run_metadata: 59551
This data as json
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| 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 | pubmed:32591643 | HPL1 | GSM4591334 | 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 | 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 | GSM4591334 | GSM4591334: HPL1; Danio rerio; RNA Seq | GSM4591334 | 1 | Truseq stranded mRNA library prep illumina #20020594 | GEO Accession:GSM4591334 | RNA-Seq | TRANSCRIPTOMIC | cDNA | PAIRED | ILLUMINA | Illumina HiSeq 3000 | SRP265974 | 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 | 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 | Belgium | 2020-06-04 | Undetermined | Undetermined | Thymus | Hematopoietic System |