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Title: Transcriptomic profiling and epigenetic analysis of primary human monocyte-to-macrophage differentiation in context of metabolic modeling      
dateReleased:
03-02-2016
description:
Fast reconstruction of cell type-specific metabolic models and understanding the underlying epigenetic regulation will be increasingly important for personalized medicine. To enable fast creation of high-quality metabolic models from gene expression data, we have developed a new workflow named FASTCORMICS. FASTCORMICS is devoid of arbitrary parameter settings and outperforms its competitors in speed with comparable accuracy. To better understand the cell type-specific regulation of the alternative metabolic pathways we built multiple metabolic models based on microarray analysis at 4 different time points during differentiation of primary human monocytes to macrophages and performed ChIP-Seq experiments to map the active enhancers in macrophages. Focusing on the metabolic genes under high regulatory load from multiple enhancers or super-enhancers, we found these genes to show the most cell type-restricted and abundant expression profiles within their respective pathways. Importantly, the high regulatory load genes are enriched for transport reactions and other pathway entry points, suggesting that they are the critical regulatory control points for cell type-specific metabolism.
privacy:
not applicable
aggregation:
instance of dataset
ID:
E-MTAB-3089
refinement:
raw
dateSubmitted:
12-03-2012
keywords:
functional genomics
dateModified:
03-02-2016
creators:
Tony KAOMA
availability:
available
types:
gene expression
name:
Homo sapiens
ID:
A-AFFY-141
name:
Affymetrix GeneChip Human Gene 1.0 ST Array [HuGene-1_0-st-v1]
accessURL: https://www.ebi.ac.uk/arrayexpress/files/E-MTAB-3089/E-MTAB-3089.raw.1.zip
storedIn:
ArrayExpress
qualifier:
gzip compressed
format:
TXT
accessType:
download
authentication:
none
authorization:
none
accessURL: https://www.ebi.ac.uk/arrayexpress/files/E-MTAB-3089/E-MTAB-3089.processed.1.zip
storedIn:
ArrayExpress
qualifier:
gzip compressed
format:
TXT
accessType:
download
authentication:
none
authorization:
none
abbreviation:
EBI
homePage: http://www.ebi.ac.uk/
ID:
SCR:004727
name:
European Bioinformatics Institute
homePage: https://www.ebi.ac.uk/arrayexpress/
ID:
SCR:002964
name:
ArrayExpress

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