{"database": "metadata", "table": "run_metadata", "is_view": false, "human_description_en": "where experiment.library_selection = \"Inverse rRNA\", technology = \"bulk\" and tissue_curation_coarse = \"Nervous System\"", "rows": [[11815, "ERR11799086", "ERX11197445", "ERS16222830", "ERP149963", "PRJEB64798", "Transcriptomic analysis of microglia and DC like cells sorted using different reporter lines", "E-MTAB-13228", "Transcriptome Analysis", "We performed bulk transcriptomic analyses to compare the expression profile of different brain myeloid leukocytes. We used both Tgp2ry12::p2ry12 GFP; cd45:DsRed and Tgmhc2dab:GFP; cd45:DsRed adult fish  allowing to FACS sort microglia identified in these animals as GFP+; DsRed+ or GFP+; DsRedlow cells  respectively. Brain putative DC like cells were obtained using the Tgmhc2dab:GFP; cd45:DsRed reporter  and isolated as GFP+; DsRedhigh. These analyses confirm that cd45:DsRedhigh; mhc2dab:GFP+ cells share a similar transcriptome distinct from microglia and are DC like cells.", "ENA FIRST PUBLIC:2023 12 25|ENA LAST UPDATE:2023 12 25", null, "Protocols: FACS sorting of brain leukocytes. Approximately 8 000 microglial cells p2ry12+; cd45+ or mhc2dab+; cd45low  n=2 for each Tg and 1 200 DC like cells mhc2dab+; cd45high  n=2 were sorted. RNA Ovation Solo RNA Seq System NuGen TECAN with the SoLo Custom AnyDeplete Probe Mix Zebrafish probe set", "Sample 4", "SAMEA114237385", "Universite Libre de Bruxelles", "ENA FIRST PUBLIC:2023 12 25T01:15:27Z|ENA LAST UPDATE:2023 12 25T01:15:27Z|External Id:SAMEA114237385|INSDC center name:Universite Libre de Bruxelles|INSDC first public:2023 12 25T01:15:27Z|INSDC last update:2023 12 25T01:15:27Z|INSDC status:public|Submitter Id:E MTAB 13228:Sample 4|age:6|broker name:ArrayExpress|cell type:microglial cell|collection date:not collected|common name:zebrafish|developmental stage:adult|genotype:wild type genotype|geographic location country and/or sea:not collected|isolate:not applicable|organism part:brain|sample name:E MTAB 13228:Sample 4|scientific name:Danio rerio|sex:male and female|strain:AB", null, null, null, null, null, null, null, null, "Transcriptomic analysis of microglia and DC like cells sorted using different reporter lines", "E MTAB 13228:Sample 4 p", "Sample 4 p", "Transcriptomic analysis of microglia and DC like cells sorted using different reporter lines", "FACS sorting of brain leukocytes. 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We used both Tgp2ry12::p2ry12 GFP; cd45:DsRed and Tgmhc2dab:GFP; cd45:DsRed adult fish  allowing to FACS sort microglia identified in these animals as GFP+; DsRed+ or GFP+; DsRedlow cells  respectively. Brain putative DC like cells were obtained using the Tgmhc2dab:GFP; cd45:DsRed reporter  and isolated as GFP+; DsRedhigh. These analyses confirm that cd45:DsRedhigh; mhc2dab:GFP+ cells share a similar transcriptome distinct from microglia and are DC like cells.", "ENA FIRST PUBLIC:2023 12 25|ENA LAST UPDATE:2023 12 25", null, "Protocols: FACS sorting of brain leukocytes. Approximately 8 000 microglial cells p2ry12+; cd45+ or mhc2dab+; cd45low  n=2 for each Tg and 1 200 DC like cells mhc2dab+; cd45high  n=2 were sorted. RNA Ovation Solo RNA Seq System NuGen TECAN with the SoLo Custom AnyDeplete Probe Mix Zebrafish probe set", "Sample 6", "SAMEA114237387", "Universite Libre de Bruxelles", "ENA FIRST PUBLIC:2023 12 25T01:15:27Z|ENA LAST UPDATE:2023 12 25T01:15:27Z|External Id:SAMEA114237387|INSDC center name:Universite Libre de Bruxelles|INSDC first public:2023 12 25T01:15:27Z|INSDC last update:2023 12 25T01:15:27Z|INSDC status:public|Submitter Id:E MTAB 13228:Sample 6|age:6|broker name:ArrayExpress|cell type:myeloid leukocyte|collection date:not collected|common name:zebrafish|developmental stage:adult|genotype:wild type genotype|geographic location country and/or sea:not collected|isolate:not applicable|organism part:brain|sample name:E MTAB 13228:Sample 6|scientific name:Danio rerio|sex:male and female|strain:AB", null, null, null, null, null, null, null, null, "Transcriptomic analysis of microglia and DC like cells sorted using different reporter lines", "E MTAB 13228:Sample 6 p", "Sample 6 p", "Transcriptomic analysis of microglia and DC like cells sorted using different reporter lines", "FACS sorting of brain leukocytes. Approximately 8 000 microglial cells p2ry12+; cd45+ or mhc2dab+; cd45low  n=2 for each Tg and 1 200 DC like cells mhc2dab+; cd45high  n=2 were sorted.  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We used both Tgp2ry12::p2ry12 GFP; cd45:DsRed and Tgmhc2dab:GFP; cd45:DsRed adult fish  allowing to FACS sort microglia identified in these animals as GFP+; DsRed+ or GFP+; DsRedlow cells  respectively. Brain putative DC like cells were obtained using the Tgmhc2dab:GFP; cd45:DsRed reporter  and isolated as GFP+; DsRedhigh. These analyses confirm that cd45:DsRedhigh; mhc2dab:GFP+ cells share a similar transcriptome distinct from microglia and are DC like cells.", "ENA FIRST PUBLIC:2023 12 25|ENA LAST UPDATE:2023 12 25", null, "Protocols: FACS sorting of brain leukocytes. Approximately 8 000 microglial cells p2ry12+; cd45+ or mhc2dab+; cd45low  n=2 for each Tg and 1 200 DC like cells mhc2dab+; cd45high  n=2 were sorted. RNA Ovation Solo RNA Seq System NuGen TECAN with the SoLo Custom AnyDeplete Probe Mix Zebrafish probe set", "Sample 3", "SAMEA114237384", "Universite Libre de Bruxelles", "ENA FIRST PUBLIC:2023 12 25T01:15:27Z|ENA LAST UPDATE:2023 12 25T01:15:27Z|External Id:SAMEA114237384|INSDC center name:Universite Libre de Bruxelles|INSDC first public:2023 12 25T01:15:27Z|INSDC last update:2023 12 25T01:15:27Z|INSDC status:public|Submitter Id:E MTAB 13228:Sample 3|age:6|broker name:ArrayExpress|cell type:microglial cell|collection date:not collected|common name:zebrafish|developmental stage:adult|genotype:wild type genotype|geographic location country and/or sea:not collected|isolate:not applicable|organism part:brain|sample name:E MTAB 13228:Sample 3|scientific name:Danio rerio|sex:male and female|strain:AB", null, null, null, null, null, null, null, null, "Transcriptomic analysis of microglia and DC like cells sorted using different reporter lines", "E MTAB 13228:Sample 3 p", "Sample 3 p", "Transcriptomic analysis of microglia and DC like cells sorted using different reporter lines", "FACS sorting of brain leukocytes. Approximately 8 000 microglial cells p2ry12+; cd45+ or mhc2dab+; cd45low  n=2 for each Tg and 1 200 DC like cells mhc2dab+; cd45high  n=2 were sorted.  RNA Ovation Solo RNA Seq System NuGen TECAN with the SoLo Custom AnyDeplete Probe Mix Zebrafish probe set", null, "RNA-Seq", "TRANSCRIPTOMIC", "Inverse rRNA", "PAIRED", "ILLUMINA", "Illumina NovaSeq 6000", null, "ERP149963", "Illumina NovaSeq 6000 paired end sequencing; Transcriptomic analysis of microglia and DC like cells sorted using different reporter lines", "ENA FIRST PUBLIC:2023 12 25|ENA LAST UPDATE:2023 12 25", "so_zf94_VW3_MDMG1_CD45lo_mhc2dab_MGA_S57_R1.fq.gz so_zf94_VW3_MDMG1_CD45lo_mhc2dab_MGA_S57_R2.fq.gz", "fastq fastq", 20720724286.0, 102577843.0, "E MTAB 13228:so zf94 VW3 MDMG1 CD45lo mhc2dab MGA S57 R", "0:101 1:101", "A:7221245295;C:3305546836;G:3154595537;T:7039147315;N:189303", 101, 101, null, null, 7221245295, 3305546836, 3154595537, 7039147315, 189303, "ERX11197444", "ERS16222829", "ERA26360556", "European Bioinformatics Institute|European Nucleotide Archive", "European Bioinformatics Institute|European Nucleotide Archive", 2, 0.6027, 0.56103, 0.46397, 0.41738, 0.90536, 0.90473, 0.59858, 0.59246, 101, 101, "B", "B", "biological fallback assumption", "illumina", "novaseq_era", "unknown", "rrna_depletion", "unknown", "bulk", "bulk", "bulk", null, "United Kingdom", "2023-12-25", "Adult", "Adult", "Brain", "Nervous System"], [11818, "ERR11799087", "ERX11197446", "ERS16222831", "ERP149963", "PRJEB64798", "Transcriptomic analysis of microglia and DC like cells sorted using different reporter lines", "E-MTAB-13228", "Transcriptome Analysis", "We performed bulk transcriptomic analyses to compare the expression profile of different brain myeloid leukocytes. We used both Tgp2ry12::p2ry12 GFP; cd45:DsRed and Tgmhc2dab:GFP; cd45:DsRed adult fish  allowing to FACS sort microglia identified in these animals as GFP+; DsRed+ or GFP+; DsRedlow cells  respectively. Brain putative DC like cells were obtained using the Tgmhc2dab:GFP; cd45:DsRed reporter  and isolated as GFP+; DsRedhigh. These analyses confirm that cd45:DsRedhigh; mhc2dab:GFP+ cells share a similar transcriptome distinct from microglia and are DC like cells.", "ENA FIRST PUBLIC:2023 12 25|ENA LAST UPDATE:2023 12 25", null, "Protocols: FACS sorting of brain leukocytes. Approximately 8 000 microglial cells p2ry12+; cd45+ or mhc2dab+; cd45low  n=2 for each Tg and 1 200 DC like cells mhc2dab+; cd45high  n=2 were sorted. RNA Ovation Solo RNA Seq System NuGen TECAN with the SoLo Custom AnyDeplete Probe Mix Zebrafish probe set", "Sample 5", "SAMEA114237386", "Universite Libre de Bruxelles", "ENA FIRST PUBLIC:2023 12 25T01:15:27Z|ENA LAST UPDATE:2023 12 25T01:15:27Z|External Id:SAMEA114237386|INSDC center name:Universite Libre de Bruxelles|INSDC first public:2023 12 25T01:15:27Z|INSDC last update:2023 12 25T01:15:27Z|INSDC status:public|Submitter Id:E MTAB 13228:Sample 5|age:6|broker name:ArrayExpress|cell type:myeloid leukocyte|collection date:not collected|common name:zebrafish|developmental stage:adult|genotype:wild type genotype|geographic location country and/or sea:not collected|isolate:not applicable|organism part:brain|sample name:E MTAB 13228:Sample 5|scientific name:Danio rerio|sex:male and female|strain:AB", null, null, null, null, null, null, null, null, "Transcriptomic analysis of microglia and DC like cells sorted using different reporter lines", "E MTAB 13228:Sample 5 p", "Sample 5 p", "Transcriptomic analysis of microglia and DC like cells sorted using different reporter lines", "FACS sorting of brain leukocytes. Approximately 8 000 microglial cells p2ry12+; cd45+ or mhc2dab+; cd45low  n=2 for each Tg and 1 200 DC like cells mhc2dab+; cd45high  n=2 were sorted.  RNA Ovation Solo RNA Seq System NuGen TECAN with the SoLo Custom AnyDeplete Probe Mix Zebrafish probe set", null, "RNA-Seq", "TRANSCRIPTOMIC", "Inverse rRNA", "PAIRED", "ILLUMINA", "Illumina NovaSeq 6000", null, "ERP149963", "Illumina NovaSeq 6000 paired end sequencing; Transcriptomic analysis of microglia and DC like cells sorted using different reporter lines", "ENA FIRST PUBLIC:2023 12 25|ENA LAST UPDATE:2023 12 25", "so_zf94_VW5_MDMF2_CD45hi_mhc2dab_MACA_S59_R2.fq.gz so_zf94_VW5_MDMF2_CD45hi_mhc2dab_MACA_S59_R1.fq.gz", "fastq fastq", 20557799368.0, 101771284.0, "E MTAB 13228:so zf94 VW5 MDMF2 CD45hi mhc2dab MACA S59 R", "0:101 1:101", "A:5872430236;C:4635392917;G:4244261404;T:5805533335;N:181476", 101, 101, null, null, 5872430236, 4635392917, 4244261404, 5805533335, 181476, "ERX11197446", "ERS16222831", "ERA26360556", "European Bioinformatics Institute|European Nucleotide Archive", "European Bioinformatics Institute|European Nucleotide Archive", 2, 0.48524, 0.49426, 0.30765, 0.31318, 0.87008, 0.86918, 0.60597, 0.58678, 101, 101, "B", "B", "biological fallback assumption", "illumina", "novaseq_era", "unknown", "rrna_depletion", "unknown", "bulk", "bulk", "bulk", null, "United Kingdom", "2023-12-25", "Adult", "Adult", "Brain", "Nervous System"], [11819, "ERR11799083", "ERX11197442", "ERS16222827", "ERP149963", "PRJEB64798", "Transcriptomic analysis of microglia and DC like cells sorted using different reporter lines", "E-MTAB-13228", "Transcriptome Analysis", "We performed bulk transcriptomic analyses to compare the expression profile of different brain myeloid leukocytes. We used both Tgp2ry12::p2ry12 GFP; cd45:DsRed and Tgmhc2dab:GFP; cd45:DsRed adult fish  allowing to FACS sort microglia identified in these animals as GFP+; DsRed+ or GFP+; DsRedlow cells  respectively. Brain putative DC like cells were obtained using the Tgmhc2dab:GFP; cd45:DsRed reporter  and isolated as GFP+; DsRedhigh. These analyses confirm that cd45:DsRedhigh; mhc2dab:GFP+ cells share a similar transcriptome distinct from microglia and are DC like cells.", "ENA FIRST PUBLIC:2023 12 25|ENA LAST UPDATE:2023 12 25", null, "Protocols: FACS sorting of brain leukocytes. Approximately 8 000 microglial cells p2ry12+; cd45+ or mhc2dab+; cd45low  n=2 for each Tg and 1 200 DC like cells mhc2dab+; cd45high  n=2 were sorted. RNA Ovation Solo RNA Seq System NuGen TECAN with the SoLo Custom AnyDeplete Probe Mix Zebrafish probe set", "Sample 1", "SAMEA114237382", "Universite Libre de Bruxelles", "ENA FIRST PUBLIC:2023 12 25T01:15:27Z|ENA LAST UPDATE:2023 12 25T01:15:27Z|External Id:SAMEA114237382|INSDC center name:Universite Libre de Bruxelles|INSDC first public:2023 12 25T01:15:27Z|INSDC last update:2023 12 25T01:15:27Z|INSDC status:public|Submitter Id:E MTAB 13228:Sample 1|age:6|broker name:ArrayExpress|cell type:microglial cell|collection date:not collected|common name:zebrafish|developmental stage:adult|genotype:wild type genotype|geographic location country and/or sea:not collected|isolate:not applicable|organism part:brain|sample name:E MTAB 13228:Sample 1|scientific name:Danio rerio|sex:male and female|strain:AB", null, null, null, null, null, null, null, null, "Transcriptomic analysis of microglia and DC like cells sorted using different reporter lines", "E MTAB 13228:Sample 1 p", "Sample 1 p", "Transcriptomic analysis of microglia and DC like cells sorted using different reporter lines", "FACS sorting of brain leukocytes. Approximately 8 000 microglial cells p2ry12+; cd45+ or mhc2dab+; cd45low  n=2 for each Tg and 1 200 DC like cells mhc2dab+; cd45high  n=2 were sorted.  RNA Ovation Solo RNA Seq System NuGen TECAN with the SoLo Custom AnyDeplete Probe Mix Zebrafish probe set", null, "RNA-Seq", "TRANSCRIPTOMIC", "Inverse rRNA", "PAIRED", "ILLUMINA", "Illumina NovaSeq 6000", null, "ERP149963", "Illumina NovaSeq 6000 paired end sequencing; Transcriptomic analysis of microglia and DC like cells sorted using different reporter lines", "ENA FIRST PUBLIC:2023 12 25|ENA LAST UPDATE:2023 12 25", "so_zf94_VW1_P2Y12_CD45lo_MGA_S55_R2.fq.gz so_zf94_VW1_P2Y12_CD45lo_MGA_S55_R1.fq.gz", "fastq fastq", 24592452226.0, 121744813.0, "E MTAB 13228:so zf94 VW1 P2Y12 CD45lo MGA S55 R", "0:101 1:101", "A:6964719283;C:5587681189;G:5075783189;T:6964040906;N:227659", 101, 101, null, null, 6964719283, 5587681189, 5075783189, 6964040906, 227659, "ERX11197442", "ERS16222827", "ERA26360556", "European Bioinformatics Institute|European Nucleotide Archive", "European Bioinformatics Institute|European Nucleotide Archive", 2, 0.82038, 0.82668, 0.39096, 0.39605, 0.82532, 0.82446, 0.63514, 0.57014, 101, 101, "B", "B", "biological fallback assumption", "illumina", "novaseq_era", "unknown", "rrna_depletion", "unknown", "bulk", "bulk", "bulk", null, "United Kingdom", "2023-12-25", "Adult", "Adult", "Brain", "Nervous System"], [11820, "ERR11799084", "ERX11197443", "ERS16222828", "ERP149963", "PRJEB64798", "Transcriptomic analysis of microglia and DC like cells sorted using different reporter lines", "E-MTAB-13228", "Transcriptome Analysis", "We performed bulk transcriptomic analyses to compare the expression profile of different brain myeloid leukocytes. We used both Tgp2ry12::p2ry12 GFP; cd45:DsRed and Tgmhc2dab:GFP; cd45:DsRed adult fish  allowing to FACS sort microglia identified in these animals as GFP+; DsRed+ or GFP+; DsRedlow cells  respectively. Brain putative DC like cells were obtained using the Tgmhc2dab:GFP; cd45:DsRed reporter  and isolated as GFP+; DsRedhigh. These analyses confirm that cd45:DsRedhigh; mhc2dab:GFP+ cells share a similar transcriptome distinct from microglia and are DC like cells.", "ENA FIRST PUBLIC:2023 12 25|ENA LAST UPDATE:2023 12 25", null, "Protocols: FACS sorting of brain leukocytes. Approximately 8 000 microglial cells p2ry12+; cd45+ or mhc2dab+; cd45low  n=2 for each Tg and 1 200 DC like cells mhc2dab+; cd45high  n=2 were sorted. RNA Ovation Solo RNA Seq System NuGen TECAN with the SoLo Custom AnyDeplete Probe Mix Zebrafish probe set", "Sample 2", "SAMEA114237383", "Universite Libre de Bruxelles", "ENA FIRST PUBLIC:2023 12 25T01:15:27Z|ENA LAST UPDATE:2023 12 25T01:15:27Z|External Id:SAMEA114237383|INSDC center name:Universite Libre de Bruxelles|INSDC first public:2023 12 25T01:15:27Z|INSDC last update:2023 12 25T01:15:27Z|INSDC status:public|Submitter Id:E MTAB 13228:Sample 2|age:6|broker name:ArrayExpress|cell type:microglial cell|collection date:not collected|common name:zebrafish|developmental stage:adult|genotype:wild type genotype|geographic location country and/or sea:not collected|isolate:not applicable|organism part:brain|sample name:E MTAB 13228:Sample 2|scientific name:Danio rerio|sex:male and female|strain:AB", null, null, null, null, null, null, null, null, "Transcriptomic analysis of microglia and DC like cells sorted using different reporter lines", "E MTAB 13228:Sample 2 p", "Sample 2 p", "Transcriptomic analysis of microglia and DC like cells sorted using different reporter lines", "FACS sorting of brain leukocytes. Approximately 8 000 microglial cells p2ry12+; cd45+ or mhc2dab+; cd45low  n=2 for each Tg and 1 200 DC like cells mhc2dab+; cd45high  n=2 were sorted.  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