Skip to Main content Skip to Navigation
Journal articles

Clustering biological annotations and gene expression data to identify putatively co-regulated biological processes.

Abstract : MOTIVATION: Functional profiling is a key step of microarray gene expression data analysis. Identifying co-regulated biological processes could help for better understanding of underlying biological interactions within the studied biological frame. RESULTS: We present herein an original approach designed to search for putatively co-regulated biological processes sharing a significant number of co-expressed genes. An R language implementation named "FunCluster" was built and tested on two gene expression data sets. A discriminatory functional analysis of the first data set, related to experiments performed on separated adipocytes and stroma vascular fraction cells of human white adipose tissue, highlighted the prevalent role of nonadipose cells in the synthesis of inflammatory and immunity molecules in human adiposity. On the second data set, resulting from a model investigating insulin coordinated regulation of gene expression in human skeletal muscle, FunCluster analysis spotlighted novel functional classes of putatively co-regulated biological processes related to protein metabolism and the regulation of muscular contraction. AVAILABILITY: Supplementary information about the FunCluster tool is available on-line at http://corneliu.henegar.info/FunCluster.htm.
Document type :
Journal articles
Complete list of metadatas

Cited literature [47 references]  Display  Hide  Download

https://www.hal.inserm.fr/inserm-00147232
Contributor : Corneliu Henegar <>
Submitted on : Monday, May 21, 2007 - 10:46:42 AM
Last modification on : Wednesday, August 19, 2020 - 11:16:51 AM
Long-term archiving on: : Wednesday, April 7, 2010 - 3:37:39 AM

Identifiers

Citation

Corneliu Henegar, Raffaella Cancello, Sophie Rome, Hubert Vidal, Karine Clément, et al.. Clustering biological annotations and gene expression data to identify putatively co-regulated biological processes.. Journal of Bioinformatics and Computational Biology, World Scientific Publishing, 2006, 4 (4), pp.833-52. ⟨10.1142/S0219720006002181⟩. ⟨inserm-00147232⟩

Share

Metrics

Record views

492

Files downloads

905