PATIKAmad: Putting microarray data into pathway context Journal Article
| Authors: | Babur, O.; Colak, R.; Demir, E.; Dogrusoz, U. |
| Article Title: | PATIKAmad: Putting microarray data into pathway context |
| Abstract: | High-throughput experiments, most significantly DNA microarrays, provide us with system-scale profiles. Connecting these data with existing biological networks poses a formidable challenge to uncover facts about a cell's proteome. Studies and tools with this purpose are limited to networks with simple structure, such as protein-protein interaction graphs, or do not go much beyond than simply displaying values on the network. We have built a microarray data analysis tool, named PATIKAmad, which can be used to associate microarray data with the pathway models in mechanistic detail, and provides facilities for visualization, clustering, querying, and navigation of biological graphs related with loaded microarray experiments. PATIKAmad is freely available to noncommercial users as a new module of PATIKAweb at http://web.patika.org. © 2008 Wiley-VCH Verlag GmbH & Co. KGaA. |
| Keywords: | proteome; cluster analysis; gene expression; computational biology; map kinase signaling system; protein protein interaction; internet; user-computer interface; algorithms; proteomics; gene expression regulation; data interpretation, statistical; microarray analysis; oligonucleotide array sequence analysis; pattern recognition, automated; dna microarray; molecular interaction; bioinformatics; protein database; protein interaction mapping; software; pathways |
| Journal Title: | Proteomics |
| Volume: | 8 |
| Issue: | 11 |
| ISSN: | 1615-9853 |
| Publisher: | Wiley V C H Verlag Gmbh |
| Date Published: | 2008-05-02 |
| Start Page: | 2196 |
| End Page: | 2198 |
| Language: | English |
| DOI: | 10.1002/pmic.200700769 |
| PUBMED: | 18452226 |
| PROVIDER: | scopus |
| DOI/URL: | |
| Notes: | --- - "Cited By (since 1996): 5" - "Export Date: 17 November 2011" - "CODEN: PROTC" - "Source: Scopus" |
