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Sample GSM1958882 Query DataSets for GSM1958882
Status Public on Aug 10, 2016
Title GFP-K27ac ChIP-Seq
Sample type SRA
Source name K27ac CHiP for wild-type GFP sample
Organism Mus musculus
Characteristics strain: C57Bl/6
cell type: Chondrocytes
genotype/variation: wild-type
transduction: GFP control adenovirus
chip antibody: Anti-H3K27Ac
Treatment protocol NA
Growth protocol NA
Extracted molecule genomic DNA
Extraction protocol Lysates were clarified from sonicated nuclei and histone-DNA complexes were isolated with antibody
Libraries were prepared according to NuGene Ultralow library prep kit V2
Library strategy ChIP-Seq
Library source genomic
Library selection ChIP
Instrument model Illumina HiSeq 2000
Description GFP control adenovirus
Data processing bcl2fastq v1.8.4 is used for basecalling
Data was processed with Mayo chip-seq pipeline-- HiChIP (
Paired_end reads are aligned to genome with BWA. Duplicated reads are filtered out with picard. Peak calling is performed with Sicer
Genome_build: mm10
Supplementary_files_format_and_content: This file contains a list of peaks, from left to right are: chr, start, end, peak ID, integer score for display, fold-change, -log10pvalue, -log10qvalue and peak summit position relative to peak start
Submission date Dec 01, 2015
Last update date May 15, 2019
Contact name Jennifer Jane Westendorf
Organization name Mayo Clinic
Street address 200 First Street SW
City Rochester
State/province MN
ZIP/Postal code 55905
Country USA
Platform ID GPL13112
Series (2)
GSE75547 Determine the effects of Hdac3 deletion on H3K27ac profiles in murine chondrocytes[ChIP-Seq]
GSE75552 Determine the effects of Hdac3 deletion on H3K27ac profiles in murine chondrocytes
BioSample SAMN04304505
SRA SRX1457512

Supplementary file Size Download File type/resource
GSM1958882_GFP-K27Ac-3.FCC77AGACXX_L6_R1_IAGTGAG.PE_macs2_peaks.encodePeak.txt.gz 201.9 Kb (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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