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run_metadata

36 rows where experiment.library_layout = "PAIRED", technology = "generic-scrnaseq-only" and tissue_curation = "Brain"

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experiment.library_selection 4

experiment.library_strategy 2

experiment.library_source 2

devstage_curation_coarse 2

devstage_curation 2

tissue_curation_coarse 1

tissue_curation 1

  • Brain · 36 ✖

technology 1

  • generic-scrnaseq-only · 36 ✖

experiment.platform 1

experiment.library_layout 1

  • PAIRED · 36 ✖
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
26536 26536 SRR26130973 SRX21844394 SRS18942411 SRP462307 PRJNA1019490 Single Cell RNA seq of Zebrafish Hypothalamus PRJNA1019490 Other Brain nuclei are traditionally defined by their anatomy activity and expression of specific markers. The hypothalamus contains discrete neuronal populations that coordinate fundamental behavioral functions ranging from sleep and wakefulness to feeding stress and reward in all vertebrates.         10X49 2   breed:NA|age:Adult|collection date:2021|geo loc name:Israel|sex:not applicable|tissue:Brain Hypothalamus|sample type:single cell 6|BioSampleModel:Model organism or animal                 SC ZF Hypo6 10X49 2 10X49 2 we worked swiftly with cold well oxygenated solutions optimizing Papain incubation times for tissue age and brain region. We used caution with Ca2+ and Mg2+ in aCSF to avoid RNA extraction/RT interference favoring Ca2+/Mg2+ free aCSF if not diluted downstream. Modified aCSF had specific component concentrations and our materials included essential equipment and anesthesia. We prepared aCSF from an 8x stock with adjusted CaCl2 and MgSO4 concentrations kept it fresh and oxygenated it. The zebrafish procedure began with lethal anesthesia brain dissection in ice cold aCSF embedding in 1.5% gel and vibratome sectioning. Tissue was dissociated in the Papain vial triturated filtered and washed followed by centrifugation. The pellet was resuspended in aCSF with DNase assessed for cell viability counted and diluted for use.     RNA-Seq TRANSCRIPTOMIC SINGLE CELL Oligo-dT PAIRED ILLUMINA Illumina HiSeq 2000   SRP462307     10X49_2_S5_L001_R1_001.fastq.gz 10X49_2_S5_L001_R2_001.fastq.gz 10X49_2_S5_L002_R1_001.fastq.gz 10X49_2_S5_L002_R2_001.fastq.gz 10X49_2_S5_L003_R1_001.fastq.gz 10X49_2_S5_L003_R2_001.fastq.gz 10X49_2_S5_L004_R1_001.fastq.gz 10X49_2_S5_L004_R2_001.fastq.gz fastq fastq fastq fastq fastq fastq fastq fastq 3126113844.0 37215641.0 10X49 2 S5 L001 R1 001.fastq.gz 0:28 1:56 A:898881980;C:657306128;G:664563758;T:905262774;N:99204 28 56     898881980 657306128 664563758 905262774 99204 SRX21844394 SRS18942411 SRA1717104 Technion - Israel Institute of Technology|Neuroscince Technion - Israel Institute of Technology 2 0.01241 0.88203 0.00542 0.35268 0.98129 0.7586 0.40274 0.5074 28 56 T B sc-like readlen illumina hiseq_era unknown poly_a unknown sc single_cell_generic generic-scrnaseq-only   Israel 2023-09-21 Adult Adult Brain Nervous System
26537 26537 SRR26130974 SRX21844393 SRS18942407 SRP462307 PRJNA1019490 Single Cell RNA seq of Zebrafish Hypothalamus PRJNA1019490 Other Brain nuclei are traditionally defined by their anatomy activity and expression of specific markers. The hypothalamus contains discrete neuronal populations that coordinate fundamental behavioral functions ranging from sleep and wakefulness to feeding stress and reward in all vertebrates.         10X49 1   breed:NA|age:Adult|collection date:2021|geo loc name:Israel|sex:not applicable|tissue:Brain Hypothalamus|sample type:single cell 5|BioSampleModel:Model organism or animal                 SC ZF Hypo5 10X49 1 10X49 1 we worked swiftly with cold well oxygenated solutions optimizing Papain incubation times for tissue age and brain region. We used caution with Ca2+ and Mg2+ in aCSF to avoid RNA extraction/RT interference favoring Ca2+/Mg2+ free aCSF if not diluted downstream. Modified aCSF had specific component concentrations and our materials included essential equipment and anesthesia. We prepared aCSF from an 8x stock with adjusted CaCl2 and MgSO4 concentrations kept it fresh and oxygenated it. The zebrafish procedure began with lethal anesthesia brain dissection in ice cold aCSF embedding in 1.5% gel and vibratome sectioning. Tissue was dissociated in the Papain vial triturated filtered and washed followed by centrifugation. The pellet was resuspended in aCSF with DNase assessed for cell viability counted and diluted for use.     RNA-Seq TRANSCRIPTOMIC SINGLE CELL Oligo-dT PAIRED ILLUMINA Illumina HiSeq 2000   SRP462307     10X49_1_S4_L001_R1_001.fastq.gz 10X49_1_S4_L001_R2_001.fastq.gz 10X49_1_S4_L002_R1_001.fastq.gz 10X49_1_S4_L002_R2_001.fastq.gz 10X49_1_S4_L003_R1_001.fastq.gz 10X49_1_S4_L003_R2_001.fastq.gz 10X49_1_S4_L004_R1_001.fastq.gz 10X49_1_S4_L004_R2_001.fastq.gz fastq fastq fastq fastq fastq fastq fastq fastq 3315364752.0 39468628.0 10X49 1 S4 L001 R1 001.fastq.gz 0:28 1:56 A:957164498;C:690985782;G:704099796;T:963009918;N:104758 28 56     957164498 690985782 704099796 963009918 104758 SRX21844393 SRS18942407 SRA1717104 Technion - Israel Institute of Technology|Neuroscince Technion - Israel Institute of Technology 2 0.0143 0.88325 0.00601 0.35854 0.97816 0.75868 0.4158 0.50825 28 56 T B sc-like readlen illumina hiseq_era unknown poly_a unknown sc single_cell_generic generic-scrnaseq-only   Israel 2023-09-21 Adult Adult Brain Nervous System
26538 26538 SRR26130975 SRX21844392 SRS18942399 SRP462307 PRJNA1019490 Single Cell RNA seq of Zebrafish Hypothalamus PRJNA1019490 Other Brain nuclei are traditionally defined by their anatomy activity and expression of specific markers. The hypothalamus contains discrete neuronal populations that coordinate fundamental behavioral functions ranging from sleep and wakefulness to feeding stress and reward in all vertebrates.         10X47 2   breed:NA|age:Adult|collection date:2021|geo loc name:Israel|sex:not applicable|tissue:Brain Hypothalamus|sample type:single cell 4|BioSampleModel:Model organism or animal                 SC ZF Hypo4 10X47 2 10X47 2 we worked swiftly with cold well oxygenated solutions optimizing Papain incubation times for tissue age and brain region. We used caution with Ca2+ and Mg2+ in aCSF to avoid RNA extraction/RT interference favoring Ca2+/Mg2+ free aCSF if not diluted downstream. Modified aCSF had specific component concentrations and our materials included essential equipment and anesthesia. We prepared aCSF from an 8x stock with adjusted CaCl2 and MgSO4 concentrations kept it fresh and oxygenated it. The zebrafish procedure began with lethal anesthesia brain dissection in ice cold aCSF embedding in 1.5% gel and vibratome sectioning. Tissue was dissociated in the Papain vial triturated filtered and washed followed by centrifugation. The pellet was resuspended in aCSF with DNase assessed for cell viability counted and diluted for use.     RNA-Seq TRANSCRIPTOMIC SINGLE CELL Oligo-dT PAIRED ILLUMINA Illumina HiSeq 2000   SRP462307     10X47_2_S2_L001_R1_001.fastq.gz 10X47_2_S2_L001_R2_001.fastq.gz 10X47_2_S2_L002_R1_001.fastq.gz 10X47_2_S2_L002_R2_001.fastq.gz 10X47_2_S2_L003_R1_001.fastq.gz 10X47_2_S2_L003_R2_001.fastq.gz 10X47_2_S2_L004_R1_001.fastq.gz 10X47_2_S2_L004_R2_001.fastq.gz fastq fastq fastq fastq fastq fastq fastq fastq 3525979800.0 41975950.0 10X47 2 S2 L001 R1 001.fastq.gz 0:28 1:56 A:1030048762;C:725438274;G:855378888;T:915005070;N:108806 28 56     1030048762 725438274 855378888 915005070 108806 SRX21844392 SRS18942399 SRA1717104 Technion - Israel Institute of Technology|Neuroscince Technion - Israel Institute of Technology 2 0.0126 0.69252 0.00546 0.25721 0.98005 0.85295 0.39068 0.51992 28 56 T B sc-like readlen illumina hiseq_era unknown poly_a unknown sc single_cell_generic generic-scrnaseq-only   Israel 2023-09-21 Adult Adult Brain Nervous System
26539 26539 SRR26130976 SRX21844391 SRS18942406 SRP462307 PRJNA1019490 Single Cell RNA seq of Zebrafish Hypothalamus PRJNA1019490 Other Brain nuclei are traditionally defined by their anatomy activity and expression of specific markers. The hypothalamus contains discrete neuronal populations that coordinate fundamental behavioral functions ranging from sleep and wakefulness to feeding stress and reward in all vertebrates.         10X47 1   breed:NA|age:Adult|collection date:2021|geo loc name:Israel|sex:not applicable|tissue:Brain Hypothalamus|sample type:single cell 3|BioSampleModel:Model organism or animal                 SC ZF Hypo3 10X47 1 10X47 1 we worked swiftly with cold well oxygenated solutions optimizing Papain incubation times for tissue age and brain region. We used caution with Ca2+ and Mg2+ in aCSF to avoid RNA extraction/RT interference favoring Ca2+/Mg2+ free aCSF if not diluted downstream. Modified aCSF had specific component concentrations and our materials included essential equipment and anesthesia. We prepared aCSF from an 8x stock with adjusted CaCl2 and MgSO4 concentrations kept it fresh and oxygenated it. The zebrafish procedure began with lethal anesthesia brain dissection in ice cold aCSF embedding in 1.5% gel and vibratome sectioning. Tissue was dissociated in the Papain vial triturated filtered and washed followed by centrifugation. The pellet was resuspended in aCSF with DNase assessed for cell viability counted and diluted for use.     RNA-Seq TRANSCRIPTOMIC SINGLE CELL Oligo-dT PAIRED ILLUMINA Illumina HiSeq 2000   SRP462307     10X47_1_S1_L001_R1_001.fastq.gz 10X47_1_S1_L001_R2_001.fastq.gz 10X47_1_S1_L002_R1_001.fastq.gz 10X47_1_S1_L002_R2_001.fastq.gz 10X47_1_S1_L003_R1_001.fastq.gz 10X47_1_S1_L003_R2_001.fastq.gz 10X47_1_S1_L004_R1_001.fastq.gz 10X47_1_S1_L004_R2_001.fastq.gz fastq fastq fastq fastq fastq fastq fastq fastq 3288490212.0 39148693.0 10X47 1 S1 L001 R1 001.fastq.gz 0:28 1:56 A:950740376;C:692224998;G:723085676;T:922337432;N:101730 28 56     950740376 692224998 723085676 922337432 101730 SRX21844391 SRS18942406 SRA1717104 Technion - Israel Institute of Technology|Neuroscince Technion - Israel Institute of Technology 2 0.01086 0.86383 0.0052 0.31674 0.98244 0.78309 0.39399 0.52299 28 56 T B sc-like readlen illumina hiseq_era unknown poly_a unknown sc single_cell_generic generic-scrnaseq-only   Israel 2023-09-21 Adult Adult Brain Nervous System
26540 26540 SRR26130977 SRX21844390 SRS18942410 SRP462307 PRJNA1019490 Single Cell RNA seq of Zebrafish Hypothalamus PRJNA1019490 Other Brain nuclei are traditionally defined by their anatomy activity and expression of specific markers. The hypothalamus contains discrete neuronal populations that coordinate fundamental behavioral functions ranging from sleep and wakefulness to feeding stress and reward in all vertebrates.         10X39 2   breed:NA|age:Adult|collection date:2021|geo loc name:Israel|sex:not applicable|tissue:Brain Hypothalamus|sample type:single cell 2|BioSampleModel:Model organism or animal                 SC ZF Hypo2 10X39 2 10X39 2 we worked swiftly with cold well oxygenated solutions optimizing Papain incubation times for tissue age and brain region. We used caution with Ca2+ and Mg2+ in aCSF to avoid RNA extraction/RT interference favoring Ca2+/Mg2+ free aCSF if not diluted downstream. Modified aCSF had specific component concentrations and our materials included essential equipment and anesthesia. We prepared aCSF from an 8x stock with adjusted CaCl2 and MgSO4 concentrations kept it fresh and oxygenated it. The zebrafish procedure began with lethal anesthesia brain dissection in ice cold aCSF embedding in 1.5% gel and vibratome sectioning. Tissue was dissociated in the Papain vial triturated filtered and washed followed by centrifugation. The pellet was resuspended in aCSF with DNase assessed for cell viability counted and diluted for use.     RNA-Seq TRANSCRIPTOMIC SINGLE CELL Oligo-dT PAIRED ILLUMINA Illumina HiSeq 2000   SRP462307     10X39_2_S2_L001_R1_001.fastq.gz 10X39_2_S2_L001_R2_001.fastq.gz 10X39_2_S2_L002_R1_001.fastq.gz 10X39_2_S2_L002_R2_001.fastq.gz 10X39_2_S2_L003_R1_001.fastq.gz 10X39_2_S2_L003_R2_001.fastq.gz 10X39_2_S2_L004_R1_001.fastq.gz 10X39_2_S2_L004_R2_001.fastq.gz fastq fastq fastq fastq fastq fastq fastq fastq 20594785932.0 245176023.0 10X39 2 S2 L001 R1 001.fastq.gz 0:28 1:56 A:5909286071;C:4378110318;G:4489721587;T:5804002561;N:13665395 28 56     5909286071 4378110318 4489721587 5804002561 13665395 SRX21844390 SRS18942410 SRA1717104 Technion - Israel Institute of Technology|Neuroscince Technion - Israel Institute of Technology 2 0.01117 0.90005 0.00416 0.25843 0.98056 0.77926 0.45338 0.53366 28 56 T B sc-like readlen illumina hiseq_era unknown poly_a unknown sc single_cell_generic generic-scrnaseq-only   Israel 2023-09-21 Adult Adult Brain Nervous System
26541 26541 SRR26130978 SRX21844389 SRS18942405 SRP462307 PRJNA1019490 Single Cell RNA seq of Zebrafish Hypothalamus PRJNA1019490 Other Brain nuclei are traditionally defined by their anatomy activity and expression of specific markers. The hypothalamus contains discrete neuronal populations that coordinate fundamental behavioral functions ranging from sleep and wakefulness to feeding stress and reward in all vertebrates.         10X39 1   breed:NA|age:Adult|collection date:2021|geo loc name:Israel|sex:not applicable|tissue:Brain Hypothalamus|sample type:single cell 1|BioSampleModel:Model organism or animal                 SC ZF Hypo1 10X39 1 10X39 1 we worked swiftly with cold well oxygenated solutions optimizing Papain incubation times for tissue age and brain region. We used caution with Ca2+ and Mg2+ in aCSF to avoid RNA extraction/RT interference favoring Ca2+/Mg2+ free aCSF if not diluted downstream. Modified aCSF had specific component concentrations and our materials included essential equipment and anesthesia. We prepared aCSF from an 8x stock with adjusted CaCl2 and MgSO4 concentrations kept it fresh and oxygenated it. The zebrafish procedure began with lethal anesthesia brain dissection in ice cold aCSF embedding in 1.5% gel and vibratome sectioning. Tissue was dissociated in the Papain vial triturated filtered and washed followed by centrifugation. The pellet was resuspended in aCSF with DNase assessed for cell viability counted and diluted for use.     RNA-Seq TRANSCRIPTOMIC SINGLE CELL Oligo-dT PAIRED ILLUMINA Illumina HiSeq 2000   SRP462307     10X39_1_S1_L004_R2_001.fastq.gz 10X39_1_S1_L004_R1_001.fastq.gz 10X39_1_S1_L003_R2_001.fastq.gz 10X39_1_S1_L003_R1_001.fastq.gz 10X39_1_S1_L002_R2_001.fastq.gz 10X39_1_S1_L002_R1_001.fastq.gz 10X39_1_S1_L001_R2_001.fastq.gz 10X39_1_S1_L001_R1_001.fastq.gz fastq fastq fastq fastq fastq fastq fastq fastq 13293718116.0 158258549.0 10X39 1 S1 L001 R1 001.fastq.gz 0:28 1:56 A:3791388201;C:2833705086;G:2863082386;T:3796683434;N:8859009 28 56     3791388201 2833705086 2863082386 3796683434 8859009 SRX21844389 SRS18942405 SRA1717104 Technion - Israel Institute of Technology|Neuroscince Technion - Israel Institute of Technology 2 0.01078 0.90504 0.00392 0.24179 0.98098 0.77741 0.42922 0.52858 28 56 T B sc-like readlen illumina hiseq_era unknown poly_a unknown sc single_cell_generic generic-scrnaseq-only   Israel 2023-09-21 Adult Adult Brain Nervous System
34262 34262 SRR31595085 SRX26959911 SRS23429841 SRP549196 PRJNA1193812 Single cell transcriptome sequencing of zebrafish olfactory epithelium PRJNA1193812 Other We performed single cell sequencing in the olfactory epithelium of wild type zebrafish and zebrafish treated with alarm substances and compared them.     Alarm substances treatment Group   CAS   strain:AB strain|isolate:not applicable|breed:not applicable|cultivar:not applicable|ecotype:not applicable|age:1 year old|dev stage:adult CAS group|collection date:2020 10 10|geo loc name:China: Wuhan|sex:male|tissue:Olfactory epithelium CAS group|BioSampleModel:Model organism or animal                 Single cell transcriptome of the AB zebrafish olfactory epithelium post treatment with alarm substances CAS OE CAS OE sequencing libraries were loaded on an Illumina NextSeq 550AR with paired end kits. Read 1 was used to distinguish different transcripts of different cells. Read 2 was used to determine the genetic information.     RNA-Seq TRANSCRIPTOMIC SINGLE CELL RANDOM PAIRED ILLUMINA NextSeq 550   SRP549196     CAS_S1_L001_R1_001.fastq.gz CAS_S1_L001_R2_001.fastq.gz fastq fastq 54518124857.0 458135503.0 CAS S1 L001 R1 001.fastq.gz 0:28 1:91 A:15384916510;C:12274547586;G:14008767028;T:12837270924;N:12622809 28 91     15384916510 12274547586 14008767028 12837270924 12622809 SRX26959911 SRS23429841 SRA2027027 Institute of Hydrobiology, Chinese Academy of Sciences|Chinese Academy of Sciences Institute of Hydrobiology, Chinese Academy of Sciences                       T B sc-like readlen illumina nextseq unknown random_priming unknown sc single_cell_generic generic-scrnaseq-only   China 2024-12-04 Adult Adult Brain Nervous System
34263 34263 SRR31595086 SRX26959910 SRS23429840 SRP549196 PRJNA1193812 Single cell transcriptome sequencing of zebrafish olfactory epithelium PRJNA1193812 Other We performed single cell sequencing in the olfactory epithelium of wild type zebrafish and zebrafish treated with alarm substances and compared them.     Blank control group   CTR   strain:AB strain|isolate:not applicable|breed:not applicable|cultivar:not applicable|ecotype:not applicable|age:1 year old|dev stage:adult CTR group|collection date:2020 10 10|geo loc name:China: Wuhan|sex:male|tissue:Olfactory epithelium CTR group|BioSampleModel:Model organism or animal                 Single cell transcriptome of the AB strain zebrafish olfactory epithelium CTR OE CTR OE sequencing libraries were loaded on an Illumina NextSeq 550AR with paired end kits. Read 1 was used to distinguish different transcripts of different cells. Read 2 was used to determine the genetic information.     RNA-Seq TRANSCRIPTOMIC SINGLE CELL RANDOM PAIRED ILLUMINA NextSeq 550   SRP549196     CTR_S1_L001_R1_001.fastq.gz CTR_S1_L001_R2_001.fastq.gz fastq fastq 50773421790.0 426667410.0 CTR S1 L001 R1 001.fastq.gz 0:28 1:91 A:14105926130;C:11510784907;G:13135577448;T:12011516484;N:9616821 28 91     14105926130 11510784907 13135577448 12011516484 9616821 SRX26959910 SRS23429840 SRA2027027 Institute of Hydrobiology, Chinese Academy of Sciences|Chinese Academy of Sciences Institute of Hydrobiology, Chinese Academy of Sciences                       T B sc-like readlen illumina nextseq unknown random_priming unknown sc single_cell_generic generic-scrnaseq-only   China 2024-12-04 Adult Adult Brain Nervous System
65609 65609 SRR15422672 SRX11724282 SRS9753568 SRP332210 PRJNA754013 Gene family evolution underlies cell type diversification in the hypothalamus of teleosts PRJNA754013 Other Single cell sequencing of the hypothalamus and pre optic area of the zebrafish Danio rerio and Mexican tetra Astyanax mexicanus       Danio rerio hypo16 hypo16   strain:TLAB|age:Adult|sex:pooled male and female|tissue:Hypothalamus and Pre optic area|replicate:16|BioSampleModel:Model organism or animal                 Danio rerio Hypo4 4 HH522BGX7 Hypo4 4 HH522BGX7 Hypo4 4 Isolated cells from the hypothalamus and pre optic area     RNA-Seq TRANSCRIPTOMIC SINGLE CELL cDNA PAIRED ILLUMINA NextSeq 500   SRP332210     HH522BGX7_Hypo4_4_S8_L001_R1_001.fastq.gz HH522BGX7_Hypo4_4_S8_L001_R2_001.fastq.gz HH522BGX7_Hypo4_4_S8_L002_R1_001.fastq.gz HH522BGX7_Hypo4_4_S8_L002_R2_001.fastq.gz HH522BGX7_Hypo4_4_S8_L003_R1_001.fastq.gz HH522BGX7_Hypo4_4_S8_L003_R2_001.fastq.gz HH522BGX7_Hypo4_4_S8_L004_R1_001.fastq.gz HH522BGX7_Hypo4_4_S8_L004_R2_001.fastq.gz fastq fastq fastq fastq fastq fastq fastq fastq 6262355988.0 74551857.0 HH522BGX7 Hypo4 4 S8 L001 R1 001.fastq.gz 0:26 1:58 A:1748880718;C:1271376242;G:1428722723;T:1812008087;N:1368218 26 58     1748880718 1271376242 1428722723 1812008087 1368218 SRX11724282 SRS9753568 SRA1276953 University Of Basel|Biozentrum University Of Basel 2 0.00964 0.8744 0.00432 0.32534 0.98602 0.79381 0.38348 0.51288 26 58 T B sc-like readlen illumina nextseq unknown cdna_unspecified unknown sc single_cell_generic generic-scrnaseq-only   Switzerland 2021-08-12 Adult Adult Brain Nervous System
65610 65610 SRR15422673 SRX11724281 SRS9753567 SRP332210 PRJNA754013 Gene family evolution underlies cell type diversification in the hypothalamus of teleosts PRJNA754013 Other Single cell sequencing of the hypothalamus and pre optic area of the zebrafish Danio rerio and Mexican tetra Astyanax mexicanus       Danio rerio hypo15 hypo15   strain:TLAB|age:Adult|sex:pooled male and female|tissue:Hypothalamus and Pre optic area|replicate:15|BioSampleModel:Model organism or animal                 Danio rerio Hypo4 3 HH522BGX7 Hypo4 3 HH522BGX7 Hypo4 3 Isolated cells from the hypothalamus and pre optic area     RNA-Seq TRANSCRIPTOMIC SINGLE CELL cDNA PAIRED ILLUMINA NextSeq 500   SRP332210     HH522BGX7_Hypo4_3_S7_L001_R1_001.fastq.gz HH522BGX7_Hypo4_3_S7_L001_R2_001.fastq.gz HH522BGX7_Hypo4_3_S7_L002_R1_001.fastq.gz HH522BGX7_Hypo4_3_S7_L002_R2_001.fastq.gz HH522BGX7_Hypo4_3_S7_L003_R1_001.fastq.gz HH522BGX7_Hypo4_3_S7_L003_R2_001.fastq.gz HH522BGX7_Hypo4_3_S7_L004_R1_001.fastq.gz HH522BGX7_Hypo4_3_S7_L004_R2_001.fastq.gz fastq fastq fastq fastq fastq fastq fastq fastq 8750201376.0 104169064.0 HH522BGX7 Hypo4 3 S7 L001 R1 001.fastq.gz 0:26 1:58 A:2448681422;C:1777592307;G:1965663385;T:2556345766;N:1918496 26 58     2448681422 1777592307 1965663385 2556345766 1918496 SRX11724281 SRS9753567 SRA1276953 University Of Basel|Biozentrum University Of Basel 2 0.00877 0.87911 0.00394 0.33177 0.98772 0.79066 0.39447 0.51361 26 58 T B sc-like readlen illumina nextseq unknown cdna_unspecified unknown sc single_cell_generic generic-scrnaseq-only   Switzerland 2021-08-12 Adult Adult Brain Nervous System
65611 65611 SRR15422674 SRX11724280 SRS9753566 SRP332210 PRJNA754013 Gene family evolution underlies cell type diversification in the hypothalamus of teleosts PRJNA754013 Other Single cell sequencing of the hypothalamus and pre optic area of the zebrafish Danio rerio and Mexican tetra Astyanax mexicanus       Danio rerio hypo14 hypo14   strain:TLAB|age:Adult|sex:pooled male and female|tissue:Hypothalamus and Pre optic area|replicate:14|BioSampleModel:Model organism or animal                 Danio rerio Hypo4 2 HH522BGX7 Hypo4 2 HH522BGX7 Hypo4 2 Isolated cells from the hypothalamus and pre optic area     RNA-Seq TRANSCRIPTOMIC SINGLE CELL cDNA PAIRED ILLUMINA NextSeq 500   SRP332210     HH522BGX7_Hypo4_2_S6_L001_R1_001.fastq.gz HH522BGX7_Hypo4_2_S6_L001_R2_001.fastq.gz HH522BGX7_Hypo4_2_S6_L002_R1_001.fastq.gz HH522BGX7_Hypo4_2_S6_L002_R2_001.fastq.gz HH522BGX7_Hypo4_2_S6_L003_R1_001.fastq.gz HH522BGX7_Hypo4_2_S6_L003_R2_001.fastq.gz HH522BGX7_Hypo4_2_S6_L004_R1_001.fastq.gz HH522BGX7_Hypo4_2_S6_L004_R2_001.fastq.gz fastq fastq fastq fastq fastq fastq fastq fastq 7300091988.0 86905857.0 HH522BGX7 Hypo4 2 S6 L001 R1 001.fastq.gz 0:26 1:58 A:2040429972;C:1487829531;G:1644053482;T:2126185411;N:1593592 26 58     2040429972 1487829531 1644053482 2126185411 1593592 SRX11724280 SRS9753566 SRA1276953 University Of Basel|Biozentrum University Of Basel 2 0.00862 0.88101 0.00407 0.33043 0.98831 0.79113 0.39569 0.51352 26 58 T B sc-like readlen illumina nextseq unknown cdna_unspecified unknown sc single_cell_generic generic-scrnaseq-only   Switzerland 2021-08-12 Adult Adult Brain Nervous System
65612 65612 SRR15422675 SRX11724279 SRS9753565 SRP332210 PRJNA754013 Gene family evolution underlies cell type diversification in the hypothalamus of teleosts PRJNA754013 Other Single cell sequencing of the hypothalamus and pre optic area of the zebrafish Danio rerio and Mexican tetra Astyanax mexicanus       Danio rerio hypo13 hypo13   strain:TLAB|age:Adult|sex:pooled male and female|tissue:Hypothalamus and Pre optic area|replicate:13|BioSampleModel:Model organism or animal                 Danio rerio Hypo4 1 HH522BGX7 Hypo4 1 HH522BGX7 Hypo4 1 Isolated cells from the hypothalamus and pre optic area     RNA-Seq TRANSCRIPTOMIC SINGLE CELL cDNA PAIRED ILLUMINA NextSeq 500   SRP332210     HH522BGX7_Hypo4_1_S5_L001_R1_001.fastq.gz HH522BGX7_Hypo4_1_S5_L001_R2_001.fastq.gz HH522BGX7_Hypo4_1_S5_L002_R1_001.fastq.gz HH522BGX7_Hypo4_1_S5_L002_R2_001.fastq.gz HH522BGX7_Hypo4_1_S5_L003_R1_001.fastq.gz HH522BGX7_Hypo4_1_S5_L003_R2_001.fastq.gz HH522BGX7_Hypo4_1_S5_L004_R1_001.fastq.gz HH522BGX7_Hypo4_1_S5_L004_R2_001.fastq.gz fastq fastq fastq fastq fastq fastq fastq fastq 6684683460.0 79579565.0 HH522BGX7 Hypo4 1 S5 L001 R1 001.fastq.gz 0:26 1:58 A:1862496498;C:1362327934;G:1514584040;T:1943822585;N:1452403 26 58     1862496498 1362327934 1514584040 1943822585 1452403 SRX11724279 SRS9753565 SRA1276953 University Of Basel|Biozentrum University Of Basel 2 0.00839 0.87994 0.00398 0.33381 0.98863 0.78977 0.39148 0.50672 26 58 T B sc-like readlen illumina nextseq unknown cdna_unspecified unknown sc single_cell_generic generic-scrnaseq-only   Switzerland 2021-08-12 Adult Adult Brain Nervous System
65613 65613 SRR15422676 SRX11724278 SRS9753564 SRP332210 PRJNA754013 Gene family evolution underlies cell type diversification in the hypothalamus of teleosts PRJNA754013 Other Single cell sequencing of the hypothalamus and pre optic area of the zebrafish Danio rerio and Mexican tetra Astyanax mexicanus       Danio rerio hypo12 hypo12   strain:TLAB|age:Adult|sex:pooled male and female|tissue:Hypothalamus and Pre optic area|replicate:12|BioSampleModel:Model organism or animal                 Danio rerio Hypo3 4 HH522BGX7 Hypo3 4 HH522BGX7 Hypo3 4 Isolated cells from the hypothalamus and pre optic area     RNA-Seq TRANSCRIPTOMIC SINGLE CELL cDNA PAIRED ILLUMINA NextSeq 500   SRP332210     HH522BGX7_Hypo3_4_S4_L001_R1_001.fastq.gz HH522BGX7_Hypo3_4_S4_L001_R2_001.fastq.gz HH522BGX7_Hypo3_4_S4_L002_R1_001.fastq.gz HH522BGX7_Hypo3_4_S4_L002_R2_001.fastq.gz HH522BGX7_Hypo3_4_S4_L003_R1_001.fastq.gz HH522BGX7_Hypo3_4_S4_L003_R2_001.fastq.gz HH522BGX7_Hypo3_4_S4_L004_R1_001.fastq.gz HH522BGX7_Hypo3_4_S4_L004_R2_001.fastq.gz fastq fastq fastq fastq fastq fastq fastq fastq 5487634404.0 65328981.0 HH522BGX7 Hypo3 4 S4 L001 R1 001.fastq.gz 0:26 1:58 A:1548947094;C:1105469456;G:1242885053;T:1589149763;N:1183038 26 58     1548947094 1105469456 1242885053 1589149763 1183038 SRX11724278 SRS9753564 SRA1276953 University Of Basel|Biozentrum University Of Basel 2 0.01106 0.8647 0.00553 0.36393 0.98524 0.79653 0.40502 0.51169 26 58 T B sc-like readlen illumina nextseq unknown cdna_unspecified unknown sc single_cell_generic generic-scrnaseq-only   Switzerland 2021-08-12 Adult Adult Brain Nervous System
65614 65614 SRR15422677 SRX11724277 SRS9753563 SRP332210 PRJNA754013 Gene family evolution underlies cell type diversification in the hypothalamus of teleosts PRJNA754013 Other Single cell sequencing of the hypothalamus and pre optic area of the zebrafish Danio rerio and Mexican tetra Astyanax mexicanus       Danio rerio hypo11 hypo11   strain:TLAB|age:Adult|sex:pooled male and female|tissue:Hypothalamus and Pre optic area|replicate:11|BioSampleModel:Model organism or animal                 Danio rerio Hypo3 3 HH522BGX7 Hypo3 3 HH522BGX7 Hypo3 3 Isolated cells from the hypothalamus and pre optic area     RNA-Seq TRANSCRIPTOMIC SINGLE CELL cDNA PAIRED ILLUMINA NextSeq 500   SRP332210     HH522BGX7_Hypo3_3_S3_L001_R1_001.fastq.gz HH522BGX7_Hypo3_3_S3_L001_R2_001.fastq.gz HH522BGX7_Hypo3_3_S3_L002_R1_001.fastq.gz HH522BGX7_Hypo3_3_S3_L002_R2_001.fastq.gz HH522BGX7_Hypo3_3_S3_L003_R1_001.fastq.gz HH522BGX7_Hypo3_3_S3_L003_R2_001.fastq.gz HH522BGX7_Hypo3_3_S3_L004_R1_001.fastq.gz HH522BGX7_Hypo3_3_S3_L004_R2_001.fastq.gz fastq fastq fastq fastq fastq fastq fastq fastq 4770155880.0 56787570.0 HH522BGX7 Hypo3 3 S3 L001 R1 001.fastq.gz 0:26 1:58 A:1341237732;C:968489461;G:1073928770;T:1385468752;N:1031165 26 58     1341237732 968489461 1073928770 1385468752 1031165 SRX11724277 SRS9753563 SRA1276953 University Of Basel|Biozentrum University Of Basel 2 0.01049 0.87031 0.00518 0.36198 0.98658 0.79985 0.44241 0.5179 26 58 T B sc-like readlen illumina nextseq unknown cdna_unspecified unknown sc single_cell_generic generic-scrnaseq-only   Switzerland 2021-08-12 Adult Adult Brain Nervous System
65615 65615 SRR15422678 SRX11724276 SRS9753562 SRP332210 PRJNA754013 Gene family evolution underlies cell type diversification in the hypothalamus of teleosts PRJNA754013 Other Single cell sequencing of the hypothalamus and pre optic area of the zebrafish Danio rerio and Mexican tetra Astyanax mexicanus       Danio rerio hypo10 hypo10   strain:TLAB|age:Adult|sex:pooled male and female|tissue:Hypothalamus and Pre optic area|replicate:10|BioSampleModel:Model organism or animal                 Danio rerio Hypo3 2 HH522BGX7 Hypo3 2 HH522BGX7 Hypo3 2 Isolated cells from the hypothalamus and pre optic area     RNA-Seq TRANSCRIPTOMIC SINGLE CELL cDNA PAIRED ILLUMINA NextSeq 500   SRP332210     HH522BGX7_Hypo3_2_S2_L001_R1_001.fastq.gz HH522BGX7_Hypo3_2_S2_L001_R2_001.fastq.gz HH522BGX7_Hypo3_2_S2_L002_R1_001.fastq.gz HH522BGX7_Hypo3_2_S2_L002_R2_001.fastq.gz HH522BGX7_Hypo3_2_S2_L003_R1_001.fastq.gz HH522BGX7_Hypo3_2_S2_L003_R2_001.fastq.gz HH522BGX7_Hypo3_2_S2_L004_R1_001.fastq.gz HH522BGX7_Hypo3_2_S2_L004_R2_001.fastq.gz fastq fastq fastq fastq fastq fastq fastq fastq 6731642316.0 80138599.0 HH522BGX7 Hypo3 2 S2 L001 R1 001.fastq.gz 0:26 1:58 A:1897032253;C:1364158257;G:1495510740;T:1973485007;N:1456059 26 58     1897032253 1364158257 1495510740 1973485007 1456059 SRX11724276 SRS9753562 SRA1276953 University Of Basel|Biozentrum University Of Basel 2 0.01036 0.87405 0.00557 0.36213 0.98719 0.79312 0.40759 0.50778 26 58 T B sc-like readlen illumina nextseq unknown cdna_unspecified unknown sc single_cell_generic generic-scrnaseq-only   Switzerland 2021-08-12 Adult Adult Brain Nervous System
65616 65616 SRR15422679 SRX11724275 SRS9753561 SRP332210 PRJNA754013 Gene family evolution underlies cell type diversification in the hypothalamus of teleosts PRJNA754013 Other Single cell sequencing of the hypothalamus and pre optic area of the zebrafish Danio rerio and Mexican tetra Astyanax mexicanus       Danio rerio hypo9 hypo9   strain:TLAB|age:Adult|sex:pooled male and female|tissue:Hypothalamus and Pre optic area|replicate:9|BioSampleModel:Model organism or animal                 Danio rerio Hypo3 1 HH522BGX7 Hypo3 1 HH522BGX7 Hypo3 1 Isolated cells from the hypothalamus and pre optic area     RNA-Seq TRANSCRIPTOMIC SINGLE CELL cDNA PAIRED ILLUMINA NextSeq 500   SRP332210   loader:fastq load.py|options: allowEarlyFileEnd maxErrorCount=0 HH522BGX7_Hypo3_1_S1_L001_R1_001.fastq.gz HH522BGX7_Hypo3_1_S1_L001_R2_001.fastq.gz HH522BGX7_Hypo3_1_S1_L002_R1_001.fastq.gz HH522BGX7_Hypo3_1_S1_L002_R2_001.fastq.gz HH522BGX7_Hypo3_1_S1_L003_R1_001.fastq.gz HH522BGX7_Hypo3_1_S1_L003_R2_001.fastq.gz HH522BGX7_Hypo3_1_S1_L004_R1_001.fastq.gz HH522BGX7_Hypo3_1_S1_L004_R2_001.fastq.gz fastq fastq fastq fastq fastq fastq fastq fastq 4500565612.0 76028051.0 HH522BGX7 Hypo3 1 S1 L001 R1 001.fastq.gz   A:1282794021;C:893111830;G:996582900;T:1327025653;N:1051208         1282794021 893111830 996582900 1327025653 1051208 SRX11724275 SRS9753561 SRA1276953 University Of Basel|Biozentrum University Of Basel 2 0.00913 0.87168 0.00483 0.37432 0.99584 0.88152 0.38888 0.51526 26 58 T B sc-like readlen illumina nextseq unknown cdna_unspecified unknown sc single_cell_generic generic-scrnaseq-only   Switzerland 2021-08-16 Adult Adult Brain Nervous System
65617 65617 SRR15422681 SRX11724273 SRS9753568 SRP332210 PRJNA754013 Gene family evolution underlies cell type diversification in the hypothalamus of teleosts PRJNA754013 Other Single cell sequencing of the hypothalamus and pre optic area of the zebrafish Danio rerio and Mexican tetra Astyanax mexicanus       Danio rerio hypo16 hypo16   strain:TLAB|age:Adult|sex:pooled male and female|tissue:Hypothalamus and Pre optic area|replicate:16|BioSampleModel:Model organism or animal                 Danio rerio Hypo4 4 HH3WVBGX7 Hypo4 4 HH3WVBGX7 Hypo4 4 Isolated cells from the hypothalamus and pre optic area     RNA-Seq TRANSCRIPTOMIC SINGLE CELL cDNA PAIRED ILLUMINA NextSeq 500   SRP332210     HH3WVBGX7_Hypo4_4_S8_L001_R1_001.fastq.gz HH3WVBGX7_Hypo4_4_S8_L001_R2_001.fastq.gz HH3WVBGX7_Hypo4_4_S8_L002_R1_001.fastq.gz HH3WVBGX7_Hypo4_4_S8_L002_R2_001.fastq.gz HH3WVBGX7_Hypo4_4_S8_L003_R1_001.fastq.gz HH3WVBGX7_Hypo4_4_S8_L003_R2_001.fastq.gz HH3WVBGX7_Hypo4_4_S8_L004_R1_001.fastq.gz HH3WVBGX7_Hypo4_4_S8_L004_R2_001.fastq.gz fastq fastq fastq fastq fastq fastq fastq fastq 5012056476.0 59667339.0 HH3WVBGX7 Hypo4 4 S8 L001 R1 001.fastq.gz 0:26 1:58 A:1392573638;C:1030105701;G:1151302184;T:1437320597;N:754356 26 58     1392573638 1030105701 1151302184 1437320597 754356 SRX11724273 SRS9753568 SRA1276953 University Of Basel|Biozentrum University Of Basel 2 0.01007 0.87808 0.00429 0.30938 0.98405 0.77776 0.40917 0.5179 26 58 T B sc-like readlen illumina nextseq unknown cdna_unspecified unknown sc single_cell_generic generic-scrnaseq-only   Switzerland 2021-08-12 Adult Adult Brain Nervous System
65618 65618 SRR15422682 SRX11724272 SRS9753567 SRP332210 PRJNA754013 Gene family evolution underlies cell type diversification in the hypothalamus of teleosts PRJNA754013 Other Single cell sequencing of the hypothalamus and pre optic area of the zebrafish Danio rerio and Mexican tetra Astyanax mexicanus       Danio rerio hypo15 hypo15   strain:TLAB|age:Adult|sex:pooled male and female|tissue:Hypothalamus and Pre optic area|replicate:15|BioSampleModel:Model organism or animal                 Danio rerio Hypo4 3 HH3WVBGX7 Hypo4 3 HH3WVBGX7 Hypo4 3 Isolated cells from the hypothalamus and pre optic area     RNA-Seq TRANSCRIPTOMIC SINGLE CELL cDNA PAIRED ILLUMINA NextSeq 500   SRP332210     HH3WVBGX7_Hypo4_3_S7_L001_R1_001.fastq.gz HH3WVBGX7_Hypo4_3_S7_L001_R2_001.fastq.gz HH3WVBGX7_Hypo4_3_S7_L002_R1_001.fastq.gz HH3WVBGX7_Hypo4_3_S7_L002_R2_001.fastq.gz HH3WVBGX7_Hypo4_3_S7_L003_R1_001.fastq.gz HH3WVBGX7_Hypo4_3_S7_L003_R2_001.fastq.gz HH3WVBGX7_Hypo4_3_S7_L004_R1_001.fastq.gz HH3WVBGX7_Hypo4_3_S7_L004_R2_001.fastq.gz fastq fastq fastq fastq fastq fastq fastq fastq 6967683744.0 82948616.0 HH3WVBGX7 Hypo4 3 S7 L001 R1 001.fastq.gz 0:26 1:58 A:1941162826;C:1432940319;G:1573885669;T:2018631999;N:1062931 26 58     1941162826 1432940319 1573885669 2018631999 1062931 SRX11724272 SRS9753567 SRA1276953 University Of Basel|Biozentrum University Of Basel 2 0.00918 0.885 0.00422 0.31338 0.98626 0.77378 0.40043 0.5028 26 58 T B sc-like readlen illumina nextseq unknown cdna_unspecified unknown sc single_cell_generic generic-scrnaseq-only   Switzerland 2021-08-12 Adult Adult Brain Nervous System
65619 65619 SRR15422683 SRX11724271 SRS9753566 SRP332210 PRJNA754013 Gene family evolution underlies cell type diversification in the hypothalamus of teleosts PRJNA754013 Other Single cell sequencing of the hypothalamus and pre optic area of the zebrafish Danio rerio and Mexican tetra Astyanax mexicanus       Danio rerio hypo14 hypo14   strain:TLAB|age:Adult|sex:pooled male and female|tissue:Hypothalamus and Pre optic area|replicate:14|BioSampleModel:Model organism or animal                 Danio rerio Hypo4 2 HH3WVBGX7 Hypo4 2 HH3WVBGX7 Hypo4 2 Isolated cells from the hypothalamus and pre optic area     RNA-Seq TRANSCRIPTOMIC SINGLE CELL cDNA PAIRED ILLUMINA NextSeq 500   SRP332210     HH3WVBGX7_Hypo4_2_S6_L001_R1_001.fastq.gz HH3WVBGX7_Hypo4_2_S6_L001_R2_001.fastq.gz HH3WVBGX7_Hypo4_2_S6_L002_R1_001.fastq.gz HH3WVBGX7_Hypo4_2_S6_L002_R2_001.fastq.gz HH3WVBGX7_Hypo4_2_S6_L003_R1_001.fastq.gz HH3WVBGX7_Hypo4_2_S6_L003_R2_001.fastq.gz HH3WVBGX7_Hypo4_2_S6_L004_R1_001.fastq.gz HH3WVBGX7_Hypo4_2_S6_L004_R2_001.fastq.gz fastq fastq fastq fastq fastq fastq fastq fastq 5836367796.0 69480569.0 HH3WVBGX7 Hypo4 2 S6 L001 R1 001.fastq.gz 0:26 1:58 A:1624869826;C:1203922975;G:1320848987;T:1685834089;N:891919 26 58     1624869826 1203922975 1320848987 1685834089 891919 SRX11724271 SRS9753566 SRA1276953 University Of Basel|Biozentrum University Of Basel 2 0.00946 0.8844 0.00429 0.31013 0.98579 0.7741 0.42243 0.50788 26 58 T B sc-like readlen illumina nextseq unknown cdna_unspecified unknown sc single_cell_generic generic-scrnaseq-only   Switzerland 2021-08-12 Adult Adult Brain Nervous System
65620 65620 SRR15422684 SRX11724270 SRS9753565 SRP332210 PRJNA754013 Gene family evolution underlies cell type diversification in the hypothalamus of teleosts PRJNA754013 Other Single cell sequencing of the hypothalamus and pre optic area of the zebrafish Danio rerio and Mexican tetra Astyanax mexicanus       Danio rerio hypo13 hypo13   strain:TLAB|age:Adult|sex:pooled male and female|tissue:Hypothalamus and Pre optic area|replicate:13|BioSampleModel:Model organism or animal                 Danio rerio Hypo4 1 HH3WVBGX7 Hypo4 1 HH3WVBGX7 Hypo4 1 Isolated cells from the hypothalamus and pre optic area     RNA-Seq TRANSCRIPTOMIC SINGLE CELL cDNA PAIRED ILLUMINA NextSeq 500   SRP332210     HH3WVBGX7_Hypo4_1_S5_L001_R1_001.fastq.gz HH3WVBGX7_Hypo4_1_S5_L001_R2_001.fastq.gz HH3WVBGX7_Hypo4_1_S5_L002_R1_001.fastq.gz HH3WVBGX7_Hypo4_1_S5_L002_R2_001.fastq.gz HH3WVBGX7_Hypo4_1_S5_L003_R1_001.fastq.gz HH3WVBGX7_Hypo4_1_S5_L003_R2_001.fastq.gz HH3WVBGX7_Hypo4_1_S5_L004_R1_001.fastq.gz HH3WVBGX7_Hypo4_1_S5_L004_R2_001.fastq.gz fastq fastq fastq fastq fastq fastq fastq fastq 5365826508.0 63878887.0 HH3WVBGX7 Hypo4 1 S5 L001 R1 001.fastq.gz 0:26 1:58 A:1488331293;C:1106912036;G:1222568816;T:1547197702;N:816661 26 58     1488331293 1106912036 1222568816 1547197702 816661 SRX11724270 SRS9753565 SRA1276953 University Of Basel|Biozentrum University Of Basel 2 0.00915 0.88405 0.004 0.31331 0.9853 0.77315 0.43613 0.51273 26 58 T B sc-like readlen illumina nextseq unknown cdna_unspecified unknown sc single_cell_generic generic-scrnaseq-only   Switzerland 2021-08-12 Adult Adult Brain Nervous System
65621 65621 SRR15422685 SRX11724269 SRS9753564 SRP332210 PRJNA754013 Gene family evolution underlies cell type diversification in the hypothalamus of teleosts PRJNA754013 Other Single cell sequencing of the hypothalamus and pre optic area of the zebrafish Danio rerio and Mexican tetra Astyanax mexicanus       Danio rerio hypo12 hypo12   strain:TLAB|age:Adult|sex:pooled male and female|tissue:Hypothalamus and Pre optic area|replicate:12|BioSampleModel:Model organism or animal                 Danio rerio Hypo3 4 HH3WVBGX7 Hypo3 4 HH3WVBGX7 Hypo3 4 Isolated cells from the hypothalamus and pre optic area     RNA-Seq TRANSCRIPTOMIC SINGLE CELL cDNA PAIRED ILLUMINA NextSeq 500   SRP332210     HH3WVBGX7_Hypo3_4_S4_L001_R1_001.fastq.gz HH3WVBGX7_Hypo3_4_S4_L001_R2_001.fastq.gz HH3WVBGX7_Hypo3_4_S4_L002_R1_001.fastq.gz HH3WVBGX7_Hypo3_4_S4_L002_R2_001.fastq.gz HH3WVBGX7_Hypo3_4_S4_L003_R1_001.fastq.gz HH3WVBGX7_Hypo3_4_S4_L003_R2_001.fastq.gz HH3WVBGX7_Hypo3_4_S4_L004_R1_001.fastq.gz HH3WVBGX7_Hypo3_4_S4_L004_R2_001.fastq.gz fastq fastq fastq fastq fastq fastq fastq fastq 4449600036.0 52971429.0 HH3WVBGX7 Hypo3 4 S4 L001 R1 001.fastq.gz 0:26 1:58 A:1250995221;C:906325074;G:1014757233;T:1276844537;N:677971 26 58     1250995221 906325074 1014757233 1276844537 677971 SRX11724269 SRS9753564 SRA1276953 University Of Basel|Biozentrum University Of Basel 2 0.01198 0.8721 0.00562 0.34659 0.98261 0.78192 0.39983 0.51133 26 58 T B sc-like readlen illumina nextseq unknown cdna_unspecified unknown sc single_cell_generic generic-scrnaseq-only   Switzerland 2021-08-12 Adult Adult Brain Nervous System
65622 65622 SRR15422686 SRX11724268 SRS9753563 SRP332210 PRJNA754013 Gene family evolution underlies cell type diversification in the hypothalamus of teleosts PRJNA754013 Other Single cell sequencing of the hypothalamus and pre optic area of the zebrafish Danio rerio and Mexican tetra Astyanax mexicanus       Danio rerio hypo11 hypo11   strain:TLAB|age:Adult|sex:pooled male and female|tissue:Hypothalamus and Pre optic area|replicate:11|BioSampleModel:Model organism or animal                 Danio rerio Hypo3 3 HH3WVBGX7 Hypo3 3 HH3WVBGX7 Hypo3 3 Isolated cells from the hypothalamus and pre optic area     RNA-Seq TRANSCRIPTOMIC SINGLE CELL cDNA PAIRED ILLUMINA NextSeq 500   SRP332210     HH3WVBGX7_Hypo3_3_S3_L001_R1_001.fastq.gz HH3WVBGX7_Hypo3_3_S3_L001_R2_001.fastq.gz HH3WVBGX7_Hypo3_3_S3_L002_R1_001.fastq.gz HH3WVBGX7_Hypo3_3_S3_L002_R2_001.fastq.gz HH3WVBGX7_Hypo3_3_S3_L003_R1_001.fastq.gz HH3WVBGX7_Hypo3_3_S3_L003_R2_001.fastq.gz HH3WVBGX7_Hypo3_3_S3_L004_R1_001.fastq.gz HH3WVBGX7_Hypo3_3_S3_L004_R2_001.fastq.gz fastq fastq fastq fastq fastq fastq fastq fastq 3905985468.0 46499827.0 HH3WVBGX7 Hypo3 3 S3 L001 R1 001.fastq.gz 0:26 1:58 A:1094646798;C:801886086;G:884381365;T:1124475909;N:595310 26 58     1094646798 801886086 884381365 1124475909 595310 SRX11724268 SRS9753563 SRA1276953 University Of Basel|Biozentrum University Of Basel 2 0.01096 0.87718 0.00515 0.34683 0.98415 0.78297 0.40968 0.5155 26 58 T B sc-like readlen illumina nextseq unknown cdna_unspecified unknown sc single_cell_generic generic-scrnaseq-only   Switzerland 2021-08-12 Adult Adult Brain Nervous System
65623 65623 SRR15422687 SRX11724267 SRS9753562 SRP332210 PRJNA754013 Gene family evolution underlies cell type diversification in the hypothalamus of teleosts PRJNA754013 Other Single cell sequencing of the hypothalamus and pre optic area of the zebrafish Danio rerio and Mexican tetra Astyanax mexicanus       Danio rerio hypo10 hypo10   strain:TLAB|age:Adult|sex:pooled male and female|tissue:Hypothalamus and Pre optic area|replicate:10|BioSampleModel:Model organism or animal                 Danio rerio Hypo3 2 HH3WVBGX7 Hypo3 2 HH3WVBGX7 Hypo3 2 Isolated cells from the hypothalamus and pre optic area     RNA-Seq TRANSCRIPTOMIC SINGLE CELL cDNA PAIRED ILLUMINA NextSeq 500   SRP332210     HH3WVBGX7_Hypo3_2_S2_L001_R1_001.fastq.gz HH3WVBGX7_Hypo3_2_S2_L001_R2_001.fastq.gz HH3WVBGX7_Hypo3_2_S2_L002_R1_001.fastq.gz HH3WVBGX7_Hypo3_2_S2_L002_R2_001.fastq.gz HH3WVBGX7_Hypo3_2_S2_L003_R1_001.fastq.gz HH3WVBGX7_Hypo3_2_S2_L003_R2_001.fastq.gz HH3WVBGX7_Hypo3_2_S2_L004_R1_001.fastq.gz HH3WVBGX7_Hypo3_2_S2_L004_R2_001.fastq.gz fastq fastq fastq fastq fastq fastq fastq fastq 5406634464.0 64364696.0 HH3WVBGX7 Hypo3 2 S2 L001 R1 001.fastq.gz 0:26 1:58 A:1514445384;C:1108968676;G:1210882892;T:1571507599;N:829913 26 58     1514445384 1108968676 1210882892 1571507599 829913 SRX11724267 SRS9753562 SRA1276953 University Of Basel|Biozentrum University Of Basel 2 0.01052 0.87916 0.00508 0.33946 0.98506 0.77429 0.39801 0.51179 26 58 T B sc-like readlen illumina nextseq unknown cdna_unspecified unknown sc single_cell_generic generic-scrnaseq-only   Switzerland 2021-08-12 Adult Adult Brain Nervous System
65624 65624 SRR15422688 SRX11724266 SRS9753561 SRP332210 PRJNA754013 Gene family evolution underlies cell type diversification in the hypothalamus of teleosts PRJNA754013 Other Single cell sequencing of the hypothalamus and pre optic area of the zebrafish Danio rerio and Mexican tetra Astyanax mexicanus       Danio rerio hypo9 hypo9   strain:TLAB|age:Adult|sex:pooled male and female|tissue:Hypothalamus and Pre optic area|replicate:9|BioSampleModel:Model organism or animal                 Danio rerio Hypo3 1 HH3WVBGX7 Hypo3 1 HH3WVBGX7 Hypo3 1 Isolated cells from the hypothalamus and pre optic area     RNA-Seq TRANSCRIPTOMIC SINGLE CELL cDNA PAIRED ILLUMINA NextSeq 500   SRP332210     HH3WVBGX7_Hypo3_1_S1_L001_R1_001.fastq.gz HH3WVBGX7_Hypo3_1_S1_L001_R2_001.fastq.gz HH3WVBGX7_Hypo3_1_S1_L002_R1_001.fastq.gz HH3WVBGX7_Hypo3_1_S1_L002_R2_001.fastq.gz HH3WVBGX7_Hypo3_1_S1_L003_R1_001.fastq.gz HH3WVBGX7_Hypo3_1_S1_L003_R2_001.fastq.gz HH3WVBGX7_Hypo3_1_S1_L004_R1_001.fastq.gz HH3WVBGX7_Hypo3_1_S1_L004_R2_001.fastq.gz fastq fastq fastq fastq fastq fastq fastq fastq 5241021828.0 62393117.0 HH3WVBGX7 Hypo3 1 S1 L001 R1 001.fastq.gz 0:26 1:58 A:1470928437;C:1074698274;G:1171454693;T:1523143068;N:797356 26 58     1470928437 1074698274 1171454693 1523143068 797356 SRX11724266 SRS9753561 SRA1276953 University Of Basel|Biozentrum University Of Basel 2 0.01011 0.87991 0.00494 0.35618 0.98545 0.77979 0.40748 0.49973 26 58 T B sc-like readlen illumina nextseq unknown cdna_unspecified unknown sc single_cell_generic generic-scrnaseq-only   Switzerland 2021-08-12 Adult Adult Brain Nervous System
65625 65625 SRR15422689 SRX11724265 SRS9753560 SRP332210 PRJNA754013 Gene family evolution underlies cell type diversification in the hypothalamus of teleosts PRJNA754013 Other Single cell sequencing of the hypothalamus and pre optic area of the zebrafish Danio rerio and Mexican tetra Astyanax mexicanus       Danio rerio hypo8 hypo8   strain:TLAB|age:Adult|sex:pooled male and female|tissue:Hypothalamus and Pre optic area|replicate:8|BioSampleModel:Model organism or animal                 Danio rerio Hypo2 4 HVV72BGX5 Hypo2 4 HVV72BGX5 Hypo2 4 Isolated cells from the hypothalamus and pre optic area     RNA-Seq TRANSCRIPTOMIC SINGLE CELL cDNA PAIRED ILLUMINA NextSeq 500   SRP332210     HVV72BGX5_Hypo2_4_S4_L001_R1_001.fastq.gz HVV72BGX5_Hypo2_4_S4_L001_R2_001.fastq.gz HVV72BGX5_Hypo2_4_S4_L002_R1_001.fastq.gz HVV72BGX5_Hypo2_4_S4_L002_R2_001.fastq.gz HVV72BGX5_Hypo2_4_S4_L003_R1_001.fastq.gz HVV72BGX5_Hypo2_4_S4_L003_R2_001.fastq.gz HVV72BGX5_Hypo2_4_S4_L004_R1_001.fastq.gz HVV72BGX5_Hypo2_4_S4_L004_R2_001.fastq.gz fastq fastq fastq fastq fastq fastq fastq fastq 9447545268.0 112470777.0 HVV72BGX5 Hypo2 4 S4 L001 R1 001.fastq.gz 0:26 1:58 A:2759540331;C:1870611763;G:2225138299;T:2576101207;N:16153668 26 58     2759540331 1870611763 2225138299 2576101207 16153668 SRX11724265 SRS9753560 SRA1276953 University Of Basel|Biozentrum University Of Basel 2 0.01474 0.85093 0.00531 0.30616 0.97617 0.81903 0.41129 0.51151 26 58 T B sc-like readlen illumina nextseq unknown cdna_unspecified unknown sc single_cell_generic generic-scrnaseq-only   Switzerland 2021-08-12 Adult Adult Brain Nervous System
65626 65626 SRR15422690 SRX11724264 SRS9753559 SRP332210 PRJNA754013 Gene family evolution underlies cell type diversification in the hypothalamus of teleosts PRJNA754013 Other Single cell sequencing of the hypothalamus and pre optic area of the zebrafish Danio rerio and Mexican tetra Astyanax mexicanus       Danio rerio hypo7 hypo7   strain:TLAB|age:Adult|sex:pooled male and female|tissue:Hypothalamus and Pre optic area|replicate:7|BioSampleModel:Model organism or animal                 Danio rerio Hypo2 3 HVV72BGX5 Hypo2 3 HVV72BGX5 Hypo2 3 Isolated cells from the hypothalamus and pre optic area     RNA-Seq TRANSCRIPTOMIC SINGLE CELL cDNA PAIRED ILLUMINA NextSeq 500   SRP332210     HVV72BGX5_Hypo2_3_S3_L001_R1_001.fastq.gz HVV72BGX5_Hypo2_3_S3_L001_R2_001.fastq.gz HVV72BGX5_Hypo2_3_S3_L002_R1_001.fastq.gz HVV72BGX5_Hypo2_3_S3_L002_R2_001.fastq.gz HVV72BGX5_Hypo2_3_S3_L003_R1_001.fastq.gz HVV72BGX5_Hypo2_3_S3_L003_R2_001.fastq.gz HVV72BGX5_Hypo2_3_S3_L004_R1_001.fastq.gz HVV72BGX5_Hypo2_3_S3_L004_R2_001.fastq.gz fastq fastq fastq fastq fastq fastq fastq fastq 10518405324.0 125219111.0 HVV72BGX5 Hypo2 3 S3 L001 R1 001.fastq.gz 0:26 1:58 A:3064660368;C:2076836719;G:2434712348;T:2924165693;N:18030196 26 58     3064660368 2076836719 2434712348 2924165693 18030196 SRX11724264 SRS9753559 SRA1276953 University Of Basel|Biozentrum University Of Basel 2 0.01407 0.85639 0.00503 0.31382 0.97624 0.80568 0.423 0.50777 26 58 T B sc-like readlen illumina nextseq unknown cdna_unspecified unknown sc single_cell_generic generic-scrnaseq-only   Switzerland 2021-08-12 Adult Adult Brain Nervous System
65627 65627 SRR15422692 SRX11724262 SRS9753558 SRP332210 PRJNA754013 Gene family evolution underlies cell type diversification in the hypothalamus of teleosts PRJNA754013 Other Single cell sequencing of the hypothalamus and pre optic area of the zebrafish Danio rerio and Mexican tetra Astyanax mexicanus       Danio rerio hypo6 hypo6   strain:TLAB|age:Adult|sex:pooled male and female|tissue:Hypothalamus and Pre optic area|replicate:6|BioSampleModel:Model organism or animal                 Danio rerio Hypo2 2 HVV72BGX5 Hypo2 2 HVV72BGX5 Hypo2 2 Isolated cells from the hypothalamus and pre optic area     RNA-Seq TRANSCRIPTOMIC SINGLE CELL cDNA PAIRED ILLUMINA NextSeq 500   SRP332210     HVV72BGX5_Hypo2_2_S2_L001_R1_001.fastq.gz HVV72BGX5_Hypo2_2_S2_L001_R2_001.fastq.gz HVV72BGX5_Hypo2_2_S2_L002_R1_001.fastq.gz HVV72BGX5_Hypo2_2_S2_L002_R2_001.fastq.gz HVV72BGX5_Hypo2_2_S2_L003_R1_001.fastq.gz HVV72BGX5_Hypo2_2_S2_L003_R2_001.fastq.gz HVV72BGX5_Hypo2_2_S2_L004_R1_001.fastq.gz HVV72BGX5_Hypo2_2_S2_L004_R2_001.fastq.gz fastq fastq fastq fastq fastq fastq fastq fastq 10090306800.0 120122700.0 HVV72BGX5 Hypo2 2 S2 L001 R1 001.fastq.gz 0:26 1:58 A:2924134323;C:2006875588;G:2335856499;T:2806249588;N:17190802 26 58     2924134323 2006875588 2335856499 2806249588 17190802 SRX11724262 SRS9753558 SRA1276953 University Of Basel|Biozentrum University Of Basel 2 0.01375 0.86351 0.00532 0.31638 0.9782 0.80864 0.40038 0.49285 26 58 T B sc-like readlen illumina nextseq unknown cdna_unspecified unknown sc single_cell_generic generic-scrnaseq-only   Switzerland 2021-08-12 Adult Adult Brain Nervous System
65628 65628 SRR15422693 SRX11724261 SRS9753557 SRP332210 PRJNA754013 Gene family evolution underlies cell type diversification in the hypothalamus of teleosts PRJNA754013 Other Single cell sequencing of the hypothalamus and pre optic area of the zebrafish Danio rerio and Mexican tetra Astyanax mexicanus       Danio rerio hypo5 hypo5   strain:TLAB|age:Adult|sex:pooled male and female|tissue:Hypothalamus and Pre optic area|replicate:5|BioSampleModel:Model organism or animal                 Danio rerio Hypo2 1 HVV72BGX5 Hypo2 1 HVV72BGX5 Hypo2 1 Isolated cells from the hypothalamus and pre optic area     RNA-Seq TRANSCRIPTOMIC SINGLE CELL cDNA PAIRED ILLUMINA NextSeq 500   SRP332210     HVV72BGX5_Hypo2_1_S1_L001_R1_001.fastq.gz HVV72BGX5_Hypo2_1_S1_L001_R2_001.fastq.gz HVV72BGX5_Hypo2_1_S1_L002_R1_001.fastq.gz HVV72BGX5_Hypo2_1_S1_L002_R2_001.fastq.gz HVV72BGX5_Hypo2_1_S1_L003_R1_001.fastq.gz HVV72BGX5_Hypo2_1_S1_L003_R2_001.fastq.gz HVV72BGX5_Hypo2_1_S1_L004_R1_001.fastq.gz HVV72BGX5_Hypo2_1_S1_L004_R2_001.fastq.gz fastq fastq fastq fastq fastq fastq fastq fastq 11903646384.0 141710076.0 HVV72BGX5 Hypo2 1 S1 L001 R1 001.fastq.gz 0:26 1:58 A:3466522737;C:2365658688;G:2760621589;T:3290492743;N:20350627 26 58     3466522737 2365658688 2760621589 3290492743 20350627 SRX11724261 SRS9753557 SRA1276953 University Of Basel|Biozentrum University Of Basel 2 0.01426 0.84622 0.00543 0.30792 0.97699 0.81442 0.40205 0.50724 26 58 T B sc-like readlen illumina nextseq unknown cdna_unspecified unknown sc single_cell_generic generic-scrnaseq-only   Switzerland 2021-08-12 Adult Adult Brain Nervous System
65629 65629 SRR15422694 SRX11724260 SRS9753556 SRP332210 PRJNA754013 Gene family evolution underlies cell type diversification in the hypothalamus of teleosts PRJNA754013 Other Single cell sequencing of the hypothalamus and pre optic area of the zebrafish Danio rerio and Mexican tetra Astyanax mexicanus       Danio rerio hypo4 hypo4   strain:TLAB|age:Adult|sex:pooled male and female|tissue:Hypothalamus and Pre optic area|replicate:4|BioSampleModel:Model organism or animal                 Danio rerio Hypo1 4 HKLCJBGX5 Hypo1 4 HKLCJBGX5 Hypo1 4 Isolated cells from the hypothalamus and pre optic area     RNA-Seq TRANSCRIPTOMIC SINGLE CELL cDNA PAIRED ILLUMINA NextSeq 500   SRP332210     HKLCJBGX5_Hypo1_4_S4_L001_R1_001.fastq.gz HKLCJBGX5_Hypo1_4_S4_L001_R2_001.fastq.gz HKLCJBGX5_Hypo1_4_S4_L002_R1_001.fastq.gz HKLCJBGX5_Hypo1_4_S4_L002_R2_001.fastq.gz HKLCJBGX5_Hypo1_4_S4_L003_R1_001.fastq.gz HKLCJBGX5_Hypo1_4_S4_L003_R2_001.fastq.gz HKLCJBGX5_Hypo1_4_S4_L004_R1_001.fastq.gz HKLCJBGX5_Hypo1_4_S4_L004_R2_001.fastq.gz fastq fastq fastq fastq fastq fastq fastq fastq 8951995248.0 106571372.0 HKLCJBGX5 Hypo1 4 S4 L001 R1 001.fastq.gz 0:26 1:58 A:2590084738;C:1834708513;G:1960148445;T:2566686793;N:366759 26 58     2590084738 1834708513 1960148445 2566686793 366759 SRX11724260 SRS9753556 SRA1276953 University Of Basel|Biozentrum University Of Basel 2 0.0111 0.88039 0.00346 0.3136 0.98058 0.86448 0.41684 0.5335 26 58 T B sc-like readlen illumina nextseq unknown cdna_unspecified unknown sc single_cell_generic generic-scrnaseq-only   Switzerland 2021-08-12 Adult Adult Brain Nervous System
65630 65630 SRR15422695 SRX11724259 SRS9753555 SRP332210 PRJNA754013 Gene family evolution underlies cell type diversification in the hypothalamus of teleosts PRJNA754013 Other Single cell sequencing of the hypothalamus and pre optic area of the zebrafish Danio rerio and Mexican tetra Astyanax mexicanus       Danio rerio hypo3 hypo3   strain:TLAB|age:Adult|sex:pooled male and female|tissue:Hypothalamus and Pre optic area|replicate:3|BioSampleModel:Model organism or animal                 Danio rerio Hypo1 3 HKLCJBGX5 Hypo1 3 HKLCJBGX5 Hypo1 3 Isolated cells from the hypothalamus and pre optic area     RNA-Seq TRANSCRIPTOMIC SINGLE CELL cDNA PAIRED ILLUMINA NextSeq 500   SRP332210     HKLCJBGX5_Hypo1_3_S3_L001_R1_001.fastq.gz HKLCJBGX5_Hypo1_3_S3_L001_R2_001.fastq.gz HKLCJBGX5_Hypo1_3_S3_L002_R1_001.fastq.gz HKLCJBGX5_Hypo1_3_S3_L002_R2_001.fastq.gz HKLCJBGX5_Hypo1_3_S3_L003_R1_001.fastq.gz HKLCJBGX5_Hypo1_3_S3_L003_R2_001.fastq.gz HKLCJBGX5_Hypo1_3_S3_L004_R1_001.fastq.gz HKLCJBGX5_Hypo1_3_S3_L004_R2_001.fastq.gz fastq fastq fastq fastq fastq fastq fastq fastq 7479693732.0 89043973.0 HKLCJBGX5 Hypo1 3 S3 L001 R1 001.fastq.gz 0:26 1:58 A:2162098332;C:1532911136;G:1641542733;T:2142832210;N:309321 26 58     2162098332 1532911136 1641542733 2142832210 309321 SRX11724259 SRS9753555 SRA1276953 University Of Basel|Biozentrum University Of Basel 2 0.01093 0.87929 0.00351 0.32394 0.98066 0.86158 0.41776 0.51383 26 58 T B sc-like readlen illumina nextseq unknown cdna_unspecified unknown sc single_cell_generic generic-scrnaseq-only   Switzerland 2021-08-12 Adult Adult Brain Nervous System
65631 65631 SRR15422696 SRX11724258 SRS9753554 SRP332210 PRJNA754013 Gene family evolution underlies cell type diversification in the hypothalamus of teleosts PRJNA754013 Other Single cell sequencing of the hypothalamus and pre optic area of the zebrafish Danio rerio and Mexican tetra Astyanax mexicanus       Danio rerio hypo2 hypo2   strain:TLAB|age:Adult|sex:pooled male and female|tissue:Hypothalamus and Pre optic area|replicate:2|BioSampleModel:Model organism or animal                 Danio rerio Hypo1 2 HKLCJBGX5 Hypo1 2 HKLCJBGX5 Hypo1 2 Isolated cells from the hypothalamus and pre optic area     RNA-Seq TRANSCRIPTOMIC SINGLE CELL cDNA PAIRED ILLUMINA NextSeq 500   SRP332210     HKLCJBGX5_Hypo1_2_S2_L001_R1_001.fastq.gz HKLCJBGX5_Hypo1_2_S2_L001_R2_001.fastq.gz HKLCJBGX5_Hypo1_2_S2_L002_R1_001.fastq.gz HKLCJBGX5_Hypo1_2_S2_L002_R2_001.fastq.gz HKLCJBGX5_Hypo1_2_S2_L003_R1_001.fastq.gz HKLCJBGX5_Hypo1_2_S2_L003_R2_001.fastq.gz HKLCJBGX5_Hypo1_2_S2_L004_R1_001.fastq.gz HKLCJBGX5_Hypo1_2_S2_L004_R2_001.fastq.gz fastq fastq fastq fastq fastq fastq fastq fastq 8968529052.0 106768203.0 HKLCJBGX5 Hypo1 2 S2 L001 R1 001.fastq.gz 0:26 1:58 A:2606421240;C:1835374524;G:1930663556;T:2595691051;N:378681 26 58     2606421240 1835374524 1930663556 2595691051 378681 SRX11724258 SRS9753554 SRA1276953 University Of Basel|Biozentrum University Of Basel 2 0.01108 0.86724 0.00365 0.3 0.98009 0.84977 0.42658 0.52389 26 58 T B sc-like readlen illumina nextseq unknown cdna_unspecified unknown sc single_cell_generic generic-scrnaseq-only   Switzerland 2021-08-12 Adult Adult Brain Nervous System
65632 65632 SRR15422697 SRX11724257 SRS9753553 SRP332210 PRJNA754013 Gene family evolution underlies cell type diversification in the hypothalamus of teleosts PRJNA754013 Other Single cell sequencing of the hypothalamus and pre optic area of the zebrafish Danio rerio and Mexican tetra Astyanax mexicanus       Danio rerio hypo1 hypo1   strain:TLAB|age:Adult|sex:pooled male and female|tissue:Hypothalamus and Pre optic area|replicate:1|BioSampleModel:Model organism or animal                 Danio rerio Hypo1 1 HKLCJBGX5 Hypo1 1 HKLCJBGX5 Hypo1 1 Isolated cells from the hypothalamus and pre optic area     RNA-Seq TRANSCRIPTOMIC SINGLE CELL cDNA PAIRED ILLUMINA NextSeq 500   SRP332210     HKLCJBGX5_Hypo1_1_S1_L001_R1_001.fastq.gz HKLCJBGX5_Hypo1_1_S1_L001_R2_001.fastq.gz HKLCJBGX5_Hypo1_1_S1_L002_R1_001.fastq.gz HKLCJBGX5_Hypo1_1_S1_L002_R2_001.fastq.gz HKLCJBGX5_Hypo1_1_S1_L003_R1_001.fastq.gz HKLCJBGX5_Hypo1_1_S1_L003_R2_001.fastq.gz HKLCJBGX5_Hypo1_1_S1_L004_R1_001.fastq.gz HKLCJBGX5_Hypo1_1_S1_L004_R2_001.fastq.gz fastq fastq fastq fastq fastq fastq fastq fastq 8708367612.0 103671043.0 HKLCJBGX5 Hypo1 1 S1 L001 R1 001.fastq.gz 0:26 1:58 A:2544140022;C:1777462728;G:1856137087;T:2530264905;N:362870 26 58     2544140022 1777462728 1856137087 2530264905 362870 SRX11724257 SRS9753553 SRA1276953 University Of Basel|Biozentrum University Of Basel 2 0.01035 0.87096 0.00346 0.29186 0.98192 0.8507 0.41555 0.53144 26 58 T B sc-like readlen illumina nextseq unknown cdna_unspecified unknown sc single_cell_generic generic-scrnaseq-only   Switzerland 2021-08-12 Adult Adult Brain Nervous System
74617 74617 SRR24010013 SRX19812857 SRS17053325 SRP427499 PRJNA945049 linc mipep and linc wrb encode micropeptides that regulate chromatin accessibility in vertebrate specific neural cells PRJNA945049 Other Thousands of long intergenic non coding RNAs lincRNAs are transcribed throughout the vertebrate genome. A subset of lincRNAs enriched in developing brains have recently been found to contain cryptic open reading frames and are speculated to encode micropeptides. However systematic identification and functional assessment of these transcripts have been hindered by technical challenges caused by their small size. Here we show that two putative lincRNAs linc mipep also called lnc rps25 and linc wrb encode micropeptides with homology to the vertebrate specific chromatin architectural protein Hmgn1 and demonstrate that they are required for development of vertebrate specific brain cell types. Specifically we show that NMDA receptor mediated pathways are dysregulated in zebrafish lacking these micropeptides and that their loss preferentially alters the gene regulatory networks that establish cerebellar cells and oligodendrocytes evolutionarily newer cell types that develop postnatally in humans. These findings reveal a key missing link in the evolution of vertebrate brain cell development and illustrate a genetic basis for how some neural cell types are more susceptible to chromatin disruptions with implications for neurodevelopmental disorders and disease.       linc mipep scMultiome 6d brains Wild type linc mipep siblings scRNA seq linc mipep scMultiome 6d brains WT scRNA AGN002631   strain:TU/AB|age:144|dev stage:Day 6|sex:pooled male and female|tissue:brain|genotype:+/+|strain maternal:linc mipep WT|strain paternal:linc mipep WT|molecule:RNA|sample ref:AGS002041|replicate ref:AGN002631|replicate order:1|project label long:linc mipep homozygous mutant vs WT siblings sc Multiome 6dpf brains|project label short:linc mipep scMultiome 6d brains|sample label short:WT RNA|replicate label short:WT scRNA|BioSampleModel:Model organism or animal                 linc mipep scMultiome 6d brains Wild type linc mipep siblings scRNA seq AGR003384 AGR003384 RNA     OTHER TRANSCRIPTOMIC unspecified PAIRED ILLUMINA Illumina NovaSeq 6000   SRP427499     AGR003384_I1.fastq.gz AGR003384_R1.fastq.gz AGR003384_R2.fastq.gz AGR003384_R3.fastq.gz fastq fastq fastq fastq 27323809560.0 197998620.0 AGR003384 I1.fastq.gz 0:10 1:28 2:10 3:90 A:5656585750;C:3315807167;G:3546967171;T:5300024689;N:491023 10 28 10 90 5656585750 3315807167 3546967171 5300024689 491023 SRX19812857 SRS17053325 SRA1612740 Yale_Giraldez|Genetics Yale_Giraldez_Group 1 0.87892   0.45104   0.76976   0.49827   90   B   usable mapping rate illumina novaseq_era unknown unknown unknown sc_generic single_cell_generic generic-scrnaseq-only   United States 2023-03-29 Larval Larval Brain Nervous System
74618 74618 SRR24010014 SRX19812856 SRS17053325 SRP427499 PRJNA945049 linc mipep and linc wrb encode micropeptides that regulate chromatin accessibility in vertebrate specific neural cells PRJNA945049 Other Thousands of long intergenic non coding RNAs lincRNAs are transcribed throughout the vertebrate genome. A subset of lincRNAs enriched in developing brains have recently been found to contain cryptic open reading frames and are speculated to encode micropeptides. However systematic identification and functional assessment of these transcripts have been hindered by technical challenges caused by their small size. Here we show that two putative lincRNAs linc mipep also called lnc rps25 and linc wrb encode micropeptides with homology to the vertebrate specific chromatin architectural protein Hmgn1 and demonstrate that they are required for development of vertebrate specific brain cell types. Specifically we show that NMDA receptor mediated pathways are dysregulated in zebrafish lacking these micropeptides and that their loss preferentially alters the gene regulatory networks that establish cerebellar cells and oligodendrocytes evolutionarily newer cell types that develop postnatally in humans. These findings reveal a key missing link in the evolution of vertebrate brain cell development and illustrate a genetic basis for how some neural cell types are more susceptible to chromatin disruptions with implications for neurodevelopmental disorders and disease.       linc mipep scMultiome 6d brains Wild type linc mipep siblings scRNA seq linc mipep scMultiome 6d brains WT scRNA AGN002631   strain:TU/AB|age:144|dev stage:Day 6|sex:pooled male and female|tissue:brain|genotype:+/+|strain maternal:linc mipep WT|strain paternal:linc mipep WT|molecule:RNA|sample ref:AGS002041|replicate ref:AGN002631|replicate order:1|project label long:linc mipep homozygous mutant vs WT siblings sc Multiome 6dpf brains|project label short:linc mipep scMultiome 6d brains|sample label short:WT RNA|replicate label short:WT scRNA|BioSampleModel:Model organism or animal                 linc mipep scMultiome 6d brains Wild type linc mipep siblings scRNA seq AGR003365 AGR003365 RNA     OTHER TRANSCRIPTOMIC unspecified PAIRED ILLUMINA Illumina NovaSeq 6000   SRP427499     AGR003365_I1.fastq.gz AGR003365_R1.fastq.gz AGR003365_R2.fastq.gz AGR003365_R3.fastq.gz fastq fastq fastq fastq 1086745584.0 7874968.0 AGR003365 I1.fastq.gz 0:10 1:28 2:10 3:90 A:224554980;C:132053090;G:141496532;T:210627089;N:15429 10 28 10 90 224554980 132053090 141496532 210627089 15429 SRX19812856 SRS17053325 SRA1612740 Yale_Giraldez|Genetics Yale_Giraldez_Group 1 0.87972   0.45315   0.77011   0.49128   90   B   usable mapping rate illumina novaseq_era unknown unknown unknown sc_generic single_cell_generic generic-scrnaseq-only   United States 2023-03-29 Larval Larval Brain Nervous System
74619 74619 SRR24010017 SRX19812853 SRS17053323 SRP427499 PRJNA945049 linc mipep and linc wrb encode micropeptides that regulate chromatin accessibility in vertebrate specific neural cells PRJNA945049 Other Thousands of long intergenic non coding RNAs lincRNAs are transcribed throughout the vertebrate genome. A subset of lincRNAs enriched in developing brains have recently been found to contain cryptic open reading frames and are speculated to encode micropeptides. However systematic identification and functional assessment of these transcripts have been hindered by technical challenges caused by their small size. Here we show that two putative lincRNAs linc mipep also called lnc rps25 and linc wrb encode micropeptides with homology to the vertebrate specific chromatin architectural protein Hmgn1 and demonstrate that they are required for development of vertebrate specific brain cell types. Specifically we show that NMDA receptor mediated pathways are dysregulated in zebrafish lacking these micropeptides and that their loss preferentially alters the gene regulatory networks that establish cerebellar cells and oligodendrocytes evolutionarily newer cell types that develop postnatally in humans. These findings reveal a key missing link in the evolution of vertebrate brain cell development and illustrate a genetic basis for how some neural cell types are more susceptible to chromatin disruptions with implications for neurodevelopmental disorders and disease.       linc mipep scMultiome 6d brains linc mipep mutant scRNA seq linc mipep scMultiome 6d brains linc mipepMut scRNA AGN002629   strain:TU/AB|age:144|dev stage:Day 6|sex:pooled male and female|tissue:brain|genotype: / |strain maternal:linc mipep MUT|strain paternal:linc mipep MUT|molecule:RNA|sample ref:AGS002016|replicate ref:AGN002629|replicate order:1|project label long:linc mipep homozygous mutant vs WT siblings sc Multiome 6dpf brains|project label short:linc mipep scMultiome 6d brains|sample label short:Mut RNA|replicate label short:linc mipepMut scRNA|BioSampleModel:Model organism or animal                 linc mipep scMultiome 6d brains linc mipep mutant scRNA seq AGR003382 AGR003382 RNA     OTHER TRANSCRIPTOMIC unspecified PAIRED ILLUMINA Illumina NovaSeq 6000   SRP427499     AGR003382_I1.fastq.gz AGR003382_R1.fastq.gz AGR003382_R2.fastq.gz AGR003382_R3.fastq.gz fastq fastq fastq fastq 28412879202.0 205890429.0 AGR003382 I1.fastq.gz 0:10 1:28 2:10 3:90 A:5801406623;C:3514275581;G:3726649190;T:5487294607;N:512609 10 28 10 90 5801406623 3514275581 3726649190 5487294607 512609 SRX19812853 SRS17053323 SRA1612740 Yale_Giraldez|Genetics Yale_Giraldez_Group 1 0.89026   0.44521   0.76905   0.51993   90   B   usable mapping rate illumina novaseq_era unknown unknown unknown sc_generic single_cell_generic generic-scrnaseq-only   United States 2023-03-29 Larval Larval Brain Nervous System
74620 74620 SRR24010018 SRX19812852 SRS17053323 SRP427499 PRJNA945049 linc mipep and linc wrb encode micropeptides that regulate chromatin accessibility in vertebrate specific neural cells PRJNA945049 Other Thousands of long intergenic non coding RNAs lincRNAs are transcribed throughout the vertebrate genome. A subset of lincRNAs enriched in developing brains have recently been found to contain cryptic open reading frames and are speculated to encode micropeptides. However systematic identification and functional assessment of these transcripts have been hindered by technical challenges caused by their small size. Here we show that two putative lincRNAs linc mipep also called lnc rps25 and linc wrb encode micropeptides with homology to the vertebrate specific chromatin architectural protein Hmgn1 and demonstrate that they are required for development of vertebrate specific brain cell types. Specifically we show that NMDA receptor mediated pathways are dysregulated in zebrafish lacking these micropeptides and that their loss preferentially alters the gene regulatory networks that establish cerebellar cells and oligodendrocytes evolutionarily newer cell types that develop postnatally in humans. These findings reveal a key missing link in the evolution of vertebrate brain cell development and illustrate a genetic basis for how some neural cell types are more susceptible to chromatin disruptions with implications for neurodevelopmental disorders and disease.       linc mipep scMultiome 6d brains linc mipep mutant scRNA seq linc mipep scMultiome 6d brains linc mipepMut scRNA AGN002629   strain:TU/AB|age:144|dev stage:Day 6|sex:pooled male and female|tissue:brain|genotype: / |strain maternal:linc mipep MUT|strain paternal:linc mipep MUT|molecule:RNA|sample ref:AGS002016|replicate ref:AGN002629|replicate order:1|project label long:linc mipep homozygous mutant vs WT siblings sc Multiome 6dpf brains|project label short:linc mipep scMultiome 6d brains|sample label short:Mut RNA|replicate label short:linc mipepMut scRNA|BioSampleModel:Model organism or animal                 linc mipep scMultiome 6d brains linc mipep mutant scRNA seq AGR003363 AGR003363 RNA     OTHER TRANSCRIPTOMIC unspecified PAIRED ILLUMINA Illumina NovaSeq 6000   SRP427499     AGR003363_I1.fastq.gz AGR003363_R1.fastq.gz AGR003363_R2.fastq.gz AGR003363_R3.fastq.gz fastq fastq fastq fastq 1373742804.0 9954658.0 AGR003363 I1.fastq.gz 0:10 1:28 2:10 3:90 A:279788766;C:170196269;G:180765631;T:265150486;N:18068 10 28 10 90 279788766 170196269 180765631 265150486 18068 SRX19812852 SRS17053323 SRA1612740 Yale_Giraldez|Genetics Yale_Giraldez_Group 1 0.88902   0.44548   0.76879   0.52005   90   B   usable mapping rate illumina novaseq_era unknown unknown unknown sc_generic single_cell_generic generic-scrnaseq-only   United States 2023-03-29 Larval Larval Brain Nervous System

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