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GEO help: Mouse over screen elements for information. |
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Status |
Public on May 28, 2008 |
Title |
MCV8_H3K27me3_ChIPSeq |
Sample type |
genomic |
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Source name |
MEF-derived cell line MCV8
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Organism |
Mus musculus |
Characteristics |
Consititutive Oct4, Klf4, c-Myc, Sox2 retrovirus Antibody: H3K27me3 (Upstate 07-449)
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Growth protocol |
MCV6, MCV8, MCV8.1 and BIV1 were cultured under standard mouse ES cell contitions in the prescence of LIF (see Mikkelsen, 2008)
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Extracted molecule |
genomic DNA |
Extraction protocol |
Described in Mikkelsen et al., Nature 2007. Briefly, chromatin was fixed in 1% formaldehyde, sheared to 200-700bp using a Bioruptor (Diagenode), immunoprecipitated using the indicated antisera, purified and sequenced using Illumina Genome Analyzers as recommended by the manufacturer.
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Description |
Antibody: H3K27me3 (Upstate 07-449)
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Data processing |
Described in Mikkelsen et al, 2008. Briefly, sequence reads from each IP experiment were aligned to the mouse reference genome (mm8), and all uniquely aligned reads (within >2 mismatches) were kept. Read densities were computed by counting the number of reads (extended to 300 bp) overlapping each position in the genome (at 25bp resolution).
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Submission date |
Apr 05, 2008 |
Last update date |
May 15, 2019 |
Contact name |
Tarjei S Mikkelsen |
Organization name |
Broad Institute
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Street address |
7 Cambridge Center
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City |
Cambridge |
State/province |
MA |
ZIP/Postal code |
02142 |
Country |
USA |
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Platform ID |
GPL6693 |
Series (1) |
GSE11074 |
Chromatin state maps (H3K4me3 and H3K27me3) from partially and fully reprogrammed mouse cell lines |
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Relations |
SRA |
SRX000418 |
Supplementary file |
Size |
Download |
File type/resource |
GSM279939_MCV8.H3K27me3.aligned.txt.gz |
215.6 Mb |
(ftp)(http) |
TXT |
GSM279939_MCV8.H3K27me3.densities.txt.gz |
280.1 Mb |
(ftp)(http) |
TXT |
SRA Run Selector |
Processed data provided as supplementary file |
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