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GEO help: Mouse over screen elements for information. |
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| Status |
Public on Dec 15, 2016 |
| Title |
High fat diet-induced changes of mouse hepatic transcription and enhancer activity can be reversed by subsequent weight loss |
| Organism |
Mus musculus |
| Experiment type |
Expression profiling by high throughput sequencing
Genome binding/occupancy profiling by high throughput sequencing
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| Summary |
In this setup we have used RNA-seq, DHS-seq, and H3K27ac ChIP-seq to identify changes in transcription, chromatin landscape and enhancer activity in livers of mice fed a high fat diet (HFD) and mice returned from HFD to Chow.
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| Overall design |
Global gene expression analysis, DHS-seq and H3K27ac ChIP-seq in livers of 7 week old mice fed chow or HFD. Furthermore, we have performed global gene expression analysis and H3K27ac ChIP-seq in 12 week old mice initially fed HFD then returned to chow or continued chow diet.
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| Contributor(s) |
Siersbæk M, Varticovski L, Yang S, Baek S, Nielsen R, Mandrup S, L Hager G, H Chung J, Grøntved L |
| Citation(s) |
28071704 |
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| Submission date |
Oct 03, 2016 |
| Last update date |
May 15, 2019 |
| Contact name |
Lars Grøntved |
| E-mail(s) |
larsgr@bmb.sdu.dk
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| Phone |
+45 24 60 14 06
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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 |
| ZIP/Postal code |
5230 |
| Country |
Denmark |
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| Platforms (1) |
| GPL18480 |
Illumina HiSeq 1500 (Mus musculus) |
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| Samples (28)
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| GSM2333836 |
Chow-chow, rep1 (RNA-Seq) |
| GSM2333837 |
Chow-chow, rep2 (RNA-Seq) |
| GSM2333838 |
Chow-chow, rep3 (RNA-Seq) |
| GSM2333839 |
HFD, rep1 (RNA-Seq) |
| GSM2333840 |
HFD, rep2 (RNA-Seq) |
| GSM2333841 |
HFD, rep3 (RNA-Seq) |
| GSM2333842 |
HFD-chow, rep1 (RNA-Seq) |
| GSM2333843 |
HFD-chow, rep2 (RNA-Seq) |
| GSM2333844 |
HFD-chow, rep3 (RNA-Seq) |
| GSM2333845 |
Chow 40U, rep1 (DHS-Seq) |
| GSM2333846 |
Chow 40U, rep2 (DHS-Seq) |
| GSM2333847 |
HFD 40U, rep1 (DHS-Seq) |
| GSM2333848 |
HFD 40U, rep2 (DHS-Seq) |
| GSM2333849 |
Chow, rep1 (ChIP-Seq) |
| GSM2333850 |
Chow, rep2 (ChIP-Seq) |
| GSM2333851 |
Chow, rep3 (ChIP-Seq) |
| GSM2333852 |
HFD, rep1 (ChIP-Seq) |
| GSM2333853 |
HFD, rep2 (ChIP-Seq) |
| GSM2333854 |
HFD, rep3 (ChIP-Seq) |
| GSM2333855 |
Chow-chow, rep1 (ChIP-Seq) |
| GSM2333856 |
Chow-chow, rep2 (ChIP-Seq) |
| GSM2333857 |
Chow-chow, rep3 (ChIP-Seq) |
| GSM2333858 |
HFD-chow, rep1 (ChIP-Seq) |
| GSM2333859 |
HFD-chow, rep2 (ChIP-Seq) |
| GSM2333860 |
HFD-chow, rep3 (ChIP-Seq) |
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| Relations |
| BioProject |
PRJNA345270 |
| SRA |
SRP090817 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE87565_RAW.tar |
674.9 Mb |
(http)(custom) |
TAR (of BEDGRAPH) |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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