|
| Status |
Public on Jan 27, 2022 |
| Title |
miR215_small |
| Sample type |
SRA |
| |
|
| Source name |
miR-215-/- small intestinal epithelial cells
|
| Organism |
Mus musculus |
| Characteristics |
genotype: miR-215-/-
cell type: small intestinal epithelia
|
| Extracted molecule |
total RNA |
| Extraction protocol |
The total RNAs were extracted from these cells using RNeasy Mini Kit (Qiagen)
Library preparation was performed using a TruSeq stranded mRNA sample prep kit (Illumina, San Diego, CA) according to the manufacturer’s instructions.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2500 |
| |
|
| Description |
miR-215−/− small intestinal epithelial cells
|
| Data processing |
Sequencing was performed on an Illumina HiSeq 2500 platform in a 75-base single-end mode.
Illumina Casava1.8.2 software used for basecalling.
Sequenced reads were mapped to the mouse reference genome sequences (mm10) using TopHat v2.0.13 in combination with Bowtie2 ver. 2.2.3 and SAMtools ver. 0.1.19.
The fragments per kilobase of exon per million mapped fragments (FPKMs) was calculated using Cuffnorm version 2.2.1.
Genome_build: mm10
Supplementary_files_format_and_content: FPKM
|
| |
|
| Submission date |
Oct 27, 2021 |
| Last update date |
Jan 27, 2022 |
| Contact name |
Daisuke Okuzaki |
| E-mail(s) |
dokuzaki@biken.osaka-u.ac.jp
|
| Phone |
+81-6-6879-4935
|
| Organization name |
Osaka univ.
|
| Department |
Immunology Frontier Research Center
|
| Lab |
Human Immunology （Single Cell Genomics)
|
| Street address |
Yamadaoka 3-1
|
| City |
Suita |
| State/province |
Osaka |
| ZIP/Postal code |
565-0871 |
| Country |
Japan |
| |
|
| Platform ID |
GPL17021 |
| Series (1) |
| GSE186708 |
Epithelial miR-215 negatively modulates Th17-dominant inflammation by inhibiting CXCL12 production in the small intestine |
|
| Relations |
| BioSample |
SAMN22604523 |
| SRA |
SRX12799271 |
