{"database": "metadata", "table": "run_metadata", "is_view": false, "human_description_en": "where experiment.library_selection = \"cDNA\", experiment.platform = \"DNBSEQ\" and technology = \"10x\"", "rows": [[34508, "SRR32041235", "SRX27390499", "SRS23823272", "SRP558202", "PRJNA1212333", "vitamin C mitigated hexavalent chromium toxicity by  microbiota gut brain axis in zebrafish", "PRJNA1212333", "Other", "Zebrafish is characterized by small size  rapid development  high fertility  short life cycle  easy and economical rearing; it has now become one of the model organisms for drug screening  disease research and ecological environment evaluation. Therefore  this project takes zebrafish as a model organism as the research object  and intends to study the role of vitamins in alleviating brain hexavalent chromium toxicity from the perspective of oxidative damage through the application of toxicology  transcriptome molecular biology and other techniques.", null, null, null, "Cr[VI]+VC 3 group", "Cr+VC 3", null, "ecotype:wild type zebrafish|age:6 month|dev stage:adult|collection date:2023 08 14|geo loc name:China: Haikou  Hainan Province|sex:pooled male and female|tissue:brain|death date:2023 8 14|health state:health|sample type:tissue|lep:Cr+VC 3|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "RNA Seq of brian:Adult female and male zebrafish", "EHK0300476", "EHK0300476", "normal", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "DNBSEQ", "DNBSEQ-T7", null, "SRP558202", null, null, "Cr+VC-3.R1.raw.fastq.gz Cr+VC-3.R2.raw.fastq.gz", "fastq fastq", 6579236402.0, 21785551.0, "Cr+VC 3.R1.raw.fastq.gz", "0:151 1:151", "A:1950296368;C:1342383640;G:1373591474;T:1912893257;N:71663", 151, 151, null, null, 1950296368, 1342383640, 1373591474, 1912893257, 71663, "SRX27390499", "SRS23823272", "SRA2054545", "Hainan University|School of Life and Health Sciences", "Hainan University", null, null, null, null, null, null, null, null, null, null, null, "B", "B", "biological fallback assumption", "bgi", "bgi", "unknown", "cdna_unspecified", "unknown", "sc", "single_cell_droplet", "10x", null, "China", "2025-01-18", "Adult", "Adult", "Brain", "Nervous System"], [34509, "SRR32041236", "SRX27390498", "SRS23823271", "SRP558202", "PRJNA1212333", "vitamin C mitigated hexavalent chromium toxicity by  microbiota gut brain axis in zebrafish", "PRJNA1212333", "Other", "Zebrafish is characterized by small size  rapid development  high fertility  short life cycle  easy and economical rearing; it has now become one of the model organisms for drug screening  disease research and ecological environment evaluation. Therefore  this project takes zebrafish as a model organism as the research object  and intends to study the role of vitamins in alleviating brain hexavalent chromium toxicity from the perspective of oxidative damage through the application of toxicology  transcriptome molecular biology and other techniques.", null, null, null, "Cr[VI]+VC 2 group", "Cr+VC 2", null, "ecotype:wild type zebrafish|age:6 month|dev stage:adult|collection date:2023 08 14|geo loc name:China: Haikou  Hainan Province|sex:pooled male and female|tissue:brain|death date:2023 8 14|health state:health|sample type:tissue|lep:Cr+VC 2|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "RNA Seq of brian:Adult female and male zebrafish", "EHK0300475", "EHK0300475", "normal", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "DNBSEQ", "DNBSEQ-T7", null, "SRP558202", null, null, "Cr+VC-2.R1.raw.fastq.gz Cr+VC-2.R2.raw.fastq.gz", "fastq fastq", 7431192898.0, 24606599.0, "Cr+VC 2.R1.raw.fastq.gz", "0:151 1:151", "A:2185434880;C:1533450452;G:1567401090;T:2144825061;N:81415", 151, 151, null, null, 2185434880, 1533450452, 1567401090, 2144825061, 81415, "SRX27390498", "SRS23823271", "SRA2054545", "Hainan University|School of Life and Health Sciences", "Hainan University", null, null, null, null, null, null, null, null, null, null, null, "B", "B", "biological fallback assumption", "bgi", "bgi", "unknown", "cdna_unspecified", "unknown", "sc", "single_cell_droplet", "10x", null, "China", "2025-01-18", "Adult", "Adult", "Brain", "Nervous System"], [34510, "SRR32041237", "SRX27390497", "SRS23823270", "SRP558202", "PRJNA1212333", "vitamin C mitigated hexavalent chromium toxicity by  microbiota gut brain axis in zebrafish", "PRJNA1212333", "Other", "Zebrafish is characterized by small size  rapid development  high fertility  short life cycle  easy and economical rearing; it has now become one of the model organisms for drug screening  disease research and ecological environment evaluation. Therefore  this project takes zebrafish as a model organism as the research object  and intends to study the role of vitamins in alleviating brain hexavalent chromium toxicity from the perspective of oxidative damage through the application of toxicology  transcriptome molecular biology and other techniques.", null, null, null, "Cr[VI]+VC 1 group", "Cr+VC 1", null, "ecotype:wild type zebrafish|age:6 month|dev stage:adult|collection date:2023 08 14|geo loc name:China: Haikou  Hainan Province|sex:pooled male and female|tissue:brain|death date:2023 8 14|health state:health|sample type:tissue|lep:Cr+VC 1|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "RNA Seq of brian:Adult female and male zebrafish", "EHK0300474", "EHK0300474", "normal", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "DNBSEQ", "DNBSEQ-T7", null, "SRP558202", null, null, "Cr+VC-1.R1.raw.fastq.gz Cr+VC-1.R2.raw.fastq.gz", "fastq fastq", 6385666180.0, 21144590.0, "Cr+VC 1.R1.raw.fastq.gz", "0:151 1:151", "A:1864936934;C:1329491594;G:1363211111;T:1827956599;N:69942", 151, 151, null, null, 1864936934, 1329491594, 1363211111, 1827956599, 69942, "SRX27390497", "SRS23823270", "SRA2054545", "Hainan University|School of Life and Health Sciences", "Hainan University", null, null, null, null, null, null, null, null, null, null, null, "B", "B", "biological fallback assumption", "bgi", "bgi", "unknown", "cdna_unspecified", "unknown", "sc", "single_cell_droplet", "10x", null, "China", "2025-01-18", "Adult", "Adult", "Brain", "Nervous System"], [34511, "SRR32041238", "SRX27390496", "SRS23823269", "SRP558202", "PRJNA1212333", "vitamin C mitigated hexavalent chromium toxicity by  microbiota gut brain axis in zebrafish", "PRJNA1212333", "Other", "Zebrafish is characterized by small size  rapid development  high fertility  short life cycle  easy and economical rearing; it has now become one of the model organisms for drug screening  disease research and ecological environment evaluation. Therefore  this project takes zebrafish as a model organism as the research object  and intends to study the role of vitamins in alleviating brain hexavalent chromium toxicity from the perspective of oxidative damage through the application of toxicology  transcriptome molecular biology and other techniques.", null, null, null, "Cr[VI] 3 group", "Cr 3", null, "ecotype:wild type zebrafish|age:6 month|dev stage:adult|collection date:2023 08 13|geo loc name:China: Haikou  Hainan Province|sex:pooled male and female|tissue:brain|death date:2023 8 13|health state:health|sample type:tissue|lep:Cr 3|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "RNA Seq of brian:Adult female and male zebrafish", "EHK0300473", "EHK0300473", "normal", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "DNBSEQ", "DNBSEQ-T7", null, "SRP558202", null, null, "Cr-3.R1.raw.fastq.gz Cr-3.R2.raw.fastq.gz", "fastq fastq", 6339933716.0, 20993158.0, "Cr 3.R1.raw.fastq.gz", "0:151 1:151", "A:1873178321;C:1296125569;G:1333622723;T:1836939106;N:67997", 151, 151, null, null, 1873178321, 1296125569, 1333622723, 1836939106, 67997, "SRX27390496", "SRS23823269", "SRA2054545", "Hainan University|School of Life and Health Sciences", "Hainan University", null, null, null, null, null, null, null, null, null, null, null, "B", "B", "biological fallback assumption", "bgi", "bgi", "unknown", "cdna_unspecified", "unknown", "sc", "single_cell_droplet", "10x", null, "China", "2025-01-18", "Adult", "Adult", "Brain", "Nervous System"], [34512, "SRR32041239", "SRX27390495", "SRS23823268", "SRP558202", "PRJNA1212333", "vitamin C mitigated hexavalent chromium toxicity by  microbiota gut brain axis in zebrafish", "PRJNA1212333", "Other", "Zebrafish is characterized by small size  rapid development  high fertility  short life cycle  easy and economical rearing; it has now become one of the model organisms for drug screening  disease research and ecological environment evaluation. Therefore  this project takes zebrafish as a model organism as the research object  and intends to study the role of vitamins in alleviating brain hexavalent chromium toxicity from the perspective of oxidative damage through the application of toxicology  transcriptome molecular biology and other techniques.", null, null, null, "Cr[VI] 2 group", "Cr 2", null, "ecotype:wild type zebrafish|age:6 month|dev stage:adult|collection date:2023 08 13|geo loc name:China: Haikou  Hainan Province|sex:pooled male and female|tissue:brain|death date:2023 8 13|health state:health|sample type:tissue|lep:Cr 2|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "RNA Seq of brian:Adult female and male zebrafish", "EHK0300472", "EHK0300472", "normal", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "DNBSEQ", "DNBSEQ-T7", null, "SRP558202", null, null, "Cr-2.R1.raw.fastq.gz Cr-2.R2.raw.fastq.gz", "fastq fastq", 6461518010.0, 21395755.0, "Cr 2.R1.raw.fastq.gz", "0:151 1:151", "A:1878799067;C:1352321588;G:1386809443;T:1843520259;N:67653", 151, 151, null, null, 1878799067, 1352321588, 1386809443, 1843520259, 67653, "SRX27390495", "SRS23823268", "SRA2054545", "Hainan University|School of Life and Health Sciences", "Hainan University", null, null, null, null, null, null, null, null, null, null, null, "B", "B", "biological fallback assumption", "bgi", "bgi", "unknown", "cdna_unspecified", "unknown", "sc", "single_cell_droplet", "10x", null, "China", "2025-01-18", "Adult", "Adult", "Brain", "Nervous System"], [34513, "SRR32041240", "SRX27390494", "SRS23823267", "SRP558202", "PRJNA1212333", "vitamin C mitigated hexavalent chromium toxicity by  microbiota gut brain axis in zebrafish", "PRJNA1212333", "Other", "Zebrafish is characterized by small size  rapid development  high fertility  short life cycle  easy and economical rearing; it has now become one of the model organisms for drug screening  disease research and ecological environment evaluation. Therefore  this project takes zebrafish as a model organism as the research object  and intends to study the role of vitamins in alleviating brain hexavalent chromium toxicity from the perspective of oxidative damage through the application of toxicology  transcriptome molecular biology and other techniques.", null, null, null, "Cr[VI] 1 group", "Cr 1", null, "ecotype:wild type zebrafish|age:6 month|dev stage:adult|collection date:2023 08 13|geo loc name:China: Haikou  Hainan Province|sex:pooled male and female|tissue:brain|death date:2023 8 13|health state:health|sample type:tissue|lep:Cr 1|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "RNA Seq of brian:Adult female and male zebrafish", "EHK0300471", "EHK0300471", "normal", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "DNBSEQ", "DNBSEQ-T7", null, "SRP558202", null, null, "Cr-1.R1.raw.fastq.gz Cr-1.R2.raw.fastq.gz", "fastq fastq", 7143701582.0, 23654641.0, "Cr 1.R1.raw.fastq.gz", "0:151 1:151", "A:1955056767;C:1615392059;G:1650478323;T:1922695182;N:79251", 151, 151, null, null, 1955056767, 1615392059, 1650478323, 1922695182, 79251, "SRX27390494", "SRS23823267", "SRA2054545", "Hainan University|School of Life and Health Sciences", "Hainan University", null, null, null, null, null, null, null, null, null, null, null, "B", "B", "biological fallback assumption", "bgi", "bgi", "unknown", "cdna_unspecified", "unknown", "sc", "single_cell_droplet", "10x", null, "China", "2025-01-18", "Adult", "Adult", "Brain", "Nervous System"], [34514, "SRR32041241", "SRX27390493", "SRS23823266", "SRP558202", "PRJNA1212333", "vitamin C mitigated hexavalent chromium toxicity by  microbiota gut brain axis in zebrafish", "PRJNA1212333", "Other", "Zebrafish is characterized by small size  rapid development  high fertility  short life cycle  easy and economical rearing; it has now become one of the model organisms for drug screening  disease research and ecological environment evaluation. Therefore  this project takes zebrafish as a model organism as the research object  and intends to study the role of vitamins in alleviating brain hexavalent chromium toxicity from the perspective of oxidative damage through the application of toxicology  transcriptome molecular biology and other techniques.", null, null, null, "control 3 group", "Con 3", null, "ecotype:wild type zebrafish|age:6 month|dev stage:adult|collection date:2023 08 12|geo loc name:China: Haikou  Hainan Province|sex:pooled male and female|tissue:brain|death date:2023 8 12|health state:health|sample type:tissue|lep:Con 3|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "RNA Seq of brian:Adult female and male zebrafish", "EHK0300470", "EHK0300470", "normal", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "DNBSEQ", "DNBSEQ-T7", null, "SRP558202", null, null, "Con-3.R1.raw.fastq.gz Con-3.R2.raw.fastq.gz", "fastq fastq", 6474159730.0, 21437615.0, "Con 3.R1.raw.fastq.gz", "0:151 1:151", "A:1937289968;C:1298659806;G:1337603954;T:1900535989;N:70013", 151, 151, null, null, 1937289968, 1298659806, 1337603954, 1900535989, 70013, "SRX27390493", "SRS23823266", "SRA2054545", "Hainan University|School of Life and Health Sciences", "Hainan University", null, null, null, null, null, null, null, null, null, null, null, "B", "B", "biological fallback assumption", "bgi", "bgi", "unknown", "cdna_unspecified", "unknown", "sc", "single_cell_droplet", "10x", null, "China", "2025-01-18", "Adult", "Adult", "Brain", "Nervous System"], [34515, "SRR32041242", "SRX27390492", "SRS23823265", "SRP558202", "PRJNA1212333", "vitamin C mitigated hexavalent chromium toxicity by  microbiota gut brain axis in zebrafish", "PRJNA1212333", "Other", "Zebrafish is characterized by small size  rapid development  high fertility  short life cycle  easy and economical rearing; it has now become one of the model organisms for drug screening  disease research and ecological environment evaluation. Therefore  this project takes zebrafish as a model organism as the research object  and intends to study the role of vitamins in alleviating brain hexavalent chromium toxicity from the perspective of oxidative damage through the application of toxicology  transcriptome molecular biology and other techniques.", null, null, null, "control 2 group", "Con 2", null, "ecotype:wild type zebrafish|age:6 month|dev stage:adult|collection date:2023 08 12|geo loc name:China: Haikou  Hainan Province|sex:pooled male and female|tissue:brain|death date:2023 8 12|health state:health|sample type:tissue|lep:Con 2|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "RNA Seq of brian:Adult female and male zebrafish", "EHK0300469", "EHK0300469", "normal", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "DNBSEQ", "DNBSEQ-T7", null, "SRP558202", null, null, "Con-2.R1.raw.fastq.gz Con-2.R2.raw.fastq.gz", "fastq fastq", 8372440828.0, 27723314.0, "Con 2.R1.raw.fastq.gz", "0:151 1:151", "A:2235968446;C:1933538809;G:1977416201;T:2225425413;N:91959", 151, 151, null, null, 2235968446, 1933538809, 1977416201, 2225425413, 91959, "SRX27390492", "SRS23823265", "SRA2054545", "Hainan University|School of Life and Health Sciences", "Hainan University", null, null, null, null, null, null, null, null, null, null, null, "B", "B", "biological fallback assumption", "bgi", "bgi", "unknown", "cdna_unspecified", "unknown", "sc", "single_cell_droplet", "10x", null, "China", "2025-01-18", "Adult", "Adult", "Brain", "Nervous System"], [34516, "SRR32041243", "SRX27390491", "SRS23823264", "SRP558202", "PRJNA1212333", "vitamin C mitigated hexavalent chromium toxicity by  microbiota gut brain axis in zebrafish", "PRJNA1212333", "Other", "Zebrafish is characterized by small size  rapid development  high fertility  short life cycle  easy and economical rearing; it has now become one of the model organisms for drug screening  disease research and ecological environment evaluation. Therefore  this project takes zebrafish as a model organism as the research object  and intends to study the role of vitamins in alleviating brain hexavalent chromium toxicity from the perspective of oxidative damage through the application of toxicology  transcriptome molecular biology and other techniques.", null, null, null, "control 1 group", "Con 1", null, "ecotype:wild type zebrafish|age:6 month|dev stage:adult|collection date:2023 08 12|geo loc name:China: Haikou  Hainan Province|sex:pooled male and female|tissue:brain|death date:2023 8 12|health state:health|sample type:tissue|lep:Con 1|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "RNA Seq of brian:Adult female and male zebrafish", "EHK0300468", "EHK0300468", "normal", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "DNBSEQ", "DNBSEQ-T7", null, "SRP558202", null, null, "Con-1.R1.raw.fastq.gz Con-1.R2.raw.fastq.gz", "fastq fastq", 6527063486.0, 21612793.0, "Con 1.R1.raw.fastq.gz", "0:151 1:151", "A:1939230604;C:1326702799;G:1357063348;T:1903995450;N:71285", 151, 151, null, null, 1939230604, 1326702799, 1357063348, 1903995450, 71285, "SRX27390491", "SRS23823264", "SRA2054545", "Hainan University|School of Life and Health Sciences", "Hainan University", null, null, null, null, null, null, null, null, null, null, null, "B", "B", "biological fallback assumption", "bgi", "bgi", "unknown", "cdna_unspecified", "unknown", "sc", "single_cell_droplet", "10x", null, "China", "2025-01-18", "Adult", "Adult", "Brain", "Nervous System"], [34517, "SRR32044795", "SRX27393953", "SRS23824014", "SRP558295", "PRJNA1212482", "vitamin C mitigated hexavalent chromium toxicity by microbiota gut brain axis in zebrafish", "PRJNA1212482", "Other", "Zebrafish is characterized by small size  rapid development  high fertility  short life cycle  easy and economical rearing; it has now become one of the model organisms for drug screening  disease research and ecological environment evaluation. Therefore  this project takes zebrafish as a model organism as the research object  and intends to study the role of vitamins in alleviating gut hexavalent chromium toxicity from the perspective of oxidative damage through the application of toxicology  transcriptome molecular biology and other techniques.", null, null, null, "Cr+VC 3", "I", null, "ecotype:wild type zebrafish|age:6 month|dev stage:adult|collection date:2023 08 14|geo loc name:China: Haikou  Hainan Province|sex:pooled male and female|tissue:gut|death date:2023 8 14|health state:health|sample type:tissue|replication:Cr+VC 3|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "RNA Seq of brian:Adult female and male zebrafish", "Cr+VC 3", "Cr+VC 3", "normal", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "DNBSEQ", "DNBSEQ-T7", null, "SRP558295", null, null, "Cr+VC-3.R1.raw.fastq.gz Cr+VC-3.R2.raw.fastq.gz", "fastq fastq", 6773536558.0, 22428929.0, "Cr+VC 3.R1.raw.fastq.gz", "0:151 1:151", "A:1792253952;C:1581454013;G:1629330621;T:1770470694;N:27278", 151, 151, null, null, 1792253952, 1581454013, 1629330621, 1770470694, 27278, "SRX27393953", "SRS23824014", "SRA2054568", "Hainan University|School of Life and Health Sciences", "Hainan University", null, null, null, null, null, null, null, null, null, null, null, "B", "B", "biological fallback assumption", "bgi", "bgi", "unknown", "cdna_unspecified", "unknown", "sc", "single_cell_droplet", "10x", null, "China", "2025-01-19", "Adult", "Adult", "Gut", "Digestive System"], [34518, "SRR32044796", "SRX27393952", "SRS23824013", "SRP558295", "PRJNA1212482", "vitamin C mitigated hexavalent chromium toxicity by microbiota gut brain axis in zebrafish", "PRJNA1212482", "Other", "Zebrafish is characterized by small size  rapid development  high fertility  short life cycle  easy and economical rearing; it has now become one of the model organisms for drug screening  disease research and ecological environment evaluation. Therefore  this project takes zebrafish as a model organism as the research object  and intends to study the role of vitamins in alleviating gut hexavalent chromium toxicity from the perspective of oxidative damage through the application of toxicology  transcriptome molecular biology and other techniques.", null, null, null, "Cr+VC 2", "H", null, "ecotype:wild type zebrafish|age:6 month|dev stage:adult|collection date:2023 08 14|geo loc name:China: Haikou  Hainan Province|sex:pooled male and female|tissue:gut|death date:2023 8 14|health state:health|sample type:tissue|replication:Cr+VC 2|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "RNA Seq of brian:Adult female and male zebrafish", "Cr+VC 2", "Cr+VC 2", "normal", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "DNBSEQ", "DNBSEQ-T7", null, "SRP558295", null, null, "Cr+VC-2.R1.raw.fastq.gz Cr+VC-2.R2.raw.fastq.gz", "fastq fastq", 7449518862.0, 24667281.0, "Cr+VC 2.R1.raw.fastq.gz", "0:151 1:151", "A:1969693675;C:1748150730;G:1771267240;T:1960378098;N:29119", 151, 151, null, null, 1969693675, 1748150730, 1771267240, 1960378098, 29119, "SRX27393952", "SRS23824013", "SRA2054568", "Hainan University|School of Life and Health Sciences", "Hainan University", null, null, null, null, null, null, null, null, null, null, null, "B", "B", "biological fallback assumption", "bgi", "bgi", "unknown", "cdna_unspecified", "unknown", "sc", "single_cell_droplet", "10x", null, "China", "2025-01-19", "Adult", "Adult", "Gut", "Digestive System"], [34519, "SRR32044797", "SRX27393951", "SRS23824012", "SRP558295", "PRJNA1212482", "vitamin C mitigated hexavalent chromium toxicity by microbiota gut brain axis in zebrafish", "PRJNA1212482", "Other", "Zebrafish is characterized by small size  rapid development  high fertility  short life cycle  easy and economical rearing; it has now become one of the model organisms for drug screening  disease research and ecological environment evaluation. Therefore  this project takes zebrafish as a model organism as the research object  and intends to study the role of vitamins in alleviating gut hexavalent chromium toxicity from the perspective of oxidative damage through the application of toxicology  transcriptome molecular biology and other techniques.", null, null, null, "Cr+VC 1", "G", null, "ecotype:wild type zebrafish|age:6 month|dev stage:adult|collection date:2023 08 14|geo loc name:China: Haikou  Hainan Province|sex:pooled male and female|tissue:gut|death date:2023 8 14|health state:health|sample type:tissue|replication:Cr+VC 1|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "RNA Seq of brian:Adult female and male zebrafish", "Cr+VC 1", "Cr+VC 1", "normal", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "DNBSEQ", "DNBSEQ-T7", null, "SRP558295", null, "loader:fastq load.py|options:  doNotUseSharq", "Cr+VC-1.R1.raw.fastq Cr+VC-1.R2.raw.fastq", "fastq fastq", 6865491179.0, 45466829.0, "Cr+VC 1.R1.raw.fastq.gz", "0:151", "A:1830069736;C:1600281531;G:1626303427;T:1808809011;N:27474", 151, null, null, null, 1830069736, 1600281531, 1626303427, 1808809011, 27474, "SRX27393951", "SRS23824012", "SRA2054568", "Hainan University|School of Life and Health Sciences", "Hainan University", null, null, null, null, null, null, null, null, null, null, null, "B", null, "usable mapping rate", "bgi", "bgi", "unknown", "cdna_unspecified", "unknown", "sc", "single_cell_droplet", "10x", null, "China", "2025-01-19", "Adult", "Adult", "Gut", "Digestive System"], [34520, "SRR32044798", "SRX27393950", "SRS23824011", "SRP558295", "PRJNA1212482", "vitamin C mitigated hexavalent chromium toxicity by microbiota gut brain axis in zebrafish", "PRJNA1212482", "Other", "Zebrafish is characterized by small size  rapid development  high fertility  short life cycle  easy and economical rearing; it has now become one of the model organisms for drug screening  disease research and ecological environment evaluation. Therefore  this project takes zebrafish as a model organism as the research object  and intends to study the role of vitamins in alleviating gut hexavalent chromium toxicity from the perspective of oxidative damage through the application of toxicology  transcriptome molecular biology and other techniques.", null, null, null, "Cr 3", "F", null, "ecotype:wild type zebrafish|age:6 month|dev stage:adult|collection date:2023 08 13|geo loc name:China: Haikou  Hainan Province|sex:pooled male and female|tissue:gut|death date:2023 8 13|health state:health|sample type:tissue|replication:Cr 3|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "RNA Seq of brian:Adult female and male zebrafish", "Cr 3", "Cr 3", "normal", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "DNBSEQ", "DNBSEQ-T7", null, "SRP558295", null, null, "Cr-3.R1.raw.fastq.gz Cr-3.R2.raw.fastq.gz", "fastq fastq", 6069804078.0, 20098689.0, "Cr 3.R1.raw.fastq.gz", "0:151 1:151", "A:1603886661;C:1431213970;G:1440806224;T:1593873144;N:24079", 151, 151, null, null, 1603886661, 1431213970, 1440806224, 1593873144, 24079, "SRX27393950", "SRS23824011", "SRA2054568", "Hainan University|School of Life and Health Sciences", "Hainan University", null, null, null, null, null, null, null, null, null, null, null, "B", "B", "biological fallback assumption", "bgi", "bgi", "unknown", "cdna_unspecified", "unknown", "sc", "single_cell_droplet", "10x", null, "China", "2025-01-19", "Adult", "Adult", "Gut", "Digestive System"], [34521, "SRR32044799", "SRX27393949", "SRS23824010", "SRP558295", "PRJNA1212482", "vitamin C mitigated hexavalent chromium toxicity by microbiota gut brain axis in zebrafish", "PRJNA1212482", "Other", "Zebrafish is characterized by small size  rapid development  high fertility  short life cycle  easy and economical rearing; it has now become one of the model organisms for drug screening  disease research and ecological environment evaluation. Therefore  this project takes zebrafish as a model organism as the research object  and intends to study the role of vitamins in alleviating gut hexavalent chromium toxicity from the perspective of oxidative damage through the application of toxicology  transcriptome molecular biology and other techniques.", null, null, null, "Cr 2", "E", null, "ecotype:wild type zebrafish|age:6 month|dev stage:adult|collection date:2023 08 13|geo loc name:China: Haikou  Hainan Province|sex:pooled male and female|tissue:gut|death date:2023 8 13|health state:health|sample type:tissue|replication:Cr 2|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "RNA Seq of brian:Adult female and male zebrafish", "Cr 2", "Cr 2", "normal", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "DNBSEQ", "DNBSEQ-T7", null, "SRP558295", null, "loader:fastq load.py|options:  doNotUseSharq", "Cr-2.R1.raw.fastq Cr-2.R2.raw.fastq", "fastq fastq", 8327156985.0, 55146735.0, "Cr 2.R1.raw.fastq.gz", "0:151", "A:2181317777;C:1974793526;G:2003240106;T:2167771431;N:34145", 151, null, null, null, 2181317777, 1974793526, 2003240106, 2167771431, 34145, "SRX27393949", "SRS23824010", "SRA2054568", "Hainan University|School of Life and Health Sciences", "Hainan University", null, null, null, null, null, null, null, null, null, null, null, "B", null, "usable mapping rate", "bgi", "bgi", "unknown", "cdna_unspecified", "unknown", "sc", "single_cell_droplet", "10x", null, "China", "2025-01-19", "Adult", "Adult", "Gut", "Digestive System"], [34522, "SRR32044800", "SRX27393948", "SRS23824009", "SRP558295", "PRJNA1212482", "vitamin C mitigated hexavalent chromium toxicity by microbiota gut brain axis in zebrafish", "PRJNA1212482", "Other", "Zebrafish is characterized by small size  rapid development  high fertility  short life cycle  easy and economical rearing; it has now become one of the model organisms for drug screening  disease research and ecological environment evaluation. Therefore  this project takes zebrafish as a model organism as the research object  and intends to study the role of vitamins in alleviating gut hexavalent chromium toxicity from the perspective of oxidative damage through the application of toxicology  transcriptome molecular biology and other techniques.", null, null, null, "Cr 1", "D", null, "ecotype:wild type zebrafish|age:6 month|dev stage:adult|collection date:2023 08 13|geo loc name:China: Haikou  Hainan Province|sex:pooled male and female|tissue:gut|death date:2023 8 13|health state:health|sample type:tissue|replication:Cr 1|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "RNA Seq of brian:Adult female and male zebrafish", "Cr 1", "Cr 1", "normal", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "DNBSEQ", "DNBSEQ-T7", null, "SRP558295", null, null, "Cr-1.R1.raw.fastq.gz Cr-1.R2.raw.fastq.gz", "fastq fastq", 7322067614.0, 24245257.0, "Cr 1.R1.raw.fastq.gz", "0:151 1:151", "A:1927213281;C:1727973559;G:1748866497;T:1917985720;N:28557", 151, 151, null, null, 1927213281, 1727973559, 1748866497, 1917985720, 28557, "SRX27393948", "SRS23824009", "SRA2054568", "Hainan University|School of Life and Health Sciences", "Hainan University", null, null, null, null, null, null, null, null, null, null, null, "B", "B", "biological fallback assumption", "bgi", "bgi", "unknown", "cdna_unspecified", "unknown", "sc", "single_cell_droplet", "10x", null, "China", "2025-01-19", "Adult", "Adult", "Gut", "Digestive System"], [34523, "SRR32044801", "SRX27393947", "SRS23824008", "SRP558295", "PRJNA1212482", "vitamin C mitigated hexavalent chromium toxicity by microbiota gut brain axis in zebrafish", "PRJNA1212482", "Other", "Zebrafish is characterized by small size  rapid development  high fertility  short life cycle  easy and economical rearing; it has now become one of the model organisms for drug screening  disease research and ecological environment evaluation. Therefore  this project takes zebrafish as a model organism as the research object  and intends to study the role of vitamins in alleviating gut hexavalent chromium toxicity from the perspective of oxidative damage through the application of toxicology  transcriptome molecular biology and other techniques.", null, null, null, "Con 3", "C", null, "ecotype:wild type zebrafish|age:6 month|dev stage:adult|collection date:2023 08 12|geo loc name:China: Haikou  Hainan Province|sex:pooled male and female|tissue:gut|death date:2023 8 12|health state:health|sample type:tissue|replication:Con 3|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "RNA Seq of brian:Adult female and male zebrafish", "Con 3", "Con 3", "normal", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "DNBSEQ", "DNBSEQ-T7", null, "SRP558295", null, null, "Con-3.R1.raw.fastq.gz Con-3.R2.raw.fastq.gz", "fastq fastq", 10329187314.0, 34202607.0, "Con 3.R1.raw.fastq.gz", "0:151 1:151", "A:2805764955;C:2343400161;G:2421657823;T:2758323021;N:41354", 151, 151, null, null, 2805764955, 2343400161, 2421657823, 2758323021, 41354, "SRX27393947", "SRS23824008", "SRA2054568", "Hainan University|School of Life and Health Sciences", "Hainan University", null, null, null, null, null, null, null, null, null, null, null, "B", "B", "biological fallback assumption", "bgi", "bgi", "unknown", "cdna_unspecified", "unknown", "sc", "single_cell_droplet", "10x", null, "China", "2025-01-19", "Adult", "Adult", "Gut", "Digestive System"], [34524, "SRR32044802", "SRX27393946", "SRS23824007", "SRP558295", "PRJNA1212482", "vitamin C mitigated hexavalent chromium toxicity by microbiota gut brain axis in zebrafish", "PRJNA1212482", "Other", "Zebrafish is characterized by small size  rapid development  high fertility  short life cycle  easy and economical rearing; it has now become one of the model organisms for drug screening  disease research and ecological environment evaluation. Therefore  this project takes zebrafish as a model organism as the research object  and intends to study the role of vitamins in alleviating gut hexavalent chromium toxicity from the perspective of oxidative damage through the application of toxicology  transcriptome molecular biology and other techniques.", null, null, null, "Con 2", "B", null, "ecotype:wild type zebrafish|age:6 month|dev stage:adult|collection date:2023 08 12|geo loc name:China: Haikou  Hainan Province|sex:pooled male and female|tissue:gut|death date:2023 8 12|health state:health|sample type:tissue|replication:Con 2|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "RNA Seq of brian:Adult female and male zebrafish", "Con 2", "Con 2", "normal", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "DNBSEQ", "DNBSEQ-T7", null, "SRP558295", null, null, "Con-2.R1.raw.fastq.gz Con-2.R2.raw.fastq.gz", "fastq fastq", 10789961398.0, 35728349.0, "Con 2.R1.raw.fastq.gz", "0:151 1:151", "A:2983305704;C:2396592872;G:2488165589;T:2921853880;N:43353", 151, 151, null, null, 2983305704, 2396592872, 2488165589, 2921853880, 43353, "SRX27393946", "SRS23824007", "SRA2054568", "Hainan University|School of Life and Health Sciences", "Hainan University", null, null, null, null, null, null, null, null, null, null, null, "B", "B", "biological fallback assumption", "bgi", "bgi", "unknown", "cdna_unspecified", "unknown", "sc", "single_cell_droplet", "10x", null, "China", "2025-01-19", "Adult", "Adult", "Gut", "Digestive System"], [34525, "SRR32044803", "SRX27393945", "SRS23824006", "SRP558295", "PRJNA1212482", "vitamin C mitigated hexavalent chromium toxicity by microbiota gut brain axis in zebrafish", "PRJNA1212482", "Other", "Zebrafish is characterized by small size  rapid development  high fertility  short life cycle  easy and economical rearing; it has now become one of the model organisms for drug screening  disease research and ecological environment evaluation. Therefore  this project takes zebrafish as a model organism as the research object  and intends to study the role of vitamins in alleviating gut hexavalent chromium toxicity from the perspective of oxidative damage through the application of toxicology  transcriptome molecular biology and other techniques.", null, null, null, "Con 1", "A", null, "ecotype:wild type zebrafish|age:6 month|dev stage:adult|collection date:2023 08 12|geo loc name:China: Haikou  Hainan Province|sex:pooled male and female|tissue:gut|death date:2023 8 12|health state:health|sample type:tissue|replication:Con 1|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "RNA Seq of brian:Adult female and male zebrafish", "Con 1", "Con 1", "normal", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "DNBSEQ", "DNBSEQ-T7", null, "SRP558295", null, null, "Con-1.R1.raw.fastq.gz Con-1.R2.raw.fastq.gz", "fastq fastq", 7118179260.0, 23570130.0, "Con 1.R1.raw.fastq.gz", "0:151 1:151", "A:1874284939;C:1673861890;G:1718740497;T:1851263659;N:28275", 151, 151, null, null, 1874284939, 1673861890, 1718740497, 1851263659, 28275, "SRX27393945", "SRS23824006", "SRA2054568", "Hainan University|School of Life and Health Sciences", "Hainan University", null, null, null, null, null, null, null, null, null, null, null, "B", "B", "biological fallback assumption", "bgi", "bgi", "unknown", "cdna_unspecified", "unknown", "sc", "single_cell_droplet", "10x", null, "China", "2025-01-19", "Adult", "Adult", "Gut", "Digestive System"], [64514, "SRR17137062", "SRX13321492", "SRS11229253", "SRP324000", "PRJNA737474", "Construction the larval and adult zebrafish cell atlas at single cell resolution", "GSE178150", "Transcriptome Analysis", "Single cell mRNA sequencing scRNA seq technologies are reshaping the current cell type classification system. In previous studies  we built the mouse cell atlas MCA and human cell landscape HCL to catalog all cell types by collecting scRNA seq data. However  systematically study for zebrafish Danio rerio and fruit fly Drosophila melanogaster are still lacking. Here  we construct the zebrafish and Drosophila cell atlas with Microwell seq protocols  which provides valuable resources for characterization of diverse cell populations of zebrafish and Drosophila  and studying difference between vertebrates and Invertebrates at single cell level. Overall design: Over 550 000 cells derived from zebrafish whole body single cell dissociation and profiling at the larval stage 72 hpf  3 replicates  10 fish for each replicate and adult 90 day  6 replicates  1 fish for each replicate.", "parent bioproject:PRJNA737471", "pubmed:36229673", null, "Microwell seq datasets of Zebrafish 72hpf COL104", "GSM5718328", null, "source name:Zebrafish 72hpf sample3|strain:AB|age:72 hours|tissue:whole organism", "Microwell seq datasets of Zebrafish 72hpf COL104", "Base call files were performed with Illumina bcl2fastq. Sequenced reads were trimmed for adaptor sequences. Then reads in bam files were tagged with the cell and molecular UMI barcode sequences using Drop seq tools 1.12. The reads quality under 10 were removed. For raw file in each COL  cellbarcode: in read1  the bases 1 6  22 27  43 48 are merged 18bp; UMI: in read1  the bases 49 54 6bp. scRNA seq reads were aligned to the Danio rerio GRCz11 genome assembly using STAR version 2.5.2a with default configurations. Next  merge the STAR alignment tagged bam SAM to recover cell/molecular barcodes and the reads are annotated with exon tags. Last  we demultiplexed all cell barcodes taken into consideration for the analysis from the exon tagged bam files to get a digital expression matrix DGE based on UMI counts. The cell barcode is tagged with XC  the UMI is tagged with XM  and the gene is tagged with GE. Genome build: Danio rerio GRCz11 Supplementary files format and content: Tab delimited text files of digital expression matrix DGE based on raw UMI counts  with genes as rows and cells as columns.", "Zebrafish 72hpf sample3", null, "Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol", null, "strain:AB|age:72 hours|tissue:whole organism", "GSM5718328", "GSM5718328: Microwell seq datasets of Zebrafish 72hpf COL104; Danio rerio; RNA Seq", "GSM5718328", null, "1", "Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol", null, "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "DNBSEQ", "DNBSEQ-T7", null, "SRP324000", null, "assembly:GRCz11|intentional duplicate", "Zebrafish_72hpf_COL104.bam", "10X Genomics bam file", 90497447328.0, 520100272.0, "GSM5718328 r1", "0:24 1:150", "A:26568037621;C:19526761960;G:20762820842;T:23593883403;N:45943502", 24, 150, null, null, 26568037621, 19526761960, 20762820842, 23593883403, 45943502, "SRX13321492", "SRS11229253", "SRA1244752", "GEO", "Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine", 2, 0.00219, 0.7651, 0.00205, 0.0914, 0.99981, 0.79953, 0.5, 0.51979, 24, 150, "T", "B", "sc-like readlen", "bgi", "bgi", "unknown", "cdna_unspecified", "unknown", "sc", "single_cell_droplet", "10x", null, "China", "2021-12-05", "Larval", "Larval", "Whole Organism", "All anatomical structures"], [69032, "SRR18915949", "SRX14993867", "SRS12743200", "SRP363983", "PRJNA816047", "Mapping the zebrafish developmental and aging atlas by single cell mRNA seq", "GSE198571", "Transcriptome Analysis", "Single cell mRNA sequencing scRNA seq technologies are reshaping current cell type classification system. In previous studies  we constructed the Mouse Cell Atlas MCA and Human Cell Landscape HCL to catalog all cell types by collecting scRNA seq data. Howerver  the systematic study for organism level dynamic changes of cellular states across zebrafish life span are still lacking. Here  we constructed the zebrafish cell Landscape covering different development periods using Microwell seq protocol. The zebrafish cell landscape provides a valuable resource for studying cross sepciess development  maturation and aging. Overall design: Over 452 878 cells derived from zebrafish whole body single cell dissociation and profiling at the larval stage 21 day  3 replicates  and 10 fish for each replicate and adult 22 month  6 replicates  1 fish for each replicate.", "parent bioproject:PRJNA817101", "pubmed:35929025", null, "Micorwell seq datasets of Zebrafish 21d COL79", "GSM6065255", null, "source name:Zebrafish 21d sample1|strain:AB|age:21 day|tissue:whole organism", "Micorwell seq datasets of Zebrafish 21d COL79", "Base call files were performed with Illumina bcl2fastq. Sequenced reads were trimmed for adaptor sequences. Then reads in bam files were tagged with the cell and molecular UMI barcode sequences using Drop seq tools 1.12. The reads quality under 10 were removed. For raw file 1 in each COL  cellbarcode: in read1  the bases 1 6  22 27  43 48 are merged 18bp; UMI: in read1  the bases 49 54 6bp. For raw file 2 5 in each COL  cellbarcode: in read1  the bases 1 6  7 12  13 18 are merged 18bp; UMI: in read1  the bases 19 24 6bp. scRNA seq reads were aligned to the Danio rerio GRCz11 genome assembly using STAR version 2.5.2a with default configurations. Next  merge the STAR alignment tagged bam SAM to recover cell/molecular barcodes and the reads are annotated with exon tags. Last  we demultiplexed all cell barcodes taken into consideration for the analysis from the exon tagged bam files to get a digital expression matrix DGE based on UMI counts. The cell barcode is tagged with XC  the UMI is tagged with XM  and the gene is tagged with GE. Assembly: Danio rerio GRCz11 Supplementary files format and content: Tab delimited text files of digital expression matrix DGE based on raw UMI counts  with genes as rows and cells as columns.", "Zebrafish 21d sample1", null, "Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol", null, "strain:AB|age:21 day|tissue:whole organism", "GSM6065255", "GSM6065255: Micorwell seq datasets of Zebrafish 21d COL79; Danio rerio; RNA Seq", "GSM6065255 r1", "GSM6065255", "1", "Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol", null, "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "DNBSEQ", "DNBSEQ-T7", null, "SRP363983", null, "assembly:GRCz11|intentional duplicate", "Zebrafish_21d_COL79.bam", "10X Genomics bam file", 141397811748.0, 812631102.0, "GSM6065255 r1", "0:24 1:150", "A:42419601578;C:30491813752;G:32301586155;T:36094049456;N:90760807", 24, 150, null, null, 42419601578, 30491813752, 32301586155, 36094049456, 90760807, "SRX14993867", "SRS12743200", "SRA1409755", "Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine", "Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine", 2, 0.00187, 0.69179, 0.00172, 0.07347, 0.99975, 0.82231, 0.33333, 0.52514, 24, 150, "T", "B", "sc-like readlen", "bgi", "bgi", "unknown", "cdna_unspecified", "unknown", "sc", "single_cell_droplet", "10x", null, "China", "2022-04-25", "Larval", "Larval", "Whole Organism", "All anatomical structures"], [69035, "SRR18915952", "SRX14993864", "SRS12743197", "SRP363983", "PRJNA816047", "Mapping the zebrafish developmental and aging atlas by single cell mRNA seq", "GSE198571", "Transcriptome Analysis", "Single cell mRNA sequencing scRNA seq technologies are reshaping current cell type classification system. In previous studies  we constructed the Mouse Cell Atlas MCA and Human Cell Landscape HCL to catalog all cell types by collecting scRNA seq data. Howerver  the systematic study for organism level dynamic changes of cellular states across zebrafish life span are still lacking. Here  we constructed the zebrafish cell Landscape covering different development periods using Microwell seq protocol. The zebrafish cell landscape provides a valuable resource for studying cross sepciess development  maturation and aging. Overall design: Over 452 878 cells derived from zebrafish whole body single cell dissociation and profiling at the larval stage 21 day  3 replicates  and 10 fish for each replicate and adult 22 month  6 replicates  1 fish for each replicate.", "parent bioproject:PRJNA817101", "pubmed:35929025", null, "Micorwell seq datasets of Zebrafish 21d COL76", "GSM6065252", null, "source name:Zebrafish 21d sample1|strain:AB|age:21 day|tissue:whole organism", "Micorwell seq datasets of Zebrafish 21d COL76", "Base call files were performed with Illumina bcl2fastq. Sequenced reads were trimmed for adaptor sequences. Then reads in bam files were tagged with the cell and molecular UMI barcode sequences using Drop seq tools 1.12. The reads quality under 10 were removed. For raw file 1 in each COL  cellbarcode: in read1  the bases 1 6  22 27  43 48 are merged 18bp; UMI: in read1  the bases 49 54 6bp. For raw file 2 5 in each COL  cellbarcode: in read1  the bases 1 6  7 12  13 18 are merged 18bp; UMI: in read1  the bases 19 24 6bp. scRNA seq reads were aligned to the Danio rerio GRCz11 genome assembly using STAR version 2.5.2a with default configurations. Next  merge the STAR alignment tagged bam SAM to recover cell/molecular barcodes and the reads are annotated with exon tags. Last  we demultiplexed all cell barcodes taken into consideration for the analysis from the exon tagged bam files to get a digital expression matrix DGE based on UMI counts. The cell barcode is tagged with XC  the UMI is tagged with XM  and the gene is tagged with GE. Assembly: Danio rerio GRCz11 Supplementary files format and content: Tab delimited text files of digital expression matrix DGE based on raw UMI counts  with genes as rows and cells as columns.", "Zebrafish 21d sample1", null, "Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol", null, "strain:AB|age:21 day|tissue:whole organism", "GSM6065252", "GSM6065252: Micorwell seq datasets of Zebrafish 21d COL76; Danio rerio; RNA Seq", "GSM6065252 r1", "GSM6065252", "1", "Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol", null, "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "DNBSEQ", "DNBSEQ-T7", null, "SRP363983", null, "assembly:GRCz11|intentional duplicate", "Zebrafish_21d_COL76.bam", "10X Genomics bam file", 111633243510.0, 641570365.0, "GSM6065252 r1", "0:24 1:150", "A:33972927532;C:23914299609;G:25579933876;T:28104989997;N:61092496", 24, 150, null, null, 33972927532, 23914299609, 25579933876, 28104989997, 61092496, "SRX14993864", "SRS12743197", "SRA1409755", "Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine", "Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine", 2, 0.00193, 0.6842, 0.00182, 0.07841, 0.99983, 0.82059, 0.375, 0.55944, 24, 150, "T", "B", "sc-like readlen", "bgi", "bgi", "unknown", "cdna_unspecified", "unknown", "sc", "single_cell_droplet", "10x", null, "China", "2022-04-25", "Larval", "Larval", "Whole Organism", "All anatomical structures"], [69038, "SRR18642995", "SRX14746259", "SRS12507764", "SRP363983", "PRJNA816047", "Mapping the zebrafish developmental and aging atlas by single cell mRNA seq", "GSE198571", "Transcriptome Analysis", "Single cell mRNA sequencing scRNA seq technologies are reshaping current cell type classification system. In previous studies  we constructed the Mouse Cell Atlas MCA and Human Cell Landscape HCL to catalog all cell types by collecting scRNA seq data. Howerver  the systematic study for organism level dynamic changes of cellular states across zebrafish life span are still lacking. Here  we constructed the zebrafish cell Landscape covering different development periods using Microwell seq protocol. The zebrafish cell landscape provides a valuable resource for studying cross sepciess development  maturation and aging. Overall design: Over 452 878 cells derived from zebrafish whole body single cell dissociation and profiling at the larval stage 21 day  3 replicates  and 10 fish for each replicate and adult 22 month  6 replicates  1 fish for each replicate.", "parent bioproject:PRJNA817101", "pubmed:35929025", null, "Micorwell seq datasets of Zebrafish 21d COL73", "GSM6019658", null, "source name:Zebrafish 21d sample1|strain:AB|age:21 day|tissue:whole organism", "Micorwell seq datasets of Zebrafish 21d COL73", "Base call files were performed with Illumina bcl2fastq. Sequenced reads were trimmed for adaptor sequences. Then reads in bam files were tagged with the cell and molecular UMI barcode sequences using Drop seq tools 1.12. The reads quality under 10 were removed. For raw file 1 in each COL  cellbarcode: in read1  the bases 1 6  22 27  43 48 are merged 18bp; UMI: in read1  the bases 49 54 6bp. For raw file 2 5 in each COL  cellbarcode: in read1  the bases 1 6  7 12  13 18 are merged 18bp; UMI: in read1  the bases 19 24 6bp. scRNA seq reads were aligned to the Danio rerio GRCz11 genome assembly using STAR version 2.5.2a with default configurations. Next  merge the STAR alignment tagged bam SAM to recover cell/molecular barcodes and the reads are annotated with exon tags. Last  we demultiplexed all cell barcodes taken into consideration for the analysis from the exon tagged bam files to get a digital expression matrix DGE based on UMI counts. The cell barcode is tagged with XC  the UMI is tagged with XM  and the gene is tagged with GE. Assembly: Danio rerio GRCz11 Supplementary files format and content: Tab delimited text files of digital expression matrix DGE based on raw UMI counts  with genes as rows and cells as columns.", "Zebrafish 21d sample1", null, "Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol", null, "strain:AB|age:21 day|tissue:whole organism", "GSM6019658", "GSM6019658: Micorwell seq datasets of Zebrafish 21d COL73; Danio rerio; RNA Seq", "GSM6019658 r1", "GSM6019658", "1", "Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol", null, "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "DNBSEQ", "DNBSEQ-T7", null, "SRP363983", null, "assembly:GRCz11|intentional duplicate", "Zebrafish_21d_COL73.bam", "10X Genomics bam file", 94495251666.0, 543076159.0, "GSM6019658 r1", "0:24 1:150", "A:28813859102;C:20196407259;G:21422570931;T:24009240216;N:53174158", 24, 150, null, null, 28813859102, 20196407259, 21422570931, 24009240216, 53174158, "SRX14746259", "SRS12507764", "SRA1398049", "Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine", "Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine", 2, 0.002, 0.68935, 0.00186, 0.07467, 0.99977, 0.82392, 0.45454, 0.54871, 24, 150, "T", "B", "sc-like readlen", "bgi", "bgi", "unknown", "cdna_unspecified", "unknown", "sc", "single_cell_droplet", "10x", null, "China", "2022-04-05", "Larval", "Larval", "Whole Organism", "All anatomical structures"], [69040, "SRR18642997", "SRX14746257", "SRS12507765", "SRP363983", "PRJNA816047", "Mapping the zebrafish developmental and aging atlas by single cell mRNA seq", "GSE198571", "Transcriptome Analysis", "Single cell mRNA sequencing scRNA seq technologies are reshaping current cell type classification system. In previous studies  we constructed the Mouse Cell Atlas MCA and Human Cell Landscape HCL to catalog all cell types by collecting scRNA seq data. Howerver  the systematic study for organism level dynamic changes of cellular states across zebrafish life span are still lacking. Here  we constructed the zebrafish cell Landscape covering different development periods using Microwell seq protocol. The zebrafish cell landscape provides a valuable resource for studying cross sepciess development  maturation and aging. Overall design: Over 452 878 cells derived from zebrafish whole body single cell dissociation and profiling at the larval stage 21 day  3 replicates  and 10 fish for each replicate and adult 22 month  6 replicates  1 fish for each replicate.", "parent bioproject:PRJNA817101", "pubmed:35929025", null, "Micorwell seq datasets of Zebrafish 21d COL71", "GSM6019656", null, "source name:Zebrafish 21d sample1|strain:AB|age:21 day|tissue:whole organism", "Micorwell seq datasets of Zebrafish 21d COL71", "Base call files were performed with Illumina bcl2fastq. Sequenced reads were trimmed for adaptor sequences. Then reads in bam files were tagged with the cell and molecular UMI barcode sequences using Drop seq tools 1.12. The reads quality under 10 were removed. For raw file 1 in each COL  cellbarcode: in read1  the bases 1 6  22 27  43 48 are merged 18bp; UMI: in read1  the bases 49 54 6bp. For raw file 2 5 in each COL  cellbarcode: in read1  the bases 1 6  7 12  13 18 are merged 18bp; UMI: in read1  the bases 19 24 6bp. scRNA seq reads were aligned to the Danio rerio GRCz11 genome assembly using STAR version 2.5.2a with default configurations. Next  merge the STAR alignment tagged bam SAM to recover cell/molecular barcodes and the reads are annotated with exon tags. Last  we demultiplexed all cell barcodes taken into consideration for the analysis from the exon tagged bam files to get a digital expression matrix DGE based on UMI counts. The cell barcode is tagged with XC  the UMI is tagged with XM  and the gene is tagged with GE. Assembly: Danio rerio GRCz11 Supplementary files format and content: Tab delimited text files of digital expression matrix DGE based on raw UMI counts  with genes as rows and cells as columns.", "Zebrafish 21d sample1", null, "Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol", null, "strain:AB|age:21 day|tissue:whole organism", "GSM6019656", "GSM6019656: Micorwell seq datasets of Zebrafish 21d COL71; Danio rerio; RNA Seq", "GSM6019656 r1", "GSM6019656", "1", "Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol", null, "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "DNBSEQ", "DNBSEQ-T7", null, "SRP363983", null, "assembly:GRCz11|intentional duplicate", "Zebrafish_21d_COL71.bam", "10X Genomics bam file", 141830365482.0, 815117043.0, "GSM6019656 r1", "0:24 1:150", "A:43213881758;C:30298104199;G:32190676130;T:36046592777;N:81110618", 24, 150, null, null, 43213881758, 30298104199, 32190676130, 36046592777, 81110618, "SRX14746257", "SRS12507765", "SRA1398049", "Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine", "Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine", 2, 0.00172, 0.68841, 0.00159, 0.06954, 0.99977, 0.82351, 0.54545, 0.55717, 24, 150, "T", "B", "sc-like readlen", "bgi", "bgi", "unknown", "cdna_unspecified", "unknown", "sc", "single_cell_droplet", "10x", null, "China", "2022-04-05", "Larval", "Larval", "Whole Organism", "All anatomical structures"], [71409, "SRR21590947", "SRX17592668", "SRS15130333", "SRP397443", "PRJNA880627", "Single cell sequencing of WT and hb egfaKO zebrafish spinal cord  at 1 week post sham or transection injury.", "GSE213435", "Transcriptome Analysis", "We identified hb egfa as a secreted factor necessary and sufficient for spinal cord regeneration in zebrafish. To elucidate the Hb egfa mechanism of action  we perforemd single cell sequencing of WT and hb egfaKO zebrafish spinal cord. Overall design: Adult zebrafish were subjected to spinal cord transection. 2 mm rostral and caudal to the transection site were collected at 1 xxx post injury. Spinal cord of sham injured animals was collected as control. Samples were and subjected to the 10X Genomics pipeline for single cell sequencing 4 samples in total  WT 1 wpi  WT sham  hb egfaKO 1 wpi  hb egfaKO sham.", null, "pubmed:37567873", null, "danRer11 WT 7dpi", "GSM6586115", null, "source name:spinal cord|genotype:WT|tissue:spinal cord|strain:Ekkwill EK|age:6 month|treatment:7dpi|geo loc name:missing|collection date:missing", "danRer11 WT 7dpi", "The demultiplexing  barcoded processing  gene counting and aggregation were made using the Cell Ranger software v6.0.1 https://support.10xgenomics.com/single cell gene expression/software/pipelines/latest/what is cell ranger Assembly: danRer11 Supplementary files format and content: h5 files for count table", "spinal cord", null, "Samples were processed following the 10X Chromium platform following the manufacturer\u2019s guidelines  using 10X Single Cell 3\u2019 v3 chemistry 10X Genomics  Pleasanton  USA.", null, "genotype:WT|tissue:spinal cord|strain:Ekkwill EK|age:6 month|treatment:7dpi", "GSM6586115", "GSM6586115: danRer11 WT 7dpi; Danio rerio; RNA Seq", "GSM6586115 r1", "GSM6586115", "1", "Samples were processed following the 10X Chromium platform following the manufacturer's guidelines  using 10X Single Cell three prime v3 chemistry 10X Genomics  Pleasanton  USA.", null, "RNA-Seq", "TRANSCRIPTOMIC SINGLE CELL", "cDNA", "PAIRED", "DNBSEQ", "DNBSEQ-G400", null, "SRP397443", null, null, "KP_VC_sample4_S1_L001_R2_001.fastq.gz KP_VC_sample4_S1_L001_R1_001.fastq.gz", "fastq fastq", 50454681480.0, 423988920.0, "GSM6586115 r1", "0:28 1:91", "A:14159328348;C:10820572193;G:11486998159;T:13985883249;N:1899531", 28, 91, null, null, 14159328348, 10820572193, 11486998159, 13985883249, 1899531, "SRX17592668", "SRS15130333", "SRA1500311", "Cell biology, Duke University", "Poss, Cell Biology, Duke University", 2, 0.00753, 0.88935, 0.00224, 0.18283, 0.98528, 0.77656, 0.24704, 0.5609, 28, 91, "T", "B", "sc-like readlen", "bgi", "bgi", "unknown", "cdna_unspecified", "unknown", "sc", "single_cell_droplet", "10x", null, "United States", "2022-09-15", "Adult", "Adult", "Spinal Cord", "Nervous System"], [71410, "SRR21590948", "SRX17592667", "SRS15130332", "SRP397443", "PRJNA880627", "Single cell sequencing of WT and hb egfaKO zebrafish spinal cord  at 1 week post sham or transection injury.", "GSE213435", "Transcriptome Analysis", "We identified hb egfa as a secreted factor necessary and sufficient for spinal cord regeneration in zebrafish. To elucidate the Hb egfa mechanism of action  we perforemd single cell sequencing of WT and hb egfaKO zebrafish spinal cord. Overall design: Adult zebrafish were subjected to spinal cord transection. 2 mm rostral and caudal to the transection site were collected at 1 xxx post injury. Spinal cord of sham injured animals was collected as control. Samples were and subjected to the 10X Genomics pipeline for single cell sequencing 4 samples in total  WT 1 wpi  WT sham  hb egfaKO 1 wpi  hb egfaKO sham.", null, "pubmed:37567873", null, "danRer11 WT sham", "GSM6586114", null, "source name:spinal cord|genotype:WT|tissue:spinal cord|strain:Ekkwill EK|age:6 month|treatment:sham|geo loc name:missing|collection date:missing", "danRer11 WT sham", "The demultiplexing  barcoded processing  gene counting and aggregation were made using the Cell Ranger software v6.0.1 https://support.10xgenomics.com/single cell gene expression/software/pipelines/latest/what is cell ranger Assembly: danRer11 Supplementary files format and content: h5 files for count table", "spinal cord", null, "Samples were processed following the 10X Chromium platform following the manufacturer\u2019s guidelines  using 10X Single Cell 3\u2019 v3 chemistry 10X Genomics  Pleasanton  USA.", null, "genotype:WT|tissue:spinal cord|strain:Ekkwill EK|age:6 month|treatment:sham", "GSM6586114", "GSM6586114: danRer11 WT sham; Danio rerio; RNA Seq", "GSM6586114 r1", "GSM6586114", "1", "Samples were processed following the 10X Chromium platform following the manufacturer's guidelines  using 10X Single Cell three prime v3 chemistry 10X Genomics  Pleasanton  USA.", null, "RNA-Seq", "TRANSCRIPTOMIC SINGLE CELL", "cDNA", "PAIRED", "DNBSEQ", "DNBSEQ-G400", null, "SRP397443", null, null, "KP_VC_sample3_S1_L001_R1_001.fastq.gz KP_VC_sample3_S1_L001_R2_001.fastq.gz", "fastq fastq", 49434606578.0, 415416862.0, "GSM6586114 r1", "0:28 1:91", "A:13689985840;C:10750469002;G:11165716773;T:13825714788;N:2720175", 28, 91, null, null, 13689985840, 10750469002, 11165716773, 13825714788, 2720175, "SRX17592667", "SRS15130332", "SRA1500311", "Cell biology, Duke University", "Poss, Cell Biology, Duke University", 2, 0.01019, 0.90181, 0.00309, 0.16838, 0.98522, 0.78459, 0.27523, 0.51926, 28, 91, "T", "B", "sc-like readlen", "bgi", "bgi", "unknown", "cdna_unspecified", "unknown", "sc", "single_cell_droplet", "10x", null, "United States", "2022-09-15", "Adult", "Adult", "Spinal Cord", "Nervous System"], [71411, "SRR21590949", "SRX17592666", "SRS15130331", "SRP397443", "PRJNA880627", "Single cell sequencing of WT and hb egfaKO zebrafish spinal cord  at 1 week post sham or transection injury.", "GSE213435", "Transcriptome Analysis", "We identified hb egfa as a secreted factor necessary and sufficient for spinal cord regeneration in zebrafish. To elucidate the Hb egfa mechanism of action  we perforemd single cell sequencing of WT and hb egfaKO zebrafish spinal cord. Overall design: Adult zebrafish were subjected to spinal cord transection. 2 mm rostral and caudal to the transection site were collected at 1 xxx post injury. Spinal cord of sham injured animals was collected as control. Samples were and subjected to the 10X Genomics pipeline for single cell sequencing 4 samples in total  WT 1 wpi  WT sham  hb egfaKO 1 wpi  hb egfaKO sham.", null, "pubmed:37567873", null, "danRer11 hbegfaKO 7dpi", "GSM6586113", null, "source name:spinal cord|genotype:hbegfaKO|tissue:spinal cord|strain:Ekkwill EK|age:6 month|treatment:7dpi|geo loc name:missing|collection date:missing", "danRer11 hbegfaKO 7dpi", "The demultiplexing  barcoded processing  gene counting and aggregation were made using the Cell Ranger software v6.0.1 https://support.10xgenomics.com/single cell gene expression/software/pipelines/latest/what is cell ranger Assembly: danRer11 Supplementary files format and content: h5 files for count table", "spinal cord", null, "Samples were processed following the 10X Chromium platform following the manufacturer\u2019s guidelines  using 10X Single Cell 3\u2019 v3 chemistry 10X Genomics  Pleasanton  USA.", null, "genotype:hbegfaKO|tissue:spinal cord|strain:Ekkwill EK|age:6 month|treatment:7dpi", "GSM6586113", "GSM6586113: danRer11 hbegfaKO 7dpi; Danio rerio; RNA Seq", "GSM6586113 r1", "GSM6586113", "1", "Samples were processed following the 10X Chromium platform following the manufacturer's guidelines  using 10X Single Cell three prime v3 chemistry 10X Genomics  Pleasanton  USA.", null, "RNA-Seq", "TRANSCRIPTOMIC SINGLE CELL", "cDNA", "PAIRED", "DNBSEQ", "DNBSEQ-G400", null, "SRP397443", null, null, "KP_VC_sample2_S1_L001_R1_001.fastq.gz KP_VC_sample2_S1_L001_R2_001.fastq.gz", "fastq fastq", 48346471411.0, 406272869.0, "GSM6586113 r1", "0:28 1:91", "A:13278513523;C:10826562396;G:11318717473;T:12918171753;N:4506266", 28, 91, null, null, 13278513523, 10826562396, 11318717473, 12918171753, 4506266, "SRX17592666", "SRS15130331", "SRA1500311", "Cell biology, Duke University", "Poss, Cell Biology, Duke University", 2, 0.01379, 0.89003, 0.00446, 0.1909, 0.97808, 0.78415, 0.32888, 0.6007, 28, 91, "T", "B", "sc-like readlen", "bgi", "bgi", "unknown", "cdna_unspecified", "unknown", "sc", "single_cell_droplet", "10x", null, "United States", "2022-09-15", "Adult", "Adult", "Spinal Cord", "Nervous System"], [71412, "SRR21590950", "SRX17592665", "SRS15130330", "SRP397443", "PRJNA880627", "Single cell sequencing of WT and hb egfaKO zebrafish spinal cord  at 1 week post sham or transection injury.", "GSE213435", "Transcriptome Analysis", "We identified hb egfa as a secreted factor necessary and sufficient for spinal cord regeneration in zebrafish. To elucidate the Hb egfa mechanism of action  we perforemd single cell sequencing of WT and hb egfaKO zebrafish spinal cord. Overall design: Adult zebrafish were subjected to spinal cord transection. 2 mm rostral and caudal to the transection site were collected at 1 xxx post injury. Spinal cord of sham injured animals was collected as control. Samples were and subjected to the 10X Genomics pipeline for single cell sequencing 4 samples in total  WT 1 wpi  WT sham  hb egfaKO 1 wpi  hb egfaKO sham.", null, "pubmed:37567873", null, "danRer11 hbegfaKO sham", "GSM6586112", null, "source name:spinal cord|genotype:hbegfaKO|tissue:spinal cord|strain:Ekkwill EK|age:6 month|treatment:sham|geo loc name:missing|collection date:missing", "danRer11 hbegfaKO sham", "The demultiplexing  barcoded processing  gene counting and aggregation were made using the Cell Ranger software v6.0.1 https://support.10xgenomics.com/single cell gene expression/software/pipelines/latest/what is cell ranger Assembly: danRer11 Supplementary files format and content: h5 files for count table", "spinal cord", null, "Samples were processed following the 10X Chromium platform following the manufacturer\u2019s guidelines  using 10X Single Cell 3\u2019 v3 chemistry 10X Genomics  Pleasanton  USA.", null, "genotype:hbegfaKO|tissue:spinal cord|strain:Ekkwill EK|age:6 month|treatment:sham", "GSM6586112", "GSM6586112: danRer11 hbegfaKO sham; Danio rerio; RNA Seq", "GSM6586112 r1", "GSM6586112", "1", "Samples were processed following the 10X Chromium platform following the manufacturer's guidelines  using 10X Single Cell three prime v3 chemistry 10X Genomics  Pleasanton  USA.", null, "RNA-Seq", "TRANSCRIPTOMIC SINGLE CELL", "cDNA", "PAIRED", "DNBSEQ", "DNBSEQ-G400", null, "SRP397443", null, null, "KP_VC_sample1_S1_L001_R1_001.fastq.gz KP_VC_sample1_S1_L001_R2_001.fastq.gz", "fastq fastq", 50009919813.0, 420251427.0, "GSM6586112 r1", "0:28 1:91", "A:13721824199;C:11296818044;G:11807686254;T:13179637678;N:3953638", 28, 91, null, null, 13721824199, 11296818044, 11807686254, 13179637678, 3953638, "SRX17592665", "SRS15130330", "SRA1500311", "Cell biology, Duke University", "Poss, Cell Biology, Duke University", 2, 0.01254, 0.83945, 0.00371, 0.16358, 0.98378, 0.80728, 0.25895, 0.57907, 28, 91, "T", "B", "sc-like readlen", "bgi", "bgi", "unknown", "cdna_unspecified", "unknown", "sc", "single_cell_droplet", "10x", null, "United States", "2022-09-15", "Adult", "Adult", "Spinal Cord", "Nervous System"]], "truncated": false, "filtered_table_rows_count": 27, "expanded_columns": [], "expandable_columns": [], "columns": ["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"], "primary_keys": [], "units": {}, "query": {"sql": "select 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 from run_metadata where \"experiment.library_selection\" = :p0 and \"experiment.platform\" = :p1 and \"technology\" = :p2 order by rowid limit 101", "params": {"p0": "cDNA", "p1": "DNBSEQ", "p2": "10x"}}, "facet_results": {"experiment.library_strategy": {"name": "experiment.library_strategy", "type": "column", "hideable": false, "toggle_url": "/metadata/run_metadata.json?experiment.library_selection=cDNA&experiment.platform=DNBSEQ&technology=10x", "results": [{"value": "RNA-Seq", "label": "RNA-Seq", "count": 27, "toggle_url": "http://metadata.rnaquarium.org/metadata/run_metadata.json?experiment.library_selection=cDNA&experiment.platform=DNBSEQ&technology=10x&experiment.library_strategy=RNA-Seq", "selected": false}], "truncated": false}, "experiment.library_source": {"name": "experiment.library_source", "type": "column", "hideable": false, "toggle_url": "/metadata/run_metadata.json?experiment.library_selection=cDNA&experiment.platform=DNBSEQ&technology=10x", "results": [{"value": "TRANSCRIPTOMIC", "label": "TRANSCRIPTOMIC", "count": 23, "toggle_url": "http://metadata.rnaquarium.org/metadata/run_metadata.json?experiment.library_selection=cDNA&experiment.platform=DNBSEQ&technology=10x&experiment.library_source=TRANSCRIPTOMIC", "selected": false}, {"value": "TRANSCRIPTOMIC SINGLE CELL", "label": "TRANSCRIPTOMIC SINGLE CELL", "count": 4, "toggle_url": "http://metadata.rnaquarium.org/metadata/run_metadata.json?experiment.library_selection=cDNA&experiment.platform=DNBSEQ&technology=10x&experiment.library_source=TRANSCRIPTOMIC+SINGLE+CELL", "selected": false}], "truncated": false}, "experiment.library_selection": {"name": "experiment.library_selection", "type": "column", "hideable": false, "toggle_url": "/metadata/run_metadata.json?experiment.library_selection=cDNA&experiment.platform=DNBSEQ&technology=10x", "results": [{"value": "cDNA", "label": "cDNA", "count": 27, "toggle_url": "http://metadata.rnaquarium.org/metadata/run_metadata.json?experiment.platform=DNBSEQ&technology=10x", "selected": true}], "truncated": false}, "experiment.library_layout": {"name": "experiment.library_layout", "type": "column", "hideable": false, "toggle_url": "/metadata/run_metadata.json?experiment.library_selection=cDNA&experiment.platform=DNBSEQ&technology=10x", "results": [{"value": "PAIRED", "label": "PAIRED", "count": 27, "toggle_url": "http://metadata.rnaquarium.org/metadata/run_metadata.json?experiment.library_selection=cDNA&experiment.platform=DNBSEQ&technology=10x&experiment.library_layout=PAIRED", "selected": false}], "truncated": false}, "experiment.platform": {"name": "experiment.platform", "type": "column", "hideable": false, "toggle_url": "/metadata/run_metadata.json?experiment.library_selection=cDNA&experiment.platform=DNBSEQ&technology=10x", "results": [{"value": "DNBSEQ", "label": "DNBSEQ", "count": 27, "toggle_url": "http://metadata.rnaquarium.org/metadata/run_metadata.json?experiment.library_selection=cDNA&technology=10x", "selected": true}], "truncated": false}, "devstage_curation_coarse": {"name": "devstage_curation_coarse", "type": "column", "hideable": false, "toggle_url": "/metadata/run_metadata.json?experiment.library_selection=cDNA&experiment.platform=DNBSEQ&technology=10x", "results": [{"value": "Adult", "label": "Adult", "count": 22, "toggle_url": 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"http://metadata.rnaquarium.org/metadata/run_metadata.json?experiment.library_selection=cDNA&experiment.platform=DNBSEQ&technology=10x&devstage_curation=Larval", "selected": false}], "truncated": false}, "tissue_curation_coarse": {"name": "tissue_curation_coarse", "type": "column", "hideable": false, "toggle_url": "/metadata/run_metadata.json?experiment.library_selection=cDNA&experiment.platform=DNBSEQ&technology=10x", "results": [{"value": "Nervous System", "label": "Nervous System", "count": 13, "toggle_url": "http://metadata.rnaquarium.org/metadata/run_metadata.json?experiment.library_selection=cDNA&experiment.platform=DNBSEQ&technology=10x&tissue_curation_coarse=Nervous+System", "selected": false}, {"value": "Digestive System", "label": "Digestive System", "count": 9, "toggle_url": "http://metadata.rnaquarium.org/metadata/run_metadata.json?experiment.library_selection=cDNA&experiment.platform=DNBSEQ&technology=10x&tissue_curation_coarse=Digestive+System", "selected": false}, {"value": "All anatomical structures", "label": "All anatomical structures", "count": 5, "toggle_url": "http://metadata.rnaquarium.org/metadata/run_metadata.json?experiment.library_selection=cDNA&experiment.platform=DNBSEQ&technology=10x&tissue_curation_coarse=All+anatomical+structures", "selected": false}], "truncated": false}, "tissue_curation": {"name": "tissue_curation", "type": "column", "hideable": false, "toggle_url": "/metadata/run_metadata.json?experiment.library_selection=cDNA&experiment.platform=DNBSEQ&technology=10x", "results": [{"value": "Brain", "label": "Brain", "count": 9, "toggle_url": "http://metadata.rnaquarium.org/metadata/run_metadata.json?experiment.library_selection=cDNA&experiment.platform=DNBSEQ&technology=10x&tissue_curation=Brain", "selected": false}, {"value": "Gut", "label": "Gut", "count": 9, "toggle_url": 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"http://metadata.rnaquarium.org/metadata/run_metadata.json?experiment.library_selection=cDNA&experiment.platform=DNBSEQ", "selected": true}], "truncated": false}}, "suggested_facets": [], "next": null, "next_url": null, "private": false, "allow_execute_sql": true, "query_ms": 74.7396449878579}