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Sample GSM4088976 Query DataSets for GSM4088976
Status Public on Sep 02, 2020
Title PioHFD_Diet_input_WT_2
Sample type SRA
 
Source name Wildtype Mouse fed high fat diet with pioglitazone for 12 weeks
Organism Mus musculus
Characteristics strain: C57BL6/J
genotype: wildtype
gender: male
age: 5 months
tissue: liver
treatment: High Fat Diet with Pioglitazone
chip antibody: none - not applicable
Treatment protocol Mice were fed either control diet or high fat diet supplemented with Pio or vehicle.
Extracted molecule genomic DNA
Extraction protocol As described in Huang et al., Identification of an epigenetic signature of early mouse liver regeneration that is disrupted by Zn-HDAC inhibition, Epigenetics, 2015. PubMed: 25482284
As described in Huang et al., Identification of an epigenetic signature of early mouse liver regeneration that is disrupted by Zn-HDAC inhibition, Epigenetics, 2015. PubMed: 25482284
 
Library strategy ChIP-Seq
Library source genomic
Library selection ChIP
Instrument model Illumina HiSeq 3000
 
Data processing Basecalls performed using RTA Version 2.7.3
ChIP-seq reads were aligned to the mm10 genome assembly using novoalign version V3.04.06 with harclipping (-H) and adapter stripping (-a)
Peaks were called using MACS version version 2.1.1 (20160309) using a paired input control
Genome_build: mm10
Supplementary_files_format_and_content: Bed files: The bed files contain the called peaks, the 5th column is the standard MACS -10*log10pvalue; Xls files: contain the peaks with additional information, such as position of peak summit, number of tags in peak region, fold enrichment and FDR
 
Submission date Sep 22, 2019
Last update date Sep 02, 2020
Contact name Paul Cliften
E-mail(s) pcliften@wustl.edu
Organization name Washington University
Department Genetics
Lab GTAC
Street address 4320 Forest Park Parkway
City St. Louis
ZIP/Postal code 63108
Country USA
 
Platform ID GPL21493
Series (1)
GSE137820 Pioglitazone induces extensive PPARg-dependent hepatic expression of nuclear-mitochondrial genes
Relations
BioSample SAMN12816743
SRA SRX6885988

Supplementary data files not provided
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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