Portal:NetPath
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Revision as of 21:37, 26 March 2008
NetPath at WikiPathways
Welcome to the NetPath Portal!
NetPath is an open access manually annotated resource of ligand-receptor mediated signal transduction pathways. It is developed as a collaborative effort between the the PandeyLab at Johns Hopkins University and the Institute of Bioinformatics. The initial 10 cancer signaling pathways were developed in collaboration with the Computational Biology Center at Memorial Sloan-Kettering Cancer Center and with Gary Bader's lab at the University of Toronto for the 'Cancer Cell Map'. Considering the importance of manually annotated signal transduction data, we have embarked on annotating pathways relevant to the immune system as well as other biomedically relevant ones which includes RANKL/RANK and Leptin. We have also come up with maps for the pathways present in NetPath. These maps, called NetSlim maps, were generated using high confidence reactions from NetPath. High confidence reactions in NetPath were identified using the NetSlim criteria.
The annotated pathways are freely available under an adaptive Creative Commons License. This license stipulates that the pathways may be used if adequate credit is given to the authors.
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Signaling pathways are rarely brought about by isolated reactions but rather by a cascade of events that can involve multiple subcellular compartments. Often, signaling pathways are studied with a focus on the roles of isolated members which makes it difficult to generate a comprehensive view of the pathway as a whole. There are other efforts in the public domain, which are generally not very detailed. In order to address these issues, we initiated the NetPath project.
In case you are using our data, please cite the following references:
Kandasamy, K. and Mohan, S. S. et al. (2010) NetPath: A public resource of curated signal transduction pathways. Genome Biology. PubMed
Raju, R. et al. (2011) Netslim: High-confidence curated signaling maps. Database. PubMed
For the following pathways, please cite
Raju, R. et al. (2011). A comprehensive manually curated reaction map of RANKL/RANK signaling pathway. Database. PubMed
Nanjappa, V. et al. (2011). A comprehensive curated reaction map of leptin signaling pathway. Journal of Proteomics and Bioinformatics. PubMed
Telikicherla, D. et al. (2011). A comprehensive curated resource for Follicle Stimulating Hormone signaling. BMC Research Notes. PubMed
Goel, R. et al. (2011). A signaling network of thyroid-stimulating hormone. Journal of Proteomics and Bioinformatics. PubMed
Bhattacharjee, M. et al. (2012). A Bioinformatics Resource for TWEAK-Fn14 Signaling Pathway. Journal of Signal Transduction. In press.
Featured Pathway
TGF-beta signaling (Homo sapiens)
View all Featured Pathways for this Portal
Statistics
| Curated Pathways | 20 |
| Molecules Involved | 864 |
| Physical Interactions | 2169 |
| Genes Transcriptionally Regulated | 6218 |
| Transport | 197 |
| Enzyme Catalysis | 799 |
| PubMed Citations | 10608 |
