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| Status |
Public on Aug 25, 2010 |
| Title |
Genome-wide analysis of insulin-like growth factor 1 receptor (IGF1R) binding sites in DFB cells |
| Organism |
Homo sapiens |
| Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
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| Summary |
The insulin-like growth factor 1 receptor (IGF-1R) plays crucial roles in developmental and cancer biology. Most of its biological effects have been ascribed to its tyrosine kinase activity. We report that IGF-1 promotes the modification of IGF-1R by small ubiquitin-like modifier protein-1 (SUMO-1) and its translocation to the nucleus. Nuclear IGF-1R associated with enhancer-like elements and increased transcription in reporter assays. We used ChIP-seq to examine the interaction of IGF-1R with DNA on a genome-wide scale. Analysis of the data set resulted in 568 candidate peaks, that is, statistically significant IGF-1R-enriched regions. The IGF-1R-enriched regions were divided into five classes on the basis of their location relative to known genes. Most of the IGF-1R-interacting sites (80%) were located distal from any annotated gene (intergenic), 6.3% were located in introns, 6.3% in exons, 3.4% were <20 kb upstream of an annotated transcript start site (5'UTR + 20 kb upstream), and 3.6% were <20 kb downstream of an annotated transcript end site (3'UTR + 20 kb downstream).
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| Overall design |
Analysis of the genomic interaction of IGF1R in DFB cells
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| Contributor(s) |
Sehat B, Tofigh A, Lin Y, Trocmé E, Liljedahl U, Lagergren J, Larsson O |
| Citation(s) |
20145208 |
| Submission date |
Aug 25, 2010 |
| Last update date |
May 15, 2019 |
| Contact name |
Ali Tofigh |
| E-mail(s) |
alix.tofigh@gmail.com
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| Organization name |
McGill University
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| Street address |
McGill Centre for Bioinformatics , Life Sciences Complex, Bellini Building, room 435, 3649 Promenade Sir-William-Osler
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| City |
Montreal |
| State/province |
Quebec |
| ZIP/Postal code |
H3G 0B1 |
| Country |
Canada |
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| Platforms (1) |
| GPL9052 |
Illumina Genome Analyzer (Homo sapiens) |
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| Samples (1) |
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| Relations |
| SRA |
SRP003362 |
| BioProject |
PRJNA130715 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE23792_RAW.tar |
26.1 Mb |
(http)(custom) |
TAR (of BED) |
SRA Run Selector |
| Processed data provided as supplementary file |
| Raw data are available in SRA |
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