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Sample GSM1586397 Query DataSets for GSM1586397
Status Public on Jan 20, 2015
Title H3K4me3_kidney
Sample type SRA
 
Source name kidney
Organism Homo sapiens
Characteristics body site: kidney
tissue type: kidney
Sex: male
developmental stage: adult
Extracted molecule genomic DNA
Extraction protocol Refer to extraction protocols described in the individual sample inputs for each average track
Refer to library contruction protocols described in the individual sample inputs for each average track
 
Library strategy ChIP-Seq
Library source genomic
Library selection ChIP
Instrument model Illumina Genome Analyzer II
 
Description H3K4me3, in adult kidney (average of 2 experiments)
Sequencing performed on multiple instruments: Illumina Genome Analyzer II, Illumina HiSeq 2000
Data processing For each tissue type, input tracks were selected based on the following criteria. Experiments from the Roadmap Epigenomics datasets were pooled, based on body site, tissue or cell type. Donor age was weighed and sample data from adults was segregated from those of fetal or neonatal. Donor sex was not taken into account, so some cases the track average is generated from pooled male and female tissues. Each input track was normalized by scaling all values to achieve a constant genome-wide summed signal. In the final track, the value in each 20 bp window is the arithmetic mean of the scaled input values.
Genome_build: GRCh37
Supplementary_files_format_and_content: WIG files generated by track averaging
 
Submission date Jan 16, 2015
Last update date Jun 10, 2015
Contact name Ian Fingerman
E-mail(s) ian.fingerman@nih.gov
Organization name National Institutes of Health
Department NCBI Epigenomics
Street address 45 Center Dr.
City Bethesda
State/province MD
ZIP/Postal code 20892
Country USA
 
Platform ID GPL9115
Series (2)
GSE65049 Track normalization and averaging of H3K4me3 ChIP-seq data across various cell and tissue types.
GSE65050 Track normalization and averaging of epigenetic features across various cell and tissue types derived from Roadmap Epigenomic datasets
Relations
Reanalysis of GSM621648
Reanalysis of GSM773005
BioSample SAMN03287061
Named Annotation GSM1586397_H3K4me3_kidney.wig.gz
Named Annotation GSM1586397_H3K4me3_kidney_GRCh38.wig.gz

Supplementary file Size Download File type/resource
GSM1586397_H3K4me3_kidney.wig.gz 67.4 Mb (ftp)(http) WIG
GSM1586397_H3K4me3_kidney_GRCh38.wig.gz 33.0 Mb (ftp)(http) WIG
Raw data provided as supplementary file
Processed data provided as supplementary file

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