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| Status |
Public on May 08, 2014 |
| Title |
Molecular architecture of transcription factor hotspots in early adipogenesis |
| Organism |
Mus musculus |
| Experiment type |
Expression profiling by high throughput sequencing
Genome binding/occupancy profiling by high throughput sequencing
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| Summary |
Here, we have used digital genomic footprinting to precisely define protein localization for several adipogenic transcription factors at a genome-wide level. In combination with ChIP-seq data, these analyses reveal novel molecular insight into the organization of transcription factors at hotpot regions, which provides a new framework for understanding transcription factor cooperativity on chromatin.
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| Overall design |
Digital genomic footprinting and gene expression in 3T3-L1 pre-adipocytes by high throughput sequencing.
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| Contributor(s) |
Siersbæk R, Baek S, Rabiee A, Nielsen R, Traynor S, Clark N, Sandelin A, Jensen ON, Sung M, Hager GL, Mandrup S |
| Citation(s) |
24857666 |
| Submission date |
May 07, 2014 |
| Last update date |
May 15, 2019 |
| Contact name |
Susanne Mandrup |
| E-mail(s) |
s.mandrup@bmb.sdu.dk
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| Phone |
+45 6550 2340
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| Organization name |
University of Southern Denmark
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| Department |
Biochemistry and Molecular Biology
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| Street address |
Campusvej 55
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| City |
Odense M |
| ZIP/Postal code |
5230 |
| Country |
Denmark |
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| Platforms (2) |
| GPL11002 |
Illumina Genome Analyzer IIx (Mus musculus) |
| GPL18480 |
Illumina HiSeq 1500 (Mus musculus) |
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| Samples (10)
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| Relations |
| BioProject |
PRJNA246418 |
| SRA |
SRP041765 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE57415_DHS4h_110615_FDR0_FINAL.bed.gz |
1.0 Mb |
(ftp)(http) |
BED |
| GSE57415_DHS_4h_tagcount_136M.TD.ucsc.bedGraph.gz |
73.1 Mb |
(ftp)(http) |
BEDGRAPH |
| GSE57415_RAW.tar |
364.2 Mb |
(http)(custom) |
TAR (of BEDGRAPH) |
| GSE57415_fp_DHS4h_HS_thr0_FDR1_b90_rep10_maxw30_ac_dinuc_maxz0_fdr0.010000.bed.gz |
3.5 Mb |
(ftp)(http) |
BED |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
| Processed data provided as supplementary file |
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