run_metadata: 59549
This data as json
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| 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 | pubmed:32591643 | HPL3 | GSM4591336 | 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 | Truseq stranded mRNA library prep illumina #20020594 | 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 | 1 | Truseq stranded mRNA library prep illumina #20020594 | GEO Accession:GSM4591336 | RNA-Seq | TRANSCRIPTOMIC | cDNA | PAIRED | ILLUMINA | Illumina HiSeq 3000 | SRP265974 | 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 | 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 | Belgium | 2020-06-04 | Undetermined | Undetermined | Thymus | Hematopoietic System |