ArticleBMC bioinformatics2002
Automated modelling of signal transduction networks.
Article in BMC bioinformatics, 2002. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 86 papers.
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Who cites it
86 citing papers in PubMed, 230 citations in OpenAlex.
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- Gene-Based Network Analysis Reveals Prognostic Biomarkers Implicated in Diabetic Tubulointerstitial Injury.Disease markers · 2022Article
- StrongestPath: a Cytoscape application for protein-protein interaction analysis.BMC bioinformatics · 2021Article
- Identifying intracellular signaling modules and exploring pathways associated with breast cancer recurrence.Scientific reports · 2021Article
- Floral transcriptomes reveal gene networks in pineapple floral growth and fruit development.Communications biology · 2020Article
- Connecting signaling and metabolic pathways in EGF receptor-mediated oncogenesis of glioblastoma.PLoS computational biology · 2019Article
- Reconstructing signaling pathways using regular language constrained paths.Bioinformatics (Oxford, England) · 2019Article
- Stems cells, big data and compendium-based analyses for identifying cell types, signalling pathways and gene regulatory networks.Biophysical reviews · 2019Review
- Serine/threonine kinase 32C is overexpressed in bladder cancer and contributes to tumor progression.Cancer biology & therapy · 2019Article
- Elucidating synergistic dependencies in lung adenocarcinoma by proteome-wide signaling-network analysis.PloS one · 2019Article
- Identification of active signaling pathways by integrating gene expression and protein interaction data.BMC systems biology · 2018Article
- Integration of protein phosphorylation, acetylation, and methylation data sets to outline lung cancer signaling networks.Science signaling · 2018Article
- A novel method of using Deep Belief Networks and genetic perturbation data to search for yeast signaling pathways.PloS one · 2018Article
- Using scale and feather traits for module construction provides a functional approach to chicken epidermal development.Functional & integrative genomics · 2017Article
- Bayesian network model for identification of pathways by integrating protein interaction with genetic interaction data.BMC systems biology · 2017Article
- A composite network of conserved and tissue specific gene interactions reveals possible genetic interactions in glioma.PLoS computational biology · 2017Article
- The PathLinker app: Connect the dots in protein interaction networks.F1000Research · 2017Article
- CyTRANSFINDER: a Cytoscape 3.3 plugin for three-component (TF, gene, miRNA) signal transduction pathway construction.BMC bioinformatics · 2016Article
26 more citing papers are in PubMed but not listed here.
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
5 authors at 2 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundIntracellular 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.
resultsWe 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.
conclusionWe show that our technique accurately reconstructs MAP Kinase signaling networks in Saccharomyces cerevisiae. 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.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.