{"database": "metadata", "table": "run_metadata", "is_view": false, "human_description_en": "where experiment.library_selection = \"cDNA\", technology = \"unknown\" and tissue_curation = \"Thymus\"", "rows": [[59515, "SRR11926689", "SRX8472335", "SRS6772936", "SRP265974", "PRJNA637328", "A novel TLX1 driven T ALL zebrafish model: comparative genomic analysis with other leukemia models", "GSE151816", "Transcriptome Analysis", "We generated a new rag2 TLX1 driven T ALL model in zebrafish. RNA sequencing was preformed on the developed TLX1 T ALLs sequencing performed in the Speleman lab. In addition  RNA sequencing was performed on various additional zebrafish T ALL models shrek  hulk  otg  hMYC  sequenced in the Frazer lab to look at the molecular differences between the various existing T ALL models. Overall design: RNA sequencing data from TLX1  shrek  hulk  otg T ALL samples  wild type thymocytes sequenced in the Speleman lab  wild type thymocytes sequenced in the Frazer lab. 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RNA sequencing was preformed on the developed TLX1 T ALLs sequencing performed in the Speleman lab. In addition  RNA sequencing was performed on various additional zebrafish T ALL models shrek  hulk  otg  hMYC  sequenced in the Frazer lab to look at the molecular differences between the various existing T ALL models. Overall design: RNA sequencing data from TLX1  shrek  hulk  otg T ALL samples  wild type thymocytes sequenced in the Speleman lab  wild type thymocytes sequenced in the Frazer lab. 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RNA sequencing was preformed on the developed TLX1 T ALLs sequencing performed in the Speleman lab. In addition  RNA sequencing was performed on various additional zebrafish T ALL models shrek  hulk  otg  hMYC  sequenced in the Frazer lab to look at the molecular differences between the various existing T ALL models. Overall design: RNA sequencing data from TLX1  shrek  hulk  otg T ALL samples  wild type thymocytes sequenced in the Speleman lab  wild type thymocytes sequenced in the Frazer lab. 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RNA sequencing was preformed on the developed TLX1 T ALLs sequencing performed in the Speleman lab. In addition  RNA sequencing was performed on various additional zebrafish T ALL models shrek  hulk  otg  hMYC  sequenced in the Frazer lab to look at the molecular differences between the various existing T ALL models. Overall design: RNA sequencing data from TLX1  shrek  hulk  otg T ALL samples  wild type thymocytes sequenced in the Speleman lab  wild type thymocytes sequenced in the Frazer lab. 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RNA sequencing was preformed on the developed TLX1 T ALLs sequencing performed in the Speleman lab. In addition  RNA sequencing was performed on various additional zebrafish T ALL models shrek  hulk  otg  hMYC  sequenced in the Frazer lab to look at the molecular differences between the various existing T ALL models. Overall design: RNA sequencing data from TLX1  shrek  hulk  otg T ALL samples  wild type thymocytes sequenced in the Speleman lab  wild type thymocytes sequenced in the Frazer lab. Shrek  otg  hulk  hMYC preleukemic thymocytes", null, "pubmed:32591643", null, "OPL4", "GSM4591353", null, "tissue:otg preleukemic thymocytes|cell type:thymocytes|genotype:otg;Tglck:GFP|tumor stg:preleukemic|lab of sample collection and sequencing:Frazer lab", "OPL4", "First read of Fastq files were aligned to GRCz10 using STARv2.4.2a with esembl GRCz10.91.gtf as guide Counts to GRCz10.91.gtf were generated on the fly by STAR Genome build: GRCz10 Supplementary files format and content: txt file with raw counts", "otg preleukemic thymocytes", null, "Truseq stranded mRNA library prep illumina  #20020594", null, "cell type:thymocytes|genotype:otg;Tglck:GFP|tumor stg:preleukemic|lab of sample collection and sequencing:Frazer lab", "GSM4591353", "GSM4591353: OPL4; Danio rerio; RNA Seq", "GSM4591353", null, "1", "Truseq stranded mRNA library prep illumina  #20020594", "GEO Accession:GSM4591353", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 3000", null, "SRP265974", null, null, "Fsample_36.fastq.gz Fsample_36_R2.fastq.gz", "fastq fastq", 4686865610.0, 23202305.0, "GSM4591353 r1", "0:101 1:101", "A:1290395271;C:1046629683;G:1049444449;T:1294288823;N:6107384", 101, 101, null, null, 1290395271, 1046629683, 1049444449, 1294288823, 6107384, "SRX8472318", "SRS6772919", "SRA1083220", "GEO", "Center for Medical Genetics, Ghent University", 2, 0.92236, 0.92454, 0.31359, 0.31617, 0.76625, 0.76779, 0.48273, 0.47205, 101, 101, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "unknown", "cdna_unspecified", "trueseq", "bulk", "unknown", "unknown", null, "Belgium", "2020-06-04", "Undetermined", "Undetermined", "Thymus", "Hematopoietic System"], [59533, "SRR11926671", "SRX8472317", "SRS6772918", "SRP265974", "PRJNA637328", "A novel TLX1 driven T ALL zebrafish model: comparative genomic analysis with other leukemia models", "GSE151816", "Transcriptome Analysis", "We generated a new rag2 TLX1 driven T ALL model in zebrafish. RNA sequencing was preformed on the developed TLX1 T ALLs sequencing performed in the Speleman lab. In addition  RNA sequencing was performed on various additional zebrafish T ALL models shrek  hulk  otg  hMYC  sequenced in the Frazer lab to look at the molecular differences between the various existing T ALL models. Overall design: RNA sequencing data from TLX1  shrek  hulk  otg T ALL samples  wild type thymocytes sequenced in the Speleman lab  wild type thymocytes sequenced in the Frazer lab. Shrek  otg  hulk  hMYC preleukemic thymocytes", null, "pubmed:32591643", null, "OPL3", "GSM4591352", null, "tissue:otg preleukemic thymocytes|cell type:thymocytes|genotype:otg;Tglck:GFP|tumor stg:preleukemic|lab of sample collection and sequencing:Frazer lab", "OPL3", "First read of Fastq files were aligned to GRCz10 using STARv2.4.2a with esembl GRCz10.91.gtf as guide Counts to GRCz10.91.gtf were generated on the fly by STAR Genome build: GRCz10 Supplementary files format and content: txt file with raw counts", "otg preleukemic thymocytes", null, "Truseq stranded mRNA library prep illumina  #20020594", null, "cell type:thymocytes|genotype:otg;Tglck:GFP|tumor stg:preleukemic|lab of sample collection and sequencing:Frazer lab", "GSM4591352", "GSM4591352: OPL3; Danio rerio; RNA Seq", "GSM4591352", null, "1", "Truseq stranded mRNA library prep illumina  #20020594", "GEO Accession:GSM4591352", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 3000", null, "SRP265974", null, null, "Fsample_35_R2.fastq.gz Fsample_35.fastq.gz", "fastq fastq", 6253893538.0, 30959869.0, "GSM4591352 r1", "0:101 1:101", "A:1720308233;C:1397371474;G:1404797248;T:1723210472;N:8206111", 101, 101, null, null, 1720308233, 1397371474, 1404797248, 1723210472, 8206111, "SRX8472317", "SRS6772918", "SRA1083220", "GEO", "Center for Medical Genetics, Ghent University", 2, 0.93192, 0.93318, 0.35833, 0.3632, 0.78518, 0.78788, 0.48278, 0.48009, 101, 101, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "unknown", "cdna_unspecified", "trueseq", "bulk", "unknown", "unknown", null, "Belgium", "2020-06-04", "Undetermined", "Undetermined", "Thymus", "Hematopoietic System"], [59534, "SRR11926670", "SRX8472316", "SRS6772917", "SRP265974", "PRJNA637328", "A novel TLX1 driven T ALL zebrafish model: comparative genomic analysis with other leukemia models", "GSE151816", "Transcriptome Analysis", "We generated a new rag2 TLX1 driven T ALL model in zebrafish. RNA sequencing was preformed on the developed TLX1 T ALLs sequencing performed in the Speleman lab. In addition  RNA sequencing was performed on various additional zebrafish T ALL models shrek  hulk  otg  hMYC  sequenced in the Frazer lab to look at the molecular differences between the various existing T ALL models. Overall design: RNA sequencing data from TLX1  shrek  hulk  otg T ALL samples  wild type thymocytes sequenced in the Speleman lab  wild type thymocytes sequenced in the Frazer lab. Shrek  otg  hulk  hMYC preleukemic thymocytes", null, "pubmed:32591643", null, "OPL2", "GSM4591351", null, "tissue:otg preleukemic thymocytes|cell type:thymocytes|genotype:otg;Tglck:GFP|tumor stg:preleukemic|lab of sample collection and sequencing:Frazer lab", "OPL2", "First read of Fastq files were aligned to GRCz10 using STARv2.4.2a with esembl GRCz10.91.gtf as guide Counts to GRCz10.91.gtf were generated on the fly by STAR Genome build: GRCz10 Supplementary files format and content: txt file with raw counts", "otg preleukemic thymocytes", null, "Truseq stranded mRNA library prep illumina  #20020594", null, "cell type:thymocytes|genotype:otg;Tglck:GFP|tumor stg:preleukemic|lab of sample collection and sequencing:Frazer lab", "GSM4591351", "GSM4591351: OPL2; Danio rerio; RNA Seq", "GSM4591351", null, "1", "Truseq stranded mRNA library prep illumina  #20020594", "GEO Accession:GSM4591351", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 3000", null, "SRP265974", null, null, "Fsample_34_R2.fastq.gz Fsample_34.fastq.gz", "fastq fastq", 5351903948.0, 26494574.0, "GSM4591351 r1", "0:101 1:101", "A:1442793834;C:1227325750;G:1233975738;T:1440891564;N:6917062", 101, 101, null, null, 1442793834, 1227325750, 1233975738, 1440891564, 6917062, "SRX8472316", "SRS6772917", "SRA1083220", "GEO", "Center for Medical Genetics, Ghent University", 2, 0.92964, 0.93101, 0.21706, 0.2185, 0.76497, 0.76848, 0.47634, 0.48247, 101, 101, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "unknown", "cdna_unspecified", "trueseq", "bulk", "unknown", "unknown", null, "Belgium", "2020-06-04", "Undetermined", "Undetermined", "Thymus", "Hematopoietic System"], [59535, "SRR11926669", "SRX8472315", "SRS6772916", "SRP265974", "PRJNA637328", "A novel TLX1 driven T ALL zebrafish model: comparative genomic analysis with other leukemia models", "GSE151816", "Transcriptome Analysis", "We generated a new rag2 TLX1 driven T ALL model in zebrafish. RNA sequencing was preformed on the developed TLX1 T ALLs sequencing performed in the Speleman lab. In addition  RNA sequencing was performed on various additional zebrafish T ALL models shrek  hulk  otg  hMYC  sequenced in the Frazer lab to look at the molecular differences between the various existing T ALL models. Overall design: RNA sequencing data from TLX1  shrek  hulk  otg T ALL samples  wild type thymocytes sequenced in the Speleman lab  wild type thymocytes sequenced in the Frazer lab. Shrek  otg  hulk  hMYC preleukemic thymocytes", null, "pubmed:32591643", null, "OPL1", "GSM4591350", null, "tissue:otg preleukemic thymocytes|cell type:thymocytes|genotype:otg;Tglck:GFP|tumor stg:preleukemic|lab of sample collection and sequencing:Frazer lab", "OPL1", "First read of Fastq files were aligned to GRCz10 using STARv2.4.2a with esembl GRCz10.91.gtf as guide Counts to GRCz10.91.gtf were generated on the fly by STAR Genome build: GRCz10 Supplementary files format and content: txt file with raw counts", "otg preleukemic thymocytes", null, "Truseq stranded mRNA library prep illumina  #20020594", null, "cell type:thymocytes|genotype:otg;Tglck:GFP|tumor stg:preleukemic|lab of sample collection and sequencing:Frazer lab", "GSM4591350", "GSM4591350: OPL1; Danio rerio; RNA Seq", "GSM4591350", null, "1", "Truseq stranded mRNA library prep illumina  #20020594", "GEO Accession:GSM4591350", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 3000", null, "SRP265974", null, null, "Fsample_33.fastq.gz Fsample_33_R2.fastq.gz", "fastq fastq", 5499039536.0, 27222968.0, "GSM4591350 r1", "0:101 1:101", "A:1515036859;C:1226882670;G:1229198085;T:1520688016;N:7233906", 101, 101, null, null, 1515036859, 1226882670, 1229198085, 1520688016, 7233906, "SRX8472315", "SRS6772916", "SRA1083220", "GEO", "Center for Medical Genetics, Ghent University", 2, 0.92637, 0.92762, 0.31857, 0.32243, 0.76769, 0.77116, 0.46456, 0.46584, 101, 101, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "unknown", "cdna_unspecified", "trueseq", "bulk", "unknown", "unknown", null, "Belgium", "2020-06-04", "Undetermined", "Undetermined", "Thymus", "Hematopoietic System"], [59546, "SRR11926658", "SRX8472304", "SRS6772905", "SRP265974", "PRJNA637328", "A novel TLX1 driven T ALL zebrafish model: comparative genomic analysis with other leukemia models", "GSE151816", "Transcriptome Analysis", "We generated a new rag2 TLX1 driven T ALL model in zebrafish. RNA sequencing was preformed on the developed TLX1 T ALLs sequencing performed in the Speleman lab. In addition  RNA sequencing was performed on various additional zebrafish T ALL models shrek  hulk  otg  hMYC  sequenced in the Frazer lab to look at the molecular differences between the various existing T ALL models. Overall design: RNA sequencing data from TLX1  shrek  hulk  otg T ALL samples  wild type thymocytes sequenced in the Speleman lab  wild type thymocytes sequenced in the Frazer lab. Shrek  otg  hulk  hMYC preleukemic thymocytes", null, "pubmed:32591643", null, "MPL3", "GSM4591339", null, "tissue:hMYC preleukemic thymocytes|cell type:thymocytes|genotype:Tgrag2:hMYC  Tglck:GFP|tumor stg:preleukemic|lab of sample collection and sequencing:Frazer lab", "MPL3", "First read of Fastq files were aligned to GRCz10 using STARv2.4.2a with esembl GRCz10.91.gtf as guide Counts to GRCz10.91.gtf were generated on the fly by STAR Genome build: GRCz10 Supplementary files format and content: txt file with raw counts", "hMYC preleukemic thymocytes", null, "Truseq stranded mRNA library prep illumina  #20020594", null, "cell type:thymocytes|genotype:Tgrag2:hMYC  Tglck:GFP|tumor stg:preleukemic|lab of sample collection and sequencing:Frazer lab", "GSM4591339", "GSM4591339: MPL3; Danio rerio; RNA Seq", "GSM4591339", null, "1", "Truseq stranded mRNA library prep illumina  #20020594", "GEO Accession:GSM4591339", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 3000", null, "SRP265974", null, null, "Fsample_21.fastq.gz Fsample_21_R2.fastq.gz", "fastq fastq", 8876009218.0, 29390759.0, "GSM4591339 r1", "0:151 1:151", "A:2397445782;C:2052027740;G:2018874313;T:2405562242;N:2099141", 151, 151, null, null, 2397445782, 2052027740, 2018874313, 2405562242, 2099141, "SRX8472304", "SRS6772905", "SRA1083220", "GEO", "Center for Medical Genetics, Ghent University", 2, 0.92414, 0.9227, 0.2461, 0.23997, 0.78841, 0.79506, 0.50203, 0.5018, 151, 151, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "unknown", "cdna_unspecified", "trueseq", "bulk", "unknown", "unknown", null, "Belgium", "2020-06-04", "Undetermined", "Undetermined", "Thymus", "Hematopoietic System"], [59547, "SRR11926657", "SRX8472303", "SRS6772904", "SRP265974", "PRJNA637328", "A novel TLX1 driven T ALL zebrafish model: comparative genomic analysis with other leukemia models", "GSE151816", "Transcriptome Analysis", "We generated a new rag2 TLX1 driven T ALL model in zebrafish. RNA sequencing was preformed on the developed TLX1 T ALLs sequencing performed in the Speleman lab. In addition  RNA sequencing was performed on various additional zebrafish T ALL models shrek  hulk  otg  hMYC  sequenced in the Frazer lab to look at the molecular differences between the various existing T ALL models. Overall design: RNA sequencing data from TLX1  shrek  hulk  otg T ALL samples  wild type thymocytes sequenced in the Speleman lab  wild type thymocytes sequenced in the Frazer lab. Shrek  otg  hulk  hMYC preleukemic thymocytes", null, "pubmed:32591643", null, "MPL2", "GSM4591338", null, "tissue:hMYC preleukemic thymocytes|cell type:thymocytes|genotype:Tgrag2:hMYC  Tglck:GFP|tumor stg:preleukemic|lab of sample collection and sequencing:Frazer lab", "MPL2", "First read of Fastq files were aligned to GRCz10 using STARv2.4.2a with esembl GRCz10.91.gtf as guide Counts to GRCz10.91.gtf were generated on the fly by STAR Genome build: GRCz10 Supplementary files format and content: txt file with raw counts", "hMYC preleukemic thymocytes", null, "Truseq stranded mRNA library prep illumina  #20020594", null, "cell type:thymocytes|genotype:Tgrag2:hMYC  Tglck:GFP|tumor stg:preleukemic|lab of sample collection and sequencing:Frazer lab", "GSM4591338", "GSM4591338: MPL2; Danio rerio; RNA Seq", "GSM4591338", null, "1", "Truseq stranded mRNA library prep illumina  #20020594", "GEO Accession:GSM4591338", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 3000", null, "SRP265974", null, null, "Fsample_20.fastq.gz Fsample_20_R2.fastq.gz", "fastq fastq", 8942441970.0, 29610735.0, "GSM4591338 r1", "0:151 1:151", "A:2434196467;C:2047066969;G:2021293350;T:2437752994;N:2132190", 151, 151, null, null, 2434196467, 2047066969, 2021293350, 2437752994, 2132190, "SRX8472303", "SRS6772904", "SRA1083220", "GEO", "Center for Medical Genetics, Ghent University", 2, 0.9147, 0.91499, 0.22028, 0.2117, 0.77713, 0.78334, 0.50243, 0.49838, 151, 151, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "unknown", "cdna_unspecified", "trueseq", "bulk", "unknown", "unknown", null, "Belgium", "2020-06-04", "Undetermined", "Undetermined", "Thymus", "Hematopoietic System"], [59548, "SRR11926656", "SRX8472302", "SRS6772903", "SRP265974", "PRJNA637328", "A novel TLX1 driven T ALL zebrafish model: comparative genomic analysis with other leukemia models", "GSE151816", "Transcriptome Analysis", "We generated a new rag2 TLX1 driven T ALL model in zebrafish. RNA sequencing was preformed on the developed TLX1 T ALLs sequencing performed in the Speleman lab. In addition  RNA sequencing was performed on various additional zebrafish T ALL models shrek  hulk  otg  hMYC  sequenced in the Frazer lab to look at the molecular differences between the various existing T ALL models. Overall design: RNA sequencing data from TLX1  shrek  hulk  otg T ALL samples  wild type thymocytes sequenced in the Speleman lab  wild type thymocytes sequenced in the Frazer lab. Shrek  otg  hulk  hMYC preleukemic thymocytes", null, "pubmed:32591643", null, "MPL1", "GSM4591337", null, "tissue:hMYC preleukemic thymocytes|cell type:thymocytes|genotype:Tgrag2:hMYC  Tglck:GFP|tumor stg:preleukemic|lab of sample collection and sequencing:Frazer lab", "MPL1", "First read of Fastq files were aligned to GRCz10 using STARv2.4.2a with esembl GRCz10.91.gtf as guide Counts to GRCz10.91.gtf were generated on the fly by STAR Genome build: GRCz10 Supplementary files format and content: txt file with raw counts", "hMYC preleukemic thymocytes", null, "Truseq stranded mRNA library prep illumina  #20020594", null, "cell type:thymocytes|genotype:Tgrag2:hMYC  Tglck:GFP|tumor stg:preleukemic|lab of sample collection and sequencing:Frazer lab", "GSM4591337", "GSM4591337: MPL1; Danio rerio; RNA Seq", "GSM4591337", null, "1", "Truseq stranded mRNA library prep illumina  #20020594", "GEO Accession:GSM4591337", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 3000", null, "SRP265974", null, null, "Fsample_19.fastq.gz Fsample_19_R2.fastq.gz", "fastq fastq", 9778540144.0, 32379272.0, "GSM4591337 r1", "0:151 1:151", "A:2676504038;C:2223347787;G:2177506547;T:2698864055;N:2317717", 151, 151, null, null, 2676504038, 2223347787, 2177506547, 2698864055, 2317717, "SRX8472302", "SRS6772903", "SRA1083220", "GEO", "Center for Medical Genetics, Ghent University", 2, 0.91346, 0.91413, 0.29555, 0.28893, 0.79078, 0.79825, 0.49875, 0.50518, 151, 151, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "unknown", "cdna_unspecified", "trueseq", "bulk", "unknown", "unknown", null, "Belgium", "2020-06-04", "Undetermined", "Undetermined", "Thymus", "Hematopoietic System"], [59549, "SRR11926655", "SRX8472301", "SRS6772902", "SRP265974", "PRJNA637328", "A novel TLX1 driven T ALL zebrafish model: comparative genomic analysis with other leukemia models", "GSE151816", "Transcriptome Analysis", "We generated a new rag2 TLX1 driven T ALL model in zebrafish. RNA sequencing was preformed on the developed TLX1 T ALLs sequencing performed in the Speleman lab. In addition  RNA sequencing was performed on various additional zebrafish T ALL models shrek  hulk  otg  hMYC  sequenced in the Frazer lab to look at the molecular differences between the various existing T ALL models. Overall design: RNA sequencing data from TLX1  shrek  hulk  otg T ALL samples  wild type thymocytes sequenced in the Speleman lab  wild type thymocytes sequenced in the Frazer lab. Shrek  otg  hulk  hMYC preleukemic thymocytes", null, "pubmed:32591643", null, "HPL3", "GSM4591336", null, "tissue:hulk mutant preleukemic thymocytes|cell type:thymocytes|genotype:hulk;Tglck:GFP|tumor stg:preleukemic|lab of sample collection and sequencing:Frazer lab", "HPL3", "First read of Fastq files were aligned to GRCz10 using STARv2.4.2a with esembl GRCz10.91.gtf as guide Counts to GRCz10.91.gtf were generated on the fly by STAR Genome build: GRCz10 Supplementary files format and content: txt file with raw counts", "hulk mutant preleukemic thymocytes", null, "Truseq stranded mRNA library prep illumina  #20020594", null, "cell type:thymocytes|genotype:hulk;Tglck:GFP|tumor stg:preleukemic|lab of sample collection and sequencing:Frazer lab", "GSM4591336", "GSM4591336: HPL3; Danio rerio; RNA Seq", "GSM4591336", null, "1", "Truseq stranded mRNA library prep illumina  #20020594", "GEO Accession:GSM4591336", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 3000", null, "SRP265974", null, null, "Fsample_12.fastq.gz Fsample_12_R2.fastq.gz", "fastq fastq", 3378760800.0, 16893804.0, "GSM4591336 r1", "0:100 1:100", "A:869653801;C:820588210;G:823025653;T:861750769;N:3742367", 100, 100, null, null, 869653801, 820588210, 823025653, 861750769, 3742367, "SRX8472301", "SRS6772902", "SRA1083220", "GEO", "Center for Medical Genetics, Ghent University", 2, 0.93754, 0.92151, 0.17513, 0.16969, 0.79922, 0.8071, 0.63894, 0.61913, 100, 100, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "unknown", "cdna_unspecified", "trueseq", "bulk", "unknown", "unknown", null, "Belgium", "2020-06-04", "Undetermined", "Undetermined", "Thymus", "Hematopoietic System"], [59550, "SRR11926654", "SRX8472300", "SRS6772901", "SRP265974", "PRJNA637328", "A novel TLX1 driven T ALL zebrafish model: comparative genomic analysis with other leukemia models", "GSE151816", "Transcriptome Analysis", "We generated a new rag2 TLX1 driven T ALL model in zebrafish. RNA sequencing was preformed on the developed TLX1 T ALLs sequencing performed in the Speleman lab. In addition  RNA sequencing was performed on various additional zebrafish T ALL models shrek  hulk  otg  hMYC  sequenced in the Frazer lab to look at the molecular differences between the various existing T ALL models. Overall design: RNA sequencing data from TLX1  shrek  hulk  otg T ALL samples  wild type thymocytes sequenced in the Speleman lab  wild type thymocytes sequenced in the Frazer lab. Shrek  otg  hulk  hMYC preleukemic thymocytes", null, "pubmed:32591643", null, "HPL2", "GSM4591335", null, "tissue:hulk mutant preleukemic thymocytes|cell type:thymocytes|genotype:hulk;Tglck:GFP|tumor stg:preleukemic|lab of sample collection and sequencing:Frazer lab", "HPL2", "First read of Fastq files were aligned to GRCz10 using STARv2.4.2a with esembl GRCz10.91.gtf as guide Counts to GRCz10.91.gtf were generated on the fly by STAR Genome build: GRCz10 Supplementary files format and content: txt file with raw counts", "hulk mutant preleukemic thymocytes", null, "Truseq stranded mRNA library prep illumina  #20020594", null, "cell type:thymocytes|genotype:hulk;Tglck:GFP|tumor stg:preleukemic|lab of sample collection and sequencing:Frazer lab", "GSM4591335", "GSM4591335: HPL2; Danio rerio; RNA Seq", "GSM4591335", null, "1", "Truseq stranded mRNA library prep illumina  #20020594", "GEO Accession:GSM4591335", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 3000", null, "SRP265974", null, null, "Fsample_11.fastq.gz Fsample_11_R2.fastq.gz", "fastq fastq", 3276290400.0, 16381452.0, "GSM4591335 r1", "0:100 1:100", "A:909076954;C:730010076;G:728583319;T:904911154;N:3708897", 100, 100, null, null, 909076954, 730010076, 728583319, 904911154, 3708897, "SRX8472300", "SRS6772901", "SRA1083220", "GEO", "Center for Medical Genetics, Ghent University", 2, 0.93409, 0.92023, 0.18134, 0.18141, 0.78108, 0.78981, 0.53659, 0.52431, 100, 100, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "unknown", "cdna_unspecified", "trueseq", "bulk", "unknown", "unknown", null, "Belgium", "2020-06-04", "Undetermined", "Undetermined", "Thymus", "Hematopoietic System"], [59551, "SRR11926653", "SRX8472299", "SRS6772900", "SRP265974", "PRJNA637328", "A novel TLX1 driven T ALL zebrafish model: comparative genomic analysis with other leukemia models", "GSE151816", "Transcriptome Analysis", "We generated a new rag2 TLX1 driven T ALL model in zebrafish. RNA sequencing was preformed on the developed TLX1 T ALLs sequencing performed in the Speleman lab. In addition  RNA sequencing was performed on various additional zebrafish T ALL models shrek  hulk  otg  hMYC  sequenced in the Frazer lab to look at the molecular differences between the various existing T ALL models. Overall design: RNA sequencing data from TLX1  shrek  hulk  otg T ALL samples  wild type thymocytes sequenced in the Speleman lab  wild type thymocytes sequenced in the Frazer lab. Shrek  otg  hulk  hMYC preleukemic thymocytes", null, "pubmed:32591643", null, "HPL1", "GSM4591334", null, "tissue:hulk mutant preleukemic thymocytes|cell type:thymocytes|genotype:hulk;Tglck:GFP|tumor stg:preleukemic|lab of sample collection and sequencing:Frazer lab", "HPL1", "First read of Fastq files were aligned to GRCz10 using STARv2.4.2a with esembl GRCz10.91.gtf as guide Counts to GRCz10.91.gtf were generated on the fly by STAR Genome build: GRCz10 Supplementary files format and content: txt file with raw counts", "hulk mutant preleukemic thymocytes", null, "Truseq stranded mRNA library prep illumina  #20020594", null, "cell type:thymocytes|genotype:hulk;Tglck:GFP|tumor stg:preleukemic|lab of sample collection and sequencing:Frazer lab", "GSM4591334", "GSM4591334: HPL1; Danio rerio; RNA Seq", "GSM4591334", null, "1", "Truseq stranded mRNA library prep illumina  #20020594", "GEO Accession:GSM4591334", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina HiSeq 3000", null, "SRP265974", null, null, "Fsample_10.fastq.gz Fsample_10_R2.fastq.gz", "fastq fastq", 3700727800.0, 18503639.0, "GSM4591334 r1", "0:100 1:100", "A:1028412839;C:821049620;G:815741395;T:1031399520;N:4124426", 100, 100, null, null, 1028412839, 821049620, 815741395, 1031399520, 4124426, "SRX8472299", "SRS6772900", "SRA1083220", "GEO", "Center for Medical Genetics, Ghent University", 2, 0.93381, 0.92058, 0.22321, 0.22223, 0.73655, 0.74732, 0.4822, 0.48829, 100, 100, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "unknown", "cdna_unspecified", "trueseq", "bulk", "unknown", "unknown", null, "Belgium", "2020-06-04", "Undetermined", "Undetermined", "Thymus", "Hematopoietic System"], [59579, "SRR11926625", "SRX8472271", "SRS6772872", "SRP265974", "PRJNA637328", "A novel TLX1 driven T ALL zebrafish model: comparative genomic analysis with other leukemia models", "GSE151816", "Transcriptome Analysis", "We generated a new rag2 TLX1 driven T ALL model in zebrafish. RNA sequencing was preformed on the developed TLX1 T ALLs sequencing performed in the Speleman lab. In addition  RNA sequencing was performed on various additional zebrafish T ALL models shrek  hulk  otg  hMYC  sequenced in the Frazer lab to look at the molecular differences between the various existing T ALL models. Overall design: RNA sequencing data from TLX1  shrek  hulk  otg T ALL samples  wild type thymocytes sequenced in the Speleman lab  wild type thymocytes sequenced in the Frazer lab. 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RNA sequencing was preformed on the developed TLX1 T ALLs sequencing performed in the Speleman lab. In addition  RNA sequencing was performed on various additional zebrafish T ALL models shrek  hulk  otg  hMYC  sequenced in the Frazer lab to look at the molecular differences between the various existing T ALL models. Overall design: RNA sequencing data from TLX1  shrek  hulk  otg T ALL samples  wild type thymocytes sequenced in the Speleman lab  wild type thymocytes sequenced in the Frazer lab. 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RNA sequencing was preformed on the developed TLX1 T ALLs sequencing performed in the Speleman lab. In addition  RNA sequencing was performed on various additional zebrafish T ALL models shrek  hulk  otg  hMYC  sequenced in the Frazer lab to look at the molecular differences between the various existing T ALL models. Overall design: RNA sequencing data from TLX1  shrek  hulk  otg T ALL samples  wild type thymocytes sequenced in the Speleman lab  wild type thymocytes sequenced in the Frazer lab. Shrek  otg  hulk  hMYC preleukemic thymocytes", null, "pubmed:32591643", null, "AB thymus 7", "GSM4591304", null, "tissue:Healthy dissected thymus|cell type:thymocytes|genotype:Tgrag2:GFP|tumor stg:healthy|lab of sample collection and sequencing:Speleman lab", "AB thymus 7", "First read of Fastq files were aligned to GRCz10 using STARv2.4.2a with esembl GRCz10.91.gtf as guide Counts to GRCz10.91.gtf were generated on the fly by STAR Genome build: GRCz10 Supplementary files format and content: txt file with raw counts", "Healthy dissected  thymus", null, "Truseq stranded mRNA library prep illumina  #20020594", null, "cell type:thymocytes|genotype:Tgrag2:GFP|tumor stg:healthy|lab of sample collection and sequencing:Speleman lab", "GSM4591304", "GSM4591304: AB thymus 7; Danio rerio; RNA Seq", "GSM4591304", null, "1", "Truseq stranded mRNA library prep illumina  #20020594", "GEO Accession:GSM4591304", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "SINGLE", "ILLUMINA", "NextSeq 500", null, "SRP265974", null, null, "sample_4.fastq.gz", "fastq", 2889915115.0, 38259114.0, "GSM4591304 r1", "0:75.54 1:0", "A:694082728;C:713330573;G:669832103;T:812454853;N:214858", 75, 0, null, null, 694082728, 713330573, 669832103, 812454853, 214858, "SRX8472269", "SRS6772870", "SRA1083220", "GEO", "Center for Medical Genetics, Ghent University", 1, 0.94794, null, 0.06446, null, 0.72697, null, 0.49962, null, 75, null, "B", null, "usable mapping rate", "illumina", "nextseq", "unknown", "cdna_unspecified", "trueseq", "bulk", "unknown", "unknown", null, "Belgium", "2020-06-04", "Undetermined", "Undetermined", "Thymus", "Hematopoietic System"], [59582, "SRR11926622", "SRX8472268", "SRS6772869", "SRP265974", "PRJNA637328", "A novel TLX1 driven T ALL zebrafish model: comparative genomic analysis with other leukemia models", "GSE151816", "Transcriptome Analysis", "We generated a new rag2 TLX1 driven T ALL model in zebrafish. RNA sequencing was preformed on the developed TLX1 T ALLs sequencing performed in the Speleman lab. In addition  RNA sequencing was performed on various additional zebrafish T ALL models shrek  hulk  otg  hMYC  sequenced in the Frazer lab to look at the molecular differences between the various existing T ALL models. Overall design: RNA sequencing data from TLX1  shrek  hulk  otg T ALL samples  wild type thymocytes sequenced in the Speleman lab  wild type thymocytes sequenced in the Frazer lab. Shrek  otg  hulk  hMYC preleukemic thymocytes", null, "pubmed:32591643", null, "AB thymus 2 3 5 6", "GSM4591303", null, "tissue:Healthy dissected thymus|cell type:thymocytes|genotype:Tgrag2:GFP|tumor stg:healthy|lab of sample collection and sequencing:Speleman lab", "AB thymus 2 3 5 6", "First read of Fastq files were aligned to GRCz10 using STARv2.4.2a with esembl GRCz10.91.gtf as guide Counts to GRCz10.91.gtf were generated on the fly by STAR Genome build: GRCz10 Supplementary files format and content: txt file with raw counts", "Healthy dissected  thymus", null, "Truseq stranded mRNA library prep illumina  #20020594", null, "cell type:thymocytes|genotype:Tgrag2:GFP|tumor stg:healthy|lab of sample collection and sequencing:Speleman lab", "GSM4591303", "GSM4591303: AB thymus 2 3 5 6; Danio rerio; RNA Seq", "GSM4591303", null, "1", "Truseq stranded mRNA library prep illumina  #20020594", "GEO Accession:GSM4591303", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "SINGLE", "ILLUMINA", "NextSeq 500", null, "SRP265974", null, null, "sample_3.fastq.gz", "fastq", 2338535479.0, 30955998.0, "GSM4591303 r1", "0:75.54 1:0", "A:540165709;C:595429439;G:553807340;T:648952381;N:180610", 75, 0, null, null, 540165709, 595429439, 553807340, 648952381, 180610, "SRX8472268", "SRS6772869", "SRA1083220", "GEO", "Center for Medical Genetics, Ghent University", 1, 0.94992, null, 0.04962, null, 0.73032, null, 0.4837, null, 76, null, "B", null, "usable mapping rate", "illumina", "nextseq", "unknown", "cdna_unspecified", "trueseq", "bulk", "unknown", "unknown", null, "Belgium", "2020-06-04", "Undetermined", "Undetermined", "Thymus", "Hematopoietic System"], [59583, "SRR11926621", "SRX8472267", "SRS6772868", "SRP265974", "PRJNA637328", "A novel TLX1 driven T ALL zebrafish model: comparative genomic analysis with other leukemia models", "GSE151816", "Transcriptome Analysis", "We generated a new rag2 TLX1 driven T ALL model in zebrafish. RNA sequencing was preformed on the developed TLX1 T ALLs sequencing performed in the Speleman lab. In addition  RNA sequencing was performed on various additional zebrafish T ALL models shrek  hulk  otg  hMYC  sequenced in the Frazer lab to look at the molecular differences between the various existing T ALL models. Overall design: RNA sequencing data from TLX1  shrek  hulk  otg T ALL samples  wild type thymocytes sequenced in the Speleman lab  wild type thymocytes sequenced in the Frazer lab. Shrek  otg  hulk  hMYC preleukemic thymocytes", null, "pubmed:32591643", null, "AB thymus 11", "GSM4591302", null, "tissue:Healthy dissected thymus|cell type:thymocytes|genotype:Tgrag2:GFP|tumor stg:healthy|lab of sample collection and sequencing:Speleman lab", "AB thymus 11", "First read of Fastq files were aligned to GRCz10 using STARv2.4.2a with esembl GRCz10.91.gtf as guide Counts to GRCz10.91.gtf were generated on the fly by STAR Genome build: GRCz10 Supplementary files format and content: txt file with raw counts", "Healthy dissected  thymus", null, "Truseq stranded mRNA library prep illumina  #20020594", null, "cell type:thymocytes|genotype:Tgrag2:GFP|tumor stg:healthy|lab of sample collection and sequencing:Speleman lab", "GSM4591302", "GSM4591302: AB thymus 11; Danio rerio; RNA Seq", "GSM4591302", null, "1", "Truseq stranded mRNA library prep illumina  #20020594", "GEO Accession:GSM4591302", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "SINGLE", "ILLUMINA", "NextSeq 500", null, "SRP265974", null, null, "sample_2.fastq.gz", "fastq", 2942053849.0, 38949737.0, "GSM4591302 r1", "0:75.53 1:0", "A:688398915;C:734856328;G:694653408;T:823920342;N:224856", 75, 0, null, null, 688398915, 734856328, 694653408, 823920342, 224856, "SRX8472267", "SRS6772868", "SRA1083220", "GEO", "Center for Medical Genetics, Ghent University", 1, 0.94862, null, 0.06975, null, 0.72224, null, 0.49305, null, 76, null, "B", null, "usable mapping rate", "illumina", "nextseq", "unknown", "cdna_unspecified", "trueseq", "bulk", "unknown", "unknown", null, "Belgium", "2020-06-04", "Undetermined", "Undetermined", "Thymus", "Hematopoietic System"], [59584, "SRR11926620", "SRX8472266", "SRS6772867", "SRP265974", "PRJNA637328", "A novel TLX1 driven T ALL zebrafish model: comparative genomic analysis with other leukemia models", "GSE151816", "Transcriptome Analysis", "We generated a new rag2 TLX1 driven T ALL model in zebrafish. RNA sequencing was preformed on the developed TLX1 T ALLs sequencing performed in the Speleman lab. In addition  RNA sequencing was performed on various additional zebrafish T ALL models shrek  hulk  otg  hMYC  sequenced in the Frazer lab to look at the molecular differences between the various existing T ALL models. Overall design: RNA sequencing data from TLX1  shrek  hulk  otg T ALL samples  wild type thymocytes sequenced in the Speleman lab  wild type thymocytes sequenced in the Frazer lab. Shrek  otg  hulk  hMYC preleukemic thymocytes", null, "pubmed:32591643", null, "AB thymus 10", "GSM4591301", null, "tissue:Healthy dissected thymus|cell type:thymocytes|genotype:Tgrag2:GFP|tumor stg:healthy|lab of sample collection and sequencing:Speleman lab", "AB thymus 10", "First read of Fastq files were aligned to GRCz10 using STARv2.4.2a with esembl GRCz10.91.gtf as guide Counts to GRCz10.91.gtf were generated on the fly by STAR Genome build: GRCz10 Supplementary files format and content: txt file with raw counts", "Healthy dissected  thymus", null, "Truseq stranded mRNA library prep illumina  #20020594", null, "cell type:thymocytes|genotype:Tgrag2:GFP|tumor stg:healthy|lab of sample collection and sequencing:Speleman lab", "GSM4591301", "GSM4591301: AB thymus 10; Danio rerio; RNA Seq", "GSM4591301", null, "1", "Truseq stranded mRNA library prep illumina  #20020594", "GEO Accession:GSM4591301", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "SINGLE", "ILLUMINA", "NextSeq 500", null, "SRP265974", null, null, "sample_1.fastq.gz", "fastq", 2923525817.0, 38707354.0, "GSM4591301 r1", "0:75.53 1:0", "A:697204107;C:721945575;G:689048693;T:815100976;N:226466", 75, 0, null, null, 697204107, 721945575, 689048693, 815100976, 226466, "SRX8472266", "SRS6772867", "SRA1083220", "GEO", "Center for Medical Genetics, Ghent University", 1, 0.94964, null, 0.05377, null, 0.71904, null, 0.4902, null, 76, null, "B", null, "usable mapping rate", "illumina", "nextseq", "unknown", "cdna_unspecified", "trueseq", "bulk", "unknown", "unknown", null, "Belgium", "2020-06-04", "Undetermined", "Undetermined", "Thymus", "Hematopoietic System"]], "truncated": false, "filtered_table_rows_count": 23, "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], 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