PATIKAmad: Putting microarray data into pathway context

Ozgun Babur, Recep Colak, Emek Demir, Ugur Dogrusoz

Research output: Contribution to journalArticle

6 Citations (Scopus)

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.

Original languageEnglish (US)
Pages (from-to)2196-2198
Number of pages3
JournalProteomics
Volume8
Issue number11
DOIs
StatePublished - Jun 2008
Externally publishedYes

Fingerprint

Microarrays
Proteome
Microarray Analysis
Oligonucleotide Array Sequence Analysis
Cluster Analysis
Proteins
Navigation
Visualization
Experiments
Throughput
DNA

Keywords

  • Bioinformatics
  • Gene expression
  • Molecular interaction
  • Pathways

ASJC Scopus subject areas

  • Genetics
  • Molecular Biology

Cite this

PATIKAmad : Putting microarray data into pathway context. / Babur, Ozgun; Colak, Recep; Demir, Emek; Dogrusoz, Ugur.

In: Proteomics, Vol. 8, No. 11, 06.2008, p. 2196-2198.

Research output: Contribution to journalArticle

Babur, Ozgun ; Colak, Recep ; Demir, Emek ; Dogrusoz, Ugur. / PATIKAmad : Putting microarray data into pathway context. In: Proteomics. 2008 ; Vol. 8, No. 11. pp. 2196-2198.
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