|
| Status |
Public on Jun 18, 2020 |
| Title |
4T1_tumour_RNAseq_aza_IgG_r4 |
| Sample type |
SRA |
| |
|
| Source name |
Breast tumour
|
| Organism |
Mus musculus |
| Characteristics |
tissue: breast
treatment: aza 0.8mg/kg BW, IgG 40mg/kg BW
growth protocol: cultured at 37°C in Dulbecco’s modified Eagle medium (DMEM) with 10% fetal bovine serum (FBS), 5ml of 100 U/ml Penicillin-Streptomycin (Pen Strep, Life Technologies) and 5ml of L-Glutamine 200mM.
|
| Extracted molecule |
polyA RNA |
| Extraction protocol |
PolyA mRNA capture by using KAPA Stranded mRNA-Seq Kit (Illumina)
Strand specific library preparation
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 4000 |
| |
|
| Description |
4T1 tumour aza 0.8mg/kg BW IgG 40mg/kg BW
|
| Data processing |
FastQ files were mapped to the reference genome (human:build GRCh37/hg19; mouse:mm10) using tophat (version 2.0.10).
Counts were called byHTSeq (version 0.5.3p3)
Genome_build: hg19; mm10
Supplementary_files_format_and_content: Raw read files contain raw read counts for each sample
|
| |
|
| Submission date |
Sep 12, 2018 |
| Last update date |
Jun 19, 2020 |
| Contact name |
Jieyi Xiong |
| Organization name |
VIB-KULeuven Center for Cancer Biology
|
| Street address |
Herestraat 49, box 912
|
| City |
Leuven |
| ZIP/Postal code |
3000 |
| Country |
Belgium |
| |
|
| Platform ID |
GPL21103 |
| Series (2) |
| GSE85353 |
DNA methylation repels binding of hypoxia-inducible transcription factors to maintain tumour immunotolerance [RNA] |
| GSE85356 |
DNA methylation repels binding of hypoxia-inducible transcription factors to maintain tumour immunotolerance |
|
| Relations |
| BioSample |
SAMN10038334 |
| SRA |
SRX4673565 |
