{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,2,17]],"date-time":"2026-02-17T02:19:57Z","timestamp":1771294797213,"version":"3.50.1"},"reference-count":13,"publisher":"Oxford University Press (OUP)","issue":"21","content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2009,11,1]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:p>Summary: We have developed PathBuilder, an open-source web application to annotate biological information pertaining to signaling pathways and to create web-based pathway resources. PathBuilder enables annotation of molecular events including protein\u2013protein interactions, enzyme\u2013substrate relationships and protein translocation events either manually or through automated importing of data from other databases. Salient features of PathBuilder include automatic validation of data formats, built-in modules for visualization of pathways, automated import of data from other pathway resources, export of data in several standard data exchange formats and an application programming interface for retrieving existing pathway datasets.<\/jats:p>\n               <jats:p>Availability: PathBuilder is freely available for download at http:\/\/pathbuilder.sourceforge.net\/ under the terms of GNU lesser general public license (LGPL: http:\/\/www.gnu.org\/copyleft\/lesser.html). The software is platform independent and has been tested on Windows and Linux platforms.<\/jats:p>\n               <jats:p>Contact: \u00a0pandey@jhmi.edu<\/jats:p>\n               <jats:p>Supplementary information: \u00a0Supplementary data are available at Bioinformatics online.<\/jats:p>","DOI":"10.1093\/bioinformatics\/btp453","type":"journal-article","created":{"date-parts":[[2009,7,24]],"date-time":"2009-07-24T00:55:41Z","timestamp":1248396941000},"page":"2860-2862","source":"Crossref","is-referenced-by-count":43,"title":["PathBuilder\u2014open source software for annotating and developing pathway resources"],"prefix":"10.1093","volume":"25","author":[{"given":"Kumaran","family":"Kandasamy","sequence":"first","affiliation":[{"name":"1 Institute of Bioinformatics, International Tech Park, Bangalore 560066, 2 Department of Biotechnology and Bioinformatics, Kuvempu University, Shankarghatta, Karnataka, India, 3 McKusick-Nathans Institute of Genetic Medicine and the Departments of Biological Chemistry, Pathology and Oncology, Johns Hopkins University, Baltimore, Maryland 21205, USA and 4 Research Unit for Immunoinformatics, Research Center for Allergy and Immunology, RIKEN Yokohama Institute, Kanagawa, Japan 230-0045"},{"name":"1 Institute of Bioinformatics, International Tech Park, Bangalore 560066, 2 Department of Biotechnology and Bioinformatics, Kuvempu University, Shankarghatta, Karnataka, India, 3 McKusick-Nathans Institute of Genetic Medicine and the Departments of Biological Chemistry, Pathology and Oncology, Johns Hopkins University, Baltimore, Maryland 21205, USA and 4 Research Unit for Immunoinformatics, Research Center for Allergy and Immunology, RIKEN Yokohama Institute, Kanagawa, Japan 230-0045"},{"name":"1 Institute of Bioinformatics, International Tech Park, Bangalore 560066, 2 Department of Biotechnology and Bioinformatics, Kuvempu University, Shankarghatta, Karnataka, India, 3 McKusick-Nathans Institute of Genetic Medicine and the Departments of Biological Chemistry, Pathology and Oncology, Johns Hopkins University, Baltimore, Maryland 21205, USA and 4 Research Unit for Immunoinformatics, Research Center for Allergy and Immunology, RIKEN Yokohama Institute, Kanagawa, Japan 230-0045"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Shivakumar","family":"Keerthikumar","sequence":"additional","affiliation":[{"name":"1 Institute of Bioinformatics, International Tech Park, Bangalore 560066, 2 Department of Biotechnology and Bioinformatics, Kuvempu University, Shankarghatta, Karnataka, India, 3 McKusick-Nathans Institute of Genetic Medicine and the Departments of Biological Chemistry, Pathology and Oncology, Johns Hopkins University, Baltimore, Maryland 21205, USA and 4 Research Unit for Immunoinformatics, Research Center for Allergy and Immunology, RIKEN Yokohama Institute, Kanagawa, Japan 230-0045"},{"name":"1 Institute of Bioinformatics, International Tech Park, Bangalore 560066, 2 Department of Biotechnology and Bioinformatics, Kuvempu University, Shankarghatta, Karnataka, India, 3 McKusick-Nathans Institute of Genetic Medicine and the Departments of Biological Chemistry, Pathology and Oncology, Johns Hopkins University, Baltimore, Maryland 21205, USA and 4 Research Unit for Immunoinformatics, Research Center for Allergy and Immunology, RIKEN Yokohama Institute, Kanagawa, Japan 230-0045"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Rajesh","family":"Raju","sequence":"additional","affiliation":[{"name":"1 Institute of Bioinformatics, International Tech Park, Bangalore 560066, 2 Department of Biotechnology and Bioinformatics, Kuvempu University, Shankarghatta, Karnataka, India, 3 McKusick-Nathans Institute of Genetic Medicine and the Departments of Biological Chemistry, Pathology and Oncology, Johns Hopkins University, Baltimore, Maryland 21205, USA and 4 Research Unit for Immunoinformatics, Research Center for Allergy and Immunology, RIKEN Yokohama Institute, Kanagawa, Japan 230-0045"},{"name":"1 Institute of Bioinformatics, International Tech Park, Bangalore 560066, 2 Department of Biotechnology and Bioinformatics, Kuvempu University, Shankarghatta, Karnataka, India, 3 McKusick-Nathans Institute of Genetic Medicine and the Departments of Biological Chemistry, Pathology and Oncology, Johns Hopkins University, Baltimore, Maryland 21205, USA and 4 Research Unit for Immunoinformatics, Research Center for Allergy and Immunology, RIKEN Yokohama Institute, Kanagawa, Japan 230-0045"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"T. S.","family":"Keshava Prasad","sequence":"additional","affiliation":[{"name":"1 Institute of Bioinformatics, International Tech Park, Bangalore 560066, 2 Department of Biotechnology and Bioinformatics, Kuvempu University, Shankarghatta, Karnataka, India, 3 McKusick-Nathans Institute of Genetic Medicine and the Departments of Biological Chemistry, Pathology and Oncology, Johns Hopkins University, Baltimore, Maryland 21205, USA and 4 Research Unit for Immunoinformatics, Research Center for Allergy and Immunology, RIKEN Yokohama Institute, Kanagawa, Japan 230-0045"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Y. L.","family":"Ramachandra","sequence":"additional","affiliation":[{"name":"1 Institute of Bioinformatics, International Tech Park, Bangalore 560066, 2 Department of Biotechnology and Bioinformatics, Kuvempu University, Shankarghatta, Karnataka, India, 3 McKusick-Nathans Institute of Genetic Medicine and the Departments of Biological Chemistry, Pathology and Oncology, Johns Hopkins University, Baltimore, Maryland 21205, USA and 4 Research Unit for Immunoinformatics, Research Center for Allergy and Immunology, RIKEN Yokohama Institute, Kanagawa, Japan 230-0045"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Sujatha","family":"Mohan","sequence":"additional","affiliation":[{"name":"1 Institute of Bioinformatics, International Tech Park, Bangalore 560066, 2 Department of Biotechnology and Bioinformatics, Kuvempu University, Shankarghatta, Karnataka, India, 3 McKusick-Nathans Institute of Genetic Medicine and the Departments of Biological Chemistry, Pathology and Oncology, Johns Hopkins University, Baltimore, Maryland 21205, USA and 4 Research Unit for Immunoinformatics, Research Center for Allergy and Immunology, RIKEN Yokohama Institute, Kanagawa, Japan 230-0045"},{"name":"1 Institute of Bioinformatics, International Tech Park, Bangalore 560066, 2 Department of Biotechnology and Bioinformatics, Kuvempu University, Shankarghatta, Karnataka, India, 3 McKusick-Nathans Institute of Genetic Medicine and the Departments of Biological Chemistry, Pathology and Oncology, Johns Hopkins University, Baltimore, Maryland 21205, USA and 4 Research Unit for Immunoinformatics, Research Center for Allergy and Immunology, RIKEN Yokohama Institute, Kanagawa, Japan 230-0045"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Akhilesh","family":"Pandey","sequence":"additional","affiliation":[{"name":"1 Institute of Bioinformatics, International Tech Park, Bangalore 560066, 2 Department of Biotechnology and Bioinformatics, Kuvempu University, Shankarghatta, Karnataka, India, 3 McKusick-Nathans Institute of Genetic Medicine and the Departments of Biological Chemistry, Pathology and Oncology, Johns Hopkins University, Baltimore, Maryland 21205, USA and 4 Research Unit for Immunoinformatics, Research Center for Allergy and Immunology, RIKEN Yokohama Institute, Kanagawa, Japan 230-0045"}],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"286","published-online":{"date-parts":[[2009,7,23]]},"reference":[{"key":"2023013112191557800_B1","doi-asserted-by":"crossref","first-page":"D504","DOI":"10.1093\/nar\/gkj126","article-title":"Pathguide: a pathway resource list","volume":"34","author":"Bader","year":"2006","journal-title":"Nucleic Acids Res."},{"key":"2023013112191557800_B2","first-page":"47","article-title":"Pajek - program for large network analysis","volume":"2","author":"Batagelj","year":"1998","journal-title":"Connections"},{"key":"2023013112191557800_B3","doi-asserted-by":"crossref","first-page":"R22","DOI":"10.1186\/gb-2003-4-3-r22","article-title":"Osprey: a network visualization system","volume":"4","author":"Breitkreutz","year":"2003","journal-title":"Genome Biol."},{"key":"2023013112191557800_B4","doi-asserted-by":"crossref","first-page":"497","DOI":"10.1186\/1471-2105-7-497","article-title":"cPath: open source software for collecting, storing, and querying biological pathways","volume":"7","author":"Cerami","year":"2006","journal-title":"BMC Bioinformatics"},{"key":"2023013112191557800_B5","doi-asserted-by":"crossref","first-page":"19","DOI":"10.1038\/ng0502-19","article-title":"GenMAPP, a new tool for viewing and analyzing microarray data on biological pathways","volume":"31","author":"Dahlquist","year":"2002","journal-title":"Nat. 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