PINT: Pathways integration tool

Y. T. Wang, Y. H. Huang, Y. C. Chen, C. L. Hsu, U. C. Yang*

*Corresponding author for this work

Research output: Contribution to journalArticlepeer-review

7 Scopus citations


New pathway databases generally display pathways by retrieving information from a database dynamically. Some of them even provide their pathways in SBML or other exchangeable formats. Integrating these models is a challenging work, because these models were not built in the same way. Pathways integration Tool (PINT) may integrate the standard SBML files. Since these files may be obtained from different sources, any inconsistency in component names can be revised by using an annotation editor upon uploading a pathway model. This integration function greatly simplifies the building of a complex model from small models. To get new users started, about 190 curated public models of human pathways were collected by PINT. Relevant models can be selected and sent to the workbench by using a user-friendly query interface, which also accepts a gene list derived from high-throughput experiments. The models on the workbench, from either a public or a private source, can be integrated and painted. The painting function is useful for highlighting important genes or even their expression level on a merged pathway diagram, so that the biological significance can be revealed. This tool is freely available at

Original languageEnglish
Article numbergkq499
Pages (from-to)W124-W131
JournalNucleic acids research
Issue numberSUPPL. 2
StatePublished - 10 Jun 2010


Dive into the research topics of 'PINT: Pathways integration tool'. Together they form a unique fingerprint.

Cite this