Discovering transcriptional modules from motif, chip-chip and microarray data.

@article{citeulike:2767509, abstract = {We present a method for inference of transcriptional modules from heterogeneous data sources. It allows identifying the responsible set of regulators in combination with their corresponding DNA recognition sites (motifs) and target genes. Our approach distinguishes itself from previous work in literature because it fully exploits the knowledge of three independently acquired data sources: ChIP-chip data; motif information as obtained by phylogenetic shadowing; and gene expression profiles obtained using microarray experiments. Moreover, these three data sources are dealt with in a new and fully integrated manner. By avoiding approaches that take the different data sources into account sequentially or iteratively, the transparency of the method and the interpretability of the results are ensured. Using our method on biological data demonstrated the biological relevance of the inference.}, address = {KULeuven, ESAT-SCD, Kasteelpark Arenberg 10, 3001 Leuven, Belgium.}, author = {De Bie, T. and Monsieurs, P. and Engelen, K. and De Moor, B. and Cristianini, N. and Marchal, K. }, citeulike-article-id = {2767509}, comment = {DeBiePSB2005}, issn = {1793-5091}, journal = {Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing}, keywords = {motifpaper, motifsampling}, pages = {483--494}, posted-at = {2008-05-07 23:04:45}, priority = {0}, title = {Discovering transcriptional modules from motif, chip-chip and microarray data.}, url = {http://view.ncbi.nlm.nih.gov/pubmed/15759653}, year = {2005} }

TY - JOUR ID - citeulike:2767509 L3 - citeulike-article-id:2767509 TI - Discovering transcriptional modules from motif, chip-chip and microarray data. JF - Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing SP - 483 EP - 494 AD - KULeuven, ESAT-SCD, Kasteelpark Arenberg 10, 3001 Leuven, Belgium. SN - 1793-5091 N2 - We present a method for inference of transcriptional modules from heterogeneous data sources. It allows identifying the responsible set of regulators in combination with their corresponding DNA recognition sites (motifs) and target genes. Our approach distinguishes itself from previous work in literature because it fully exploits the knowledge of three independently acquired data sources: ChIP-chip data; motif information as obtained by phylogenetic shadowing; and gene expression profiles obtained using microarray experiments. Moreover, these three data sources are dealt with in a new and fully integrated manner. By avoiding approaches that take the different data sources into account sequentially or iteratively, the transparency of the method and the interpretability of the results are ensured. Using our method on biological data demonstrated the biological relevance of the inference. KW - motifpaper KW - motifsampling N1 - DeBiePSB2005 AU - De Bie, T AU - Monsieurs, P AU - Engelen, K AU - De Moor, B AU - Cristianini, N AU - Marchal, K PY - 2005/// UR - http://view.ncbi.nlm.nih.gov/pubmed/15759653 ER -