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Sample GSM1232476 Query DataSets for GSM1232476
Status Public on Nov 01, 2013
Title Brg1_ChIP_Seq
Sample type SRA
Source name mouse primary epidermal keratinocytes
Organism Mus musculus
Characteristics strain: C57BL/6
age: newborn
tissue: skin
cell type: mouse primary epidermal keratinocytes
chip antibody: anti-Brg1 (H-88)
chip antibody vendor: Santa Cruz Biotechnologies
chip antibody cat. #: SC-10768
chip antibody lot #: F1312
Growth protocol Skin from the newborn mice has been treated with 1% Trypsin in PBS buffer at 4 C overnight, dermis was separated from epidermis and the single cell suspension was prepared from the epidermis.
Extracted molecule genomic DNA
Extraction protocol Cell were fixed with 1% formaldehyde in PBS, the nuclei were isolated, chromatin was sonicated and immuno-precipitated using anti-Brg1 anti-bodies (Santa Cruz Biotechnologies). The DNA has been isolated from the immuno-precipitated and input chromatin
Indexed ChIP-seq libraries were generated using NEBNext reagents (New England Biolabs) and
Library strategy ChIP-Seq
Library source genomic
Library selection ChIP
Instrument model Illumina HiSeq 2500
Description Sample 1
Data processing Basecalls performed using CASAVA version 1.8.2
ChIP-seq reads were aligned to the mm9 genome assembly using Bowtie version 1.1.2
Data were filtered using the following specifications…
peaks were called using Sicer version 0.0.1 with the following setting:FDR 0.01
Genome_build: mm9
Supplementary_files_format_and_content: bed files were generated using Sicer
Submission date Sep 17, 2013
Last update date May 15, 2019
Contact name Michael Y Fessing
Organization name University of Bradford
Street address Richmond Road
City Bradford
ZIP/Postal code BD7 1DP
Country United Kingdom
Platform ID GPL17021
Series (1)
GSE50921 ChIP-seq analysis of genome wide Brg1 binding in mouse primary keratinocytes
BioSample SAMN02357082
SRA SRX352043

Supplementary data files not provided
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record

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