Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

0

Integrated analysis of transcript level regulation of metabolism during human adipocyte differentiation [T0901317]

ABSTRACT: Here, we have focused on studying the link between metabolic changes driven by the differentiation into mature adipocytes of a human preadipocyte cell line (SGBS) and their regulation, through a combined experimental and computational approach. By collecting data on gene expression, PPARg, CEBPa, LXR and H3K4me3 genome-wide ChIP-seq profles and transcriptome-wide microRNA target identification for miR-27a, miR29a and miR-222, and using constraint-based modeling to estimate metabolic reaction activity, we obtained a comprehensive set of information highlighting how epigenetic, transcriptional and post-transcriptional regulation impacts the metabolic network. Illumina HT12 V3.0 microarrays: LXR ligand activation with 1 microM T0901317 for 4 h in SGBS day 10 differentiated adipocytes (6 samples, treatment vs control, in triplicate) This submission represents transcriptome component of study.

ORGANISM(S): Homo sapiens

SUBMITTER: Merja Heinäniemi 

PROVIDER: E-GEOD-41577 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

Json Xml
altmetric image

Publications

Integrated analysis of transcript-level regulation of metabolism reveals disease-relevant nodes of the human metabolic network.

Galhardo Mafalda M   Sinkkonen Lasse L   Berninger Philipp P   Lin Jake J   Sauter Thomas T   Heinäniemi Merja M  

Nucleic acids research 20131105 3

Metabolic diseases and comorbidities represent an ever-growing epidemic where multiple cell types impact tissue homeostasis. Here, the link between the metabolic and gene regulatory networks was studied through experimental and computational analysis. Integrating gene regulation data with a human metabolic network prompted the establishment of an open-sourced web portal, IDARE (Integrated Data Nodes of Regulation), for visualizing various gene-related data in context of metabolic pathways. Motiv  ...[more]

Similar Datasets

Transcriptomics Integrated analysis of transcript level regulation of metabolism during human adipocyte differentiation [time course]
2013-11-19 | E-GEOD-41352 | biostudies-arrayexpress
Transcriptomics Integrated analysis of transcript level regulation of metabolism during human adipocyte differentiation [miR]
2013-11-19 | E-GEOD-41576 | biostudies-arrayexpress
Genomics Integrated analysis of transcript level regulation of metabolism during human adipocyte differentiation
2013-11-19 | E-GEOD-41578 | biostudies-arrayexpress
Genomics Integrated analysis of transcript level regulation of metabolism during human adipocyte differentiation [ChIP-Seq]
2013-11-19 | E-GEOD-41629 | biostudies-arrayexpress
Transcriptomics Microarray analyses of the effects of prenatal metformin exposure on the gene expression profile of liver, brain and subcutaneous adipose tissue of neonatal mice
2014-12-11 | E-GEOD-62612 | biostudies-arrayexpress
Genomics Genome-wide landscape of liver X receptor chromatin binding and gene regulation
2012-02-02 | E-GEOD-28319 | biostudies-arrayexpress
Genomics Cross-species comparison of C/EBPα and PPARγ profiles in mouse and human adipocytes reveals interdependent retention of binding sites
2011-02-23 | E-GEOD-27450 | biostudies-arrayexpress
Transcriptomics Gene expression profiling (RNA-seq) of SGBS human preadipocytes (days 0, 2, 8 and 16 of differentiation to adipocytes) and iPSC-derived hypothalamic neurons (days 12, 16 and 27 of differentiation)
2021-05-22 | E-MTAB-10461 | biostudies-arrayexpress
Transcriptomics Open chromatin profiling (ATAC-seq) of SGBS human preadipocytes (days 0, 2, 8 and 16 of differentiation to adipocytes) and iPSC-derived hypothalamic neurons (days 12, 16 and 27 of differentiation)
2021-05-22 | E-MTAB-10462 | biostudies-arrayexpress
Transcriptomics SUMOylation modulates the transcriptional activity of androgen receptor in a target gene and pathway selective manner.
2014-07-03 | E-GEOD-54202 | biostudies-arrayexpress