|
| Status |
Public on Dec 01, 2020 |
| Title |
Colonic Epithelial Cells, WT rep1 |
| Sample type |
SRA |
| |
|
| Source name |
Colonic Epithelial Cells, WT
|
| Organism |
Mus musculus |
| Characteristics |
tissue: Colon
cell type: Colonic Epithelial Cells
age: 4 weeks
genotype: wild type
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Colons were removed from mice and flushed with cold PBS. Colons were treated with 10 ml of CEC buffer to release CECs. RNA was extracted using the Roche High Pure RNA isolation kit (Roche Molecular Systems, Inc.) according to the manufacturer protocol.
RNA libraries were prepared for sequencing using standard Illumina protocols
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NextSeq 500 |
| |
|
| Description |
632wt
|
| Data processing |
The quantification of the gene transcripts was performed using the Kallisto program, which is based on pseudo-alignment principle, with default settings.
GRCm38 Refseq was used to annotate the transcripts.
Genome_build: mm10
Supplementary_files_format_and_content: A tab-delimited text file include raw transcript counts for each Sample.
|
| |
|
| Submission date |
May 01, 2020 |
| Last update date |
Dec 01, 2020 |
| Contact name |
Quentin Da Costa |
| Organization name |
Institut Paoli-Calmettes
|
| Street address |
232 boulevard de Sainte Marguerite
|
| City |
Marseille |
| ZIP/Postal code |
13009 |
| Country |
France |
| |
|
| Platform ID |
GPL19057 |
| Series (1) |
| GSE149716 |
Loss of cyclin A2 in murine colonic epithelial cells disrupts colon homeostasis by triggering DNA damage and dysplasia and high cyclin A2 expression is a good-prognosis factor in patients with colorectal cancer |
|
| Relations |
| BioSample |
SAMN14791399 |
| SRA |
SRX8241393 |
