LinkinPath: from sequence to interconnected pathway.

Bioinformatics 2011 Jul 2;27(14):2015-7. Epub 2011 Jun 2.

Information Systems Laboratory, Bioresources Technology Unit, National Center for Genetic Engineering and Biotechnology, Klong Luang, Pathumthani 12120, Thailand.

Summary: LinkinPath is a pathway mapping and analysis tool that enables users to explore and visualize the list of gene/protein sequences through various Flash-driven interactive web interfaces including KEGG pathway maps, functional composition maps (TreeMaps), molecular interaction/reaction networks and pathway-to-pathway networks. Users can submit single or multiple datasets of gene/protein sequences to LinkinPath to (i) determine the co-occurrence and co-absence of genes/proteins on animated KEGG pathway maps; (ii) compare functional compositions within and among the datasets using TreeMaps; (iii) analyze the statistically enriched pathways across the datasets; (iv) build the pathway-to-pathway networks for each dataset; (v) explore potential interaction/reaction paths between pathways; and (vi) identify common pathway-to-pathway networks across the datasets.

Availability: LinkinPath is freely available to all interested users at http://www.biotec.or.th/isl/linkinpath/.

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Source
http://dx.doi.org/10.1093/bioinformatics/btr328DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3129532PMC
July 2011
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