|
Status |
Public on Nov 18, 2020 |
Title |
bulk RNA-seq_WT DSS_D1 replicate 2 |
Sample type |
SRA |
|
|
Source name |
Colon
|
Organism |
Mus musculus |
Characteristics |
strain: C57BL/6 tissue: Colon age: 16 Week genotype: wild type treatment: DSS Sex: female
|
Extracted molecule |
total RNA |
Extraction protocol |
The frozen tissues were disaggregated using a motorized homogenizer followed by RNA extraction using the RNeasy Mini Kit (QIAGEN) RNA libraries were prepared for sequencing using TruSeq Stranded mRNA Library Prep Kit (Illumina)
|
|
|
Library strategy |
RNA-Seq |
Library source |
transcriptomic |
Library selection |
cDNA |
Instrument model |
Illumina NextSeq 500 |
|
|
Description |
MEKK2 KO RNASeq.xlsx
|
Data processing |
Illumina Bcl2fastq software used for basecalling. Sequenced reads were trimmed for adaptor sequence, and masked for low-complexity or low-quality sequence, then mapped to mm10 whole genome using bowtie2 HTSeq-count was used to enumerate transcripts associated with each gene Genome_build: mm10 Supplementary_files_format_and_content:tab-delimited text files include CPM values for each Sample
|
|
|
Submission date |
Nov 17, 2020 |
Last update date |
Nov 18, 2020 |
Contact name |
Hongxiang Sun |
E-mail(s) |
sun758426@sjtu.edu.cn
|
Organization name |
Shanghai Jiaotong University
|
Department |
Shanghai Institute of Immunology
|
Lab |
Bing Su
|
Street address |
280 South Chongqing Rd.
|
City |
Shanghai |
ZIP/Postal code |
200025 |
Country |
China |
|
|
Platform ID |
GPL19057 |
Series (1) |
GSE156245 |
Map3k2-regulated intestinal stromal cells define a distinct intestine stem cell niche for tissue repair |
|
Relations |
BioSample |
SAMN13547461 |
SRA |
SRX7352084 |