run_metadata: 59532
This data as json
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| 59532 | SRR11926672 | SRX8472318 | SRS6772919 | 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 | pubmed:32591643 | OPL4 | GSM4591353 | 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 | Truseq stranded mRNA library prep illumina #20020594 | 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 | 1 | Truseq stranded mRNA library prep illumina #20020594 | GEO Accession:GSM4591353 | RNA-Seq | TRANSCRIPTOMIC | cDNA | PAIRED | ILLUMINA | Illumina HiSeq 3000 | SRP265974 | 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 | 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 | Belgium | 2020-06-04 | Undetermined | Undetermined | Thymus | Hematopoietic System |