|
| Status |
Public on Sep 25, 2020 |
| Title |
SPL002 |
| Sample type |
SRA |
| |
|
| Source name |
shrek preleukemic thymocytes
|
| Organism |
Danio rerio |
| Characteristics |
cell type: thymocytes
genotype: shrek;Tg(lck:GFP)
tumor stage: preleukemic
lab of sample collection and sequencing: Frazer lab
|
| Extracted molecule |
polyA RNA |
| Extraction protocol |
Truseq stranded mRNA library prep (illumina, #20020594)
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 3000 |
| |
|
| Description |
RNA isolated from sorted GFP positive thymocytes from preleukemic Tg(lck:GFP);shrek mutant fish.
rawCountMatrix_Frazier.txt.gz
Fsample_48
|
| Data processing |
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
|
| |
|
| Submission date |
Jun 04, 2020 |
| Last update date |
Sep 25, 2020 |
| Contact name |
Siebe Loontiens |
| E-mail(s) |
siebe.loontiens@ugent.be
|
| Organization name |
Ghent University
|
| Department |
Center for Medical Genetics
|
| Street address |
Corneel Heymanslaan 10
|
| City |
Gent |
| ZIP/Postal code |
9000 |
| Country |
Belgium |
| |
|
| Platform ID |
GPL23274 |
| Series (1) |
| GSE151816 |
A novel TLX1 driven T-ALL zebrafish model: comparative genomic analysis with other leukemia models |
|
| Relations |
| BioSample |
SAMN15102187 |
| SRA |
SRX8472330 |
