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Sample GSM3082783 Query DataSets for GSM3082783
Status Public on Apr 06, 2018
Title LFD BAT 1
Sample type SRA
Source name brown adipose tissue
Organism Mus musculus
Characteristics tissue: brown adipose tissue
strain: C57BL/6J
genotype: wild type
diet: standard rodent diet
Treatment protocol Diet
Extracted molecule total RNA
Extraction protocol RNA extraction using E.Z.N.A® Total RNA kit II (Omega Bio-tek)
Libraries were sequenced as single-end 75 bp on Illumina NextSeq500 sequencing system at Cofactor Genomics Inc (St. Louis, MO). Approximately 30 millions of reads were retrieved from each sample
Ribosomal RNA was removed by using TruSeq Standard Total RNA Library Prep Kit with Ribo-Zero Gold (Illumina)
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina NextSeq 500
Data processing Remove Truseq3-SE adapter sequence using Trimmomatic (version 0.36)
Single-end sequencing reads were aligned to the mouse genome (ENSEMBL 84 release, GRCm38.p4) using RSEM (version 1.3.0)
Differential gene expression analysis was performed by DESeq2 (version 1.10.1) using the estimated gene-level counts from RSEM
RNA-Seq clean reads were mapped to mouse genome (ENSEMBL 84 release, GRCm38.p4)
Genome_build: GRCm38.p4
Submission date Apr 05, 2018
Last update date Apr 06, 2018
Contact name Haifei Shi
Phone 5135293162
Organization name Miami University
Department Biology
Street address 700 E High St
City Oxford
State/province Ohio
ZIP/Postal code 45056
Country USA
Platform ID GPL19057
Series (1)
GSE112740 RNA sequencing of brown adipose tissue of lean and obese mice
BioSample SAMN08869073
SRA SRX3889853

Supplementary file Size Download File type/resource
GSM3082783_SC22.RSEM.results.txt.gz 2.9 Mb (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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