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Integrated Expression Profiling and Genome-Wide Analysis of ChREBP Targets Reveals the Dual Role for ChREBP in Glucose-Regulated Gene Expression
- Source :
- Jeong, Yun-Seung; Kim, Deokhoon; Lee, Yong Seok; Kim, Ha-Jung; Han, Jung-Youn; Im, Seung-Soon; et al.(2011). Integrated Expression Profiling and Genome-Wide Analysis of ChREBP Targets Reveals the Dual Role for ChREBP in Glucose-Regulated Gene Expression. PLoS ONE, 6(7). UC Irvine: Retrieved from: http://www.escholarship.org/uc/item/7h73z321, PLoS ONE, Vol 6, Iss 7, p e22544 (2011), PLoS ONE
- Publication Year :
- 2011
- Publisher :
- Public Library of Science (PLoS), 2011.
-
Abstract
- The carbohydrate response element binding protein (ChREBP), a basic helix-loop-helix/leucine zipper transcription factor, plays a critical role in the control of lipogenesis in the liver. To identify the direct targets of ChREBP on a genome-wide scale and provide more insight into the mechanism by which ChREBP regulates glucose-responsive gene expression, we performed chromatin immunoprecipitation-sequencing and gene expression analysis. We identified 1153 ChREBP binding sites and 783 target genes using the chromatin from HepG2, a human hepatocellular carcinoma cell line. A motif search revealed a refined consensus sequence (CABGTG-nnCnG-nGnSTG) to better represent critical elements of a functional ChREBP binding sequence. Gene ontology analysis shows that ChREBP target genes are particularly associated with lipid, fatty acid and steroid metabolism. In addition, other functional gene clusters related to transport, development and cell motility are significantly enriched. Gene set enrichment analysis reveals that ChREBP target genes are highly correlated with genes regulated by high glucose, providing a functional relevance to the genome-wide binding study. Furthermore, we have demonstrated that ChREBP may function as a transcriptional repressor as well as an activator.
- Subjects :
- Basic helix-loop-helix leucine zipper transcription factors
dna-binding
Biochemistry
chip-seq data
Databases, Genetic
Molecular Cell Biology
Gene expression
Medicine and Health Sciences
sites
Signaling in Cellular Processes
Genome Sequencing
ob/ob mice
transcription factor
Genetics
Regulation of gene expression
Multidisciplinary
Basic Helix-Loop-Helix Leucine Zipper Transcription Factors
Gene Ontologies
Life Sciences
Hep G2 Cells
Genomics
Chromatin
Cell biology
Liver
Medicine
Metabolic Pathways
Protein Binding
Signal Transduction
Research Article
Chromatin Immunoprecipitation
Science
Molecular Sequence Data
DNA transcription
binding protein
Biology
Glucose Signaling
liver
Molecular Genetics
Metabolic Networks
Genome Analysis Tools
DNA-binding proteins
Humans
interacting protein
Gene Regulation
Gene
Transcription factor
center-dot-mlx
Regulatory Networks
Binding Sites
Base Sequence
Genome, Human
Gene Expression Profiling
Lipogenesis
Reproducibility of Results
Proteins
Computational Biology
Regulatory proteins
DNA
Comparative Genomics
carbohydrate-response element
Gene expression profiling
Glucose
HEK293 Cells
Metabolism
Gene Expression Regulation
Genetic Loci
Chromatin immunoprecipitation
Subjects
Details
- ISSN :
- 19326203
- Volume :
- 6
- Database :
- OpenAIRE
- Journal :
- PLoS ONE
- Accession number :
- edsair.doi.dedup.....6835a2027527235a38f97c34b250d6c2