|
Status |
Public on Feb 24, 2020 |
Title |
Sox9eGFP Low Female HFD Rep #3 |
Sample type |
SRA |
|
|
Source name |
Intestine
|
Organism |
Mus musculus |
Characteristics |
tissue: small intestine strain: C57BL/6J gender: female diet: HFD
|
Extracted molecule |
total RNA |
Extraction protocol |
Libraries were prepared according to the TriLink CleanTag Small RNA Library Preparation Kit protocol
|
|
|
Library strategy |
miRNA-Seq |
Library source |
transcriptomic |
Library selection |
size fractionation |
Instrument model |
Illumina HiSeq 2500 |
|
|
Description |
Sox9-EGFP Low sorted intestine crypt cells from high fat diet sample Sox9_HFD_RPMMM_mirs_over_50.csv BC242_chow_Low_AGTCAA_L002_R1
|
Data processing |
Small RNA-seq samples were processed using miRquant2.0 (https://github.com/Sethupathy-Lab/miRquant) using default settings RNA-seq samples were aligned using STAR, quantified using Salmon, and normalized counts were determined using DESeq2 Genome_build: mm9 and dm3 for mouse and fruit fly small RNA-seq, mm10 for mouse RNA-seq Supplementary_files_format_and_content: RPMMM and normalized counts files are comma separated value matrices containing the Reads Per Million miRs Mapped (RPMMM) or DESeq2 normalized counts for each of the samples, respectively.
|
|
|
Submission date |
Aug 20, 2018 |
Last update date |
Feb 24, 2020 |
Contact name |
Praveen Sethupathy |
Organization name |
Cornell University
|
Lab |
Dr. Sethupathy Lab
|
Street address |
Cornell University College of Veterinary Medicine, Box 17
|
City |
Ithica |
State/province |
NY |
ZIP/Postal code |
14853 |
Country |
USA |
|
|
Platform ID |
GPL17021 |
Series (1) |
GSE118814 |
MicroRNA-7 regulates the plasticity of the enteroendocrine lineage |
|
Relations |
BioSample |
SAMN09866523 |
SRA |
SRX4580918 |