|
Status |
Public on Mar 01, 2024 |
Title |
G0_1 |
Sample type |
SRA |
|
|
Source name |
75 G0 Apcmin
|
Organism |
Mus musculus |
Characteristics |
cell line: 75 G0 Apcmin cell type: mouse adenoma colonoid line genotype: Apcnull/LSL-mTERT-het
|
Extracted molecule |
total RNA |
Extraction protocol |
RNA was isolated using the RNeasy Kit (Qiagen) Libraries were generated using BGI services.
|
|
|
Library strategy |
RNA-Seq |
Library source |
transcriptomic |
Library selection |
cDNA |
Instrument model |
DNBSEQ-G400 |
|
|
Data processing |
The NextSeq RTA (version 2.4.11.0) was used for base calling bcl2fastq (version 2.20.0) was used to convert the .bcl files into .fastq files Fastq files were aligned to the mouse reference genome (mm10) using HISAT2 (version 2.1.0) and assembled using StringTie (version 2.1.1) R (version 3.5.2) and R package DESeq2 (version 1.32.0) was used for data normalization. Assembly: mm10 Supplementary files format and content: DESeq2 raw counts
|
|
|
Submission date |
Jun 02, 2023 |
Last update date |
Mar 01, 2024 |
Contact name |
Jiexi Li |
E-mail(s) |
JLi24@mdanderson.org
|
Organization name |
The University of Texas MD Anderson Cancer Center
|
Street address |
1881 East Road
|
City |
Houston |
State/province |
TX |
ZIP/Postal code |
77054 |
Country |
USA |
|
|
Platform ID |
GPL28457 |
Series (2) |
GSE234032 |
Telomeric Chromosomal Instability Fosters Paracrine Mediated Cell Competition to Initiate Intestinal Cancer [bulk RNA-seq] |
GSE234033 |
Telomeric Chromosomal Instability Fosters Paracrine Mediated Cell Competition to Initiate Intestinal Cancer |
|
Relations |
BioSample |
SAMN35571710 |
SRA |
SRX20579349 |