|
Status |
Public on Sep 30, 2020 |
Title |
CCS_3 |
Sample type |
SRA |
|
|
Source name |
tumor
|
Organism |
Mus musculus |
Characteristics |
genotype: HprtCre; Ewsr1-loxP; Atf1-loxP
|
Treatment protocol |
no pharmacological treatments
|
Growth protocol |
genetically induced tumor
|
Extracted molecule |
total RNA |
Extraction protocol |
harvested and snap frozen at primary tumor morbidity Illumina RiboZero RNA-Seq(ribosomal RNA depletion)
|
|
|
Library strategy |
RNA-Seq |
Library source |
transcriptomic |
Library selection |
cDNA |
Instrument model |
Illumina HiSeq 2000 |
|
|
Description |
13966X44(column header in raw counts file)
|
Data processing |
RTA v1.18.61 used for basecalling. Trim adapters with cutadapt, Align to mm10 with STAR -2.7.5a Generate count matrices with featureCounts and RSEM Genome_build: mm10 Supplementary_files_format_and_content: txt, raw counts
|
|
|
Submission date |
Sep 29, 2020 |
Last update date |
Sep 30, 2020 |
Contact name |
Jinxiu Li |
Organization name |
China Agricutural University
|
Department |
College of biological sciences
|
Lab |
State key laboratories of Agrobiotechnology
|
Street address |
Yuanmingyuan west road 2#
|
City |
Beijing |
State/province |
Beijing |
ZIP/Postal code |
100193 |
Country |
China |
|
|
Platform ID |
GPL13112 |
Series (2) |
GSE158720 |
RNAseq from mouse Cre-loxP-induced Ewsr1-Atf1 translocation |
GSE158726 |
Cre-loxP-induced Ewsr1-Atf1 translocation tumors |
|
Relations |
BioSample |
SAMN16288615 |
SRA |
SRX9212173 |