Transcriptomics,Genomics

Dataset Information

301

Genome-wide landscape of liver X receptor chromatin binding and gene regulation


ABSTRACT: 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. 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)

ORGANISM(S): Homo sapiens  

SUBMITTER: Eckardt Treuter   Lynn Welter-Stahl  Knut R Steffensen  Sami Heikkinen  Janine Diwo  Carsten Carlberg  Anke Wiencke-Baldacchino  Petri Pehkonen 

PROVIDER: E-GEOD-28319 | ArrayExpress | 2012-02-02

SECONDARY ACCESSION(S): SRP006202GSE28319PRJNA139339

REPOSITORIES: GEO, ArrayExpress, ENA

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Publications

Genome-wide landscape of liver X receptor chromatin binding and gene regulation in human macrophages.

Pehkonen Petri P   Welter-Stahl Lynn L   Diwo Janine J   Ryynänen Jussi J   Wienecke-Baldacchino Anke A   Heikkinen Sami S   Treuter Eckardt E   Steffensen Knut R KR   Carlberg Carsten C  

BMC Genomics 20120131


The liver X receptors (LXRs) are oxysterol sensing nuclear receptors with multiple effects on metabolism and immune cells. However, the complete genome-wide cistrome of LXR in cells of human origin has not yet been provided.We performed ChIP-seq in phorbol myristate acetate-differentiated THP-1 cells (macrophage-type) after stimulation with the potent synthetic LXR ligand T0901317 (T09). Microarray gene expression analysis was performed in the same cellular model. We identified 1357 genome-wide  ...[more]

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