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| Status |
Public on Feb 03, 2017 |
| Title |
Pool2_WCE |
| Sample type |
SRA |
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| Source name |
3T3-L1 cell line
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| Organism |
Mus musculus |
| Characteristics |
cell line: 3T3-L1
molecule subtype: genomic DNA
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| Treatment protocol |
none
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| Growth protocol |
3T3-L1 pre-adipocytes were maintained in DMEM supplemented with 10% calf serum. Two days after confluence, the cells were induced with DMEM supplemented with 10% FBS, 1uM dexamethasone, 1.7uM insulin, and 0.5mM 3-isobutyl-1-methylxanthine (IBMX). 48h later, the medium was replaced with DMEM supplemented with 10% FBS and the cells were fed every two days.
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| Extracted molecule |
genomic DNA |
| Extraction protocol |
ChIP-Seq libraries were prepared as described by Mikkelsen et al. (Nature 2007; 448(7153):553-60; PMID: 17603471)
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| Library strategy |
ChIP-Seq |
| Library source |
genomic |
| Library selection |
ChIP |
| Instrument model |
Illumina MiSeq |
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| Description |
ChIP input
processed data file: Pool2_ChIP.counts.txt
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| Data processing |
Reads were mapped to plasmids using BWA 0.7.12 (Li and Durbin, 2009) with default parameters. Reads with MAPQ<20 were removed.
Total reads in ChIP and WCE libraries corresponding to each oligo
Genome_build: mm9
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| Submission date |
Jul 27, 2016 |
| Last update date |
May 15, 2019 |
| Contact name |
Sharon R Grossman |
| E-mail(s) |
[email protected]
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| Organization name |
Broad Institute
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| Street address |
415 Main Street
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| City |
Cambridge |
| State/province |
MA |
| ZIP/Postal code |
02142 |
| Country |
USA |
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| Platform ID |
GPL16417 |
| Series (1) |
| GSE84888 |
Distinct roles for motif affinity, chromatin state, and co-regulatory motifs in PPARĪ³ binding and enhancer activity |
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| Relations |
| BioSample |
SAMN05447718 |
| SRA |
SRX1979664 |
| Supplementary data files not provided |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
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