Automated modelling of signal transduction networks
<p>Abstract</p> <p>Background</p> <p>Intracellular signal transduction is achieved by networks of proteins and small molecules that transmit information from the cell surface to the nucleus, where they ultimately effect transcriptional changes. Understanding the mechani...
| Main Authors: | , , , , |
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| Format: | Article |
| Language: | English |
| Published: |
BMC
2002-11-01
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| Series: | BMC Bioinformatics |
| Online Access: | http://www.biomedcentral.com/1471-2105/3/34 |
| _version_ | 1811278932538818560 |
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| author | Aach John Petti Allegra Steffen Martin D'haeseleer Patrik Church George |
| author_facet | Aach John Petti Allegra Steffen Martin D'haeseleer Patrik Church George |
| author_sort | Aach John |
| collection | DOAJ |
| description | <p>Abstract</p> <p>Background</p> <p>Intracellular signal transduction is achieved by networks of proteins and small molecules that transmit information from the cell surface to the nucleus, where they ultimately effect transcriptional changes. Understanding the mechanisms cells use to accomplish this important process requires a detailed molecular description of the networks involved.</p> <p>Results</p> <p>We have developed a computational approach for generating static models of signal transduction networks which utilizes protein-interaction maps generated from large-scale two-hybrid screens and expression profiles from DNA microarrays. Networks are determined entirely by integrating protein-protein interaction data with microarray expression data, without prior knowledge of any pathway intermediates. In effect, this is equivalent to extracting subnetworks of the protein interaction dataset whose members have the most correlated expression profiles.</p> <p>Conclusion</p> <p>We show that our technique accurately reconstructs MAP Kinase signaling networks in <it>Saccharomyces cerevisiae</it>. This approach should enhance our ability to model signaling networks and to discover new components of known networks. More generally, it provides a method for synthesizing molecular data, either individual transcript abundance measurements or pairwise protein interactions, into higher level structures, such as pathways and networks.</p> |
| first_indexed | 2024-04-13T00:45:41Z |
| format | Article |
| id | doaj.art-a61893f17fd04d2182fbceee5cada8c2 |
| institution | Directory Open Access Journal |
| issn | 1471-2105 |
| language | English |
| last_indexed | 2024-04-13T00:45:41Z |
| publishDate | 2002-11-01 |
| publisher | BMC |
| record_format | Article |
| series | BMC Bioinformatics |
| spelling | doaj.art-a61893f17fd04d2182fbceee5cada8c22022-12-22T03:10:01ZengBMCBMC Bioinformatics1471-21052002-11-01313410.1186/1471-2105-3-34Automated modelling of signal transduction networksAach JohnPetti AllegraSteffen MartinD'haeseleer PatrikChurch George<p>Abstract</p> <p>Background</p> <p>Intracellular signal transduction is achieved by networks of proteins and small molecules that transmit information from the cell surface to the nucleus, where they ultimately effect transcriptional changes. Understanding the mechanisms cells use to accomplish this important process requires a detailed molecular description of the networks involved.</p> <p>Results</p> <p>We have developed a computational approach for generating static models of signal transduction networks which utilizes protein-interaction maps generated from large-scale two-hybrid screens and expression profiles from DNA microarrays. Networks are determined entirely by integrating protein-protein interaction data with microarray expression data, without prior knowledge of any pathway intermediates. In effect, this is equivalent to extracting subnetworks of the protein interaction dataset whose members have the most correlated expression profiles.</p> <p>Conclusion</p> <p>We show that our technique accurately reconstructs MAP Kinase signaling networks in <it>Saccharomyces cerevisiae</it>. This approach should enhance our ability to model signaling networks and to discover new components of known networks. More generally, it provides a method for synthesizing molecular data, either individual transcript abundance measurements or pairwise protein interactions, into higher level structures, such as pathways and networks.</p>http://www.biomedcentral.com/1471-2105/3/34 |
| spellingShingle | Aach John Petti Allegra Steffen Martin D'haeseleer Patrik Church George Automated modelling of signal transduction networks BMC Bioinformatics |
| title | Automated modelling of signal transduction networks |
| title_full | Automated modelling of signal transduction networks |
| title_fullStr | Automated modelling of signal transduction networks |
| title_full_unstemmed | Automated modelling of signal transduction networks |
| title_short | Automated modelling of signal transduction networks |
| title_sort | automated modelling of signal transduction networks |
| url | http://www.biomedcentral.com/1471-2105/3/34 |
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