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8,293 rows where experiment.library_selection = "cDNA", experiment.library_strategy = "RNA-Seq" and tissue_curation_coarse = "Nervous System"

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technology >10

devstage_curation 9

devstage_curation_coarse 6

experiment.platform 4

tissue_curation 3

experiment.library_source 2

experiment.library_layout 2

tissue_curation_coarse 1

  • Nervous System · 8,293 ✖

experiment.library_strategy 1

  • RNA-Seq · 8,293 ✖

experiment.library_selection 1

  • cDNA · 8,293 ✖
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
44 44 DRR668250 DRX648352 DRS458865 DRP012880 PRJDB18466 Comparison of spinal cord regeneration capacity in zebrafish and medaka PRJDB18466 Other Unlike mammals zebrafish have the remarkable ability to regenerate many tissues including the spinal cord. Medaka another model fish species has a low regenerative ability in the spinal cord. Therefore comparisons with them advantageous to revealing regeneration specific mechanisms in the spinal cord. The comparison of the spinal cord regeneration abilities of zebrafish and medaka could be a promising research field to elucidate new factors that determine spinal cord regeneration ability.   pubmed:40278963 Zebrafish 2 weeks post spinal cord injury replicate 3 Zebrafish 2wpi 3 SAMD00799623   sample name:Zebrafish 2wpi 3|biological replicate:3|biomaterial provider:Center of Medical Innovation and Translational Research Osaka University|collection date:2023 04 25|dev stage:Adult|geo loc name:Japan|sex:not determined|strain:AB Zebrafish|tissue:Spinal cord                 DNBSEQ G400 paired end sequencing of SAMD00799623 DRX648352 RNA seq of spinal cord in zebrafish at 2wpi injured 3 1 Total RNA was extracted using RNeasy Micro Kit Qiagen 74104 with DNase treatment RNase Free DNase Set Qiagen 79254. Libraries were constructed from the amplified total RNA.   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED DNBSEQ DNBSEQ-G400   DRP012880 DNBSEQ G400 paired end sequencing of SAMD00799623       14782516800.0 73912584.0 DRR668250 0:100 1:100 A:4058090278;C:3335994894;G:3323563782;T:4062467903;N:2399943 100 100     4058090278 3335994894 3323563782 4062467903 2399943 DRX648352 DRS458865 DRA020617 Osaka University Osaka University                       B B biological fallback assumption bgi bgi unknown cdna_unspecified unknown bulk unknown unknown   Japan 2025-05-12 Adult Adult Spinal Cord Nervous System
45 45 DRR668249 DRX648351 DRS458864 DRP012880 PRJDB18466 Comparison of spinal cord regeneration capacity in zebrafish and medaka PRJDB18466 Other Unlike mammals zebrafish have the remarkable ability to regenerate many tissues including the spinal cord. Medaka another model fish species has a low regenerative ability in the spinal cord. Therefore comparisons with them advantageous to revealing regeneration specific mechanisms in the spinal cord. The comparison of the spinal cord regeneration abilities of zebrafish and medaka could be a promising research field to elucidate new factors that determine spinal cord regeneration ability.   pubmed:40278963 Zebrafish 2 weeks post spinal cord injury replicate 2 Zebrafish 2wpi 2 SAMD00799622   sample name:Zebrafish 2wpi 2|biological replicate:2|biomaterial provider:Center of Medical Innovation and Translational Research Osaka University|collection date:2023 04 14|dev stage:Adult|geo loc name:Japan|sex:not determined|strain:AB Zebrafish|tissue:Spinal cord                 DNBSEQ G400 paired end sequencing of SAMD00799622 DRX648351 RNA seq of spinal cord in zebrafish at 2wpi injured 2 1 Total RNA was extracted using RNeasy Micro Kit Qiagen 74104 with DNase treatment RNase Free DNase Set Qiagen 79254. Libraries were constructed from the amplified total RNA.   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED DNBSEQ DNBSEQ-G400   DRP012880 DNBSEQ G400 paired end sequencing of SAMD00799622       13687641800.0 68438209.0 DRR668249 0:100 1:100 A:3759784620;C:3087398782;G:3083881581;T:3754378915;N:2197902 100 100     3759784620 3087398782 3083881581 3754378915 2197902 DRX648351 DRS458864 DRA020617 Osaka University Osaka University                       B B biological fallback assumption bgi bgi unknown cdna_unspecified unknown bulk unknown unknown   Japan 2025-05-12 Adult Adult Spinal Cord Nervous System
46 46 DRR668248 DRX648350 DRS458863 DRP012880 PRJDB18466 Comparison of spinal cord regeneration capacity in zebrafish and medaka PRJDB18466 Other Unlike mammals zebrafish have the remarkable ability to regenerate many tissues including the spinal cord. Medaka another model fish species has a low regenerative ability in the spinal cord. Therefore comparisons with them advantageous to revealing regeneration specific mechanisms in the spinal cord. The comparison of the spinal cord regeneration abilities of zebrafish and medaka could be a promising research field to elucidate new factors that determine spinal cord regeneration ability.   pubmed:40278963 Zebrafish 2 weeks post spinal cord injury replicate 1 Zebrafish 2wpi 1 SAMD00799621   sample name:Zebrafish 2wpi 1|biological replicate:1|biomaterial provider:Center of Medical Innovation and Translational Research Osaka University|collection date:2023 04 14|dev stage:Adult|geo loc name:Japan|sex:not determined|strain:AB Zebrafish|tissue:Spinal cord                 DNBSEQ G400 paired end sequencing of SAMD00799621 DRX648350 RNA seq of spinal cord in zebrafish at 2wpi injured 1 1 Total RNA was extracted using RNeasy Micro Kit Qiagen 74104 with DNase treatment RNase Free DNase Set Qiagen 79254. Libraries were constructed from the amplified total RNA.   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED DNBSEQ DNBSEQ-G400   DRP012880 DNBSEQ G400 paired end sequencing of SAMD00799621       16376197200.0 81880986.0 DRR668248 0:100 1:100 A:4485868844;C:3700974430;G:3710833937;T:4475827800;N:2692189 100 100     4485868844 3700974430 3710833937 4475827800 2692189 DRX648350 DRS458863 DRA020617 Osaka University Osaka University                       B B biological fallback assumption bgi bgi unknown cdna_unspecified unknown bulk unknown unknown   Japan 2025-05-12 Adult Adult Spinal Cord Nervous System
47 47 DRR668247 DRX648349 DRS458862 DRP012880 PRJDB18466 Comparison of spinal cord regeneration capacity in zebrafish and medaka PRJDB18466 Other Unlike mammals zebrafish have the remarkable ability to regenerate many tissues including the spinal cord. Medaka another model fish species has a low regenerative ability in the spinal cord. Therefore comparisons with them advantageous to revealing regeneration specific mechanisms in the spinal cord. The comparison of the spinal cord regeneration abilities of zebrafish and medaka could be a promising research field to elucidate new factors that determine spinal cord regeneration ability.   pubmed:40278963 Zebrafish Intact biological replicate 3 Zebrafish Control 3 SAMD00799620   sample name:Zebrafish Control 3|biological replicate:3|biomaterial provider:Center of Medical Innovation and Translational Research Osaka University|collection date:2023 04 21|dev stage:Adult|geo loc name:Japan|sex:not determined|strain:AB Zebrafish|tissue:Spinal cord                 DNBSEQ G400 paired end sequencing of SAMD00799620 DRX648349 RNA seq of spinal cord in zebrafish at 0wpi control 3 1 Total RNA was extracted using RNeasy Micro Kit Qiagen 74104 with DNase treatment RNase Free DNase Set Qiagen 79254. Libraries were constructed from the amplified total RNA.   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED DNBSEQ DNBSEQ-G400   DRP012880 DNBSEQ G400 paired end sequencing of SAMD00799620       13377538600.0 66887693.0 DRR668247 0:100 1:100 A:3725064764;C:2973653932;G:2980883214;T:3695767890;N:2168800 100 100     3725064764 2973653932 2980883214 3695767890 2168800 DRX648349 DRS458862 DRA020617 Osaka University Osaka University                       B B biological fallback assumption bgi bgi unknown cdna_unspecified unknown bulk unknown unknown   Japan 2025-05-12 Adult Adult Spinal Cord Nervous System
48 48 DRR668246 DRX648348 DRS458861 DRP012880 PRJDB18466 Comparison of spinal cord regeneration capacity in zebrafish and medaka PRJDB18466 Other Unlike mammals zebrafish have the remarkable ability to regenerate many tissues including the spinal cord. Medaka another model fish species has a low regenerative ability in the spinal cord. Therefore comparisons with them advantageous to revealing regeneration specific mechanisms in the spinal cord. The comparison of the spinal cord regeneration abilities of zebrafish and medaka could be a promising research field to elucidate new factors that determine spinal cord regeneration ability.   pubmed:40278963 Zebrafish Intact biological replicate 2 Zebrafish Control 2 SAMD00799619   sample name:Zebrafish Control 2|biological replicate:2|biomaterial provider:Center of Medical Innovation and Translational Research Osaka University|collection date:2023 04 21|dev stage:Adult|geo loc name:Japan|sex:not determined|strain:AB Zebrafish|tissue:Spinal cord                 DNBSEQ G400 paired end sequencing of SAMD00799619 DRX648348 RNA seq of spinal cord in zebrafish at 0wpi control 2 1 Total RNA was extracted using RNeasy Micro Kit Qiagen 74104 with DNase treatment RNase Free DNase Set Qiagen 79254. Libraries were constructed from the amplified total RNA.   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED DNBSEQ DNBSEQ-G400   DRP012880 DNBSEQ G400 paired end sequencing of SAMD00799619       14971411400.0 74857057.0 DRR668246 0:100 1:100 A:4160326445;C:3329083037;G:3329123314;T:4150453700;N:2424904 100 100     4160326445 3329083037 3329123314 4150453700 2424904 DRX648348 DRS458861 DRA020617 Osaka University Osaka University                       B B biological fallback assumption bgi bgi unknown cdna_unspecified unknown bulk unknown unknown   Japan 2025-05-12 Adult Adult Spinal Cord Nervous System
49 49 DRR668245 DRX648347 DRS458860 DRP012880 PRJDB18466 Comparison of spinal cord regeneration capacity in zebrafish and medaka PRJDB18466 Other Unlike mammals zebrafish have the remarkable ability to regenerate many tissues including the spinal cord. Medaka another model fish species has a low regenerative ability in the spinal cord. Therefore comparisons with them advantageous to revealing regeneration specific mechanisms in the spinal cord. The comparison of the spinal cord regeneration abilities of zebrafish and medaka could be a promising research field to elucidate new factors that determine spinal cord regeneration ability.   pubmed:40278963 Zebrafish Intact biological replicate 1 Zebrafish Control 1 SAMD00799618   sample name:Zebrafish Control 1|biological replicate:1|biomaterial provider:Center of Medical Innovation and Translational Research Osaka University|collection date:2024 05 04|dev stage:Adult|geo loc name:Japan|sex:not determined|strain:AB Zebrafish|tissue:Spinal cord                 DNBSEQ G400 paired end sequencing of SAMD00799618 DRX648347 RNA seq of spinal cord in zebrafish at 0wpi control 1 1 Total RNA was extracted using RNeasy Micro Kit Qiagen 74104 with DNase treatment RNase Free DNase Set Qiagen 79254. Libraries were constructed from the amplified total RNA.   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED DNBSEQ DNBSEQ-G400   DRP012880 DNBSEQ G400 paired end sequencing of SAMD00799618       13912523800.0 69562619.0 DRR668245 0:100 1:100 A:3888902049;C:3079617959;G:3075111814;T:3866655202;N:2236776 100 100     3888902049 3079617959 3075111814 3866655202 2236776 DRX648347 DRS458860 DRA020617 Osaka University Osaka University                       B B biological fallback assumption bgi bgi unknown cdna_unspecified unknown bulk unknown unknown   Japan 2025-05-12 Adult Adult Spinal Cord Nervous System
131 131 DRR189373 DRX179838 DRS200446 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.       Dissociated cells from telencephalon of wild type adult zebrafish 3 SAMD00182216   sample name:Cell Tel 3|genotype:wild type|tissue:brain                 Illumina HiSeq 2500 paired end sequencing of SAMD00182216 DRX179838 Cell Tel 3 1 The cDNA was amplified using SMARTer v4. Sequence libraries were produced from cDNA using Nextera XT DNA library kit Illumina.   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500 <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>200</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><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>101</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR> DRP003977 Illumina HiSeq 2500 paired end sequencing of SAMD00182216       4142772200.0 20713861.0 DRR189373 0:100 1:100 A:1185533233;C:877739936;G:877025820;T:1202041821;N:431390 100 100     1185533233 877739936 877025820 1202041821 431390 DRX179838 DRS200446 DRA008855 NIG|National Institute of Genetics (Japan) National Institute of Genetics (Japan) 2 0.9018 0.90073 0.24953 0.25062 0.67884 0.67957 0.49957 0.5402 100 100 B B biological fallback assumption illumina hiseq_era full_length cdna_unspecified nextera bulk unknown unknown   Japan 2021-08-08 Adult Adult Brain Nervous System
132 132 DRR189372 DRX179837 DRS200445 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.       Dissociated cells from telencephalon of wild type adult zebrafish 2 SAMD00182215   sample name:Cell Tel 2|genotype:wild type|tissue:brain                 Illumina HiSeq 2500 paired end sequencing of SAMD00182215 DRX179837 Cell Tel 2 1 The cDNA was amplified using SMARTer v4. Sequence libraries were produced from cDNA using Nextera XT DNA library kit Illumina.   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500 <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>200</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><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>101</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR> DRP003977 Illumina HiSeq 2500 paired end sequencing of SAMD00182215       5233184600.0 26165923.0 DRR189372 0:100 1:100 A:1522745973;C:1082449570;G:1076728796;T:1550682585;N:577676 100 100     1522745973 1082449570 1076728796 1550682585 577676 DRX179837 DRS200445 DRA008855 NIG|National Institute of Genetics (Japan) National Institute of Genetics (Japan) 2 0.89481 0.89419 0.27137 0.27018 0.67639 0.67671 0.54949 0.55323 100 100 B B biological fallback assumption illumina hiseq_era full_length cdna_unspecified nextera bulk unknown unknown   Japan 2021-08-08 Adult Adult Brain Nervous System
133 133 DRR189371 DRX179836 DRS200444 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.       Dissociated cells from telencephalon of wild type adult zebrafish 1 SAMD00182214   sample name:Cell Tel 1|genotype:wild type|tissue:brain                 Illumina HiSeq 2500 paired end sequencing of SAMD00182214 DRX179836 Cell Tel 1 1 The cDNA was amplified using SMARTer v4. Sequence libraries were produced from cDNA using Nextera XT DNA library kit Illumina.   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500 <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>200</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><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>101</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR> DRP003977 Illumina HiSeq 2500 paired end sequencing of SAMD00182214       4407578800.0 22037894.0 DRR189371 0:100 1:100 A:1270948410;C:923917605;G:922122984;T:1290126238;N:463563 100 100     1270948410 923917605 922122984 1290126238 463563 DRX179836 DRS200444 DRA008855 NIG|National Institute of Genetics (Japan) National Institute of Genetics (Japan) 2 0.90057 0.90117 0.24092 0.24074 0.67598 0.67775 0.53184 0.53433 100 100 B B biological fallback assumption illumina hiseq_era full_length cdna_unspecified nextera bulk unknown unknown   Japan 2021-08-08 Adult Adult Brain Nervous System
134 134 DRR189370 DRX179835 DRS200415 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.       GFP cells form telencephalon of h62A;UAS:GFP adult zebrafish 5 SAMD00182213   sample name:h62A GFP Tel 5|genotype:hspGFF62A;UAS:GFP|tissue:brain                 Illumina HiSeq 2500 paired end sequencing of SAMD00182213 DRX179835 h62A GFP Tel 5 1 The cDNA was amplified using SMARTer v4. Sequence libraries were produced from cDNA using Nextera XT DNA library kit Illumina.   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500 <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>200</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><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>101</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR> DRP003977 Illumina HiSeq 2500 paired end sequencing of SAMD00182213       2904332400.0 14521662.0 DRR189370 0:100 1:100 A:821602205;C:620206517;G:623738781;T:838474359;N:310538 100 100     821602205 620206517 623738781 838474359 310538 DRX179835 DRS200415 DRA008854 NIG|National Institute of Genetics (Japan) National Institute of Genetics (Japan) 2 0.91925 0.91942 0.14636 0.14584 0.71127 0.71429 0.62818 0.40804 100 100 B B biological fallback assumption illumina hiseq_era full_length cdna_unspecified nextera bulk unknown unknown   Japan 2021-08-08 Adult Adult Brain Nervous System
135 135 DRR189369 DRX179834 DRS200414 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.       GFP cells form telencephalon of h62A;UAS:GFP adult zebrafish 4 SAMD00182212   sample name:h62A GFP Tel 4|genotype:hspGFF62A;UAS:GFP|tissue:brain                 Illumina HiSeq 2500 paired end sequencing of SAMD00182212 DRX179834 h62A GFP Tel 4 1 The cDNA was amplified using SMARTer v4. Sequence libraries were produced from cDNA using Nextera XT DNA library kit Illumina.   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500 <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>200</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><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>101</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR> DRP003977 Illumina HiSeq 2500 paired end sequencing of SAMD00182212       4670374000.0 23351870.0 DRR189369 0:100 1:100 A:1294304230;C:1030286884;G:1032728119;T:1312561064;N:493703 100 100     1294304230 1030286884 1032728119 1312561064 493703 DRX179834 DRS200414 DRA008854 NIG|National Institute of Genetics (Japan) National Institute of Genetics (Japan) 2 0.92587 0.92725 0.12279 0.12312 0.71056 0.71293 0.57854 0.57882 100 100 B B biological fallback assumption illumina hiseq_era full_length cdna_unspecified nextera bulk unknown unknown   Japan 2021-08-08 Adult Adult Brain Nervous System
136 136 DRR189368 DRX179833 DRS200413 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.       GFP cells form telencephalon of h62A;UAS:GFP adult zebrafish 3 SAMD00182211   sample name:h62A GFP Tel 3|genotype:hspGFF62A;UAS:GFP|tissue:brain                 Illumina HiSeq 2500 paired end sequencing of SAMD00182211 DRX179833 h62A GFP Tel 3 1 The cDNA was amplified using SMARTer v4. Sequence libraries were produced from cDNA using Nextera XT DNA library kit Illumina.   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500 <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>200</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><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>101</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR> DRP003977 Illumina HiSeq 2500 paired end sequencing of SAMD00182211       11487645000.0 57438225.0 DRR189368 0:100 1:100 A:3127119396;C:2611288030;G:2547219656;T:3194997425;N:7020493 100 100     3127119396 2611288030 2547219656 3194997425 7020493 DRX179833 DRS200413 DRA008854 NIG|National Institute of Genetics (Japan) National Institute of Genetics (Japan) 2 0.91389 0.91371 0.11188 0.11336 0.74576 0.74639 0.56209 0.56027 100 100 B B biological fallback assumption illumina hiseq_era full_length cdna_unspecified nextera bulk unknown unknown   Japan 2021-08-08 Adult Adult Brain Nervous System
137 137 DRR189367 DRX179832 DRS200412 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.       GFP cells form telencephalon of h62A;UAS:GFP adult zebrafish 2 SAMD00182210   sample name:h62A GFP Tel 2|genotype:hspGFF62A;UAS:GFP|tissue:brain                 Illumina HiSeq 2500 paired end sequencing of SAMD00182210 DRX179832 h62A GFP Tel 2 1 The cDNA was amplified using SMARTer v4. Sequence libraries were produced from cDNA using Nextera XT DNA library kit Illumina.   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500 <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>200</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><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>101</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR> DRP003977 Illumina HiSeq 2500 paired end sequencing of SAMD00182210       13536257200.0 67681286.0 DRR189367 0:100 1:100 A:3723068804;C:3049411151;G:2951685691;T:3803778575;N:8312979 100 100     3723068804 3049411151 2951685691 3803778575 8312979 DRX179832 DRS200412 DRA008854 NIG|National Institute of Genetics (Japan) National Institute of Genetics (Japan) 2 0.9136 0.91493 0.14102 0.14249 0.70534 0.70569 0.58385 0.58171 100 100 B B biological fallback assumption illumina hiseq_era full_length cdna_unspecified nextera bulk unknown unknown   Japan 2021-08-08 Adult Adult Brain Nervous System
138 138 DRR189366 DRX179831 DRS200411 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.       GFP cells form telencephalon of h62A;UAS:GFP adult zebrafish 1 SAMD00182209   sample name:h62A GFP Tel 1|genotype:hspGFF62A;UAS:GFP|tissue:brain                 Illumina HiSeq 2500 paired end sequencing of SAMD00182209 DRX179831 h62A GFP Tel 1 1 The cDNA was amplified using SMARTer v4. Sequence libraries were produced from cDNA using Nextera XT DNA library kit Illumina.   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500 <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>200</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><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>101</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR> DRP003977 Illumina HiSeq 2500 paired end sequencing of SAMD00182209       13057029600.0 65285148.0 DRR189366 0:100 1:100 A:3609997372;C:2912841795;G:2821782510;T:3704302917;N:8105006 100 100     3609997372 2912841795 2821782510 3704302917 8105006 DRX179831 DRS200411 DRA008854 NIG|National Institute of Genetics (Japan) National Institute of Genetics (Japan) 2 0.90766 0.90786 0.13813 0.14007 0.73677 0.73777 0.55675 0.55743 100 100 B B biological fallback assumption illumina hiseq_era full_length cdna_unspecified nextera bulk unknown unknown   Japan 2021-08-08 Adult Adult Brain Nervous System
139 139 DRR189365 DRX179830 DRS200432 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.       GFP cells form telencephalon of SAGFF120A;UAS:GFP adult zebrafish 4 SAMD00182208   sample name:120A GFP Tel 4|genotype:SAGFF120A;UAS:GFP|tissue:brain                 Illumina HiSeq 2000 paired end sequencing of SAMD00182208 DRX179830 120A GFP Tel 4 1 The cDNA was amplified using SMARTer v4. Sequence libraries were produced from cDNA using Nextera XT DNA library kit Illumina.   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000 <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>200</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><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>101</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR> DRP003977 Illumina HiSeq 2000 paired end sequencing of SAMD00182208       4105132200.0 20525661.0 DRR189365 0:100 1:100 A:1171500567;C:874901685;G:872257219;T:1186025546;N:447183 100 100     1171500567 874901685 872257219 1186025546 447183 DRX179830 DRS200432 DRA008853 NIG|National Institute of Genetics (Japan) National Institute of Genetics (Japan) 2 0.91106 0.90924 0.18729 0.18688 0.69406 0.69589 0.51697 0.51253 100 100 B B biological fallback assumption illumina hiseq_era full_length cdna_unspecified nextera bulk unknown unknown   Japan 2021-08-08 Adult Adult Brain Nervous System
140 140 DRR189364 DRX179829 DRS200431 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.       GFP cells form telencephalon of SAGFF120A;UAS:GFP adult zebrafish 3 SAMD00182207   sample name:120A GFP Tel 3|genotype:SAGFF120A;UAS:GFP|tissue:brain                 Illumina HiSeq 2500 paired end sequencing of SAMD00182207 DRX179829 120A GFP Tel 3 1 The cDNA was amplified using SMARTer v4. Sequence libraries were produced from cDNA using Nextera XT DNA library kit Illumina.   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500 <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>200</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><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>101</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR> DRP003977 Illumina HiSeq 2500 paired end sequencing of SAMD00182207       5062007400.0 25310037.0 DRR189364 0:100 1:100 A:1425414609;C:1105334563;G:1072448536;T:1458726402;N:83290 100 100     1425414609 1105334563 1072448536 1458726402 83290 DRX179829 DRS200431 DRA008853 NIG|National Institute of Genetics (Japan) National Institute of Genetics (Japan) 2 0.89598 0.89539 0.2645 0.2668 0.69591 0.6971 0.49901 0.49932 100 100 B B biological fallback assumption illumina hiseq_era full_length cdna_unspecified nextera bulk unknown unknown   Japan 2021-08-08 Adult Adult Brain Nervous System
141 141 DRR189363 DRX179828 DRS200430 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.       GFP cells form telencephalon of SAGFF120A;UAS:GFP adult zebrafish 2 SAMD00182206   sample name:120A GFP Tel 2|genotype:SAGFF120A;UAS:GFP|tissue:brain                 Illumina HiSeq 2500 paired end sequencing of SAMD00182206 DRX179828 120A GFP Tel 2 1 The cDNA was amplified using SMARTer v4. Sequence libraries were produced from cDNA using Nextera XT DNA library kit Illumina.   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500 <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>200</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><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>101</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR> DRP003977 Illumina HiSeq 2500 paired end sequencing of SAMD00182206       4148886200.0 20744431.0 DRR189363 0:100 1:100 A:1121946535;C:959659540;G:901840216;T:1165367793;N:72116 100 100     1121946535 959659540 901840216 1165367793 72116 DRX179828 DRS200430 DRA008853 NIG|National Institute of Genetics (Japan) National Institute of Genetics (Japan) 2 0.89808 0.89803 0.14106 0.14229 0.74057 0.74073 0.58127 0.58258 100 100 B B biological fallback assumption illumina hiseq_era full_length cdna_unspecified nextera bulk unknown unknown   Japan 2021-08-08 Adult Adult Brain Nervous System
142 142 DRR189362 DRX179827 DRS200429 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.       GFP cells form telencephalon of SAGFF120A;UAS:GFP adult zebrafish 1 SAMD00182205   sample name:120A GFP Tel 1|genotype:SAGFF120A;UAS:GFP|tissue:brain                 Illumina HiSeq 2500 paired end sequencing of SAMD00182205 DRX179827 120A GFP Tel 1 1 The cDNA was amplified using SMARTer v4. Sequence libraries were produced from cDNA using Nextera XT DNA library kit Illumina.   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500 <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>200</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><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>101</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR> DRP003977 Illumina HiSeq 2500 paired end sequencing of SAMD00182205       5621230800.0 28106154.0 DRR189362 0:100 1:100 A:1511319423;C:1299516107;G:1236814355;T:1573482053;N:98862 100 100     1511319423 1299516107 1236814355 1573482053 98862 DRX179827 DRS200429 DRA008853 NIG|National Institute of Genetics (Japan) National Institute of Genetics (Japan) 2 0.90171 0.90205 0.11967 0.12059 0.74083 0.74113 0.61779 0.61682 100 100 B B biological fallback assumption illumina hiseq_era full_length cdna_unspecified nextera bulk unknown unknown   Japan 2021-08-08 Adult Adult Brain Nervous System
143 143 DRR189361 DRX179826 DRS200425 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.       GFP cells form whole brain of HuC:GFP adult zebrafish 4 SAMD00182204   sample name:HuC GFP WB 4|genotype:HuC:GFP|tissue:brain                 Illumina HiSeq 2500 paired end sequencing of SAMD00182204 DRX179826 HuC GFP WB 4 1 The cDNA was amplified using SMARTer v4. Sequence libraries were produced from cDNA using Nextera XT DNA library kit Illumina.   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500 <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>200</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><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>101</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR> DRP003977 Illumina HiSeq 2500 paired end sequencing of SAMD00182204       3641515200.0 18207576.0 DRR189361 0:100 1:100 A:1038686472;C:777269450;G:777179582;T:1047994354;N:385342 100 100     1038686472 777269450 777179582 1047994354 385342 DRX179826 DRS200425 DRA008852 NIG|National Institute of Genetics (Japan) National Institute of Genetics (Japan) 2 0.91246 0.9127 0.18566 0.18547 0.70201 0.7024 0.47049 0.47102 100 100 B B biological fallback assumption illumina hiseq_era full_length cdna_unspecified nextera bulk unknown unknown   Japan 2021-08-08 Adult Adult Brain Nervous System
144 144 DRR189360 DRX179825 DRS200424 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.       GFP cells form whole brain of HuC:GFP adult zebrafish 3 SAMD00182203   sample name:HuC GFP WB 3|genotype:HuC:GFP|tissue:brain                 Illumina HiSeq 2500 paired end sequencing of SAMD00182203 DRX179825 HuC GFP WB 3 1 The cDNA was amplified using SMARTer v4. Sequence libraries were produced from cDNA using Nextera XT DNA library kit Illumina.   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500 <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>200</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><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>101</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR> DRP003977 Illumina HiSeq 2500 paired end sequencing of SAMD00182203       4692211000.0 23461055.0 DRR189360 0:100 1:100 A:1310884816;C:1036187295;G:997846600;T:1347212024;N:80265 100 100     1310884816 1036187295 997846600 1347212024 80265 DRX179825 DRS200424 DRA008852 NIG|National Institute of Genetics (Japan) National Institute of Genetics (Japan) 2 0.89626 0.89739 0.18174 0.18338 0.72443 0.72588 0.4577 0.46684 100 100 B B biological fallback assumption illumina hiseq_era full_length cdna_unspecified nextera bulk unknown unknown   Japan 2021-08-08 Adult Adult Brain Nervous System
145 145 DRR189359 DRX179824 DRS200423 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.       GFP cells form whole brain of HuC:GFP adult zebrafish 2 SAMD00182202   sample name:HuC GFP WB 2|genotype:HuC:GFP|tissue:brain                 Illumina HiSeq 2500 paired end sequencing of SAMD00182202 DRX179824 HuC GFP WB 2 1 The cDNA was amplified using SMARTer v4. Sequence libraries were produced from cDNA using Nextera XT DNA library kit Illumina.   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500 <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>200</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><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>101</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR> DRP003977 Illumina HiSeq 2500 paired end sequencing of SAMD00182202       7514071000.0 37570355.0 DRR189359 0:100 1:100 A:2098251885;C:1661407212;G:1597423444;T:2156861774;N:126685 100 100     2098251885 1661407212 1597423444 2156861774 126685 DRX179824 DRS200423 DRA008852 NIG|National Institute of Genetics (Japan) National Institute of Genetics (Japan) 2 0.89548 0.89691 0.26231 0.26473 0.70358 0.70471 0.4732 0.4753 100 100 B B biological fallback assumption illumina hiseq_era full_length cdna_unspecified nextera bulk unknown unknown   Japan 2021-08-08 Adult Adult Brain Nervous System
146 146 DRR189358 DRX179823 DRS200422 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.       GFP cells form whole brain of HuC:GFP adult zebrafish 1 SAMD00182201   sample name:HuC GFP WB 1|genotype:HuC:GFP|tissue:brain                 Illumina HiSeq 2500 paired end sequencing of SAMD00182201 DRX179823 HuC GFP WB 1 1 The cDNA was amplified using SMARTer v4. Sequence libraries were produced from cDNA using Nextera XT DNA library kit Illumina.   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500 <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>200</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><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>101</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR> DRP003977 Illumina HiSeq 2500 paired end sequencing of SAMD00182201       5175824800.0 25879124.0 DRR189358 0:100 1:100 A:1424688686;C:1174545239;G:1128653980;T:1447848363;N:88532 100 100     1424688686 1174545239 1128653980 1447848363 88532 DRX179823 DRS200422 DRA008852 NIG|National Institute of Genetics (Japan) National Institute of Genetics (Japan) 2 0.91906 0.91958 0.20879 0.21088 0.74787 0.74876 0.45243 0.45221 100 100 B B biological fallback assumption illumina hiseq_era full_length cdna_unspecified nextera bulk unknown unknown   Japan 2021-08-08 Adult Adult Brain Nervous System
147 147 DRR051067 DRX045959 DRS057267 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.     These cells are from the same fish as h62A GFP plus Tel GFP cells from telencephalon of hspGFF62A;UAS:GFP transgenic zebrafish SAMD00044994   sample name:h62A GFP minus Tel|tissue type:brain|genotype:hspGFF62A;UAS:GFP                 Illumina HiSeq 2500 paired end sequencing of SAMD00044994 DRX045959 h62A GFP minus Tel 1 cDNA synthesis : clontech SMARTer v3 > Library prep : Illumina Nextera XT DNA Library Preparation Kits   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500 <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>200</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><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>101</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR> DRP003977 Illumina HiSeq 2500 paired end sequencing of SAMD00044994       17913873600.0 89569368.0 DRR051067 0:100 1:100 A:5009629866;C:3957379257;G:3797879751;T:5144366288;N:4618438 100 100     5009629866 3957379257 3797879751 5144366288 4618438 DRX045959 DRS057267 DRA004277 NIG|National Institute of Genetics (Japan) National Institute of Genetics (Japan) 2 0.89075 0.89087 0.23044 0.23295 0.69493 0.69769 0.5366 0.54852 100 100 B B biological fallback assumption illumina hiseq_era full_length cdna_unspecified nextera bulk unknown unknown   Japan 2018-01-06 Undetermined Undetermined Brain Nervous System
148 148 DRR051066 DRX045958 DRS057275 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.     Collected from 40 adult fish by using FACS GFP+ cells from telencephalon of hspGFF62A;UAS:GFP transgenic zebrafish SAMD00044995   sample name:h62A GFP plus Tel|tissue type:brain|genotype:hspGFF62A;UAS:GFP                 Illumina HiSeq 2500 paired end sequencing of SAMD00044995 DRX045958 h62A GFP plus Tel 1 cDNA synthesis : clontech SMARTer v3 > Library prep : Illumina Nextera XT DNA Library Preparation Kits   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500 <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>200</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><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>101</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR> DRP003977 Illumina HiSeq 2500 paired end sequencing of SAMD00044995       17421256000.0 87106280.0 DRR051066 0:100 1:100 A:4859368314;C:3846634012;G:3717526030;T:4993260256;N:4467388 100 100     4859368314 3846634012 3717526030 4993260256 4467388 DRX045958 DRS057275 DRA004276 NIG|National Institute of Genetics (Japan) National Institute of Genetics (Japan) 2 0.88127 0.88114 0.22941 0.23155 0.72161 0.72437 0.49284 0.49449 100 100 B B biological fallback assumption illumina hiseq_era full_length cdna_unspecified nextera bulk unknown unknown   Japan 2018-01-06 Adult Adult Brain Nervous System
149 149 DRR051065 DRX045957 DRS057272 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 from adult zebrafrish 30 min post light and electrical shock association in non trace Two Way Active Avoidance conditioning CS+US telencephalon 30 min post TWAA SAMD00044990   sample name:CS+US Tel 30|tissue type:brain|genotype:WT                 Illumina HiSeq 2500 paired end sequencing of SAMD00044990 DRX045957 CS+US Tel 30 1 Illumina Truseq RNA Library Prep Kit v2   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500 <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>200</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><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>101</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR> DRP003977 Illumina HiSeq 2500 paired end sequencing of SAMD00044990       20239329200.0 101196646.0 DRR051065 0:100 1:100 A:5347169722;C:4777492672;G:4750401220;T:5361888239;N:2377347 100 100     5347169722 4777492672 4750401220 5361888239 2377347 DRX045957 DRS057272 DRA004275 NIG|National Institute of Genetics (Japan) National Institute of Genetics (Japan) 2 0.93576 0.93353 0.13979 0.14019 0.70043 0.70203 0.48989 0.49214 100 100 B B biological fallback assumption illumina hiseq_era unknown cdna_unspecified trueseq bulk unknown unknown   Japan 2018-01-06 Adult Adult Brain Nervous System
150 150 DRR051064 DRX045956 DRS057265 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 from adult zebrafrish 30 min post light stimulation in Two Way Active Avoidance coditioning CS telencephalon 30 min post TWAA SAMD00044991   sample name:CS Tel 30|tissue type:brain|genotype:WT                 Illumina HiSeq 2500 paired end sequencing of SAMD00044991 DRX045956 CS Tel 30 1 Illumina Truseq RNA Library Prep Kit v2   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500 <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>200</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><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>101</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR> DRP003977 Illumina HiSeq 2500 paired end sequencing of SAMD00044991       29268319600.0 146341598.0 DRR051064 0:100 1:100 A:7777792429;C:6878969107;G:6819275179;T:7788795270;N:3487615 100 100     7777792429 6878969107 6819275179 7788795270 3487615 DRX045956 DRS057265 DRA004274 NIG|National Institute of Genetics (Japan) National Institute of Genetics (Japan) 2 0.93646 0.93664 0.14051 0.14191 0.70199 0.70374 0.49256 0.49684 100 100 B B biological fallback assumption illumina hiseq_era unknown cdna_unspecified trueseq bulk unknown unknown   Japan 2018-01-06 Adult Adult Brain Nervous System
151 151 DRR051063 DRX045955 DRS057266 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.     These cells are from the same fish as 120A GFP plus Tel GFP cells from telencephalon of SAGFFLF120A;UAS:GFP transgenic zebrafish SAMD00044987   sample name:120A GFP minus Tel|tissue type:brain|genotype:SAGFFLF120A;UAS:GFP                 Illumina HiSeq 2500 paired end sequencing of SAMD00044987 DRX045955 120A GFP minus Tel 1 cDNA synthesis : clontech SMARTer v2 > Library prep : Illumina TrunSeq DNA Sample Preparation Kits   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500 <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>202</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><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>102</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR> DRP003977 Illumina HiSeq 2500 paired end sequencing of SAMD00044987       15411400120.0 76294060.0 DRR051063 0:101 1:101 A:4583085286;C:3082552426;G:3134669086;T:4606055524;N:5037798 101 101     4583085286 3082552426 3134669086 4606055524 5037798 DRX045955 DRS057266 DRA004273 NIG|National Institute of Genetics (Japan) National Institute of Genetics (Japan) 2 0.89184 0.8842 0.30246 0.30334 0.69232 0.705 0.52824 0.51492 101 101 B B biological fallback assumption illumina hiseq_era full_length cdna_unspecified smarter bulk unknown unknown   Japan 2018-01-06 Undetermined Undetermined Brain Nervous System
152 152 DRR051062 DRX045954 DRS057271 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.     Collected from 40 adult fish by using FACS GFP+ cells from telencephalon of SAGFFLF120A;UAS:GFP transgenic zebrafish SAMD00044988   sample name:120A GFP plus Tel|tissue type:brain|genotype:SAGFFLF120A;UAS:GFP                 Illumina HiSeq 2500 paired end sequencing of SAMD00044988 DRX045954 120A GFP plus Tel 1 cDNA synthesis : clontech SMARTer v2 > Library prep : Illumina TrunSeq DNA Sample Preparation Kits   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500 <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>202</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><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>102</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR> DRP003977 Illumina HiSeq 2500 paired end sequencing of SAMD00044988       9916242014.0 49090307.0 DRR051062 0:101 1:101 A:2991626000;C:1935418605;G:1974202781;T:3011783158;N:3211470 101 101     2991626000 1935418605 1974202781 3011783158 3211470 DRX045954 DRS057271 DRA004272 NIG|National Institute of Genetics (Japan) National Institute of Genetics (Japan) 2 0.87779 0.86382 0.2948 0.28993 0.72809 0.74075 0.50317 0.49169 101 101 B B biological fallback assumption illumina hiseq_era full_length cdna_unspecified smarter bulk unknown unknown   Japan 2018-01-06 Adult Adult Brain Nervous System
153 153 DRR051061 DRX045953 DRS057274 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.     Collected from 10 adult fish by using FACS GFP+ cells from whole brain of SAGFFLF231A;UAS:GFP transgenic zebrafish SAMD00044989   sample name:231A GFP plus WB|tissue type:brain|genotype:SAGFFLF231A;UAS:GFP                 Illumina HiSeq 2500 paired end sequencing of SAMD00044989 DRX045953 231A GFP plus WB 1 cDNA synthesis : clontech SMARTer v2 > Library prep : Illumina TrunSeq DNA Sample Preparation Kits   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500 <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>202</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><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>102</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR> DRP003977 Illumina HiSeq 2500 paired end sequencing of SAMD00044989       27230654000.0 136153270.0 DRR051061 0:101 1:99 A:7929214734;C:5506861409;G:5563593280;T:8059057191;N:171927386 101 99     7929214734 5506861409 5563593280 8059057191 171927386 DRX045953 DRS057274 DRA004271 NIG|National Institute of Genetics (Japan) National Institute of Genetics (Japan) 2 0.88462 0.88282 0.26215 0.26067 0.72468 0.73555 0.48369 0.48285 101 99 B B biological fallback assumption illumina hiseq_era full_length cdna_unspecified smarter bulk unknown unknown   Japan 2018-01-06 Adult Adult Brain Nervous System
154 154 DRR051060 DRX045952 DRS057269 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 barin zebrafihsh telencephalon SAMD00044992   sample name:Tel|tissue type:brain|genotype:WT                 Illumina HiSeq 2500 paired end sequencing of SAMD00044992 DRX045952 Tel 1 Illumina Truseq RNA Library Prep Kit v2   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500 <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>202</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><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>102</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR> DRP003977 Illumina HiSeq 2500 paired end sequencing of SAMD00044992       20006128076.0 99040238.0 DRR051060 0:101 1:101 A:5393556813;C:4623783008;G:4592812230;T:5384415659;N:11560366 101 101     5393556813 4623783008 4592812230 5384415659 11560366 DRX045952 DRS057269 DRA004270 NIG|National Institute of Genetics (Japan) National Institute of Genetics (Japan) 2 0.94215 0.94001 0.16398 0.16585 0.69331 0.69479 0.4872 0.48516 101 101 B B biological fallback assumption illumina hiseq_era unknown cdna_unspecified trueseq bulk unknown unknown   Japan 2018-01-06 Adult Adult Brain Nervous System
155 155 DRR051059 DRX045951 DRS057270 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.     Whole brain of adult zebrafish zebrafish whole brain SAMD00044993   sample name:WB|tissue type:brain|genotype:WT                 Illumina HiSeq 2500 paired end sequencing of SAMD00044993 DRX045951 WB 1 Illumina Truseq RNA Library Prep Kit v2   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2500 <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>202</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><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>102</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR> DRP003977 Illumina HiSeq 2500 paired end sequencing of SAMD00044993       25283347776.0 125165088.0 DRR051059 0:101 1:101 A:6845696813;C:5810492697;G:5775241119;T:6837142940;N:14774207 101 101     6845696813 5810492697 5775241119 6837142940 14774207 DRX045951 DRS057270 DRA004269 NIG|National Institute of Genetics (Japan) National Institute of Genetics (Japan) 2 0.94203 0.94067 0.15107 0.15158 0.68651 0.6882 0.49596 0.49589 101 101 B B biological fallback assumption illumina hiseq_era unknown cdna_unspecified trueseq bulk unknown unknown   Japan 2018-01-06 Adult Adult Brain Nervous System
156 156 DRR067143 DRX061087 DRS034141 DRP003275 PRJDB4941 Gene expression profiling of granule cells and Purkinje cells in zebrafish cerebellum DRP003275 Other An RNA seq analysis was performed using zebrafish granule cells Purkinje cells IO neurons and glial cells. The transcriptomes were sequenced using Illumina HiSeq with paired end libraries employing the Quartz seq method for low amount total RNA.       Zebrafish RNA seq for Bergmann glial cells using Tg line SAGFFLF251A sample 2 SAMD00057666   sample name:Zebrafish 251A 02|strain:Tg|biomaterial provider:Bioscience and Biotechnology Center Nagoya University|tissue type:cerebellum|cell type:bergmann glial cells|dev stage:14 dpf|replicate:biological replicate 2                 Illumina HiSeq 1500 paired end sequencing of SAMD00057666 DRX061087 1 1 Quartz seq for low amount total RNA   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 1500 <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>202</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><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>102</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR> DRP003275 Illumina HiSeq 1500 paired end sequencing of SAMD00057666       2040373922.0 10100861.0 DRR067143 0:101 1:101 A:577691972;C:445051245;G:472607289;T:544962357;N:61059 101 101     577691972 445051245 472607289 544962357 61059 DRX061087 DRS034141 DRA004955 RIKEN_CLST_DBFDI|Phyloinformatics Unit RIKEN CLST 2 0.83407 0.83802 0.12612 0.12666 0.73675 0.74079 0.4948 0.49282 101 101 B B biological fallback assumption illumina hiseq_era unknown cdna_unspecified unknown sc single_cell_plate quartzseq   Japan 2016-09-19 Larval Larval Brain Nervous System
157 157 DRR067142 DRX061086 DRS034140 DRP003275 PRJDB4941 Gene expression profiling of granule cells and Purkinje cells in zebrafish cerebellum DRP003275 Other An RNA seq analysis was performed using zebrafish granule cells Purkinje cells IO neurons and glial cells. The transcriptomes were sequenced using Illumina HiSeq with paired end libraries employing the Quartz seq method for low amount total RNA.       Zebrafish RNA seq for Bergmann glial cells using Tg line SAGFFLF251A sample 1 SAMD00057665   sample name:Zebrafish 251A 01|strain:Tg|biomaterial provider:Bioscience and Biotechnology Center Nagoya University|tissue type:cerebellum|cell type:bergmann glial cells|dev stage:14 dpf|replicate:biological replicate 1                 Illumina HiSeq 1500 paired end sequencing of SAMD00057665 DRX061086 1 1 Quartz seq for low amount total RNA   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 1500 <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>202</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><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>102</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR> DRP003275 Illumina HiSeq 1500 paired end sequencing of SAMD00057665       2033951534.0 10069067.0 DRR067142 0:101 1:101 A:589558269;C:431084184;G:460501802;T:552746498;N:60781 101 101     589558269 431084184 460501802 552746498 60781 DRX061086 DRS034140 DRA004955 RIKEN_CLST_DBFDI|Phyloinformatics Unit RIKEN CLST 2 0.8958 0.90339 0.13764 0.1385 0.72563 0.72865 0.49373 0.49916 101 101 B B biological fallback assumption illumina hiseq_era unknown cdna_unspecified unknown sc single_cell_plate quartzseq   Japan 2016-09-19 Larval Larval Brain Nervous System
158 158 DRR067141 DRX061085 DRS034139 DRP003275 PRJDB4941 Gene expression profiling of granule cells and Purkinje cells in zebrafish cerebellum DRP003275 Other An RNA seq analysis was performed using zebrafish granule cells Purkinje cells IO neurons and glial cells. The transcriptomes were sequenced using Illumina HiSeq with paired end libraries employing the Quartz seq method for low amount total RNA.       Zebrafish RNA seq for Purkinje cells using Tg line aldoca:GAP Venus sample 3 SAMD00057664   sample name:Zebrafish aldoca 03|strain:Tg|biomaterial provider:Bioscience and Biotechnology Center Nagoya University|tissue type:cerebellum|cell type:purkinje cells|dev stage:14 dpf|replicate:biological replicate 3                 Illumina HiSeq 1500 paired end sequencing of SAMD00057664 DRX061085 1 1 Quartz seq for low amount total RNA   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 1500 <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>202</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><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>102</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR> DRP003275 Illumina HiSeq 1500 paired end sequencing of SAMD00057664       1931908608.0 9563904.0 DRR067141 0:101 1:101 A:558444394;C:409856521;G:429168864;T:534380258;N:58571 101 101     558444394 409856521 429168864 534380258 58571 DRX061085 DRS034139 DRA004955 RIKEN_CLST_DBFDI|Phyloinformatics Unit RIKEN CLST 2 0.88632 0.89109 0.15695 0.15773 0.75694 0.7599 0.46875 0.49236 101 101 B B biological fallback assumption illumina hiseq_era unknown cdna_unspecified unknown sc single_cell_plate quartzseq   Japan 2016-09-19 Larval Larval Brain Nervous System
159 159 DRR067140 DRX061084 DRS034138 DRP003275 PRJDB4941 Gene expression profiling of granule cells and Purkinje cells in zebrafish cerebellum DRP003275 Other An RNA seq analysis was performed using zebrafish granule cells Purkinje cells IO neurons and glial cells. The transcriptomes were sequenced using Illumina HiSeq with paired end libraries employing the Quartz seq method for low amount total RNA.       Zebrafish RNA seq for Purkinje cells using Tg line aldoca:GAP Venus sample 2 SAMD00057663   sample name:Zebrafish aldoca 02|strain:Tg|biomaterial provider:Bioscience and Biotechnology Center Nagoya University|tissue type:cerebellum|cell type:purkinje cells|dev stage:14 dpf|replicate:biological replicate 2                 Illumina HiSeq 1500 paired end sequencing of SAMD00057663 DRX061084 1 1 Quartz seq for low amount total RNA   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 1500 <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>202</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><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>102</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR> DRP003275 Illumina HiSeq 1500 paired end sequencing of SAMD00057663       1851108406.0 9163903.0 DRR067140 0:101 1:101 A:537339104;C:390802782;G:416335529;T:506575762;N:55229 101 101     537339104 390802782 416335529 506575762 55229 DRX061084 DRS034138 DRA004955 RIKEN_CLST_DBFDI|Phyloinformatics Unit RIKEN CLST 2 0.9055 0.91341 0.1515 0.15333 0.76495 0.76719 0.49219 0.49012 101 101 B B biological fallback assumption illumina hiseq_era unknown cdna_unspecified unknown sc single_cell_plate quartzseq   Japan 2016-09-19 Larval Larval Brain Nervous System
160 160 DRR067139 DRX061083 DRS034137 DRP003275 PRJDB4941 Gene expression profiling of granule cells and Purkinje cells in zebrafish cerebellum DRP003275 Other An RNA seq analysis was performed using zebrafish granule cells Purkinje cells IO neurons and glial cells. The transcriptomes were sequenced using Illumina HiSeq with paired end libraries employing the Quartz seq method for low amount total RNA.       Zebrafish RNA seq for Purkinje cells using Tg line aldoca:GAP Venus sample 1 SAMD00057662   sample name:Zebrafish aldoca 01|strain:Tg|biomaterial provider:Bioscience and Biotechnology Center Nagoya University|tissue type:cerebellum|cell type:purkinje cells|dev stage:14 dpf|replicate:biological replicate 1                 Illumina HiSeq 1500 paired end sequencing of SAMD00057662 DRX061083 1 1 Quartz seq for low amount total RNA   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 1500 <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>202</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><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>102</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR> DRP003275 Illumina HiSeq 1500 paired end sequencing of SAMD00057662       2000078962.0 9901381.0 DRR067139 0:101 1:101 A:583169141;C:420603631;G:446949308;T:549297272;N:59610 101 101     583169141 420603631 446949308 549297272 59610 DRX061083 DRS034137 DRA004955 RIKEN_CLST_DBFDI|Phyloinformatics Unit RIKEN CLST 2 0.9056 0.90932 0.15092 0.15179 0.76173 0.7654 0.49028 0.49604 101 101 B B biological fallback assumption illumina hiseq_era unknown cdna_unspecified unknown sc single_cell_plate quartzseq   Japan 2016-09-19 Larval Larval Brain Nervous System
161 161 DRR067138 DRX061082 DRS034136 DRP003275 PRJDB4941 Gene expression profiling of granule cells and Purkinje cells in zebrafish cerebellum DRP003275 Other An RNA seq analysis was performed using zebrafish granule cells Purkinje cells IO neurons and glial cells. The transcriptomes were sequenced using Illumina HiSeq with paired end libraries employing the Quartz seq method for low amount total RNA.       Zebrafish RNA seq for granule cells using Tg line gSA2AzGFF152B sample 2 SAMD00057661   sample name:Zebrafish 152B 02|strain:Tg|biomaterial provider:Bioscience and Biotechnology Center Nagoya University|tissue type:cerebellum|cell type:granule cells|dev stage:14 dpf|replicate:biological replicate 2                 Illumina HiSeq 1500 paired end sequencing of SAMD00057661 DRX061082 1 1 Quartz seq for low amount total RNA   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 1500 <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>202</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><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>102</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR> DRP003275 Illumina HiSeq 1500 paired end sequencing of SAMD00057661       1997432156.0 9888278.0 DRR067138 0:101 1:101 A:578466824;C:423038930;G:449779231;T:546086391;N:60780 101 101     578466824 423038930 449779231 546086391 60780 DRX061082 DRS034136 DRA004955 RIKEN_CLST_DBFDI|Phyloinformatics Unit RIKEN CLST 2 0.90322 0.91109 0.1463 0.14811 0.75452 0.75633 0.48303 0.48557 101 101 B B biological fallback assumption illumina hiseq_era unknown cdna_unspecified unknown sc single_cell_plate quartzseq   Japan 2016-09-19 Larval Larval Brain Nervous System
162 162 DRR067137 DRX061081 DRS034135 DRP003275 PRJDB4941 Gene expression profiling of granule cells and Purkinje cells in zebrafish cerebellum DRP003275 Other An RNA seq analysis was performed using zebrafish granule cells Purkinje cells IO neurons and glial cells. The transcriptomes were sequenced using Illumina HiSeq with paired end libraries employing the Quartz seq method for low amount total RNA.       Zebrafish RNA seq for granule cells using Tg line gSA2AzGFF152B sample 1 SAMD00057660   sample name:Zebrafish 152B 01|strain:Tg|biomaterial provider:Bioscience and Biotechnology Center Nagoya University|tissue type:cerebellum|cell type:granule cells|dev stage:14 dpf|replicate:biological replicate 1                 Illumina HiSeq 1500 paired end sequencing of SAMD00057660 DRX061081 1 1 Quartz seq for low amount total RNA   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 1500 <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>202</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><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>102</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR> DRP003275 Illumina HiSeq 1500 paired end sequencing of SAMD00057660       1908437218.0 9447709.0 DRR067137 0:101 1:101 A:552150223;C:401993096;G:427236477;T:527000978;N:56444 101 101     552150223 401993096 427236477 527000978 56444 DRX061081 DRS034135 DRA004955 RIKEN_CLST_DBFDI|Phyloinformatics Unit RIKEN CLST 2 0.90474 0.91043 0.17336 0.17401 0.76108 0.76359 0.483 0.48537 101 101 B B biological fallback assumption illumina hiseq_era unknown cdna_unspecified unknown sc single_cell_plate quartzseq   Japan 2016-09-19 Larval Larval Brain Nervous System
163 163 DRR067136 DRX061080 DRS034134 DRP003275 PRJDB4941 Gene expression profiling of granule cells and Purkinje cells in zebrafish cerebellum DRP003275 Other An RNA seq analysis was performed using zebrafish granule cells Purkinje cells IO neurons and glial cells. The transcriptomes were sequenced using Illumina HiSeq with paired end libraries employing the Quartz seq method for low amount total RNA.       Zebrafish RNA seq for Inferior olive nuclei using Tg line hspGFFDMC28C sample 3 SAMD00057659   sample name:Zebrafish 28C 03|strain:Tg|biomaterial provider:Bioscience and Biotechnology Center Nagoya University|tissue type:hindbrain|cell type:inferior olive nuclei|dev stage:14 dpf|replicate:biological replicate 3                 Illumina HiSeq 1500 paired end sequencing of SAMD00057659 DRX061080 1 1 Quartz seq for low amount total RNA   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 1500 <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>202</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><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>102</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR> DRP003275 Illumina HiSeq 1500 paired end sequencing of SAMD00057659       1982971178.0 9816689.0 DRR067136 0:101 1:101 A:504064758;C:488246993;G:520130333;T:470469799;N:59295 101 101     504064758 488246993 520130333 470469799 59295 DRX061080 DRS034134 DRA004955 RIKEN_CLST_DBFDI|Phyloinformatics Unit RIKEN CLST 2 0.53386 0.54375 0.06072 0.06189 0.76351 0.76641 0.4872 0.48857 101 101 B B biological fallback assumption illumina hiseq_era unknown cdna_unspecified unknown sc single_cell_plate quartzseq   Japan 2016-09-19 Larval Larval Brain Nervous System
164 164 DRR067135 DRX061079 DRS034133 DRP003275 PRJDB4941 Gene expression profiling of granule cells and Purkinje cells in zebrafish cerebellum DRP003275 Other An RNA seq analysis was performed using zebrafish granule cells Purkinje cells IO neurons and glial cells. The transcriptomes were sequenced using Illumina HiSeq with paired end libraries employing the Quartz seq method for low amount total RNA.       Zebrafish RNA seq for Inferior olive nuclei using Tg line hspGFFDMC28C sample 2 SAMD00057658   sample name:Zebrafish 28C 02|strain:Tg|biomaterial provider:Bioscience and Biotechnology Center Nagoya University|tissue type:hindbrain|cell type:inferior olive nuclei|dev stage:14 dpf|replicate:biological replicate 2                 Illumina HiSeq 1500 paired end sequencing of SAMD00057658 DRX061079 1 1 Quartz seq for low amount total RNA   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 1500 <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>202</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><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>102</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR> DRP003275 Illumina HiSeq 1500 paired end sequencing of SAMD00057658       1961048320.0 9708160.0 DRR067135 0:101 1:101 A:557469151;C:424691789;G:455244994;T:523583601;N:58785 101 101     557469151 424691789 455244994 523583601 58785 DRX061079 DRS034133 DRA004955 RIKEN_CLST_DBFDI|Phyloinformatics Unit RIKEN CLST 2 0.84854 0.8526 0.10311 0.1042 0.75227 0.75499 0.49321 0.49435 101 101 B B biological fallback assumption illumina hiseq_era unknown cdna_unspecified unknown sc single_cell_plate quartzseq   Japan 2016-09-19 Larval Larval Brain Nervous System
165 165 DRR067134 DRX061078 DRS034132 DRP003275 PRJDB4941 Gene expression profiling of granule cells and Purkinje cells in zebrafish cerebellum DRP003275 Other An RNA seq analysis was performed using zebrafish granule cells Purkinje cells IO neurons and glial cells. The transcriptomes were sequenced using Illumina HiSeq with paired end libraries employing the Quartz seq method for low amount total RNA.       Zebrafish RNA seq for Inferior olive nuclei using Tg line hspGFFDMC28C sample 1 SAMD00057657   sample name:Zebrafish 28C 01|strain:Tg|biomaterial provider:Bioscience and Biotechnology Center Nagoya University|tissue type:hindbrain|cell type:inferior olive nuclei|dev stage:14 dpf|replicate:biological replicate 1                 Illumina HiSeq 1500 paired end sequencing of SAMD00057657 DRX061078 1 1 Quartz seq for low amount total RNA   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 1500 <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>202</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><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>102</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR> DRP003275 Illumina HiSeq 1500 paired end sequencing of SAMD00057657       1931802760.0 9563380.0 DRR067134 0:101 1:101 A:546501397;C:422500710;G:452200521;T:510543489;N:56643 101 101     546501397 422500710 452200521 510543489 56643 DRX061078 DRS034132 DRA004955 RIKEN_CLST_DBFDI|Phyloinformatics Unit RIKEN CLST 2 0.85439 0.85613 0.09867 0.09897 0.76871 0.77082 0.48943 0.48936 101 101 B B biological fallback assumption illumina hiseq_era unknown cdna_unspecified unknown sc single_cell_plate quartzseq   Japan 2016-09-19 Larval Larval Brain Nervous System
166 166 DRR067133 DRX061077 DRS034131 DRP003275 PRJDB4941 Gene expression profiling of granule cells and Purkinje cells in zebrafish cerebellum DRP003275 Other An RNA seq analysis was performed using zebrafish granule cells Purkinje cells IO neurons and glial cells. The transcriptomes were sequenced using Illumina HiSeq with paired end libraries employing the Quartz seq method for low amount total RNA.       Zebrafish RNA seq for eurydendroid cells using Tg line hspzGFFgDMC156A sample 2 SAMD00057656   sample name:Zebrafish 156A 02|strain:Tg|biomaterial provider:Bioscience and Biotechnology Center Nagoya University|tissue type:cerebellum|cell type:eurydendroid cells|dev stage:14 dpf|replicate:biological replicate 2                 Illumina HiSeq 1500 paired end sequencing of SAMD00057656 DRX061077 1 1 Quartz seq for low amount total RNA   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 1500 <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>202</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><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>102</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR> DRP003275 Illumina HiSeq 1500 paired end sequencing of SAMD00057656       2054289096.0 10169748.0 DRR067133 0:101 1:101 A:563764176;C:464768863;G:497506420;T:528187503;N:62134 101 101     563764176 464768863 497506420 528187503 62134 DRX061077 DRS034131 DRA004955 RIKEN_CLST_DBFDI|Phyloinformatics Unit RIKEN CLST 2 0.69311 0.6968 0.12309 0.12389 0.76428 0.76676 0.48379 0.48227 101 101 B B biological fallback assumption illumina hiseq_era unknown cdna_unspecified unknown sc single_cell_plate quartzseq   Japan 2016-09-19 Larval Larval Brain Nervous System
167 167 DRR067132 DRX061076 DRS034130 DRP003275 PRJDB4941 Gene expression profiling of granule cells and Purkinje cells in zebrafish cerebellum DRP003275 Other An RNA seq analysis was performed using zebrafish granule cells Purkinje cells IO neurons and glial cells. The transcriptomes were sequenced using Illumina HiSeq with paired end libraries employing the Quartz seq method for low amount total RNA.       Zebrafish RNA seq for eurydendroid cells using Tg line hspzGFFgDMC156A sample 1 SAMD00057655   sample name:Zebrafish 156A 01|strain:Tg|biomaterial provider:Bioscience and Biotechnology Center Nagoya University|tissue type:cerebellum|cell type:eurydendroid cells|dev stage:14 dpf|replicate:biological replicate 1                 Illumina HiSeq 1500 paired end sequencing of SAMD00057655 DRX061076 1 1 Quartz seq for low amount total RNA   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 1500 <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>202</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><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>102</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR> DRP003275 Illumina HiSeq 1500 paired end sequencing of SAMD00057655       2152665722.0 10656761.0 DRR067132 0:101 1:101 A:585252781;C:495382257;G:522677749;T:549287359;N:65576 101 101     585252781 495382257 522677749 549287359 65576 DRX061076 DRS034130 DRA004955 RIKEN_CLST_DBFDI|Phyloinformatics Unit RIKEN CLST 2 0.67771 0.68253 0.12949 0.1303 0.77216 0.77542 0.4951 0.49452 101 101 B B biological fallback assumption illumina hiseq_era unknown cdna_unspecified unknown sc single_cell_plate quartzseq   Japan 2016-09-19 Larval Larval Brain Nervous System
260 260 DRR162481 DRX153100 DRS083161 DRP004696 PRJDB7713 Age associated transcriptome analysis in 5 tissues of zebrafish DRP004696 Transcriptome Analysis We performed transcriptome analysis for brain gill heart liver and muscle from 2 month 7 month 16 month and 39 mpf zebrafish. We analyzed age associated gene expression pattern in zebrafish and compared with similar public transcriptome data of rat Yu et al. 2014.       brain sample from 39 mpf zebrafish replicate5 SAMD00152429   sample name:b39 5|age:39 month|biological replicate:5|tissue:brain                 Illumina HiSeq 2000 paired end sequencing of SAMD00152429 DRX153100 1 1 Illumina TruSeq Stranded mRNA HT Kit   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000 <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>200</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><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>101</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR> DRP004696 Illumina HiSeq 2000 paired end sequencing of SAMD00152429       1252728200.0 6263641.0 DRR162481 0:100 1:100 A:367502128;C:257734618;G:257260262;T:368202459;N:2028733 100 100     367502128 257734618 257260262 368202459 2028733 DRX153100 DRS083161 DRA007711 UT-AQUA|Laboratory of Aquatic Molecular Biology and Biotechnology Department of Aquatic Bioscience, Graduate School of Agriculture and Life Sciences, The University of Tokyo 2 0.92142 0.8899 0.17636 0.1685 0.70686 0.7166 0.53271 0.54366 100 100 B B biological fallback assumption illumina hiseq_era unknown cdna_unspecified trueseq bulk unknown unknown   Japan 2018-12-24 Adult Adult Brain Nervous System
261 261 DRR162480 DRX153099 DRS083160 DRP004696 PRJDB7713 Age associated transcriptome analysis in 5 tissues of zebrafish DRP004696 Transcriptome Analysis We performed transcriptome analysis for brain gill heart liver and muscle from 2 month 7 month 16 month and 39 mpf zebrafish. We analyzed age associated gene expression pattern in zebrafish and compared with similar public transcriptome data of rat Yu et al. 2014.       brain sample from 39 mpf zebrafish replicate4 SAMD00152428   sample name:b39 4|age:39 month|biological replicate:4|tissue:brain                 Illumina HiSeq 2000 paired end sequencing of SAMD00152428 DRX153099 1 1 Illumina TruSeq Stranded mRNA HT Kit   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000 <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>200</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><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>101</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR> DRP004696 Illumina HiSeq 2000 paired end sequencing of SAMD00152428       1426772800.0 7133864.0 DRR162480 0:100 1:100 A:408404333;C:303657580;G:303201065;T:408996815;N:2513007 100 100     408404333 303657580 303201065 408996815 2513007 DRX153099 DRS083160 DRA007711 UT-AQUA|Laboratory of Aquatic Molecular Biology and Biotechnology Department of Aquatic Bioscience, Graduate School of Agriculture and Life Sciences, The University of Tokyo 2 0.92435 0.89379 0.16127 0.15446 0.69844 0.70554 0.53646 0.533 100 100 B B biological fallback assumption illumina hiseq_era unknown cdna_unspecified trueseq bulk unknown unknown   Japan 2018-12-24 Adult Adult Brain Nervous System
262 262 DRR162479 DRX153098 DRS083159 DRP004696 PRJDB7713 Age associated transcriptome analysis in 5 tissues of zebrafish DRP004696 Transcriptome Analysis We performed transcriptome analysis for brain gill heart liver and muscle from 2 month 7 month 16 month and 39 mpf zebrafish. We analyzed age associated gene expression pattern in zebrafish and compared with similar public transcriptome data of rat Yu et al. 2014.       brain sample from 39 mpf zebrafish replicate3 SAMD00152427   sample name:b39 3|age:39 month|biological replicate:3|tissue:brain                 Illumina HiSeq 2000 paired end sequencing of SAMD00152427 DRX153098 1 1 Illumina TruSeq Stranded mRNA HT Kit   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000 <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>200</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><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>101</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR> DRP004696 Illumina HiSeq 2000 paired end sequencing of SAMD00152427       1197809800.0 5989049.0 DRR162479 0:100 1:100 A:348955835;C:249141949;G:248747996;T:348970452;N:1993568 100 100     348955835 249141949 248747996 348970452 1993568 DRX153098 DRS083159 DRA007711 UT-AQUA|Laboratory of Aquatic Molecular Biology and Biotechnology Department of Aquatic Bioscience, Graduate School of Agriculture and Life Sciences, The University of Tokyo 2 0.92402 0.89389 0.1731 0.1668 0.70938 0.72892 0.55061 0.56711 100 100 B B biological fallback assumption illumina hiseq_era unknown cdna_unspecified trueseq bulk unknown unknown   Japan 2018-12-24 Adult Adult Brain Nervous System
263 263 DRR162478 DRX153097 DRS083158 DRP004696 PRJDB7713 Age associated transcriptome analysis in 5 tissues of zebrafish DRP004696 Transcriptome Analysis We performed transcriptome analysis for brain gill heart liver and muscle from 2 month 7 month 16 month and 39 mpf zebrafish. We analyzed age associated gene expression pattern in zebrafish and compared with similar public transcriptome data of rat Yu et al. 2014.       brain sample from 39 mpf zebrafish replicate2 SAMD00152426   sample name:b39 2|age:39 month|biological replicate:2|tissue:brain                 Illumina HiSeq 2000 paired end sequencing of SAMD00152426 DRX153097 1 1 Illumina TruSeq Stranded mRNA HT Kit   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000 <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>200</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><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>101</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR> DRP004696 Illumina HiSeq 2000 paired end sequencing of SAMD00152426       1389632200.0 6948161.0 DRR162478 0:100 1:100 A:397337261;C:295934915;G:295794427;T:398240347;N:2325250 100 100     397337261 295934915 295794427 398240347 2325250 DRX153097 DRS083158 DRA007711 UT-AQUA|Laboratory of Aquatic Molecular Biology and Biotechnology Department of Aquatic Bioscience, Graduate School of Agriculture and Life Sciences, The University of Tokyo 2 0.92803 0.89621 0.15624 0.14998 0.69988 0.70985 0.54263 0.53655 100 100 B B biological fallback assumption illumina hiseq_era unknown cdna_unspecified trueseq bulk unknown unknown   Japan 2018-12-24 Adult Adult Brain Nervous System
264 264 DRR162477 DRX153096 DRS083157 DRP004696 PRJDB7713 Age associated transcriptome analysis in 5 tissues of zebrafish DRP004696 Transcriptome Analysis We performed transcriptome analysis for brain gill heart liver and muscle from 2 month 7 month 16 month and 39 mpf zebrafish. We analyzed age associated gene expression pattern in zebrafish and compared with similar public transcriptome data of rat Yu et al. 2014.       brain sample from 39 mpf zebrafish replicate1 SAMD00152425   sample name:b39 1|age:39 month|biological replicate:1|tissue:brain                 Illumina HiSeq 2000 paired end sequencing of SAMD00152425 DRX153096 1 1 Illumina TruSeq Stranded mRNA HT Kit   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000 <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>200</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><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>101</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR> DRP004696 Illumina HiSeq 2000 paired end sequencing of SAMD00152425       1413538400.0 7067692.0 DRR162477 0:100 1:100 A:427890787;C:277522619;G:278488081;T:427755965;N:1880948 100 100     427890787 277522619 278488081 427755965 1880948 DRX153096 DRS083157 DRA007711 UT-AQUA|Laboratory of Aquatic Molecular Biology and Biotechnology Department of Aquatic Bioscience, Graduate School of Agriculture and Life Sciences, The University of Tokyo 2 0.90967 0.88004 0.20536 0.19647 0.71384 0.72021 0.55413 0.55769 100 100 B B biological fallback assumption illumina hiseq_era unknown cdna_unspecified trueseq bulk unknown unknown   Japan 2018-12-24 Adult Adult Brain Nervous System
265 265 DRR162476 DRX153095 DRS083156 DRP004696 PRJDB7713 Age associated transcriptome analysis in 5 tissues of zebrafish DRP004696 Transcriptome Analysis We performed transcriptome analysis for brain gill heart liver and muscle from 2 month 7 month 16 month and 39 mpf zebrafish. We analyzed age associated gene expression pattern in zebrafish and compared with similar public transcriptome data of rat Yu et al. 2014.       brain sample from 16 mpf zebrafish replicate5 SAMD00152424   sample name:b16 5|age:16 month|biological replicate:5|tissue:brain                 Illumina HiSeq 2000 paired end sequencing of SAMD00152424 DRX153095 1 1 Illumina TruSeq Stranded mRNA HT Kit   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000 <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>200</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><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>101</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR> DRP004696 Illumina HiSeq 2000 paired end sequencing of SAMD00152424       1256635000.0 6283175.0 DRR162476 0:100 1:100 A:385448452;C:241878013;G:242164401;T:385408510;N:1735624 100 100     385448452 241878013 242164401 385408510 1735624 DRX153095 DRS083156 DRA007711 UT-AQUA|Laboratory of Aquatic Molecular Biology and Biotechnology Department of Aquatic Bioscience, Graduate School of Agriculture and Life Sciences, The University of Tokyo 2 0.91032 0.87693 0.19953 0.19064 0.72575 0.73474 0.49199 0.5657 100 100 B B biological fallback assumption illumina hiseq_era unknown cdna_unspecified trueseq bulk unknown unknown   Japan 2018-12-24 Adult Adult Brain Nervous System
266 266 DRR162475 DRX153094 DRS083155 DRP004696 PRJDB7713 Age associated transcriptome analysis in 5 tissues of zebrafish DRP004696 Transcriptome Analysis We performed transcriptome analysis for brain gill heart liver and muscle from 2 month 7 month 16 month and 39 mpf zebrafish. We analyzed age associated gene expression pattern in zebrafish and compared with similar public transcriptome data of rat Yu et al. 2014.       brain sample from 16 mpf zebrafish replicate4 SAMD00152423   sample name:b16 4|age:16 month|biological replicate:4|tissue:brain                 Illumina HiSeq 2000 paired end sequencing of SAMD00152423 DRX153094 1 1 Illumina TruSeq Stranded mRNA HT Kit   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000 <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>200</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><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>101</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR> DRP004696 Illumina HiSeq 2000 paired end sequencing of SAMD00152423       2577820600.0 12889103.0 DRR162475 0:100 1:100 A:783031561;C:503484597;G:503899732;T:784003178;N:3401532 100 100     783031561 503484597 503899732 784003178 3401532 DRX153094 DRS083155 DRA007711 UT-AQUA|Laboratory of Aquatic Molecular Biology and Biotechnology Department of Aquatic Bioscience, Graduate School of Agriculture and Life Sciences, The University of Tokyo 2 0.91098 0.87948 0.20945 0.19993 0.71758 0.72543 0.56796 0.56453 100 100 B B biological fallback assumption illumina hiseq_era unknown cdna_unspecified trueseq bulk unknown unknown   Japan 2018-12-24 Adult Adult Brain Nervous System
267 267 DRR162474 DRX153093 DRS083154 DRP004696 PRJDB7713 Age associated transcriptome analysis in 5 tissues of zebrafish DRP004696 Transcriptome Analysis We performed transcriptome analysis for brain gill heart liver and muscle from 2 month 7 month 16 month and 39 mpf zebrafish. We analyzed age associated gene expression pattern in zebrafish and compared with similar public transcriptome data of rat Yu et al. 2014.       brain sample from 16 mpf zebrafish replicate3 SAMD00152422   sample name:b16 3|age:16 month|biological replicate:3|tissue:brain                 Illumina HiSeq 2000 paired end sequencing of SAMD00152422 DRX153093 1 1 Illumina TruSeq Stranded mRNA HT Kit   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000 <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>200</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><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>101</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR> DRP004696 Illumina HiSeq 2000 paired end sequencing of SAMD00152422       1147257600.0 5736288.0 DRR162474 0:100 1:100 A:357829214;C:214920802;G:215124134;T:357870811;N:1512639 100 100     357829214 214920802 215124134 357870811 1512639 DRX153093 DRS083154 DRA007711 UT-AQUA|Laboratory of Aquatic Molecular Biology and Biotechnology Department of Aquatic Bioscience, Graduate School of Agriculture and Life Sciences, The University of Tokyo 2 0.90822 0.88184 0.20468 0.19612 0.73992 0.74627 0.58395 0.50711 100 100 B B biological fallback assumption illumina hiseq_era unknown cdna_unspecified trueseq bulk unknown unknown   Japan 2018-12-24 Adult Adult Brain Nervous System
268 268 DRR162473 DRX153092 DRS083153 DRP004696 PRJDB7713 Age associated transcriptome analysis in 5 tissues of zebrafish DRP004696 Transcriptome Analysis We performed transcriptome analysis for brain gill heart liver and muscle from 2 month 7 month 16 month and 39 mpf zebrafish. We analyzed age associated gene expression pattern in zebrafish and compared with similar public transcriptome data of rat Yu et al. 2014.       brain sample from 16 mpf zebrafish replicate2 SAMD00152421   sample name:b16 2|age:16 month|biological replicate:2|tissue:brain                 Illumina HiSeq 2000 paired end sequencing of SAMD00152421 DRX153092 1 1 Illumina TruSeq Stranded mRNA HT Kit   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000 <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>200</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><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>101</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR> DRP004696 Illumina HiSeq 2000 paired end sequencing of SAMD00152421       1399740200.0 6998701.0 DRR162473 0:100 1:100 A:420492615;C:278464854;G:278362101;T:420657546;N:1763084 100 100     420492615 278464854 278362101 420657546 1763084 DRX153092 DRS083153 DRA007711 UT-AQUA|Laboratory of Aquatic Molecular Biology and Biotechnology Department of Aquatic Bioscience, Graduate School of Agriculture and Life Sciences, The University of Tokyo 2 0.91795 0.88458 0.19015 0.18122 0.71374 0.72318 0.55157 0.55554 100 100 B B biological fallback assumption illumina hiseq_era unknown cdna_unspecified trueseq bulk unknown unknown   Japan 2018-12-24 Adult Adult Brain Nervous System
269 269 DRR162472 DRX153091 DRS083152 DRP004696 PRJDB7713 Age associated transcriptome analysis in 5 tissues of zebrafish DRP004696 Transcriptome Analysis We performed transcriptome analysis for brain gill heart liver and muscle from 2 month 7 month 16 month and 39 mpf zebrafish. We analyzed age associated gene expression pattern in zebrafish and compared with similar public transcriptome data of rat Yu et al. 2014.       brain sample from 16 mpf zebrafish replicate1 SAMD00152420   sample name:b16 1|age:16 month|biological replicate:1|tissue:brain                 Illumina HiSeq 2000 paired end sequencing of SAMD00152420 DRX153091 1 1 Illumina TruSeq Stranded mRNA HT Kit   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000 <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>200</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><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>101</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR> DRP004696 Illumina HiSeq 2000 paired end sequencing of SAMD00152420       1109512400.0 5547562.0 DRR162472 0:100 1:100 A:336800225;C:217086705;G:217195789;T:336929233;N:1500448 100 100     336800225 217086705 217195789 336929233 1500448 DRX153091 DRS083152 DRA007711 UT-AQUA|Laboratory of Aquatic Molecular Biology and Biotechnology Department of Aquatic Bioscience, Graduate School of Agriculture and Life Sciences, The University of Tokyo 2 0.91025 0.87734 0.20046 0.19197 0.71774 0.72482 0.52937 0.56111 100 100 B B biological fallback assumption illumina hiseq_era unknown cdna_unspecified trueseq bulk unknown unknown   Japan 2018-12-24 Adult Adult Brain Nervous System
270 270 DRR162471 DRX153090 DRS083151 DRP004696 PRJDB7713 Age associated transcriptome analysis in 5 tissues of zebrafish DRP004696 Transcriptome Analysis We performed transcriptome analysis for brain gill heart liver and muscle from 2 month 7 month 16 month and 39 mpf zebrafish. We analyzed age associated gene expression pattern in zebrafish and compared with similar public transcriptome data of rat Yu et al. 2014.       brain sample from 7 mpf zebrafish replicate5 SAMD00152419   sample name:b07 5|age:7 month|biological replicate:5|tissue:brain                 Illumina HiSeq 2000 paired end sequencing of SAMD00152419 DRX153090 1 1 Illumina TruSeq Stranded mRNA HT Kit   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000 <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>200</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><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>101</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR> DRP004696 Illumina HiSeq 2000 paired end sequencing of SAMD00152419       1472475400.0 7362377.0 DRR162471 0:100 1:100 A:448100356;C:287211180;G:287652290;T:447581010;N:1930564 100 100     448100356 287211180 287652290 447581010 1930564 DRX153090 DRS083151 DRA007711 UT-AQUA|Laboratory of Aquatic Molecular Biology and Biotechnology Department of Aquatic Bioscience, Graduate School of Agriculture and Life Sciences, The University of Tokyo 2 0.90584 0.87079 0.21738 0.2083 0.71415 0.7344 0.5518 0.55812 100 100 B B biological fallback assumption illumina hiseq_era unknown cdna_unspecified trueseq bulk unknown unknown   Japan 2018-12-24 Adult Adult Brain Nervous System
271 271 DRR162470 DRX153089 DRS083150 DRP004696 PRJDB7713 Age associated transcriptome analysis in 5 tissues of zebrafish DRP004696 Transcriptome Analysis We performed transcriptome analysis for brain gill heart liver and muscle from 2 month 7 month 16 month and 39 mpf zebrafish. We analyzed age associated gene expression pattern in zebrafish and compared with similar public transcriptome data of rat Yu et al. 2014.       brain sample from 7 mpf zebrafish replicate4 SAMD00152418   sample name:b07 4|age:7 month|biological replicate:4|tissue:brain                 Illumina HiSeq 2000 paired end sequencing of SAMD00152418 DRX153089 1 1 Illumina TruSeq Stranded mRNA HT Kit   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000 <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>200</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><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>101</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR> DRP004696 Illumina HiSeq 2000 paired end sequencing of SAMD00152418       1173234000.0 5866170.0 DRR162470 0:100 1:100 A:349147253;C:236479543;G:237153294;T:348938811;N:1515099 100 100     349147253 236479543 237153294 348938811 1515099 DRX153089 DRS083150 DRA007711 UT-AQUA|Laboratory of Aquatic Molecular Biology and Biotechnology Department of Aquatic Bioscience, Graduate School of Agriculture and Life Sciences, The University of Tokyo 2 0.91933 0.88973 0.18681 0.17878 0.71108 0.71867 0.5448 0.55274 100 100 B B biological fallback assumption illumina hiseq_era unknown cdna_unspecified trueseq bulk unknown unknown   Japan 2018-12-24 Adult Adult Brain Nervous System
272 272 DRR162469 DRX153088 DRS083149 DRP004696 PRJDB7713 Age associated transcriptome analysis in 5 tissues of zebrafish DRP004696 Transcriptome Analysis We performed transcriptome analysis for brain gill heart liver and muscle from 2 month 7 month 16 month and 39 mpf zebrafish. We analyzed age associated gene expression pattern in zebrafish and compared with similar public transcriptome data of rat Yu et al. 2014.       brain sample from 7 mpf zebrafish replicate3 SAMD00152417   sample name:b07 3|age:7 month|biological replicate:3|tissue:brain                 Illumina HiSeq 2000 paired end sequencing of SAMD00152417 DRX153088 1 1 Illumina TruSeq Stranded mRNA HT Kit   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000 <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>200</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><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>101</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR> DRP004696 Illumina HiSeq 2000 paired end sequencing of SAMD00152417       1322055600.0 6610278.0 DRR162469 0:100 1:100 A:387777992;C:270907178;G:273067585;T:387904272;N:2398573 100 100     387777992 270907178 273067585 387904272 2398573 DRX153088 DRS083149 DRA007711 UT-AQUA|Laboratory of Aquatic Molecular Biology and Biotechnology Department of Aquatic Bioscience, Graduate School of Agriculture and Life Sciences, The University of Tokyo 2 0.91753 0.88469 0.17775 0.17007 0.70656 0.71685 0.5466 0.54528 100 100 B B biological fallback assumption illumina hiseq_era unknown cdna_unspecified trueseq bulk unknown unknown   Japan 2018-12-24 Adult Adult Brain Nervous System
273 273 DRR162468 DRX153087 DRS083148 DRP004696 PRJDB7713 Age associated transcriptome analysis in 5 tissues of zebrafish DRP004696 Transcriptome Analysis We performed transcriptome analysis for brain gill heart liver and muscle from 2 month 7 month 16 month and 39 mpf zebrafish. We analyzed age associated gene expression pattern in zebrafish and compared with similar public transcriptome data of rat Yu et al. 2014.       brain sample from 7 mpf zebrafish replicate2 SAMD00152416   sample name:b07 2|age:7 month|biological replicate:2|tissue:brain                 Illumina HiSeq 2000 paired end sequencing of SAMD00152416 DRX153087 1 1 Illumina TruSeq Stranded mRNA HT Kit   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000 <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>200</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><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>101</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR> DRP004696 Illumina HiSeq 2000 paired end sequencing of SAMD00152416       1160349000.0 5801745.0 DRR162468 0:100 1:100 A:350211581;C:228387129;G:229679563;T:349919152;N:2151575 100 100     350211581 228387129 229679563 349919152 2151575 DRX153087 DRS083148 DRA007711 UT-AQUA|Laboratory of Aquatic Molecular Biology and Biotechnology Department of Aquatic Bioscience, Graduate School of Agriculture and Life Sciences, The University of Tokyo 2 0.91146 0.87717 0.20422 0.19494 0.7083 0.72082 0.55642 0.56386 100 100 B B biological fallback assumption illumina hiseq_era unknown cdna_unspecified trueseq bulk unknown unknown   Japan 2018-12-24 Adult Adult Brain Nervous System
274 274 DRR162467 DRX153086 DRS083147 DRP004696 PRJDB7713 Age associated transcriptome analysis in 5 tissues of zebrafish DRP004696 Transcriptome Analysis We performed transcriptome analysis for brain gill heart liver and muscle from 2 month 7 month 16 month and 39 mpf zebrafish. We analyzed age associated gene expression pattern in zebrafish and compared with similar public transcriptome data of rat Yu et al. 2014.       brain sample from 7 mpf zebrafish replicate1 SAMD00152415   sample name:b07 1|age:7 month|biological replicate:1|tissue:brain                 Illumina HiSeq 2000 paired end sequencing of SAMD00152415 DRX153086 1 1 Illumina TruSeq Stranded mRNA HT Kit   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000 <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>200</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><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>101</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR> DRP004696 Illumina HiSeq 2000 paired end sequencing of SAMD00152415       1162314600.0 5811573.0 DRR162467 0:100 1:100 A:344932586;C:233867698;G:235450342;T:345967852;N:2096122 100 100     344932586 233867698 235450342 345967852 2096122 DRX153086 DRS083147 DRA007711 UT-AQUA|Laboratory of Aquatic Molecular Biology and Biotechnology Department of Aquatic Bioscience, Graduate School of Agriculture and Life Sciences, The University of Tokyo 2 0.91102 0.88248 0.1897 0.18307 0.70786 0.71687 0.55008 0.54646 100 100 B B biological fallback assumption illumina hiseq_era unknown cdna_unspecified trueseq bulk unknown unknown   Japan 2018-12-24 Adult Adult Brain Nervous System
275 275 DRR162466 DRX153085 DRS083146 DRP004696 PRJDB7713 Age associated transcriptome analysis in 5 tissues of zebrafish DRP004696 Transcriptome Analysis We performed transcriptome analysis for brain gill heart liver and muscle from 2 month 7 month 16 month and 39 mpf zebrafish. We analyzed age associated gene expression pattern in zebrafish and compared with similar public transcriptome data of rat Yu et al. 2014.       brain sample from 2 mpf zebrafish replicate5 SAMD00152414   sample name:b02 5|age:2 month|biological replicate:5|tissue:brain                 Illumina HiSeq 2000 paired end sequencing of SAMD00152414 DRX153085 1 1 Illumina TruSeq Stranded mRNA HT Kit   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000 <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>200</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><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>101</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR> DRP004696 Illumina HiSeq 2000 paired end sequencing of SAMD00152414       1184455800.0 5922279.0 DRR162466 0:100 1:100 A:357035323;C:233685447;G:235595745;T:356085837;N:2053448 100 100     357035323 233685447 235595745 356085837 2053448 DRX153085 DRS083146 DRA007711 UT-AQUA|Laboratory of Aquatic Molecular Biology and Biotechnology Department of Aquatic Bioscience, Graduate School of Agriculture and Life Sciences, The University of Tokyo 2 0.90819 0.87146 0.20659 0.19751 0.71246 0.72251 0.52523 0.52531 100 100 B B biological fallback assumption illumina hiseq_era unknown cdna_unspecified trueseq bulk unknown unknown   Japan 2018-12-24 Juvenile Juvenile Brain Nervous System
276 276 DRR162465 DRX153084 DRS083145 DRP004696 PRJDB7713 Age associated transcriptome analysis in 5 tissues of zebrafish DRP004696 Transcriptome Analysis We performed transcriptome analysis for brain gill heart liver and muscle from 2 month 7 month 16 month and 39 mpf zebrafish. We analyzed age associated gene expression pattern in zebrafish and compared with similar public transcriptome data of rat Yu et al. 2014.       brain sample from 2 mpf zebrafish replicate4 SAMD00152413   sample name:b02 4|age:2 month|biological replicate:4|tissue:brain                 Illumina HiSeq 2000 paired end sequencing of SAMD00152413 DRX153084 1 1 Illumina TruSeq Stranded mRNA HT Kit   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000 <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>200</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><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>101</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR> DRP004696 Illumina HiSeq 2000 paired end sequencing of SAMD00152413       1389141000.0 6945705.0 DRR162465 0:100 1:100 A:423029010;C:270113394;G:270981952;T:422602360;N:2414284 100 100     423029010 270113394 270981952 422602360 2414284 DRX153084 DRS083145 DRA007711 UT-AQUA|Laboratory of Aquatic Molecular Biology and Biotechnology Department of Aquatic Bioscience, Graduate School of Agriculture and Life Sciences, The University of Tokyo 2 0.90961 0.87739 0.21147 0.20152 0.71492 0.72563 0.53639 0.53779 100 100 B B biological fallback assumption illumina hiseq_era unknown cdna_unspecified trueseq bulk unknown unknown   Japan 2018-12-24 Juvenile Juvenile Brain Nervous System
277 277 DRR162464 DRX153083 DRS083144 DRP004696 PRJDB7713 Age associated transcriptome analysis in 5 tissues of zebrafish DRP004696 Transcriptome Analysis We performed transcriptome analysis for brain gill heart liver and muscle from 2 month 7 month 16 month and 39 mpf zebrafish. We analyzed age associated gene expression pattern in zebrafish and compared with similar public transcriptome data of rat Yu et al. 2014.       brain sample from 2 mpf zebrafish replicate3 SAMD00152412   sample name:b02 3|age:2 month|biological replicate:3|tissue:brain                 Illumina HiSeq 2000 paired end sequencing of SAMD00152412 DRX153083 1 1 Illumina TruSeq Stranded mRNA HT Kit   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000 <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>200</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><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>101</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR> DRP004696 Illumina HiSeq 2000 paired end sequencing of SAMD00152412       2322459000.0 11612295.0 DRR162464 0:100 1:100 A:701085106;C:457451297;G:460424165;T:699185460;N:4312972 100 100     701085106 457451297 460424165 699185460 4312972 DRX153083 DRS083144 DRA007711 UT-AQUA|Laboratory of Aquatic Molecular Biology and Biotechnology Department of Aquatic Bioscience, Graduate School of Agriculture and Life Sciences, The University of Tokyo 2 0.92479 0.89382 0.16108 0.1547 0.73312 0.74121 0.55089 0.55507 100 100 B B biological fallback assumption illumina hiseq_era unknown cdna_unspecified trueseq bulk unknown unknown   Japan 2018-12-24 Juvenile Juvenile Brain Nervous System
278 278 DRR162463 DRX153082 DRS083143 DRP004696 PRJDB7713 Age associated transcriptome analysis in 5 tissues of zebrafish DRP004696 Transcriptome Analysis We performed transcriptome analysis for brain gill heart liver and muscle from 2 month 7 month 16 month and 39 mpf zebrafish. We analyzed age associated gene expression pattern in zebrafish and compared with similar public transcriptome data of rat Yu et al. 2014.       brain sample from 2 mpf zebrafish replicate2 SAMD00152411   sample name:b02 2|age:2 month|biological replicate:2|tissue:brain                 Illumina HiSeq 2000 paired end sequencing of SAMD00152411 DRX153082 1 1 Illumina TruSeq Stranded mRNA HT Kit   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000 <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>200</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><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>101</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR> DRP004696 Illumina HiSeq 2000 paired end sequencing of SAMD00152411       1188406400.0 5942032.0 DRR162463 0:100 1:100 A:354575190;C:238508166;G:239587004;T:353623510;N:2112530 100 100     354575190 238508166 239587004 353623510 2112530 DRX153082 DRS083143 DRA007711 UT-AQUA|Laboratory of Aquatic Molecular Biology and Biotechnology Department of Aquatic Bioscience, Graduate School of Agriculture and Life Sciences, The University of Tokyo 2 0.90922 0.8787 0.20709 0.2009 0.71614 0.7362 0.52768 0.53049 100 100 B B biological fallback assumption illumina hiseq_era unknown cdna_unspecified trueseq bulk unknown unknown   Japan 2018-12-24 Juvenile Juvenile Brain Nervous System
279 279 DRR162462 DRX153081 DRS083142 DRP004696 PRJDB7713 Age associated transcriptome analysis in 5 tissues of zebrafish DRP004696 Transcriptome Analysis We performed transcriptome analysis for brain gill heart liver and muscle from 2 month 7 month 16 month and 39 mpf zebrafish. We analyzed age associated gene expression pattern in zebrafish and compared with similar public transcriptome data of rat Yu et al. 2014.       brain sample from 2 mpf zebrafish replicate1 SAMD00152410   sample name:b02 1|age:2 month|biological replicate:1|tissue:brain                 Illumina HiSeq 2000 paired end sequencing of SAMD00152410 DRX153081 1 1 Illumina TruSeq Stranded mRNA HT Kit   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000 <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>200</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><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>101</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR> DRP004696 Illumina HiSeq 2000 paired end sequencing of SAMD00152410       1033492200.0 5167461.0 DRR162462 0:100 1:100 A:310135217;C:205335529;G:207428012;T:308760225;N:1833217 100 100     310135217 205335529 207428012 308760225 1833217 DRX153081 DRS083142 DRA007711 UT-AQUA|Laboratory of Aquatic Molecular Biology and Biotechnology Department of Aquatic Bioscience, Graduate School of Agriculture and Life Sciences, The University of Tokyo 2 0.9176 0.8829 0.18651 0.17848 0.72099 0.73119 0.54307 0.54697 100 100 B B biological fallback assumption illumina hiseq_era unknown cdna_unspecified trueseq bulk unknown unknown   Japan 2018-12-24 Juvenile Juvenile Brain Nervous System
8064 8064 ERR035545 ERX013540 ERS017861 ERP000447 PRJEB2368 Sanger zebrafish sequencing E-MTAB-460 Other       Protocols: Zebrafish tissue was collected from Singapore strain incross fish grown at 28C. Collected samples were snap frozen on dry ice and stored at 70 C Total RNA was extracted using Trizol Reagent Invitrogen following the manufacturer's instructions. Pellets were re suspended in 10 mM Tris pH 7.5 and the RNA was quantified using a NanoDrop ND 1000 Spectrophotometer Axon Instruments. Zebrafish adult brain SAMEA782568 Wellcome Sanger Institute ENA first public:2011 02 03|ENA last update:2018 03 08|External Id:SAMEA782568|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2011 02 03T12:40:41Z|INSDC last update:2018 03 08T15:25:22Z|INSDC status:public|StrainOrLine:Singapore|Submitter Id:E MTAB 460:Zebrafish adult brain|broker name:ArrayExpress|common name:zebrafish|developmental stage:adult|organism part:brain|sample name:E MTAB 460:Zebrafish adult brain|sex:mixed                 Sanger zebrafish sequencing E MTAB 460 part2:5625 1 ZFbrain 2 RNA 1523492 Sanger zebrafish sequencing Zebrafish tissue was collected from Singapore strain incross fish grown at 28C. Collected samples were snap frozen on dry ice and stored at 70 C Total RNA was extracted using Trizol Reagent Invitrogen following the manufacturer's instructions. Pellets were re suspended in 10 mM Tris pH 7.5 and the RNA was quantified using a NanoDrop ND 1000 Spectrophotometer Axon Instruments. Total RNA was enriched for polyA+ RNA by 2 rounds of polyA pull down with magnetic beads and included a DNase treatment between the 2 rounds. RNA was chemically fragmented LiCl precipitated reverse transcribed with random primers a second strand synthesized and made into a standard Illumina library with a fragment size of 250 to 300 bp. Experimental Factor: ORGANISM PART:brain RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina Genome Analyzer II <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>160</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><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Technical Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>77</BASE_COORD></READ_SPEC><READ_SPEC><READ_INDEX>2</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>85</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR> ERP000447 Illumina Genome Analyzer II paired end sequencing; Sanger zebrafish sequencing ENA FIRST PUBLIC:2011 06 14|ENA LAST UPDATE:2018 11 16 5625_1.srf srf 4576566720.0 28603542.0 E MTAB 460 part2:5625 1.srf 0:76 1:8 2:76 A:1227184716;C:942715631;G:951021478;T:1219839320;N:6977239 76 8 76   1227184716 942715631 951021478 1219839320 6977239 ERX013540 ERS017861 ERA033503 SC|Wellcome Trust Sanger Institute SC|Wellcome Trust Sanger Institute 2 0.86503 0.86182 0.22392 0.22256 0.69664 0.69865 0.51454 0.51606 76 76 B B biological fallback assumption illumina early_illumina unknown poly_a unknown bulk unknown unknown   United Kingdom 2011-02-03 Adult Adult Brain Nervous System
8069 8069 ERR023147 ERX009449 ERS017861 ERP000447 PRJEB2368 Sanger zebrafish sequencing E-MTAB-460 Other       Protocols: Zebrafish tissue was collected from Singapore strain incross fish grown at 28C. Collected samples were snap frozen on dry ice and stored at 70 C Total RNA was extracted using Trizol Reagent Invitrogen following the manufacturer's instructions. Pellets were re suspended in 10 mM Tris pH 7.5 and the RNA was quantified using a NanoDrop ND 1000 Spectrophotometer Axon Instruments. Zebrafish adult brain SAMEA782568 Wellcome Sanger Institute ENA first public:2011 02 03|ENA last update:2018 03 08|External Id:SAMEA782568|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2011 02 03T12:40:41Z|INSDC last update:2018 03 08T15:25:22Z|INSDC status:public|StrainOrLine:Singapore|Submitter Id:E MTAB 460:Zebrafish adult brain|broker name:ArrayExpress|common name:zebrafish|developmental stage:adult|organism part:brain|sample name:E MTAB 460:Zebrafish adult brain|sex:mixed                 Sanger zebrafish sequencing E MTAB 460:3537 7 RNA from Zebrafish adult brain Sanger zebrafish sequencing Zebrafish tissue was collected from Singapore strain incross fish grown at 28C. Collected samples were snap frozen on dry ice and stored at 70 C Total RNA was extracted using Trizol Reagent Invitrogen following the manufacturer's instructions. Pellets were re suspended in 10 mM Tris pH 7.5 and the RNA was quantified using a NanoDrop ND 1000 Spectrophotometer Axon Instruments. Experimental Factor: ORGANISM PART:brain RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina Genome Analyzer II <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>152</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><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>77</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR> ERP000447 Illumina Genome Analyzer II paired end sequencing; Sanger zebrafish sequencing ENA FIRST PUBLIC:2011 02 03|ENA LAST UPDATE:2018 11 16 3537_7.srf srf 3047469128.0 20049139.0 E MTAB 460:3537 7.srf 0:76 1:76 A:951431181;C:561974807;G:565451314;T:964940357;N:3671469 76 76     951431181 561974807 565451314 964940357 3671469 ERX009449 ERS017861 ERA015648 SC|Wellcome Trust Sanger Institute SC|Wellcome Trust Sanger Institute 2 0.89672 0.89537 0.31092 0.31152 0.75724 0.7583 0.56639 0.56663 76 76 B B biological fallback assumption illumina early_illumina unknown cdna_unspecified unknown bulk unknown unknown   United Kingdom 2011-02-03 Adult Adult Brain Nervous System
8070 8070 ERR023144 ERX009448 ERS017861 ERP000447 PRJEB2368 Sanger zebrafish sequencing E-MTAB-460 Other       Protocols: Zebrafish tissue was collected from Singapore strain incross fish grown at 28C. Collected samples were snap frozen on dry ice and stored at 70 C Total RNA was extracted using Trizol Reagent Invitrogen following the manufacturer's instructions. Pellets were re suspended in 10 mM Tris pH 7.5 and the RNA was quantified using a NanoDrop ND 1000 Spectrophotometer Axon Instruments. Zebrafish adult brain SAMEA782568 Wellcome Sanger Institute ENA first public:2011 02 03|ENA last update:2018 03 08|External Id:SAMEA782568|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2011 02 03T12:40:41Z|INSDC last update:2018 03 08T15:25:22Z|INSDC status:public|StrainOrLine:Singapore|Submitter Id:E MTAB 460:Zebrafish adult brain|broker name:ArrayExpress|common name:zebrafish|developmental stage:adult|organism part:brain|sample name:E MTAB 460:Zebrafish adult brain|sex:mixed                 Sanger zebrafish sequencing E MTAB 460:3212 6 RNA from Zebrafish adult brain Sanger zebrafish sequencing Zebrafish tissue was collected from Singapore strain incross fish grown at 28C. Collected samples were snap frozen on dry ice and stored at 70 C Total RNA was extracted using Trizol Reagent Invitrogen following the manufacturer's instructions. Pellets were re suspended in 10 mM Tris pH 7.5 and the RNA was quantified using a NanoDrop ND 1000 Spectrophotometer Axon Instruments. Experimental Factor: ORGANISM PART:brain RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina Genome Analyzer II <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>152</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><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>77</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR> ERP000447 Illumina Genome Analyzer II paired end sequencing; Sanger zebrafish sequencing ENA FIRST PUBLIC:2011 02 03|ENA LAST UPDATE:2018 11 16 3212_6.srf srf 1970995248.0 12967074.0 E MTAB 460:3212 6.srf 0:76 1:76 A:601407561;C:370471604;G:371296333;T:608476094;N:19343656 76 76     601407561 370471604 371296333 608476094 19343656 ERX009448 ERS017861 ERA015648 SC|Wellcome Trust Sanger Institute SC|Wellcome Trust Sanger Institute 2 0.90042 0.89919 0.30246 0.30122 0.75534 0.75349 0.57375 0.56725 76 76 B B biological fallback assumption illumina early_illumina unknown cdna_unspecified unknown bulk unknown unknown   United Kingdom 2011-02-03 Adult Adult Brain Nervous System
10170 10170 ERR375749 ERX348126 ERS337052 ERP003756 PRJEB4464 Zebrafish olfactory transcriptomics Zebrafish_olfactory_transcriptomics-sc-2013-08-12T10:32:48Z-2742 Transcriptome Analysis The olfactory gene repertoire is largely species specific shaped by the nature and necessity of chemosensory information for survival in each species' niche. The relative expression of olfactory receptors can be quantified by RNA sequencing. We investigated the olfactory transcriptome of zebrafish because : i of its phylogenetic location in the vertebrate tree ii it has only one olfactory organ yet it has representatives of all the mammalian chemosensory receptor families iii its biology is well known iv is a commonly used model organism and it is suitable for subsequent functional analysis.         SAMEA2168448 SC ArrayExpress Genotype:Wildtype|ArrayExpress OrganismPart:Olfactory epithelium|ArrayExpress Sex:male|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2013 11 25T10:18:08Z|ENA LAST UPDATE:2018 03 08T16:38:06Z|External Id:SAMEA2168448|INSDC center name:SC|INSDC first public:2013 11 25T10:18:08Z|INSDC last update:2018 03 08T16:38:06Z|INSDC status:public|Submitter Id:ZF OE3 sc 2013 08 12T10:36:21Z 1677721|common name:zebrafish|sample description:RNA from OE|sample name:ZF OE3 sc 2013 08 12T10:36:21Z 1677721|scientific name:Danio rerio                 Illumina HiSeq 2000 paired end sequencing SC EXP 10586 2#3 7941068 Illumina sequencing of library 7941068 constructed from sample accession ERS337052 for study accession ERP003756. This is part of an Illumina multiplexed sequencing run 10586 2. This submission includes reads tagged with the sequence TTAGGC. Illumina cDNA protocol   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000   ERP003756 Illumina HiSeq 2000 paired end sequencing ENA FIRST PUBLIC:2013 11 25|ENA LAST UPDATE:2018 11 16 10586_2#3.cram cram 11298599000.0 56492995.0 SC RUN 10586 2#3 0:100 1:100 A:3356877540;C:2323057831;G:2299363865;T:3303865798;N:15433966 100 100     3356877540 2323057831 2299363865 3303865798 15433966 ERX348126 ERS337052 ERA267455 SC Wellcome Sanger Institute 2 0.91061 0.90958 0.1659 0.16567 0.68398 0.68645 0.53954 0.54231 100 100 B B biological fallback assumption illumina hiseq_era unknown cdna_unspecified unknown bulk unknown unknown   United Kingdom 2013-11-25 Undetermined Undetermined Brain Nervous System
10171 10171 ERR375748 ERX348125 ERS337051 ERP003756 PRJEB4464 Zebrafish olfactory transcriptomics Zebrafish_olfactory_transcriptomics-sc-2013-08-12T10:32:48Z-2742 Transcriptome Analysis The olfactory gene repertoire is largely species specific shaped by the nature and necessity of chemosensory information for survival in each species' niche. The relative expression of olfactory receptors can be quantified by RNA sequencing. We investigated the olfactory transcriptome of zebrafish because : i of its phylogenetic location in the vertebrate tree ii it has only one olfactory organ yet it has representatives of all the mammalian chemosensory receptor families iii its biology is well known iv is a commonly used model organism and it is suitable for subsequent functional analysis.         SAMEA2168447 SC ArrayExpress Genotype:Wildtype|ArrayExpress OrganismPart:Olfactory epithelium|ArrayExpress Sex:male|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2013 11 25T10:18:08Z|ENA LAST UPDATE:2018 03 08T16:38:13Z|External Id:SAMEA2168447|INSDC center name:SC|INSDC first public:2013 11 25T10:18:08Z|INSDC last update:2018 03 08T16:38:13Z|INSDC status:public|Submitter Id:ZF OE2 sc 2013 08 12T10:36:20Z 1677720|common name:zebrafish|sample description:RNA from OE|sample name:ZF OE2 sc 2013 08 12T10:36:20Z 1677720|scientific name:Danio rerio                 Illumina HiSeq 2000 paired end sequencing SC EXP 10586 2#2 7941067 Illumina sequencing of library 7941067 constructed from sample accession ERS337051 for study accession ERP003756. This is part of an Illumina multiplexed sequencing run 10586 2. This submission includes reads tagged with the sequence CGATGT. Illumina cDNA protocol   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000   ERP003756 Illumina HiSeq 2000 paired end sequencing ENA FIRST PUBLIC:2013 11 25|ENA LAST UPDATE:2018 11 16 10586_2#2.cram cram 10462424000.0 52312120.0 SC RUN 10586 2#2 0:100 1:100 A:3035632557;C:2208885147;G:2197231235;T:3006145790;N:14529271 100 100     3035632557 2208885147 2197231235 3006145790 14529271 ERX348125 ERS337051 ERA267455 SC Wellcome Sanger Institute 2 0.91417 0.91329 0.15428 0.15477 0.66882 0.66896 0.52191 0.51898 100 100 B B biological fallback assumption illumina hiseq_era unknown cdna_unspecified unknown bulk unknown unknown   United Kingdom 2013-11-25 Undetermined Undetermined Brain Nervous System
10172 10172 ERR375747 ERX348124 ERS337050 ERP003756 PRJEB4464 Zebrafish olfactory transcriptomics Zebrafish_olfactory_transcriptomics-sc-2013-08-12T10:32:48Z-2742 Transcriptome Analysis The olfactory gene repertoire is largely species specific shaped by the nature and necessity of chemosensory information for survival in each species' niche. The relative expression of olfactory receptors can be quantified by RNA sequencing. We investigated the olfactory transcriptome of zebrafish because : i of its phylogenetic location in the vertebrate tree ii it has only one olfactory organ yet it has representatives of all the mammalian chemosensory receptor families iii its biology is well known iv is a commonly used model organism and it is suitable for subsequent functional analysis.         SAMEA2168446 SC ArrayExpress Genotype:Wildtype|ArrayExpress OrganismPart:Olfactory epithelium|ArrayExpress Sex:male|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2013 11 25T10:18:08Z|ENA LAST UPDATE:2018 03 08T16:38:06Z|External Id:SAMEA2168446|INSDC center name:SC|INSDC first public:2013 11 25T10:18:08Z|INSDC last update:2018 03 08T16:38:06Z|INSDC status:public|Submitter Id:ZF OE1 sc 2013 08 12T10:36:17Z 1677719|common name:zebrafish|sample description:RNA from OE|sample name:ZF OE1 sc 2013 08 12T10:36:17Z 1677719|scientific name:Danio rerio                 Illumina HiSeq 2000 paired end sequencing SC EXP 10586 2#1 7941066 Illumina sequencing of library 7941066 constructed from sample accession ERS337050 for study accession ERP003756. This is part of an Illumina multiplexed sequencing run 10586 2. This submission includes reads tagged with the sequence ATCACG. Illumina cDNA protocol   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000   ERP003756 Illumina HiSeq 2000 paired end sequencing ENA FIRST PUBLIC:2013 11 25|ENA LAST UPDATE:2018 11 16 10586_2#1.cram cram 10377603200.0 51888016.0 SC RUN 10586 2#1 0:100 1:100 A:3021582125;C:2187474575;G:2170525378;T:2983668309;N:14352813 100 100     3021582125 2187474575 2170525378 2983668309 14352813 ERX348124 ERS337050 ERA267455 SC Wellcome Sanger Institute 2 0.90978 0.90815 0.15565 0.15454 0.67322 0.67476 0.52923 0.51842 100 100 B B biological fallback assumption illumina hiseq_era unknown cdna_unspecified unknown bulk unknown unknown   United Kingdom 2013-11-25 Undetermined Undetermined Brain Nervous System
10173 10173 ERR375746 ERX348123 ERS337052 ERP003756 PRJEB4464 Zebrafish olfactory transcriptomics Zebrafish_olfactory_transcriptomics-sc-2013-08-12T10:32:48Z-2742 Transcriptome Analysis The olfactory gene repertoire is largely species specific shaped by the nature and necessity of chemosensory information for survival in each species' niche. The relative expression of olfactory receptors can be quantified by RNA sequencing. We investigated the olfactory transcriptome of zebrafish because : i of its phylogenetic location in the vertebrate tree ii it has only one olfactory organ yet it has representatives of all the mammalian chemosensory receptor families iii its biology is well known iv is a commonly used model organism and it is suitable for subsequent functional analysis.         SAMEA2168448 SC ArrayExpress Genotype:Wildtype|ArrayExpress OrganismPart:Olfactory epithelium|ArrayExpress Sex:male|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2013 11 25T10:18:08Z|ENA LAST UPDATE:2018 03 08T16:38:06Z|External Id:SAMEA2168448|INSDC center name:SC|INSDC first public:2013 11 25T10:18:08Z|INSDC last update:2018 03 08T16:38:06Z|INSDC status:public|Submitter Id:ZF OE3 sc 2013 08 12T10:36:21Z 1677721|common name:zebrafish|sample description:RNA from OE|sample name:ZF OE3 sc 2013 08 12T10:36:21Z 1677721|scientific name:Danio rerio                 Illumina HiSeq 2000 paired end sequencing SC EXP 10586 1#3 7941068 Illumina sequencing of library 7941068 constructed from sample accession ERS337052 for study accession ERP003756. This is part of an Illumina multiplexed sequencing run 10586 1. This submission includes reads tagged with the sequence TTAGGC. Illumina cDNA protocol   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000   ERP003756 Illumina HiSeq 2000 paired end sequencing ENA FIRST PUBLIC:2013 11 25|ENA LAST UPDATE:2018 11 16 10586_1#3.cram cram 11455059800.0 57275299.0 SC RUN 10586 1#3 0:100 1:100 A:3406564785;C:2353388363;G:2329218644;T:3351844154;N:14043854 100 100     3406564785 2353388363 2329218644 3351844154 14043854 ERX348123 ERS337052 ERA267455 SC Wellcome Sanger Institute 2 0.91087 0.90879 0.16647 0.16616 0.6832 0.68436 0.54098 0.53604 100 100 B B biological fallback assumption illumina hiseq_era unknown cdna_unspecified unknown bulk unknown unknown   United Kingdom 2013-11-25 Undetermined Undetermined Brain Nervous System
10174 10174 ERR375745 ERX348122 ERS337051 ERP003756 PRJEB4464 Zebrafish olfactory transcriptomics Zebrafish_olfactory_transcriptomics-sc-2013-08-12T10:32:48Z-2742 Transcriptome Analysis The olfactory gene repertoire is largely species specific shaped by the nature and necessity of chemosensory information for survival in each species' niche. The relative expression of olfactory receptors can be quantified by RNA sequencing. We investigated the olfactory transcriptome of zebrafish because : i of its phylogenetic location in the vertebrate tree ii it has only one olfactory organ yet it has representatives of all the mammalian chemosensory receptor families iii its biology is well known iv is a commonly used model organism and it is suitable for subsequent functional analysis.         SAMEA2168447 SC ArrayExpress Genotype:Wildtype|ArrayExpress OrganismPart:Olfactory epithelium|ArrayExpress Sex:male|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2013 11 25T10:18:08Z|ENA LAST UPDATE:2018 03 08T16:38:13Z|External Id:SAMEA2168447|INSDC center name:SC|INSDC first public:2013 11 25T10:18:08Z|INSDC last update:2018 03 08T16:38:13Z|INSDC status:public|Submitter Id:ZF OE2 sc 2013 08 12T10:36:20Z 1677720|common name:zebrafish|sample description:RNA from OE|sample name:ZF OE2 sc 2013 08 12T10:36:20Z 1677720|scientific name:Danio rerio                 Illumina HiSeq 2000 paired end sequencing SC EXP 10586 1#2 7941067 Illumina sequencing of library 7941067 constructed from sample accession ERS337051 for study accession ERP003756. This is part of an Illumina multiplexed sequencing run 10586 1. This submission includes reads tagged with the sequence CGATGT. Illumina cDNA protocol   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000   ERP003756 Illumina HiSeq 2000 paired end sequencing ENA FIRST PUBLIC:2013 11 25|ENA LAST UPDATE:2018 11 16 10586_1#2.cram cram 10636681200.0 53183406.0 SC RUN 10586 1#2 0:100 1:100 A:3088549841;C:2244455059;G:2232424530;T:3058125106;N:13126664 100 100     3088549841 2244455059 2232424530 3058125106 13126664 ERX348122 ERS337051 ERA267455 SC Wellcome Sanger Institute 2 0.9134 0.91251 0.15433 0.154 0.66849 0.66949 0.52089 0.53096 100 100 B B biological fallback assumption illumina hiseq_era unknown cdna_unspecified unknown bulk unknown unknown   United Kingdom 2013-11-25 Undetermined Undetermined Brain Nervous System
10175 10175 ERR375744 ERX348121 ERS337050 ERP003756 PRJEB4464 Zebrafish olfactory transcriptomics Zebrafish_olfactory_transcriptomics-sc-2013-08-12T10:32:48Z-2742 Transcriptome Analysis The olfactory gene repertoire is largely species specific shaped by the nature and necessity of chemosensory information for survival in each species' niche. The relative expression of olfactory receptors can be quantified by RNA sequencing. We investigated the olfactory transcriptome of zebrafish because : i of its phylogenetic location in the vertebrate tree ii it has only one olfactory organ yet it has representatives of all the mammalian chemosensory receptor families iii its biology is well known iv is a commonly used model organism and it is suitable for subsequent functional analysis.         SAMEA2168446 SC ArrayExpress Genotype:Wildtype|ArrayExpress OrganismPart:Olfactory epithelium|ArrayExpress Sex:male|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2013 11 25T10:18:08Z|ENA LAST UPDATE:2018 03 08T16:38:06Z|External Id:SAMEA2168446|INSDC center name:SC|INSDC first public:2013 11 25T10:18:08Z|INSDC last update:2018 03 08T16:38:06Z|INSDC status:public|Submitter Id:ZF OE1 sc 2013 08 12T10:36:17Z 1677719|common name:zebrafish|sample description:RNA from OE|sample name:ZF OE1 sc 2013 08 12T10:36:17Z 1677719|scientific name:Danio rerio                 Illumina HiSeq 2000 paired end sequencing SC EXP 10586 1#1 7941066 Illumina sequencing of library 7941066 constructed from sample accession ERS337050 for study accession ERP003756. This is part of an Illumina multiplexed sequencing run 10586 1. This submission includes reads tagged with the sequence ATCACG. Illumina cDNA protocol   RNA-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina HiSeq 2000   ERP003756 Illumina HiSeq 2000 paired end sequencing ENA FIRST PUBLIC:2013 11 25|ENA LAST UPDATE:2018 11 16 10586_1#1.cram cram 10534775800.0 52673879.0 SC RUN 10586 1#1 0:100 1:100 A:3069581091;C:2219273001;G:2202030288;T:3030929981;N:12961439 100 100     3069581091 2219273001 2202030288 3030929981 12961439 ERX348121 ERS337050 ERA267455 SC Wellcome Sanger Institute 2 0.91028 0.90986 0.15668 0.15607 0.67456 0.67472 0.52998 0.49845 100 100 B B biological fallback assumption illumina hiseq_era unknown cdna_unspecified unknown bulk unknown unknown   United Kingdom 2013-11-25 Undetermined Undetermined Brain Nervous System
19221 19221 ERR14935135 ERX14339377 ERS24360099 ERP166068 PRJEB82358 Human gene duplications 53f6d331-4985-4b69-8ac3-a57d010118dd Other Duplicated genes expanded in the human lineage likely contributed to brain evolution yet challenges exist in their discovery due to sequence assembly errors. We used a complete telomere to telomere genome sequence to identify 213 human specific gene families. From these 362 paralogs were found in all modern human genomes tested and brain transcriptomes making them top candidates contributing to human universal brain features. Choosing a subset of paralogs we used long read DNA sequencing of hundreds of modern humans to reveal previously hidden signatures of selection. To understand their roles in brain development we generated zebrafish CRISPR “knockout” models of nine orthologs and introduced mRNA encoding paralogs effectively “humanizing” larvae. Our findings implicate two new genes in possibly contributing to hallmark features of the human brain: GPR89B in dosage mediated brain expansion and FRMPD2B in altered synapse signaling. Our holistic approach provides new insights and a comprehensive resource for studying gene expansion drivers of human brain evolution. ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23   Single cell RNA sequencing of zebrafish heads from well H06 Humanized Plate 1 Well H06 SAMEA118225022 UNIVERSITY OF CALIFORNIA - DAVIS ENA first public:2025 05 23|INSDC center name:UNIVERSITY OF CALIFORNIA DAVIS|INSDC status:public|Submitter Id:Sample HUM1 H06|collection date:2022 11 14|common name:zebrafish|dev stage:72 hpf|geographic location country and/or sea:USA|sample name:Sample HUM1 H06|scientific name:Danio rerio                 Raw reads: Sample HUM1 H06 webin reads Sample HUM1 H06   unspecified   ENA STATUS ID:4 RNA-Seq TRANSCRIPTOMIC SINGLE CELL cDNA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP166068 Raw reads: Sample HUM1 H06 ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23 H06.R1.fastq.gz H06.R2.fastq.gz fastq fastq 168135000.0 560450.0 webin reads Sample HUM1 H06 0:150 1:150 A:49336993;C:19637394;G:50002867;T:49156187;N:1559 150 150     49336993 19637394 50002867 49156187 1559 ERX14339377 ERS24360099 ERA33113052 UNIVERSITY OF CALIFORNIA - DAVIS|European Nucleotide Archive UNIVERSITY OF CALIFORNIA - DAVIS                       B B mate1-mate2 similar by mapping diff illumina novaseq_era unknown poly_a unknown sc single_cell_generic generic-scrnaseq-only   United States 2025-05-23 Larval Larval Head Nervous System
19222 19222 ERR14934924 ERX14339166 ERS24360038 ERP166068 PRJEB82358 Human gene duplications 53f6d331-4985-4b69-8ac3-a57d010118dd Other Duplicated genes expanded in the human lineage likely contributed to brain evolution yet challenges exist in their discovery due to sequence assembly errors. We used a complete telomere to telomere genome sequence to identify 213 human specific gene families. From these 362 paralogs were found in all modern human genomes tested and brain transcriptomes making them top candidates contributing to human universal brain features. Choosing a subset of paralogs we used long read DNA sequencing of hundreds of modern humans to reveal previously hidden signatures of selection. To understand their roles in brain development we generated zebrafish CRISPR “knockout” models of nine orthologs and introduced mRNA encoding paralogs effectively “humanizing” larvae. Our findings implicate two new genes in possibly contributing to hallmark features of the human brain: GPR89B in dosage mediated brain expansion and FRMPD2B in altered synapse signaling. Our holistic approach provides new insights and a comprehensive resource for studying gene expansion drivers of human brain evolution. ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23   Single cell RNA sequencing of zebrafish heads from well C05 Humanized Plate 1 Well C05 SAMEA118224961 UNIVERSITY OF CALIFORNIA - DAVIS ENA first public:2025 05 23|INSDC center name:UNIVERSITY OF CALIFORNIA DAVIS|INSDC status:public|Submitter Id:Sample HUM1 C05|collection date:2022 11 14|common name:zebrafish|dev stage:72 hpf|geographic location country and/or sea:USA|sample name:Sample HUM1 C05|scientific name:Danio rerio                 Raw reads: Sample HUM1 C05 webin reads Sample HUM1 C05   unspecified   ENA STATUS ID:4 RNA-Seq TRANSCRIPTOMIC SINGLE CELL cDNA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP166068 Raw reads: Sample HUM1 C05 ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23 C05.R1.fastq.gz C05.R2.fastq.gz fastq fastq 406863000.0 1356210.0 webin reads Sample HUM1 C05 0:150 1:150 A:135043675;C:48707343;G:87607964;T:135501103;N:2915 150 150     135043675 48707343 87607964 135501103 2915 ERX14339166 ERS24360038 ERA33112290 UNIVERSITY OF CALIFORNIA - DAVIS|European Nucleotide Archive UNIVERSITY OF CALIFORNIA - DAVIS                       B B mate1-mate2 similar by mapping diff illumina novaseq_era unknown poly_a unknown sc single_cell_generic generic-scrnaseq-only   United States 2025-05-23 Larval Larval Head Nervous System
19223 19223 ERR14934974 ERX14339216 ERS24360047 ERP166068 PRJEB82358 Human gene duplications 53f6d331-4985-4b69-8ac3-a57d010118dd Other Duplicated genes expanded in the human lineage likely contributed to brain evolution yet challenges exist in their discovery due to sequence assembly errors. We used a complete telomere to telomere genome sequence to identify 213 human specific gene families. From these 362 paralogs were found in all modern human genomes tested and brain transcriptomes making them top candidates contributing to human universal brain features. Choosing a subset of paralogs we used long read DNA sequencing of hundreds of modern humans to reveal previously hidden signatures of selection. To understand their roles in brain development we generated zebrafish CRISPR “knockout” models of nine orthologs and introduced mRNA encoding paralogs effectively “humanizing” larvae. Our findings implicate two new genes in possibly contributing to hallmark features of the human brain: GPR89B in dosage mediated brain expansion and FRMPD2B in altered synapse signaling. Our holistic approach provides new insights and a comprehensive resource for studying gene expansion drivers of human brain evolution. ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23   Single cell RNA sequencing of zebrafish heads from well D02 Humanized Plate 1 Well D02 SAMEA118224970 UNIVERSITY OF CALIFORNIA - DAVIS ENA first public:2025 05 23|INSDC center name:UNIVERSITY OF CALIFORNIA DAVIS|INSDC status:public|Submitter Id:Sample HUM1 D02|collection date:2022 11 14|common name:zebrafish|dev stage:72 hpf|geographic location country and/or sea:USA|sample name:Sample HUM1 D02|scientific name:Danio rerio                 Raw reads: Sample HUM1 D02 webin reads Sample HUM1 D02   unspecified   ENA STATUS ID:4 RNA-Seq TRANSCRIPTOMIC SINGLE CELL cDNA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP166068 Raw reads: Sample HUM1 D02 ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23 D02.R1.fastq.gz D02.R2.fastq.gz fastq fastq 231350700.0 771169.0 webin reads Sample HUM1 D02 0:150 1:150 A:61554211;C:27195025;G:82686912;T:59912853;N:1699 150 150     61554211 27195025 82686912 59912853 1699 ERX14339216 ERS24360047 ERA33112492 UNIVERSITY OF CALIFORNIA - DAVIS|European Nucleotide Archive UNIVERSITY OF CALIFORNIA - DAVIS                       T T mates < 9% mapping rate illumina novaseq_era unknown poly_a unknown sc single_cell_generic generic-scrnaseq-only   United States 2025-05-23 Larval Larval Head Nervous System
19224 19224 ERR14937148 ERX14341392 ERS24422818 ERP166068 PRJEB82358 Human gene duplications 53f6d331-4985-4b69-8ac3-a57d010118dd Other Duplicated genes expanded in the human lineage likely contributed to brain evolution yet challenges exist in their discovery due to sequence assembly errors. We used a complete telomere to telomere genome sequence to identify 213 human specific gene families. From these 362 paralogs were found in all modern human genomes tested and brain transcriptomes making them top candidates contributing to human universal brain features. Choosing a subset of paralogs we used long read DNA sequencing of hundreds of modern humans to reveal previously hidden signatures of selection. To understand their roles in brain development we generated zebrafish CRISPR “knockout” models of nine orthologs and introduced mRNA encoding paralogs effectively “humanizing” larvae. Our findings implicate two new genes in possibly contributing to hallmark features of the human brain: GPR89B in dosage mediated brain expansion and FRMPD2B in altered synapse signaling. Our holistic approach provides new insights and a comprehensive resource for studying gene expansion drivers of human brain evolution. ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23   Single cell RNA sequencing of zebrafish heads from well G07 Humanized Plate 2 Well G07 SAMEA118242644 UNIVERSITY OF CALIFORNIA - DAVIS ENA first public:2025 05 23|INSDC center name:UNIVERSITY OF CALIFORNIA DAVIS|INSDC status:public|Submitter Id:Sample HUM2 G07|collection date:2022 12 21|common name:zebrafish|dev stage:72 hpf|geographic location country and/or sea:USA|sample name:Sample HUM2 G07|scientific name:Danio rerio                 Raw reads: Sample HUM2 G07 webin reads Sample HUM2 G07   unspecified   ENA STATUS ID:4 RNA-Seq TRANSCRIPTOMIC SINGLE CELL cDNA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP166068 Raw reads: Sample HUM2 G07 ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23 G07.R1.fastq.gz G07.R2.fastq.gz fastq fastq 1858827300.0 6196091.0 webin reads Sample HUM2 G07 0:150 1:150 A:377243729;C:275647713;G:834077378;T:371849924;N:8556 150 150     377243729 275647713 834077378 371849924 8556 ERX14341392 ERS24422818 ERA33115718 UNIVERSITY OF CALIFORNIA - DAVIS|European Nucleotide Archive UNIVERSITY OF CALIFORNIA - DAVIS                       T T mates < 9% mapping rate illumina novaseq_era unknown poly_a unknown sc single_cell_generic generic-scrnaseq-only   United States 2025-05-23 Larval Larval Head Nervous System
19225 19225 ERR14935143 ERX14339385 ERS24360101 ERP166068 PRJEB82358 Human gene duplications 53f6d331-4985-4b69-8ac3-a57d010118dd Other Duplicated genes expanded in the human lineage likely contributed to brain evolution yet challenges exist in their discovery due to sequence assembly errors. We used a complete telomere to telomere genome sequence to identify 213 human specific gene families. From these 362 paralogs were found in all modern human genomes tested and brain transcriptomes making them top candidates contributing to human universal brain features. Choosing a subset of paralogs we used long read DNA sequencing of hundreds of modern humans to reveal previously hidden signatures of selection. To understand their roles in brain development we generated zebrafish CRISPR “knockout” models of nine orthologs and introduced mRNA encoding paralogs effectively “humanizing” larvae. Our findings implicate two new genes in possibly contributing to hallmark features of the human brain: GPR89B in dosage mediated brain expansion and FRMPD2B in altered synapse signaling. Our holistic approach provides new insights and a comprehensive resource for studying gene expansion drivers of human brain evolution. ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23   Single cell RNA sequencing of zebrafish heads from well H08 Humanized Plate 1 Well H08 SAMEA118225024 UNIVERSITY OF CALIFORNIA - DAVIS ENA first public:2025 05 23|INSDC center name:UNIVERSITY OF CALIFORNIA DAVIS|INSDC status:public|Submitter Id:Sample HUM1 H08|collection date:2022 11 14|common name:zebrafish|dev stage:72 hpf|geographic location country and/or sea:USA|sample name:Sample HUM1 H08|scientific name:Danio rerio                 Raw reads: Sample HUM1 H08 webin reads Sample HUM1 H08   unspecified   ENA STATUS ID:4 RNA-Seq TRANSCRIPTOMIC SINGLE CELL cDNA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP166068 Raw reads: Sample HUM1 H08 ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23 H08.R1.fastq.gz H08.R2.fastq.gz fastq fastq 104513100.0 348377.0 webin reads Sample HUM1 H08 0:150 1:150 A:24551652;C:12552824;G:43587381;T:23820238;N:1005 150 150     24551652 12552824 43587381 23820238 1005 ERX14339385 ERS24360101 ERA33113082 UNIVERSITY OF CALIFORNIA - DAVIS|European Nucleotide Archive UNIVERSITY OF CALIFORNIA - DAVIS                       T T mates < 9% mapping rate illumina novaseq_era unknown poly_a unknown sc single_cell_generic generic-scrnaseq-only   United States 2025-05-23 Larval Larval Head Nervous System
19226 19226 ERR14936904 ERX14341146 ERS24422763 ERP166068 PRJEB82358 Human gene duplications 53f6d331-4985-4b69-8ac3-a57d010118dd Other Duplicated genes expanded in the human lineage likely contributed to brain evolution yet challenges exist in their discovery due to sequence assembly errors. We used a complete telomere to telomere genome sequence to identify 213 human specific gene families. From these 362 paralogs were found in all modern human genomes tested and brain transcriptomes making them top candidates contributing to human universal brain features. Choosing a subset of paralogs we used long read DNA sequencing of hundreds of modern humans to reveal previously hidden signatures of selection. To understand their roles in brain development we generated zebrafish CRISPR “knockout” models of nine orthologs and introduced mRNA encoding paralogs effectively “humanizing” larvae. Our findings implicate two new genes in possibly contributing to hallmark features of the human brain: GPR89B in dosage mediated brain expansion and FRMPD2B in altered synapse signaling. Our holistic approach provides new insights and a comprehensive resource for studying gene expansion drivers of human brain evolution. ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23   Single cell RNA sequencing of zebrafish heads from well B12 Humanized Plate 2 Well B12 SAMEA118242589 UNIVERSITY OF CALIFORNIA - DAVIS ENA first public:2025 05 23|INSDC center name:UNIVERSITY OF CALIFORNIA DAVIS|INSDC status:public|Submitter Id:Sample HUM2 B12|collection date:2022 12 21|common name:zebrafish|dev stage:72 hpf|geographic location country and/or sea:USA|sample name:Sample HUM2 B12|scientific name:Danio rerio                 Raw reads: Sample HUM2 B12 webin reads Sample HUM2 B12   unspecified   ENA STATUS ID:4 RNA-Seq TRANSCRIPTOMIC SINGLE CELL cDNA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP166068 Raw reads: Sample HUM2 B12 ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23 B12.R1.fastq.gz B12.R2.fastq.gz fastq fastq 14783024100.0 49276747.0 webin reads Sample HUM2 B12 0:150 1:150 A:4993941125;C:1900193626;G:3694935207;T:4193880937;N:73205 150 150     4993941125 1900193626 3694935207 4193880937 73205 ERX14341146 ERS24422763 ERA33115587 UNIVERSITY OF CALIFORNIA - DAVIS|European Nucleotide Archive UNIVERSITY OF CALIFORNIA - DAVIS                       T T mates < 9% mapping rate illumina novaseq_era unknown poly_a unknown sc single_cell_generic generic-scrnaseq-only   United States 2025-05-23 Larval Larval Head Nervous System
19227 19227 ERR14935120 ERX14339362 ERS24360094 ERP166068 PRJEB82358 Human gene duplications 53f6d331-4985-4b69-8ac3-a57d010118dd Other Duplicated genes expanded in the human lineage likely contributed to brain evolution yet challenges exist in their discovery due to sequence assembly errors. We used a complete telomere to telomere genome sequence to identify 213 human specific gene families. From these 362 paralogs were found in all modern human genomes tested and brain transcriptomes making them top candidates contributing to human universal brain features. Choosing a subset of paralogs we used long read DNA sequencing of hundreds of modern humans to reveal previously hidden signatures of selection. To understand their roles in brain development we generated zebrafish CRISPR “knockout” models of nine orthologs and introduced mRNA encoding paralogs effectively “humanizing” larvae. Our findings implicate two new genes in possibly contributing to hallmark features of the human brain: GPR89B in dosage mediated brain expansion and FRMPD2B in altered synapse signaling. Our holistic approach provides new insights and a comprehensive resource for studying gene expansion drivers of human brain evolution. ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23   Single cell RNA sequencing of zebrafish heads from well H01 Humanized Plate 1 Well H01 SAMEA118225017 UNIVERSITY OF CALIFORNIA - DAVIS ENA first public:2025 05 23|INSDC center name:UNIVERSITY OF CALIFORNIA DAVIS|INSDC status:public|Submitter Id:Sample HUM1 H01|collection date:2022 11 14|common name:zebrafish|dev stage:72 hpf|geographic location country and/or sea:USA|sample name:Sample HUM1 H01|scientific name:Danio rerio                 Raw reads: Sample HUM1 H01 webin reads Sample HUM1 H01   unspecified   ENA STATUS ID:4 RNA-Seq TRANSCRIPTOMIC SINGLE CELL cDNA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP166068 Raw reads: Sample HUM1 H01 ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23 H01.R1.fastq.gz H01.R2.fastq.gz fastq fastq 214281900.0 714273.0 webin reads Sample HUM1 H01 0:150 1:150 A:63612930;C:24945238;G:64455038;T:61267490;N:1204 150 150     63612930 24945238 64455038 61267490 1204 ERX14339362 ERS24360094 ERA33112989 UNIVERSITY OF CALIFORNIA - DAVIS|European Nucleotide Archive UNIVERSITY OF CALIFORNIA - DAVIS                       B B biological fallback assumption illumina novaseq_era unknown poly_a unknown sc single_cell_generic generic-scrnaseq-only   United States 2025-05-23 Larval Larval Head Nervous System
19228 19228 ERR14935021 ERX14339263 ERS24360064 ERP166068 PRJEB82358 Human gene duplications 53f6d331-4985-4b69-8ac3-a57d010118dd Other Duplicated genes expanded in the human lineage likely contributed to brain evolution yet challenges exist in their discovery due to sequence assembly errors. We used a complete telomere to telomere genome sequence to identify 213 human specific gene families. From these 362 paralogs were found in all modern human genomes tested and brain transcriptomes making them top candidates contributing to human universal brain features. Choosing a subset of paralogs we used long read DNA sequencing of hundreds of modern humans to reveal previously hidden signatures of selection. To understand their roles in brain development we generated zebrafish CRISPR “knockout” models of nine orthologs and introduced mRNA encoding paralogs effectively “humanizing” larvae. Our findings implicate two new genes in possibly contributing to hallmark features of the human brain: GPR89B in dosage mediated brain expansion and FRMPD2B in altered synapse signaling. Our holistic approach provides new insights and a comprehensive resource for studying gene expansion drivers of human brain evolution. ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23   Single cell RNA sequencing of zebrafish heads from well E07 Humanized Plate 1 Well E07 SAMEA118224987 UNIVERSITY OF CALIFORNIA - DAVIS ENA first public:2025 05 23|INSDC center name:UNIVERSITY OF CALIFORNIA DAVIS|INSDC status:public|Submitter Id:Sample HUM1 E07|collection date:2022 11 14|common name:zebrafish|dev stage:72 hpf|geographic location country and/or sea:USA|sample name:Sample HUM1 E07|scientific name:Danio rerio                 Raw reads: Sample HUM1 E07 webin reads Sample HUM1 E07   unspecified   ENA STATUS ID:4 RNA-Seq TRANSCRIPTOMIC SINGLE CELL cDNA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP166068 Raw reads: Sample HUM1 E07 ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23 E07.R1.fastq.gz E07.R2.fastq.gz fastq fastq 274863600.0 916212.0 webin reads Sample HUM1 E07 0:150 1:150 A:89634361;C:31803602;G:65721376;T:87702420;N:1841 150 150     89634361 31803602 65721376 87702420 1841 ERX14339263 ERS24360064 ERA33112659 UNIVERSITY OF CALIFORNIA - DAVIS|European Nucleotide Archive UNIVERSITY OF CALIFORNIA - DAVIS                       B B mate1-mate2 similar by mapping diff illumina novaseq_era unknown poly_a unknown sc single_cell_generic generic-scrnaseq-only   United States 2025-05-23 Larval Larval Head Nervous System
19229 19229 ERR14950666 ERX14354790 ERS24422897 ERP166068 PRJEB82358 Human gene duplications 53f6d331-4985-4b69-8ac3-a57d010118dd Other Duplicated genes expanded in the human lineage likely contributed to brain evolution yet challenges exist in their discovery due to sequence assembly errors. We used a complete telomere to telomere genome sequence to identify 213 human specific gene families. From these 362 paralogs were found in all modern human genomes tested and brain transcriptomes making them top candidates contributing to human universal brain features. Choosing a subset of paralogs we used long read DNA sequencing of hundreds of modern humans to reveal previously hidden signatures of selection. To understand their roles in brain development we generated zebrafish CRISPR “knockout” models of nine orthologs and introduced mRNA encoding paralogs effectively “humanizing” larvae. Our findings implicate two new genes in possibly contributing to hallmark features of the human brain: GPR89B in dosage mediated brain expansion and FRMPD2B in altered synapse signaling. Our holistic approach provides new insights and a comprehensive resource for studying gene expansion drivers of human brain evolution. ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23   Single cell RNA sequencing of zebrafish heads from well C09 Knockout Plate Well C09 SAMEA118242723 UNIVERSITY OF CALIFORNIA - DAVIS ENA first public:2025 05 23|INSDC center name:UNIVERSITY OF CALIFORNIA DAVIS|INSDC status:public|Submitter Id:Sample KO C09|collection date:2022 05 13|common name:zebrafish|dev stage:72 hpf|geographic location country and/or sea:USA|sample name:Sample KO C09|scientific name:Danio rerio                 Raw reads: Sample KO C09 webin reads Sample KO C09   unspecified   ENA STATUS ID:4 RNA-Seq TRANSCRIPTOMIC SINGLE CELL cDNA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP166068 Raw reads: Sample KO C09 ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23 C09.R1.fastq.gz C09.R2.fastq.gz fastq fastq 12910892700.0 43036309.0 webin reads Sample KO C09 0:150 1:150 A:4656205100;C:1791783755;G:2065221420;T:4397579948;N:102477 150 150     4656205100 1791783755 2065221420 4397579948 102477 ERX14354790 ERS24422897 ERA33121161 UNIVERSITY OF CALIFORNIA - DAVIS|European Nucleotide Archive UNIVERSITY OF CALIFORNIA - DAVIS                       B B biological fallback assumption illumina novaseq_era unknown poly_a unknown sc single_cell_generic generic-scrnaseq-only   United States 2025-05-23 Larval Larval Head Nervous System
19230 19230 ERR14936878 ERX14341120 ERS24422755 ERP166068 PRJEB82358 Human gene duplications 53f6d331-4985-4b69-8ac3-a57d010118dd Other Duplicated genes expanded in the human lineage likely contributed to brain evolution yet challenges exist in their discovery due to sequence assembly errors. We used a complete telomere to telomere genome sequence to identify 213 human specific gene families. From these 362 paralogs were found in all modern human genomes tested and brain transcriptomes making them top candidates contributing to human universal brain features. Choosing a subset of paralogs we used long read DNA sequencing of hundreds of modern humans to reveal previously hidden signatures of selection. To understand their roles in brain development we generated zebrafish CRISPR “knockout” models of nine orthologs and introduced mRNA encoding paralogs effectively “humanizing” larvae. Our findings implicate two new genes in possibly contributing to hallmark features of the human brain: GPR89B in dosage mediated brain expansion and FRMPD2B in altered synapse signaling. Our holistic approach provides new insights and a comprehensive resource for studying gene expansion drivers of human brain evolution. ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23   Single cell RNA sequencing of zebrafish heads from well B04 Humanized Plate 2 Well B04 SAMEA118242581 UNIVERSITY OF CALIFORNIA - DAVIS ENA first public:2025 05 23|INSDC center name:UNIVERSITY OF CALIFORNIA DAVIS|INSDC status:public|Submitter Id:Sample HUM2 B04|collection date:2022 12 21|common name:zebrafish|dev stage:72 hpf|geographic location country and/or sea:USA|sample name:Sample HUM2 B04|scientific name:Danio rerio                 Raw reads: Sample HUM2 B04 webin reads Sample HUM2 B04   unspecified   ENA STATUS ID:4 RNA-Seq TRANSCRIPTOMIC SINGLE CELL cDNA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP166068 Raw reads: Sample HUM2 B04 ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23 B04.R1.fastq.gz B04.R2.fastq.gz fastq fastq 2614344300.0 8714481.0 webin reads Sample HUM2 B04 0:150 1:150 A:495532634;C:388504084;G:1222436337;T:507858943;N:12302 150 150     495532634 388504084 1222436337 507858943 12302 ERX14341120 ERS24422755 ERA33115558 UNIVERSITY OF CALIFORNIA - DAVIS|European Nucleotide Archive UNIVERSITY OF CALIFORNIA - DAVIS                       T T mates < 9% mapping rate illumina novaseq_era unknown poly_a unknown sc single_cell_generic generic-scrnaseq-only   United States 2025-05-23 Larval Larval Head Nervous System
19231 19231 ERR14950561 ERX14354685 ERS24422871 ERP166068 PRJEB82358 Human gene duplications 53f6d331-4985-4b69-8ac3-a57d010118dd Other Duplicated genes expanded in the human lineage likely contributed to brain evolution yet challenges exist in their discovery due to sequence assembly errors. We used a complete telomere to telomere genome sequence to identify 213 human specific gene families. From these 362 paralogs were found in all modern human genomes tested and brain transcriptomes making them top candidates contributing to human universal brain features. Choosing a subset of paralogs we used long read DNA sequencing of hundreds of modern humans to reveal previously hidden signatures of selection. To understand their roles in brain development we generated zebrafish CRISPR “knockout” models of nine orthologs and introduced mRNA encoding paralogs effectively “humanizing” larvae. Our findings implicate two new genes in possibly contributing to hallmark features of the human brain: GPR89B in dosage mediated brain expansion and FRMPD2B in altered synapse signaling. Our holistic approach provides new insights and a comprehensive resource for studying gene expansion drivers of human brain evolution. ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23   Single cell RNA sequencing of zebrafish heads from well A07 Knockout Plate Well A07 SAMEA118242697 UNIVERSITY OF CALIFORNIA - DAVIS ENA first public:2025 05 23|INSDC center name:UNIVERSITY OF CALIFORNIA DAVIS|INSDC status:public|Submitter Id:Sample KO A07|collection date:2022 05 13|common name:zebrafish|dev stage:72 hpf|geographic location country and/or sea:USA|sample name:Sample KO A07|scientific name:Danio rerio                 Raw reads: Sample KO A07 webin reads Sample KO A07   unspecified   ENA STATUS ID:4 RNA-Seq TRANSCRIPTOMIC SINGLE CELL cDNA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP166068 Raw reads: Sample KO A07 ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23 A07.R1.fastq.gz A07.R2.fastq.gz fastq fastq 3401128800.0 11337096.0 webin reads Sample KO A07 0:150 1:150 A:1234869505;C:459023584;G:579824655;T:1127383390;N:27666 150 150     1234869505 459023584 579824655 1127383390 27666 ERX14354685 ERS24422871 ERA33121056 UNIVERSITY OF CALIFORNIA - DAVIS|European Nucleotide Archive UNIVERSITY OF CALIFORNIA - DAVIS                       B B biological fallback assumption illumina novaseq_era unknown poly_a unknown sc single_cell_generic generic-scrnaseq-only   United States 2025-05-23 Larval Larval Head Nervous System
19232 19232 ERR14936823 ERX14341065 ERS24422746 ERP166068 PRJEB82358 Human gene duplications 53f6d331-4985-4b69-8ac3-a57d010118dd Other Duplicated genes expanded in the human lineage likely contributed to brain evolution yet challenges exist in their discovery due to sequence assembly errors. We used a complete telomere to telomere genome sequence to identify 213 human specific gene families. From these 362 paralogs were found in all modern human genomes tested and brain transcriptomes making them top candidates contributing to human universal brain features. Choosing a subset of paralogs we used long read DNA sequencing of hundreds of modern humans to reveal previously hidden signatures of selection. To understand their roles in brain development we generated zebrafish CRISPR “knockout” models of nine orthologs and introduced mRNA encoding paralogs effectively “humanizing” larvae. Our findings implicate two new genes in possibly contributing to hallmark features of the human brain: GPR89B in dosage mediated brain expansion and FRMPD2B in altered synapse signaling. Our holistic approach provides new insights and a comprehensive resource for studying gene expansion drivers of human brain evolution. ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23   Single cell RNA sequencing of zebrafish heads from well A07 Humanized Plate 2 Well A07 SAMEA118242572 UNIVERSITY OF CALIFORNIA - DAVIS ENA first public:2025 05 23|INSDC center name:UNIVERSITY OF CALIFORNIA DAVIS|INSDC status:public|Submitter Id:Sample HUM2 A07|collection date:2022 12 21|common name:zebrafish|dev stage:72 hpf|geographic location country and/or sea:USA|sample name:Sample HUM2 A07|scientific name:Danio rerio                 Raw reads: Sample HUM2 A07 webin reads Sample HUM2 A07   unspecified   ENA STATUS ID:4 RNA-Seq TRANSCRIPTOMIC SINGLE CELL cDNA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP166068 Raw reads: Sample HUM2 A07 ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23 A07.R1.fastq.gz A07.R2.fastq.gz fastq fastq 3778502100.0 12595007.0 webin reads Sample HUM2 A07 0:150 1:150 A:710336891;C:494217522;G:1880968771;T:692961837;N:17079 150 150     710336891 494217522 1880968771 692961837 17079 ERX14341065 ERS24422746 ERA33115511 UNIVERSITY OF CALIFORNIA - DAVIS|European Nucleotide Archive UNIVERSITY OF CALIFORNIA - DAVIS                       T T mates < 9% mapping rate illumina novaseq_era unknown poly_a unknown sc single_cell_generic generic-scrnaseq-only   United States 2025-05-23 Larval Larval Head Nervous System
19233 19233 ERR14937143 ERX14341387 ERS24422813 ERP166068 PRJEB82358 Human gene duplications 53f6d331-4985-4b69-8ac3-a57d010118dd Other Duplicated genes expanded in the human lineage likely contributed to brain evolution yet challenges exist in their discovery due to sequence assembly errors. We used a complete telomere to telomere genome sequence to identify 213 human specific gene families. From these 362 paralogs were found in all modern human genomes tested and brain transcriptomes making them top candidates contributing to human universal brain features. Choosing a subset of paralogs we used long read DNA sequencing of hundreds of modern humans to reveal previously hidden signatures of selection. To understand their roles in brain development we generated zebrafish CRISPR “knockout” models of nine orthologs and introduced mRNA encoding paralogs effectively “humanizing” larvae. Our findings implicate two new genes in possibly contributing to hallmark features of the human brain: GPR89B in dosage mediated brain expansion and FRMPD2B in altered synapse signaling. Our holistic approach provides new insights and a comprehensive resource for studying gene expansion drivers of human brain evolution. ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23   Single cell RNA sequencing of zebrafish heads from well G02 Humanized Plate 2 Well G02 SAMEA118242639 UNIVERSITY OF CALIFORNIA - DAVIS ENA first public:2025 05 23|INSDC center name:UNIVERSITY OF CALIFORNIA DAVIS|INSDC status:public|Submitter Id:Sample HUM2 G02|collection date:2022 12 21|common name:zebrafish|dev stage:72 hpf|geographic location country and/or sea:USA|sample name:Sample HUM2 G02|scientific name:Danio rerio                 Raw reads: Sample HUM2 G02 webin reads Sample HUM2 G02   unspecified   ENA STATUS ID:4 RNA-Seq TRANSCRIPTOMIC SINGLE CELL cDNA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP166068 Raw reads: Sample HUM2 G02 ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23 G02.R1.fastq.gz G02.R2.fastq.gz fastq fastq 5962135800.0 19873786.0 webin reads Sample HUM2 G02 0:150 1:150 A:1745436521;C:821720129;G:1863789129;T:1531162608;N:27413 150 150     1745436521 821720129 1863789129 1531162608 27413 ERX14341387 ERS24422813 ERA33115710 UNIVERSITY OF CALIFORNIA - DAVIS|European Nucleotide Archive UNIVERSITY OF CALIFORNIA - DAVIS                       T T mates < 9% mapping rate illumina novaseq_era unknown poly_a unknown sc single_cell_generic generic-scrnaseq-only   United States 2025-05-23 Larval Larval Head Nervous System
19234 19234 ERR14934810 ERX14339052 ERS24360011 ERP166068 PRJEB82358 Human gene duplications 53f6d331-4985-4b69-8ac3-a57d010118dd Other Duplicated genes expanded in the human lineage likely contributed to brain evolution yet challenges exist in their discovery due to sequence assembly errors. We used a complete telomere to telomere genome sequence to identify 213 human specific gene families. From these 362 paralogs were found in all modern human genomes tested and brain transcriptomes making them top candidates contributing to human universal brain features. Choosing a subset of paralogs we used long read DNA sequencing of hundreds of modern humans to reveal previously hidden signatures of selection. To understand their roles in brain development we generated zebrafish CRISPR “knockout” models of nine orthologs and introduced mRNA encoding paralogs effectively “humanizing” larvae. Our findings implicate two new genes in possibly contributing to hallmark features of the human brain: GPR89B in dosage mediated brain expansion and FRMPD2B in altered synapse signaling. Our holistic approach provides new insights and a comprehensive resource for studying gene expansion drivers of human brain evolution. ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23   Single cell RNA sequencing of zebrafish heads from well A02 Humanized Plate 1 Well A02 SAMEA118224934 UNIVERSITY OF CALIFORNIA - DAVIS ENA first public:2025 05 23|INSDC center name:UNIVERSITY OF CALIFORNIA DAVIS|INSDC status:public|Submitter Id:Sample HUM1 A02|collection date:2022 11 14|common name:zebrafish|dev stage:72 hpf|geographic location country and/or sea:USA|sample name:Sample HUM1 A02|scientific name:Danio rerio                 Raw reads: Sample HUM1 A02 webin reads Sample HUM1 A02   unspecified   ENA STATUS ID:4 RNA-Seq TRANSCRIPTOMIC SINGLE CELL cDNA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP166068 Raw reads: Sample HUM1 A02 ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23 A02.R1.fastq.gz A02.R2.fastq.gz fastq fastq 480559200.0 1601864.0 webin reads Sample HUM1 A02 0:150 1:150 A:163177108;C:53718756;G:98835089;T:164825485;N:2762 150 150     163177108 53718756 98835089 164825485 2762 ERX14339052 ERS24360011 ERA33111955 UNIVERSITY OF CALIFORNIA - DAVIS|European Nucleotide Archive UNIVERSITY OF CALIFORNIA - DAVIS                       B B mate1-mate2 similar by mapping diff illumina novaseq_era unknown poly_a unknown sc single_cell_generic generic-scrnaseq-only   United States 2025-05-23 Larval Larval Head Nervous System
19235 19235 ERR14934984 ERX14339226 ERS24360049 ERP166068 PRJEB82358 Human gene duplications 53f6d331-4985-4b69-8ac3-a57d010118dd Other Duplicated genes expanded in the human lineage likely contributed to brain evolution yet challenges exist in their discovery due to sequence assembly errors. We used a complete telomere to telomere genome sequence to identify 213 human specific gene families. From these 362 paralogs were found in all modern human genomes tested and brain transcriptomes making them top candidates contributing to human universal brain features. Choosing a subset of paralogs we used long read DNA sequencing of hundreds of modern humans to reveal previously hidden signatures of selection. To understand their roles in brain development we generated zebrafish CRISPR “knockout” models of nine orthologs and introduced mRNA encoding paralogs effectively “humanizing” larvae. Our findings implicate two new genes in possibly contributing to hallmark features of the human brain: GPR89B in dosage mediated brain expansion and FRMPD2B in altered synapse signaling. Our holistic approach provides new insights and a comprehensive resource for studying gene expansion drivers of human brain evolution. ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23   Single cell RNA sequencing of zebrafish heads from well D04 Humanized Plate 1 Well D04 SAMEA118224972 UNIVERSITY OF CALIFORNIA - DAVIS ENA first public:2025 05 23|INSDC center name:UNIVERSITY OF CALIFORNIA DAVIS|INSDC status:public|Submitter Id:Sample HUM1 D04|collection date:2022 11 14|common name:zebrafish|dev stage:72 hpf|geographic location country and/or sea:USA|sample name:Sample HUM1 D04|scientific name:Danio rerio                 Raw reads: Sample HUM1 D04 webin reads Sample HUM1 D04   unspecified   ENA STATUS ID:4 RNA-Seq TRANSCRIPTOMIC SINGLE CELL cDNA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP166068 Raw reads: Sample HUM1 D04 ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23 D04.R1.fastq.gz D04.R2.fastq.gz fastq fastq 179225700.0 597419.0 webin reads Sample HUM1 D04 0:150 1:150 A:45457519;C:22876690;G:67395901;T:43493765;N:1825 150 150     45457519 22876690 67395901 43493765 1825 ERX14339226 ERS24360049 ERA33112537 UNIVERSITY OF CALIFORNIA - DAVIS|European Nucleotide Archive UNIVERSITY OF CALIFORNIA - DAVIS                       B B biological fallback assumption illumina novaseq_era unknown poly_a unknown sc single_cell_generic generic-scrnaseq-only   United States 2025-05-23 Larval Larval Head Nervous System
19236 19236 ERR14934845 ERX14339087 ERS24360021 ERP166068 PRJEB82358 Human gene duplications 53f6d331-4985-4b69-8ac3-a57d010118dd Other Duplicated genes expanded in the human lineage likely contributed to brain evolution yet challenges exist in their discovery due to sequence assembly errors. We used a complete telomere to telomere genome sequence to identify 213 human specific gene families. From these 362 paralogs were found in all modern human genomes tested and brain transcriptomes making them top candidates contributing to human universal brain features. Choosing a subset of paralogs we used long read DNA sequencing of hundreds of modern humans to reveal previously hidden signatures of selection. To understand their roles in brain development we generated zebrafish CRISPR “knockout” models of nine orthologs and introduced mRNA encoding paralogs effectively “humanizing” larvae. Our findings implicate two new genes in possibly contributing to hallmark features of the human brain: GPR89B in dosage mediated brain expansion and FRMPD2B in altered synapse signaling. Our holistic approach provides new insights and a comprehensive resource for studying gene expansion drivers of human brain evolution. ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23   Single cell RNA sequencing of zebrafish heads from well A12 Humanized Plate 1 Well A12 SAMEA118224944 UNIVERSITY OF CALIFORNIA - DAVIS ENA first public:2025 05 23|INSDC center name:UNIVERSITY OF CALIFORNIA DAVIS|INSDC status:public|Submitter Id:Sample HUM1 A12|collection date:2022 11 14|common name:zebrafish|dev stage:72 hpf|geographic location country and/or sea:USA|sample name:Sample HUM1 A12|scientific name:Danio rerio                 Raw reads: Sample HUM1 A12 webin reads Sample HUM1 A12   unspecified   ENA STATUS ID:4 RNA-Seq TRANSCRIPTOMIC SINGLE CELL cDNA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP166068 Raw reads: Sample HUM1 A12 ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23 A12.R1.fastq.gz A12.R2.fastq.gz fastq fastq 77425200.0 258084.0 webin reads Sample HUM1 A12 0:150 1:150 A:16644810;C:10391814;G:34720928;T:15667259;N:389 150 150     16644810 10391814 34720928 15667259 389 ERX14339087 ERS24360021 ERA33112104 UNIVERSITY OF CALIFORNIA - DAVIS|European Nucleotide Archive UNIVERSITY OF CALIFORNIA - DAVIS                       T T mates < 9% mapping rate illumina novaseq_era unknown poly_a unknown sc single_cell_generic generic-scrnaseq-only   United States 2025-05-23 Larval Larval Head Nervous System
19237 19237 ERR14934855 ERX14339097 ERS24360024 ERP166068 PRJEB82358 Human gene duplications 53f6d331-4985-4b69-8ac3-a57d010118dd Other Duplicated genes expanded in the human lineage likely contributed to brain evolution yet challenges exist in their discovery due to sequence assembly errors. We used a complete telomere to telomere genome sequence to identify 213 human specific gene families. From these 362 paralogs were found in all modern human genomes tested and brain transcriptomes making them top candidates contributing to human universal brain features. Choosing a subset of paralogs we used long read DNA sequencing of hundreds of modern humans to reveal previously hidden signatures of selection. To understand their roles in brain development we generated zebrafish CRISPR “knockout” models of nine orthologs and introduced mRNA encoding paralogs effectively “humanizing” larvae. Our findings implicate two new genes in possibly contributing to hallmark features of the human brain: GPR89B in dosage mediated brain expansion and FRMPD2B in altered synapse signaling. Our holistic approach provides new insights and a comprehensive resource for studying gene expansion drivers of human brain evolution. ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23   Single cell RNA sequencing of zebrafish heads from well B03 Humanized Plate 1 Well B03 SAMEA118224947 UNIVERSITY OF CALIFORNIA - DAVIS ENA first public:2025 05 23|INSDC center name:UNIVERSITY OF CALIFORNIA DAVIS|INSDC status:public|Submitter Id:Sample HUM1 B03|collection date:2022 11 14|common name:zebrafish|dev stage:72 hpf|geographic location country and/or sea:USA|sample name:Sample HUM1 B03|scientific name:Danio rerio                 Raw reads: Sample HUM1 B03 webin reads Sample HUM1 B03   unspecified   ENA STATUS ID:4 RNA-Seq TRANSCRIPTOMIC SINGLE CELL cDNA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP166068 Raw reads: Sample HUM1 B03 ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23 B03.R1.fastq.gz B03.R2.fastq.gz fastq fastq 94155000.0 313850.0 webin reads Sample HUM1 B03 0:150 1:150 A:23101292;C:11479599;G:38484223;T:21089074;N:812 150 150     23101292 11479599 38484223 21089074 812 ERX14339097 ERS24360024 ERA33112137 UNIVERSITY OF CALIFORNIA - DAVIS|European Nucleotide Archive UNIVERSITY OF CALIFORNIA - DAVIS                       T T mates < 9% mapping rate illumina novaseq_era unknown poly_a unknown sc single_cell_generic generic-scrnaseq-only   United States 2025-05-23 Larval Larval Head Nervous System
19238 19238 ERR14943975 ERX14348127 ERS24422869 ERP166068 PRJEB82358 Human gene duplications 53f6d331-4985-4b69-8ac3-a57d010118dd Other Duplicated genes expanded in the human lineage likely contributed to brain evolution yet challenges exist in their discovery due to sequence assembly errors. We used a complete telomere to telomere genome sequence to identify 213 human specific gene families. From these 362 paralogs were found in all modern human genomes tested and brain transcriptomes making them top candidates contributing to human universal brain features. Choosing a subset of paralogs we used long read DNA sequencing of hundreds of modern humans to reveal previously hidden signatures of selection. To understand their roles in brain development we generated zebrafish CRISPR “knockout” models of nine orthologs and introduced mRNA encoding paralogs effectively “humanizing” larvae. Our findings implicate two new genes in possibly contributing to hallmark features of the human brain: GPR89B in dosage mediated brain expansion and FRMPD2B in altered synapse signaling. Our holistic approach provides new insights and a comprehensive resource for studying gene expansion drivers of human brain evolution. ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23   Single cell RNA sequencing of zebrafish heads from well A05 Knockout Plate Well A05 SAMEA118242695 UNIVERSITY OF CALIFORNIA - DAVIS ENA first public:2025 05 23|INSDC center name:UNIVERSITY OF CALIFORNIA DAVIS|INSDC status:public|Submitter Id:Sample KO A05|collection date:2022 05 13|common name:zebrafish|dev stage:72 hpf|geographic location country and/or sea:USA|sample name:Sample KO A05|scientific name:Danio rerio                 Raw reads: Sample KO A05 webin reads Sample KO A05   unspecified   ENA STATUS ID:4 RNA-Seq TRANSCRIPTOMIC SINGLE CELL cDNA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP166068 Raw reads: Sample KO A05 ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23 A05.R1.fastq.gz A05.R2.fastq.gz fastq fastq 3911878200.0 13039594.0 webin reads Sample KO A05 0:150 1:150 A:1402938003;C:529582691;G:715316068;T:1264010327;N:31111 150 150     1402938003 529582691 715316068 1264010327 31111 ERX14348127 ERS24422869 ERA33119600 UNIVERSITY OF CALIFORNIA - DAVIS|European Nucleotide Archive UNIVERSITY OF CALIFORNIA - DAVIS                       B B biological fallback assumption illumina novaseq_era unknown poly_a unknown sc single_cell_generic generic-scrnaseq-only   United States 2025-05-23 Larval Larval Head Nervous System
19239 19239 ERR14937117 ERX14341361 ERS24422810 ERP166068 PRJEB82358 Human gene duplications 53f6d331-4985-4b69-8ac3-a57d010118dd Other Duplicated genes expanded in the human lineage likely contributed to brain evolution yet challenges exist in their discovery due to sequence assembly errors. We used a complete telomere to telomere genome sequence to identify 213 human specific gene families. From these 362 paralogs were found in all modern human genomes tested and brain transcriptomes making them top candidates contributing to human universal brain features. Choosing a subset of paralogs we used long read DNA sequencing of hundreds of modern humans to reveal previously hidden signatures of selection. To understand their roles in brain development we generated zebrafish CRISPR “knockout” models of nine orthologs and introduced mRNA encoding paralogs effectively “humanizing” larvae. Our findings implicate two new genes in possibly contributing to hallmark features of the human brain: GPR89B in dosage mediated brain expansion and FRMPD2B in altered synapse signaling. Our holistic approach provides new insights and a comprehensive resource for studying gene expansion drivers of human brain evolution. ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23   Single cell RNA sequencing of zebrafish heads from well F11 Humanized Plate 2 Well F11 SAMEA118242636 UNIVERSITY OF CALIFORNIA - DAVIS ENA first public:2025 05 23|INSDC center name:UNIVERSITY OF CALIFORNIA DAVIS|INSDC status:public|Submitter Id:Sample HUM2 F11|collection date:2022 12 21|common name:zebrafish|dev stage:72 hpf|geographic location country and/or sea:USA|sample name:Sample HUM2 F11|scientific name:Danio rerio                 Raw reads: Sample HUM2 F11 webin reads Sample HUM2 F11   unspecified   ENA STATUS ID:4 RNA-Seq TRANSCRIPTOMIC SINGLE CELL cDNA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP166068 Raw reads: Sample HUM2 F11 ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23 F11.R1.fastq.gz F11.R2.fastq.gz fastq fastq 3943764300.0 13145881.0 webin reads Sample HUM2 F11 0:150 1:150 A:1194917338;C:577472498;G:1192413538;T:978942667;N:18259 150 150     1194917338 577472498 1192413538 978942667 18259 ERX14341361 ERS24422810 ERA33115700 UNIVERSITY OF CALIFORNIA - DAVIS|European Nucleotide Archive UNIVERSITY OF CALIFORNIA - DAVIS                       T T mates < 9% mapping rate illumina novaseq_era unknown poly_a unknown sc single_cell_generic generic-scrnaseq-only   United States 2025-05-23 Larval Larval Head Nervous System
19240 19240 ERR14935149 ERX14339391 ERS24360104 ERP166068 PRJEB82358 Human gene duplications 53f6d331-4985-4b69-8ac3-a57d010118dd Other Duplicated genes expanded in the human lineage likely contributed to brain evolution yet challenges exist in their discovery due to sequence assembly errors. We used a complete telomere to telomere genome sequence to identify 213 human specific gene families. From these 362 paralogs were found in all modern human genomes tested and brain transcriptomes making them top candidates contributing to human universal brain features. Choosing a subset of paralogs we used long read DNA sequencing of hundreds of modern humans to reveal previously hidden signatures of selection. To understand their roles in brain development we generated zebrafish CRISPR “knockout” models of nine orthologs and introduced mRNA encoding paralogs effectively “humanizing” larvae. Our findings implicate two new genes in possibly contributing to hallmark features of the human brain: GPR89B in dosage mediated brain expansion and FRMPD2B in altered synapse signaling. Our holistic approach provides new insights and a comprehensive resource for studying gene expansion drivers of human brain evolution. ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23   Single cell RNA sequencing of zebrafish heads from well H11 Humanized Plate 1 Well H11 SAMEA118225027 UNIVERSITY OF CALIFORNIA - DAVIS ENA first public:2025 05 23|INSDC center name:UNIVERSITY OF CALIFORNIA DAVIS|INSDC status:public|Submitter Id:Sample HUM1 H11|collection date:2022 11 14|common name:zebrafish|dev stage:72 hpf|geographic location country and/or sea:USA|sample name:Sample HUM1 H11|scientific name:Danio rerio                 Raw reads: Sample HUM1 H11 webin reads Sample HUM1 H11   unspecified   ENA STATUS ID:4 RNA-Seq TRANSCRIPTOMIC SINGLE CELL cDNA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP166068 Raw reads: Sample HUM1 H11 ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23 H11.R1.fastq.gz H11.R2.fastq.gz fastq fastq 29087400.0 96958.0 webin reads Sample HUM1 H11 0:150 1:150 A:5335277;C:3932942;G:14621885;T:5197119;N:177 150 150     5335277 3932942 14621885 5197119 177 ERX14339391 ERS24360104 ERA33113103 UNIVERSITY OF CALIFORNIA - DAVIS|European Nucleotide Archive UNIVERSITY OF CALIFORNIA - DAVIS                       T T mates < 9% mapping rate illumina novaseq_era unknown poly_a unknown sc single_cell_generic generic-scrnaseq-only   United States 2025-05-23 Larval Larval Head Nervous System
19241 19241 ERR14935025 ERX14339267 ERS24360065 ERP166068 PRJEB82358 Human gene duplications 53f6d331-4985-4b69-8ac3-a57d010118dd Other Duplicated genes expanded in the human lineage likely contributed to brain evolution yet challenges exist in their discovery due to sequence assembly errors. We used a complete telomere to telomere genome sequence to identify 213 human specific gene families. From these 362 paralogs were found in all modern human genomes tested and brain transcriptomes making them top candidates contributing to human universal brain features. Choosing a subset of paralogs we used long read DNA sequencing of hundreds of modern humans to reveal previously hidden signatures of selection. To understand their roles in brain development we generated zebrafish CRISPR “knockout” models of nine orthologs and introduced mRNA encoding paralogs effectively “humanizing” larvae. Our findings implicate two new genes in possibly contributing to hallmark features of the human brain: GPR89B in dosage mediated brain expansion and FRMPD2B in altered synapse signaling. Our holistic approach provides new insights and a comprehensive resource for studying gene expansion drivers of human brain evolution. ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23   Single cell RNA sequencing of zebrafish heads from well E08 Humanized Plate 1 Well E08 SAMEA118224988 UNIVERSITY OF CALIFORNIA - DAVIS ENA first public:2025 05 23|INSDC center name:UNIVERSITY OF CALIFORNIA DAVIS|INSDC status:public|Submitter Id:Sample HUM1 E08|collection date:2022 11 14|common name:zebrafish|dev stage:72 hpf|geographic location country and/or sea:USA|sample name:Sample HUM1 E08|scientific name:Danio rerio                 Raw reads: Sample HUM1 E08 webin reads Sample HUM1 E08   unspecified   ENA STATUS ID:4 RNA-Seq TRANSCRIPTOMIC SINGLE CELL cDNA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP166068 Raw reads: Sample HUM1 E08 ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23 E08.R1.fastq.gz E08.R2.fastq.gz fastq fastq 220002300.0 733341.0 webin reads Sample HUM1 E08 0:150 1:150 A:62013327;C:25647839;G:72394925;T:59944865;N:1344 150 150     62013327 25647839 72394925 59944865 1344 ERX14339267 ERS24360065 ERA33112670 UNIVERSITY OF CALIFORNIA - DAVIS|European Nucleotide Archive UNIVERSITY OF CALIFORNIA - DAVIS                       T T mates < 9% mapping rate illumina novaseq_era unknown poly_a unknown sc single_cell_generic generic-scrnaseq-only   United States 2025-05-23 Larval Larval Head Nervous System
19242 19242 ERR14935108 ERX14339350 ERS24360090 ERP166068 PRJEB82358 Human gene duplications 53f6d331-4985-4b69-8ac3-a57d010118dd Other Duplicated genes expanded in the human lineage likely contributed to brain evolution yet challenges exist in their discovery due to sequence assembly errors. We used a complete telomere to telomere genome sequence to identify 213 human specific gene families. From these 362 paralogs were found in all modern human genomes tested and brain transcriptomes making them top candidates contributing to human universal brain features. Choosing a subset of paralogs we used long read DNA sequencing of hundreds of modern humans to reveal previously hidden signatures of selection. To understand their roles in brain development we generated zebrafish CRISPR “knockout” models of nine orthologs and introduced mRNA encoding paralogs effectively “humanizing” larvae. Our findings implicate two new genes in possibly contributing to hallmark features of the human brain: GPR89B in dosage mediated brain expansion and FRMPD2B in altered synapse signaling. Our holistic approach provides new insights and a comprehensive resource for studying gene expansion drivers of human brain evolution. ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23   Single cell RNA sequencing of zebrafish heads from well G09 Humanized Plate 1 Well G09 SAMEA118225013 UNIVERSITY OF CALIFORNIA - DAVIS ENA first public:2025 05 23|INSDC center name:UNIVERSITY OF CALIFORNIA DAVIS|INSDC status:public|Submitter Id:Sample HUM1 G09|collection date:2022 11 14|common name:zebrafish|dev stage:72 hpf|geographic location country and/or sea:USA|sample name:Sample HUM1 G09|scientific name:Danio rerio                 Raw reads: Sample HUM1 G09 webin reads Sample HUM1 G09   unspecified   ENA STATUS ID:4 RNA-Seq TRANSCRIPTOMIC SINGLE CELL cDNA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP166068 Raw reads: Sample HUM1 G09 ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23 G09.R1.fastq.gz G09.R2.fastq.gz fastq fastq 55286400.0 184288.0 webin reads Sample HUM1 G09 0:150 1:150 A:9253015;C:6978214;G:29393822;T:9661042;N:307 150 150     9253015 6978214 29393822 9661042 307 ERX14339350 ERS24360090 ERA33112953 UNIVERSITY OF CALIFORNIA - DAVIS|European Nucleotide Archive UNIVERSITY OF CALIFORNIA - DAVIS                       T T mates < 9% mapping rate illumina novaseq_era unknown poly_a unknown sc single_cell_generic generic-scrnaseq-only   United States 2025-05-23 Larval Larval Head Nervous System
19243 19243 ERR14935106 ERX14339348 ERS24360089 ERP166068 PRJEB82358 Human gene duplications 53f6d331-4985-4b69-8ac3-a57d010118dd Other Duplicated genes expanded in the human lineage likely contributed to brain evolution yet challenges exist in their discovery due to sequence assembly errors. We used a complete telomere to telomere genome sequence to identify 213 human specific gene families. From these 362 paralogs were found in all modern human genomes tested and brain transcriptomes making them top candidates contributing to human universal brain features. Choosing a subset of paralogs we used long read DNA sequencing of hundreds of modern humans to reveal previously hidden signatures of selection. To understand their roles in brain development we generated zebrafish CRISPR “knockout” models of nine orthologs and introduced mRNA encoding paralogs effectively “humanizing” larvae. Our findings implicate two new genes in possibly contributing to hallmark features of the human brain: GPR89B in dosage mediated brain expansion and FRMPD2B in altered synapse signaling. Our holistic approach provides new insights and a comprehensive resource for studying gene expansion drivers of human brain evolution. ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23   Single cell RNA sequencing of zebrafish heads from well G08 Humanized Plate 1 Well G08 SAMEA118225012 UNIVERSITY OF CALIFORNIA - DAVIS ENA first public:2025 05 23|INSDC center name:UNIVERSITY OF CALIFORNIA DAVIS|INSDC status:public|Submitter Id:Sample HUM1 G08|collection date:2022 11 14|common name:zebrafish|dev stage:72 hpf|geographic location country and/or sea:USA|sample name:Sample HUM1 G08|scientific name:Danio rerio                 Raw reads: Sample HUM1 G08 webin reads Sample HUM1 G08   unspecified   ENA STATUS ID:4 RNA-Seq TRANSCRIPTOMIC SINGLE CELL cDNA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP166068 Raw reads: Sample HUM1 G08 ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23 G08.R1.fastq.gz G08.R2.fastq.gz fastq fastq 90390000.0 301300.0 webin reads Sample HUM1 G08 0:150 1:150 A:14519869;C:11004100;G:49374862;T:15490478;N:691 150 150     14519869 11004100 49374862 15490478 691 ERX14339348 ERS24360089 ERA33112948 UNIVERSITY OF CALIFORNIA - DAVIS|European Nucleotide Archive UNIVERSITY OF CALIFORNIA - DAVIS                       T T mates < 9% mapping rate illumina novaseq_era unknown poly_a unknown sc single_cell_generic generic-scrnaseq-only   United States 2025-05-23 Larval Larval Head Nervous System
19244 19244 ERR14934877 ERX14339119 ERS24360032 ERP166068 PRJEB82358 Human gene duplications 53f6d331-4985-4b69-8ac3-a57d010118dd Other Duplicated genes expanded in the human lineage likely contributed to brain evolution yet challenges exist in their discovery due to sequence assembly errors. We used a complete telomere to telomere genome sequence to identify 213 human specific gene families. From these 362 paralogs were found in all modern human genomes tested and brain transcriptomes making them top candidates contributing to human universal brain features. Choosing a subset of paralogs we used long read DNA sequencing of hundreds of modern humans to reveal previously hidden signatures of selection. To understand their roles in brain development we generated zebrafish CRISPR “knockout” models of nine orthologs and introduced mRNA encoding paralogs effectively “humanizing” larvae. Our findings implicate two new genes in possibly contributing to hallmark features of the human brain: GPR89B in dosage mediated brain expansion and FRMPD2B in altered synapse signaling. Our holistic approach provides new insights and a comprehensive resource for studying gene expansion drivers of human brain evolution. ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23   Single cell RNA sequencing of zebrafish heads from well B11 Humanized Plate 1 Well B11 SAMEA118224955 UNIVERSITY OF CALIFORNIA - DAVIS ENA first public:2025 05 23|INSDC center name:UNIVERSITY OF CALIFORNIA DAVIS|INSDC status:public|Submitter Id:Sample HUM1 B11|collection date:2022 11 14|common name:zebrafish|dev stage:72 hpf|geographic location country and/or sea:USA|sample name:Sample HUM1 B11|scientific name:Danio rerio                 Raw reads: Sample HUM1 B11 webin reads Sample HUM1 B11   unspecified   ENA STATUS ID:4 RNA-Seq TRANSCRIPTOMIC SINGLE CELL cDNA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP166068 Raw reads: Sample HUM1 B11 ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23 B11.R1.fastq.gz B11.R2.fastq.gz fastq fastq 99908700.0 333029.0 webin reads Sample HUM1 B11 0:150 1:150 A:22260827;C:11949991;G:42744522;T:22952623;N:737 150 150     22260827 11949991 42744522 22952623 737 ERX14339119 ERS24360032 ERA33112207 UNIVERSITY OF CALIFORNIA - DAVIS|European Nucleotide Archive UNIVERSITY OF CALIFORNIA - DAVIS                       T T mates < 9% mapping rate illumina novaseq_era unknown poly_a unknown sc single_cell_generic generic-scrnaseq-only   United States 2025-05-23 Larval Larval Head Nervous System
19245 19245 ERR14934885 ERX14339127 ERS24360034 ERP166068 PRJEB82358 Human gene duplications 53f6d331-4985-4b69-8ac3-a57d010118dd Other Duplicated genes expanded in the human lineage likely contributed to brain evolution yet challenges exist in their discovery due to sequence assembly errors. We used a complete telomere to telomere genome sequence to identify 213 human specific gene families. From these 362 paralogs were found in all modern human genomes tested and brain transcriptomes making them top candidates contributing to human universal brain features. Choosing a subset of paralogs we used long read DNA sequencing of hundreds of modern humans to reveal previously hidden signatures of selection. To understand their roles in brain development we generated zebrafish CRISPR “knockout” models of nine orthologs and introduced mRNA encoding paralogs effectively “humanizing” larvae. Our findings implicate two new genes in possibly contributing to hallmark features of the human brain: GPR89B in dosage mediated brain expansion and FRMPD2B in altered synapse signaling. Our holistic approach provides new insights and a comprehensive resource for studying gene expansion drivers of human brain evolution. ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23   Single cell RNA sequencing of zebrafish heads from well C01 Humanized Plate 1 Well C01 SAMEA118224957 UNIVERSITY OF CALIFORNIA - DAVIS ENA first public:2025 05 23|INSDC center name:UNIVERSITY OF CALIFORNIA DAVIS|INSDC status:public|Submitter Id:Sample HUM1 C01|collection date:2022 11 14|common name:zebrafish|dev stage:72 hpf|geographic location country and/or sea:USA|sample name:Sample HUM1 C01|scientific name:Danio rerio                 Raw reads: Sample HUM1 C01 webin reads Sample HUM1 C01   unspecified   ENA STATUS ID:4 RNA-Seq TRANSCRIPTOMIC SINGLE CELL cDNA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP166068 Raw reads: Sample HUM1 C01 ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23 C01.R1.fastq.gz C01.R2.fastq.gz fastq fastq 101124300.0 337081.0 webin reads Sample HUM1 C01 0:150 1:150 A:21597244;C:13549354;G:45547786;T:20429406;N:510 150 150     21597244 13549354 45547786 20429406 510 ERX14339127 ERS24360034 ERA33112235 UNIVERSITY OF CALIFORNIA - DAVIS|European Nucleotide Archive UNIVERSITY OF CALIFORNIA - DAVIS                       T T mates < 9% mapping rate illumina novaseq_era unknown poly_a unknown sc single_cell_generic generic-scrnaseq-only   United States 2025-05-23 Larval Larval Head Nervous System
19246 19246 ERR14943984 ERX14348136 ERS24422880 ERP166068 PRJEB82358 Human gene duplications 53f6d331-4985-4b69-8ac3-a57d010118dd Other Duplicated genes expanded in the human lineage likely contributed to brain evolution yet challenges exist in their discovery due to sequence assembly errors. We used a complete telomere to telomere genome sequence to identify 213 human specific gene families. From these 362 paralogs were found in all modern human genomes tested and brain transcriptomes making them top candidates contributing to human universal brain features. Choosing a subset of paralogs we used long read DNA sequencing of hundreds of modern humans to reveal previously hidden signatures of selection. To understand their roles in brain development we generated zebrafish CRISPR “knockout” models of nine orthologs and introduced mRNA encoding paralogs effectively “humanizing” larvae. Our findings implicate two new genes in possibly contributing to hallmark features of the human brain: GPR89B in dosage mediated brain expansion and FRMPD2B in altered synapse signaling. Our holistic approach provides new insights and a comprehensive resource for studying gene expansion drivers of human brain evolution. ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23   Single cell RNA sequencing of zebrafish heads from well B04 Knockout Plate Well B04 SAMEA118242706 UNIVERSITY OF CALIFORNIA - DAVIS ENA first public:2025 05 23|INSDC center name:UNIVERSITY OF CALIFORNIA DAVIS|INSDC status:public|Submitter Id:Sample KO B04|collection date:2022 05 13|common name:zebrafish|dev stage:72 hpf|geographic location country and/or sea:USA|sample name:Sample KO B04|scientific name:Danio rerio                 Raw reads: Sample KO B04 webin reads Sample KO B04   unspecified   ENA STATUS ID:4 RNA-Seq TRANSCRIPTOMIC SINGLE CELL cDNA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP166068 Raw reads: Sample KO B04 ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23 B04.R1.fastq.gz B04.R2.fastq.gz fastq fastq 561237900.0 1870793.0 webin reads Sample KO B04 0:150 1:150 A:192169170;C:77013107;G:120338699;T:171712356;N:4568 150 150     192169170 77013107 120338699 171712356 4568 ERX14348136 ERS24422880 ERA33119691 UNIVERSITY OF CALIFORNIA - DAVIS|European Nucleotide Archive UNIVERSITY OF CALIFORNIA - DAVIS                       B B biological fallback assumption illumina novaseq_era unknown poly_a unknown sc single_cell_generic generic-scrnaseq-only   United States 2025-05-23 Larval Larval Head Nervous System
19247 19247 ERR14938992 ERX14343236 ERS24422834 ERP166068 PRJEB82358 Human gene duplications 53f6d331-4985-4b69-8ac3-a57d010118dd Other Duplicated genes expanded in the human lineage likely contributed to brain evolution yet challenges exist in their discovery due to sequence assembly errors. We used a complete telomere to telomere genome sequence to identify 213 human specific gene families. From these 362 paralogs were found in all modern human genomes tested and brain transcriptomes making them top candidates contributing to human universal brain features. Choosing a subset of paralogs we used long read DNA sequencing of hundreds of modern humans to reveal previously hidden signatures of selection. To understand their roles in brain development we generated zebrafish CRISPR “knockout” models of nine orthologs and introduced mRNA encoding paralogs effectively “humanizing” larvae. Our findings implicate two new genes in possibly contributing to hallmark features of the human brain: GPR89B in dosage mediated brain expansion and FRMPD2B in altered synapse signaling. Our holistic approach provides new insights and a comprehensive resource for studying gene expansion drivers of human brain evolution. ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23   Single cell RNA sequencing of zebrafish heads from well H11 Humanized Plate 2 Well H11 SAMEA118242660 UNIVERSITY OF CALIFORNIA - DAVIS ENA first public:2025 05 23|INSDC center name:UNIVERSITY OF CALIFORNIA DAVIS|INSDC status:public|Submitter Id:Sample HUM2 H11|collection date:2022 12 21|common name:zebrafish|dev stage:72 hpf|geographic location country and/or sea:USA|sample name:Sample HUM2 H11|scientific name:Danio rerio                 Raw reads: Sample HUM2 H11 webin reads Sample HUM2 H11   unspecified   ENA STATUS ID:4 RNA-Seq TRANSCRIPTOMIC SINGLE CELL cDNA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP166068 Raw reads: Sample HUM2 H11 ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23 H11.R1.fastq.gz H11.R2.fastq.gz fastq fastq 1733814900.0 5779383.0 webin reads Sample HUM2 H11 0:150 1:150 A:378393702;C:284557462;G:721428373;T:349427441;N:7922 150 150     378393702 284557462 721428373 349427441 7922 ERX14343236 ERS24422834 ERA33115755 UNIVERSITY OF CALIFORNIA - DAVIS|European Nucleotide Archive UNIVERSITY OF CALIFORNIA - DAVIS                       T T mates < 9% mapping rate illumina novaseq_era unknown poly_a unknown sc single_cell_generic generic-scrnaseq-only   United States 2025-05-23 Larval Larval Head Nervous System
19248 19248 ERR14937159 ERX14341403 ERS24422829 ERP166068 PRJEB82358 Human gene duplications 53f6d331-4985-4b69-8ac3-a57d010118dd Other Duplicated genes expanded in the human lineage likely contributed to brain evolution yet challenges exist in their discovery due to sequence assembly errors. We used a complete telomere to telomere genome sequence to identify 213 human specific gene families. From these 362 paralogs were found in all modern human genomes tested and brain transcriptomes making them top candidates contributing to human universal brain features. Choosing a subset of paralogs we used long read DNA sequencing of hundreds of modern humans to reveal previously hidden signatures of selection. To understand their roles in brain development we generated zebrafish CRISPR “knockout” models of nine orthologs and introduced mRNA encoding paralogs effectively “humanizing” larvae. Our findings implicate two new genes in possibly contributing to hallmark features of the human brain: GPR89B in dosage mediated brain expansion and FRMPD2B in altered synapse signaling. Our holistic approach provides new insights and a comprehensive resource for studying gene expansion drivers of human brain evolution. ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23   Single cell RNA sequencing of zebrafish heads from well H06 Humanized Plate 2 Well H06 SAMEA118242655 UNIVERSITY OF CALIFORNIA - DAVIS ENA first public:2025 05 23|INSDC center name:UNIVERSITY OF CALIFORNIA DAVIS|INSDC status:public|Submitter Id:Sample HUM2 H06|collection date:2022 12 21|common name:zebrafish|dev stage:72 hpf|geographic location country and/or sea:USA|sample name:Sample HUM2 H06|scientific name:Danio rerio                 Raw reads: Sample HUM2 H06 webin reads Sample HUM2 H06   unspecified   ENA STATUS ID:4 RNA-Seq TRANSCRIPTOMIC SINGLE CELL cDNA PAIRED ILLUMINA Illumina NovaSeq 6000   ERP166068 Raw reads: Sample HUM2 H06 ENA STATUS ID:4|ENA FIRST PUBLIC:2025 05 23|ENA LAST UPDATE:2025 05 23 H06.R1.fastq.gz H06.R2.fastq.gz fastq fastq 8840167200.0 29467224.0 webin reads Sample HUM2 H06 0:150 1:150 A:3070163952;C:1202397032;G:1876790493;T:2690771671;N:44052 150 150     3070163952 1202397032 1876790493 2690771671 44052 ERX14341403 ERS24422829 ERA33115733 UNIVERSITY OF CALIFORNIA - DAVIS|European Nucleotide Archive UNIVERSITY OF CALIFORNIA - DAVIS                       B B mate1-mate2 similar by mapping diff illumina novaseq_era unknown poly_a unknown sc single_cell_generic generic-scrnaseq-only   United States 2025-05-23 Larval Larval Head Nervous System

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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");;