|
| Status |
Public on Feb 02, 2012 |
| Title |
Genome-wide landscape of liver X receptor chromatin binding and gene regulation |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by array
Genome binding/occupancy profiling by high throughput sequencing
|
| Summary |
Gene expression: Identification of primary target genes of liver X receptor (LXR) in an immune-related cellular model (THP-1 cells) to study, in conjunction with LXR binding data from ChIP-seq, the genome-wide mechanisms of transcriptional regulation by LXR.
ChIP-Seq: We performed ChIP-seq in macrophage-type PMA-differentiated THP-1 cells after stimulation with the potent synthetic LXR ligand T0901317 (T09). As a reference we performed microarray gene expression analysis in the same cellular model. We identified in total 1357 LXR binding locations on chromatin (FDR < 1%), of which 526 were observed after T09 treatment. De novo analysis of LXR site sequences identified DR4-type binding sites as major motif.
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|
| Overall design |
gene expression: THP-1 cells were treated for 4 h with 1 µM T09 or vehicle (DMSO)
ChIP-Seq: PMA-differentiated THP-1 cells were treated for 60 min with 1 µM T09 or vehicle (DMSO)
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| |
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| Contributor(s) |
Pehkonen P, Welter-Stahl L, Diwo J, Wiencke-Baldacchino A, Heikkinen S, Treuter E, Steffensen KR, Carlberg C |
| Citation(s) |
22292898 |
| |
| Submission date |
Apr 01, 2011 |
| Last update date |
May 15, 2019 |
| Contact name |
Carsten Carlberg |
| E-mail(s) |
c.carlberg@pan.olsztyn.pl, carsten.carlberg@uef.fi, carsten.carlberg@gmail.com
|
| Phone |
+358-40-355-3062
|
| Organization name |
Polish Academy of Sciences
|
| Department |
Food Research
|
| Street address |
ul. J. Tuwima
|
| City |
Olsztyn |
| ZIP/Postal code |
10-748 |
| Country |
Poland |
| |
|
| Platforms (2) |
| GPL6947 |
Illumina HumanHT-12 V3.0 expression beadchip |
| GPL9115 |
Illumina Genome Analyzer II (Homo sapiens) |
|
| Samples (9)
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| Relations |
| SRA |
SRP006202 |
| BioProject |
PRJNA139339 |
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