|
| Status |
Public on Nov 28, 2024 |
| Title |
mouse 2-8th week after HFD diet |
| Sample type |
SRA |
| |
|
| Source name |
stool
|
| Organism |
Mus musculus |
| Characteristics |
tissue: stool
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Mouse feces were collected at different time points during the entire experiment and stored at -80 °C before extraction. Stool genomic DNA was extracted using the QIAamp PowerFecal DNA Kit (QIAGEN) and analyzed by bacterial tag-encoded 16S rDNA amplicon pyrosequencing (Beijing Genomics Institute, Shenzhen, China) according to standard protocols.
The qualified raw sequences were sent to paired-end reads merging to tags using Fast Length Adjustment of Short reads, v1.2.11 (FLASH). The tags were clustered to OTUs at 97% sequence similarity using USEARCH (v7.0.1090) and UPARSE.
|
| |
|
| Library strategy |
OTHER |
| Library source |
genomic |
| Library selection |
other |
| Instrument model |
Illumina HiSeq 4000 |
| |
|
| Description |
WT4.2
|
| Data processing |
Taxonomic classification was assigned to OTU representative sequences using the Ribosomal Database Project's Naïve Bayesian Classifier v2.2 (RDP-NBC).
|
| |
|
| 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 |
GPL21103 |
| 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 |
SAMN37304271 |
| SRA |
SRX21649841 |
