP+ RNA-Seq TRANSCRIPTOMIC Oligo-dT SINGLE ILLUMINA Illumina HiSeq 2500   ERP132560 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07 2874F3-1_210715_D00404_0538_BCD91CANXX_CGATCAGT-GTAAGGAG_L006_R1_001.fastq.gz fastq 651189369.0 12768419.0 E MTAB 11083:2874F3 1 210715 D00404 0538 BCD91CANXX CGATCAGT GTAAGGAG L006 0:51 1:0 A:176398415;C:145659111;G:142137610;T:186948280;N:45953 51 0     176398415 145659111 142137610 186948280 45953 ERX6698586 ERS8070375 ERA6757553 Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive 1 0.69561   0.18489   0.75345   0.52316   51   B   usable mapping rate illumina hiseq_era unknown poly_a nextera sc single_cell_plate smartseq   Switzerland 2021-12-01 Adult Adult Brain Nervous System
10282 10282 ERR7131126 ERX6698586 ERS8070375 ERP132560 PRJEB48218 Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E-MTAB-11083 Transcriptome Analysis To investigate the effects of rabies infection on neuronal gene expression we compared gene profiles of rabies infected and non infected GABAergic neurons in the Zebrafish olfactory bulb. ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07   Protocols: EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. F1 mCherry GFP SAMEA10418591 Friedrich Miescher Institute for Biomedical Research ENA first public:2021 12 01|ENA last update:2021 12 01|External Id:SAMEA10418591|INSDC center alias:Friedrich Miescher Institute for Biomedical Research|INSDC center name:Friedrich Miescher Institute for Biomedical Research|INSDC first public:2021 12 01T00:23:59Z|INSDC last update:2021 12 01T00:23:59Z|INSDC status:public|Submitter Id:E MTAB 11083:F1 mCherry GFP|age:9|broker name:ArrayExpress|cell type:GABAergic neuron|common name:zebrafish|developmental stage:adult|fraction:mCherry+/GFP+|genotype:Tg[gad1b:Gal4 UAS:TVA mCherry]|individual:pool 1|organism part:olfactory bulb|sample name:E MTAB 11083:F1 mCherry GFP|sex:mixed|stimulus:injected with EnvA RV GFP|strain:Ab x Tu x TL x WIK                 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E MTAB 11083:F1 mCherry GFP s F1 mCherry GFP s Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. Experimental Factor: fraction:mCherry+/GFP+ RNA-Seq TRANSCRIPTOMIC Oligo-dT SINGLE ILLUMINA Illumina HiSeq 2500   ERP132560 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07 2874F3-2_210715_D00404_0538_BCD91CANXX_CGATCAGT-GTAAGGAG_L007_R1_001.fastq.gz fastq 653398944.0 12811744.0 E MTAB 11083:2874F3 2 210715 D00404 0538 BCD91CANXX CGATCAGT GTAAGGAG L007 0:51 1:0 A:177139734;C:146171766;G:142707146;T:187335475;N:44823 51 0     177139734 146171766 142707146 187335475 44823 ERX6698586 ERS8070375 ERA6757553 Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive 1 0.69496   0.18414   0.75375   0.52317   51   B   usable mapping rate illumina hiseq_era unknown poly_a nextera sc single_cell_plate smartseq   Switzerland 2021-12-01 Adult Adult Brain Nervous System
10283 10283 ERR7131123 ERX6698585 ERS8070374 ERP132560 PRJEB48218 Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E-MTAB-11083 Transcriptome Analysis To investigate the effects of rabies infection on neuronal gene expression we compared gene profiles of rabies infected and non infected GABAergic neurons in the Zebrafish olfactory bulb. ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07   Protocols: EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. F1 mCherry SAMEA10418590 Friedrich Miescher Institute for Biomedical Research ENA first public:2021 12 01|ENA last update:2021 12 01|External Id:SAMEA10418590|INSDC center alias:Friedrich Miescher Institute for Biomedical Research|INSDC center name:Friedrich Miescher Institute for Biomedical Research|INSDC first public:2021 12 01T00:23:59Z|INSDC last update:2021 12 01T00:23:59Z|INSDC status:public|Submitter Id:E MTAB 11083:F1 mCherry|age:9|broker name:ArrayExpress|cell type:GABAergic neuron|common name:zebrafish|developmental stage:adult|fraction:mCherry+/GFP |genotype:Tg[gad1b:Gal4 UAS:TVA mCherry]|individual:pool 1|organism part:olfactory bulb|sample name:E MTAB 11083:F1 mCherry|sex:mixed|stimulus:injected with EnvA RV GFP|strain:Ab x Tu x TL x WIK                 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E MTAB 11083:F1 mCherry s F1 mCherry s Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. Experimental Factor: fraction:mCherry+/GFP RNA-Seq TRANSCRIPTOMIC Oligo-dT SINGLE ILLUMINA Illumina HiSeq 2500   ERP132560 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07 2874F2-1_210715_D00404_0538_BCD91CANXX_CGATCAGT-TATCCTCT_L006_R1_001.fastq.gz fastq 613574319.0 12030869.0 E MTAB 11083:2874F2 1 210715 D00404 0538 BCD91CANXX CGATCAGT TATCCTCT L006 0:51 1:0 A:164891629;C:138401759;G:135818073;T:174419828;N:43030 51 0     164891629 138401759 135818073 174419828 43030 ERX6698585 ERS8070374 ERA6757553 Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive 1 0.79499   0.21674   0.73359   0.52207   51   B   usable mapping rate illumina hiseq_era unknown poly_a nextera sc single_cell_plate smartseq   Switzerland 2021-12-01 Adult Adult Brain Nervous System
10284 10284 ERR7131124 ERX6698585 ERS8070374 ERP132560 PRJEB48218 Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E-MTAB-11083 Transcriptome Analysis To investigate the effects of rabies infection on neuronal gene expression we compared gene profiles of rabies infected and non infected GABAergic neurons in the Zebrafish olfactory bulb. ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07   Protocols: EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. F1 mCherry SAMEA10418590 Friedrich Miescher Institute for Biomedical Research ENA first public:2021 12 01|ENA last update:2021 12 01|External Id:SAMEA10418590|INSDC center alias:Friedrich Miescher Institute for Biomedical Research|INSDC center name:Friedrich Miescher Institute for Biomedical Research|INSDC first public:2021 12 01T00:23:59Z|INSDC last update:2021 12 01T00:23:59Z|INSDC status:public|Submitter Id:E MTAB 11083:F1 mCherry|age:9|broker name:ArrayExpress|cell type:GABAergic neuron|common name:zebrafish|developmental stage:adult|fraction:mCherry+/GFP |genotype:Tg[gad1b:Gal4 UAS:TVA mCherry]|individual:pool 1|organism part:olfactory bulb|sample name:E MTAB 11083:F1 mCherry|sex:mixed|stimulus:injected with EnvA RV GFP|strain:Ab x Tu x TL x WIK                 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb E MTAB 11083:F1 mCherry s F1 mCherry s Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb EnvA RV GFP was injected to olfactory bulb in Tg[gad1b:Gal4 UAS:TVA mCherry] fish. Fish were kept in the standard fish system at 36 degree for 3 4 days. postwards olfactory bulbs were extracted from 3 5 fish and the samples were pooled. post standard dissociation processes cells were sorted by their fluorescent markers using LSRII. Batch 1 pool 1 to 3 was done 7 days before batch 2 pool 4 to 8. RNA was purified using single cell RNA purification Kit Norgen cat. 51800 mRNA seq libraries were generated using the SmartSeq2 approach Picelli et al Nature protocol 2014 with the following modifications: For cDNA pre amplification up to 10ng of RNA was used as input typically 1 3ng and Reverse Transcription was performed using Superscript IV Thermo Fisher Scientific 50C for 10min 80C for 10min. Amplified cDNA 1ng were converted to indexed sequencing libraries by tagmentation using in house purified Tn5 Picelli et al Genome Research 2014 and Illumina Nextera primers. Experimental Factor: fraction:mCherry+/GFP RNA-Seq TRANSCRIPTOMIC Oligo-dT SINGLE ILLUMINA Illumina HiSeq 2500   ERP132560 Illumina HiSeq 2500 sequencing; Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb ENA FIRST PUBLIC:2022 07 07|ENA LAST UPDATE:2022 07 07 2874F2-2_210715_D00404_0538_BCD91CANXX_CGATCAGT-TATCCTCT_L007_R1_001.fastq.gz fastq 615666798.0 12071898.0 E MTAB 11083:2874F2 2 210715 D00404 0538 BCD91CANXX CGATCAGT TATCCTCT L007 0:51 1:0 A:165536502;C:138952758;G:136375193;T:174760659;N:41686 51 0     165536502 138952758 136375193 174760659 41686 ERX6698585 ERS8070374 ERA6757553 Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive Friedrich Miescher Institute for Biomedical Research|European Nucleotide Archive 1 0.7941   0.21645   0.73494   0.50761   51   B   usable mapping rate illumina hiseq_era unknown poly_a nextera sc single_cell_plate smartseq   Switzerland 2021-12-01 Adult Adult Brain Nervous System
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

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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");;