|
| Status |
Public on Nov 08, 2023 |
| Title |
HCT116 Cell line untreated-replicate 1 |
| Sample type |
SRA |
| |
|
| Source name |
HCT116 cells
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: HCT116
cell type: human colorectal cancer cells
passage: 16-19
|
| Treatment protocol |
HCT116 Cells were co-cultured with ETBF for 6h. Multiplicity of infection (MOI) was 500. The normal control samples were treated with the bacteria medium without ETBF.
|
| Growth protocol |
HCT116 cells were routinely cultured adherently in the six hole plate in the concertration of 5*10e7 per hole with 1640 medium
|
| Extracted molecule |
total RNA |
| Extraction protocol |
miRNA libraries were prepared for sequencing using standard Illumina protocols
|
| |
|
| Library strategy |
miRNA-Seq |
| Library source |
transcriptomic |
| Library selection |
size fractionation |
| Instrument model |
Illumina HiSeq 3000 |
| |
|
| Data processing |
single-end reads were filtered and trimmed using software Trimmomatic
Quality control before and after raw reads preprocessing was done using software FastQC
Count files of the aligned sequencing reads were generated by the featurecount, using the GFF annotation file from miRBase-v20
Genome_build: GRCh37.p5
Supplementary_files_format_and_content: Tab-separated matrices with read counts,
|
| |
|
| Submission date |
Nov 08, 2020 |
| Last update date |
Nov 08, 2023 |
| Contact name |
Haoyan Chen |
| Organization name |
Renji Hospital
|
| Street address |
145 Shandong Road
|
| City |
Shanghai |
| State/province |
Shanghai |
| ZIP/Postal code |
200001 |
| Country |
China |
| |
|
| Platform ID |
GPL21290 |
| Series (2) |
| GSE161047 |
The Enterotoxigenic Bacteroides fragilis (ETBF) in intestinal inflammation and colorectal carcinogenesis [whole cell RNA] |
| GSE161049 |
The Enterotoxigenic Bacteroides fragilis (ETBF) in intestinal inflammation and colorectal carcinogenesis |
|
| Relations |
| BioSample |
SAMN16705014 |
| SRA |
SRX9457001 |
