|
| Status |
Public on Nov 26, 2024 |
| Title |
Tumor_only, Cell_line_A, timepoint_2, EXP_9.8, rep_2 |
| Sample type |
SRA |
| |
|
| Source name |
A
|
| Organism |
Mus musculus |
| Characteristics |
cell line: A
time: Day 14
time point: timepoint_2
genome assembly_used: GRCm38
treatment: Tumor_only
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Extraction was done with the AllPrep DNA/RNA Mini Kit (Qiagen) and samples were treated with DNase I (Thermo Fisher Scientific) or the Monarch Total RNA Miniprep Kit (New England Biolabs)
QuantSeq 3‘ mRNA-Seq Library Prep Kit (FWD) for Illumina (Lexogen)
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Data processing |
Reads were mapped to a genome assembly using STAR (v2.7.10a).
Reads counting was performed with the help of Salmon (v1.8.0) or GenomicAlignments (v1.36.0)
Assembly: GRCm38/GRCh38
Supplementary files format and content: quant.sf files contain counted reads
Supplementary files format and content: tsv files contain counted reads performed by GenomicAlignments package
|
| |
|
| Submission date |
Sep 25, 2024 |
| Last update date |
Nov 26, 2024 |
| Contact name |
Aleksandr Bykov |
| E-mail(s) |
[email protected]
|
| Organization name |
CCRI
|
| Department |
BiCU
|
| Street address |
Zimmermannpl. 10
|
| City |
Vienna |
| ZIP/Postal code |
1090 |
| Country |
Austria |
| |
|
| Platform ID |
GPL24247 |
| Series (1) |
| GSE278006 |
NK cell cytotoxicity shapes the clonal evolution of B cell leukemia [RNA-seq] |
|
| Relations |
| BioSample |
SAMN43921649 |
| SRA |
SRX26196372 |
