|
| Status |
Public on Nov 28, 2024 |
| Title |
AKK treatment, biological replicate 1 |
| Sample type |
SRA |
| |
|
| Source name |
tumor
|
| Organism |
Mus musculus |
| Characteristics |
tissue: tumor
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was harvested from liver tumors by using the RNease Plus Mini Kit (QIAGEN).
The qualified RNA was subjected to Illumina NovaSeq 6000 sequencer, indexed library construction, Illumina sequencing run (pair-end sequencing of 151bp)
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Data processing |
For each sample, there is an average throughout of 24.2Gb and a total throughput of 96.9Gb. An average of 94% of the bases achieved a quality score of Q30 where Q30 denotes the accuracy of a base call to be 99.9%. STAR 2.5.2, RSEM 1.2.31 and EBSeq 1.18.0 were used to proceed alignment, expression estimation and tests for differential expression.
|
| |
|
| Submission date |
Sep 06, 2023 |
| Last update date |
Nov 28, 2024 |
| Contact name |
Karl Kam Hei So |
| E-mail(s) |
[email protected]
|
| Phone |
39430416
|
| Organization name |
The Chinese University of Hong Kong
|
| Department |
School of Biomedical Sciences
|
| Street address |
608A, Lo Kwee-Seong Integrated Biomedical Sciences Building, The Chinese University of Hong Kong
|
| City |
Shatin |
| State/province |
New Territories |
| ZIP/Postal code |
00000 |
| Country |
Hong Kong |
| |
|
| Platform ID |
GPL24247 |
| Series (1) |
| GSE242470 |
Intestinal Akkermansia muciniphila complements the therapeutic efficacy of PD1 therapy by reshaping the immunosuppressive microenvironment in nonalcoholic fatty liver disease (NAFLD)-induced hepatocellular carcinoma |
|
| Relations |
| BioSample |
SAMN37303834 |
| SRA |
SRX21649667 |
