|
| Status |
Public on May 04, 2023 |
| Title |
CRC-MPS (Con-SWAT CM-3 Biol 3) |
| Sample type |
SRA |
| |
|
| Source name |
HT29
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: HT29
cell type: Colon Cancer line
treatment: 24 hr treatment with CM from Adipose tissue
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Zymogen, Dnase Treated
High Output Paired End Read
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
NextSeq 2000 |
| |
|
| Description |
HT29 (SWAT-Con-CM)-3
HT29_ASC-Con-CM_vs_HT29_SWAT-Con-CM.summary.genes p0.05.xlsx
|
| Data processing |
Paired-end reads were aligned to hg38 genome using STAR(v.2.6.1d). Abundance levels were calculated using Kallisto(v.0.46.0) and differential expression testing performed using DESeq2.
Assembly: human, hg38
Supplementary files format and content: Excel files with TPMs and results of differential expression testing from DESeq2
|
| |
|
| Submission date |
Mar 29, 2023 |
| Last update date |
May 04, 2023 |
| Contact name |
Suzana Savkovic |
| E-mail(s) |
[email protected]
|
| Phone |
7087900392
|
| Organization name |
Tulane University
|
| Department |
Pathology & Laboratory Medicine
|
| Street address |
1430 Tulane Ave
|
| City |
New Orleans |
| State/province |
LA |
| ZIP/Postal code |
70112 |
| Country |
USA |
| |
|
| Platform ID |
GPL30173 |
| Series (1) |
| GSE228532 |
Epiploic Adipose Tissue (EPAT) in Obese Individuals Promotes Colonic Tumorigenesis: A Novel Model for EPAT-Dependent Colorectal Cancer Progression |
|
| Relations |
| BioSample |
SAMN33977259 |
| SRA |
SRX19813679 |
