run_metadata: 59516
This data as json
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| 59516 | SRR11926688 | SRX8472334 | SRS6772935 | 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 | WT4 | GSM4591369 | tissue:Healthy sorted thymus|cell type:thymocytes|genotype:Tglck:GFP|tumor stg:healthy|lab of sample collection and sequencing:Frazer lab | WT4 | 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 sorted thymus | Truseq stranded mRNA library prep illumina #20020594 | cell type:thymocytes|genotype:Tglck:GFP|tumor stg:healthy|lab of sample collection and sequencing:Frazer lab | GSM4591369 | GSM4591369: WT4; Danio rerio; RNA Seq | GSM4591369 | 1 | Truseq stranded mRNA library prep illumina #20020594 | GEO Accession:GSM4591369 | RNA-Seq | TRANSCRIPTOMIC | cDNA | PAIRED | ILLUMINA | Illumina HiSeq 3000 | SRP265974 | FWTsample_4.fastq.gz FWTsample_4_R2.fastq.gz | fastq fastq | 4113149600.0 | 20565748.0 | GSM4591369 r1 | 0:100 1:100 | A:1084628064;C:963840734;G:985823964;T:1078691018;N:165820 | 100 | 100 | 1084628064 | 963840734 | 985823964 | 1078691018 | 165820 | SRX8472334 | SRS6772935 | SRA1083220 | GEO | Center for Medical Genetics, Ghent University | 2 | 0.9336 | 0.93539 | 0.11919 | 0.11989 | 0.76368 | 0.76757 | 0.4904 | 0.47498 | 100 | 100 | B | B | biological fallback assumption | illumina | hiseq_era | unknown | cdna_unspecified | trueseq | bulk | unknown | unknown | Belgium | 2020-06-04 | Undetermined | Undetermined | Thymus | Hematopoietic System |