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Sample GSM319327 Query DataSets for GSM319327
Status Public on Dec 22, 2008
Title MEFF H3K27me3 ChIP-seq
Sample type SRA
Source name Mouse embryonic fibroblasts
Organism Mus musculus
Characteristics genotype: Thp/+, Age: cell line, Tissue: embryo, Strain: FVBN, Antibody: H3K27me3 (Thomas Jenuwein), Type: Native ChIP
antibody: H3K27me3, Cell Type: MEF
Treatment protocol MEFF is a spontaneously immortalized 12.5dpc mouse embryo fibroblast cell. The 93Mb long Chr.17 sequence in the cell line is identical with the exception of the Thp deletion on the maternal chromosome. The Thp deletion spans at least 4,6Mbp spanning the region between the genes T and Sod2 (8,6Mbp-13,2Mbp Mouse July 2007 mm9) and contains the 400kb Igf2r imprinted gene cluster (Regha et al., 2007 PMID: 17679087).
Growth protocol MEF cell lines were cultured according to standard protocols
Extracted molecule genomic DNA
Extraction protocol Native ChIP was performed as published (Regha et al., 2007 PMID: 17679087).
Library strategy ChIP-Seq
Library source genomic
Library selection ChIP
Instrument model Illumina Genome Analyzer
Description Chromatin IP against H3K27me3
Data processing Density: A theoretical fragment density for each 25bp window was calculated. Uniquely aligned tags within a 200bp and oriented towards it were counted as 1 to the for each 25bp window and as 0.25 if they were within 200bp and 300bp. Window Counts: For each 200bp window the uniquely aligned tags were counted.
Submission date Sep 10, 2008
Last update date May 15, 2019
Contact name Florian M Pauler
Phone +43 1 4277 54323
Fax +43 1 42770 9546
Organization name CeMM
Lab Denise P Barlow
Street address Dr Bohrgasse 9/4
City Vienna
State/province Vienna
ZIP/Postal code A1030
Country Austria
Platform ID GPL9185
Series (1)
GSE12721 Chip-seq from MEF cells H3K27me3
SRA SRX003803
BioSample SAMN02195747

Supplementary file Size Download File type/resource
GSM319327_MEFF_density.wig.gz 48.7 Mb (ftp)(http) WIG
GSM319327_counts.wig.gz 4.5 Mb (ftp)(http) WIG
GSM319327_peaks_10.gff.gz 238.3 Kb (ftp)(http) GFF
GSM319327_peaks_60.gff.gz 134.0 Kb (ftp)(http) GFF
GSM319327_processed_aligned.txt.gz 82.1 Mb (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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