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| Status |
Public on Oct 18, 2013 |
| Title |
Comprehensive analysis of different in vitro insulin resistance models |
| Organism |
Mus musculus |
| Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
Expression profiling by high throughput sequencing
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| Summary |
Diet-induced obesity (DIO) predisposes individuals to insulin resistance, and adipose tissue has a major role in the disease. Insulin resistance can be induced in cultured adipocytes by a variety of treatments, but what aspects of the in vivo responses are captured by these models remains unknown. We use global RNA sequencing to investigate changes induced by TNF-a, hypoxia, dexamethasone, high insulin, and a combination of TNF-a and hypoxia, comparing the results to the changes in white adipose tissue from DIO mice. We found that different in vitro models capture distinct features of DIO adipose insulin resistance, and a combined treatment of TNF-a and hypoxia is most able to mimic the in vivo changes. Using genome-wide DNase I hypersensitivity followed by sequencing, we further examined the transcriptional regulation of TNF-a-induced insulin resistance, and we found that C/EPBß key regulator of adipose insulin resistance.
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| Overall design |
RNA-seq for 6 insulin resistance conditions and 2 control conditions, Dnase hypersensitivity-seq of 4 conditions and 1 control condition, ChIP-seq on p65 after TNFa treatment.
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| Contributor(s) |
LO KA |
| Citation(s) |
24095730 |
| Submission date |
Feb 10, 2012 |
| Last update date |
May 15, 2019 |
| Contact name |
Kinyui Alice LO |
| E-mail(s) |
lky@mit.edu
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| Phone |
617-253-2042
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| Organization name |
MIT
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| Department |
Biological Engineering
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| Lab |
Fraenkel
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| Street address |
77 Massachusetts Ave.
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| City |
Cambridge |
| State/province |
MA |
| ZIP/Postal code |
02139 |
| Country |
USA |
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| Platforms (2) |
| GPL9250 |
Illumina Genome Analyzer II (Mus musculus) |
| GPL13112 |
Illumina HiSeq 2000 (Mus musculus) |
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| Samples (32)
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| Relations |
| SRA |
SRP010905 |
| BioProject |
PRJNA152127 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE35724_RAW.tar |
5.7 Gb |
(http)(custom) |
TAR (of BED, BW, TXT) |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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