|
| Status |
Public on Oct 26, 2022 |
| Title |
KO donor-2 |
| Sample type |
SRA |
| |
|
| Source name |
ileocecal contents
|
| Organism |
Bacteria |
| Characteristics |
tissue: ileocecal contents
cell type: bacteria
cell type: C57BL/6
genotype: spp1-/-
treatment: high fat diet
molecule type: rDNA
|
| Extracted molecule |
other |
| Extraction protocol |
Total genome DNA from murine luminal samples from ileocecus was extracted for amplification
Sequencing libraries were prepared and the library quality was evaluated
DNA V3-V4 region or genome
|
| |
|
| Library strategy |
OTHER |
| Library source |
other |
| Library selection |
other |
| Instrument model |
Illumina HiSeq 2500 |
| |
|
| Description |
otu-FMT.xls
reletive abundance of OTUs
|
| Data processing |
library strategy: 16S rDNA seq
Sequencing libraries were prepared and the library quality was evaluated
the library was sequenced and the paired-end reads were generated
The gene sequence data were processed with default parameters
Sequences with ≥97% similarity were assigned to the same operational taxonomic units
The representative sequence for each OTU was screened for further annotation. The output data was further analyzed using Statistical Analysis
Assembly: Not applicatable
Supplementary files format and content: Matrix table with relative abundance for every gene and every sample
Supplementary files format and content: RELATIVE-genome.xls: reletive abundance in kingdom, class, family, genus and species
Supplementary files format and content: otu-FMT.xls: reletive abundance of OTUs
Supplementary files format and content: otu_table.relative for in vivo.xls: reletive abundance of OTUs
Supplementary files format and content: otu_table.relative. in vitro.xls: reletive abundance of OTUs
Supplementary files format and content: otu_table.relative for antibody.xls: reletive abundance of OTUs
Supplementary files format and content: gene.description-TRANS.xls: gene information of transcriptome
|
| |
|
| Submission date |
Oct 23, 2022 |
| Last update date |
Oct 26, 2022 |
| Contact name |
Jianing Chen |
| E-mail(s) |
chenjn@zju.edu.cn
|
| Phone |
+8615858283330
|
| Organization name |
Zhejiang university
|
| Street address |
Qingchun Road 79#
|
| City |
Hangzhou |
| ZIP/Postal code |
310003 |
| Country |
China |
| |
|
| Platform ID |
GPL32770 |
| Series (1) |
| GSE216386 |
Osteopontin Exacerbates High-Fat Diet-induced Metabolic Disorders in a microbiome-dependent Manner |
|
| Relations |
| BioSample |
SAMN31421291 |
| SRA |
SRX17999165 |
