PATIKAmad: putting microarray data into pathway context

Date
2008-06
Authors
Babur, Özgün
Colak, Recep
Demir, Emek
Doğrusöz, Uğur
Advisor
Instructor
Source Title
Proteomics
Print ISSN
1615-9853
Electronic ISSN
1615-9861
Publisher
Wiley - V C H Verlag GmbH & Co. KGaA
Volume
8
Issue
11
Pages
2196 - 2198
Language
English
Type
Article
Journal Title
Journal ISSN
Volume Title
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.

Course
Other identifiers
Book Title
Keywords
Bioinformatics, Gene expression, Molecular interaction, Pathways, DNA microarray, Internet, Microarray analysis, Priority journal, Protein database, Protein protein interaction, Algorithms, Cluster analysis, Computational biology, Data interpretation, Gene expression regulation, MAP kinase signaling system, Oligonucleotide array sequence analysis, Pattern recognition, Protein Interaction Mapping, Proteomics, Software, User-computer interface
Citation
Published Version (Please cite this version)