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Sample GSM7441408 Query DataSets for GSM7441408
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

Supplementary data files not provided
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record

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