A knowledge based approach for representing and reasoning about signaling networks Export

@article{Bar_etal04, abstract = {MOTIVATION: In this paper we propose to use recent developments in knowledge representation languages and reasoning methodologies for representing and reasoning about signaling networks. Our approach is different from most other qualitative systems biology approaches in that it is based on reasoning (or inferencing) rather than simulation. Some of the advantages of our approach are, we can use recent advances in reasoning with incomplete and partial information to deal with gaps in signal network knowledge; and can perform various kinds of reasoning such as planning, hypothetical reasoning and explaining observations. RESULTS: Using our approach we have developed the system BioSigNet-RR for representation and reasoning about signaling networks. We use a NFkappaB related signaling pathway to illustrate the kinds of reasoning and representation that our system can currently do. AVAILABILITY: The system is available on the Web at http://www.public.asu.edu/\~{}cbaral/biosignet}, author = {Baral, C. and Chancellor, K. and Tran, N. and Tran, N. L. and Joy, A. and Berens, M.}, citeulike-article-id = {1700360}, citeulike-linkout-0 = {http://dx.doi.org/10.1093/bioinformatics/bth918}, doi = {10.1093/bioinformatics/bth918}, journal = {Bioinformatics}, keywords = {15262776}, month = {Aug}, pages = {I15--I22}, pdf = {Bar\_etal04.pdf}, posted-at = {2007-09-27 15:19:33}, priority = {2}, title = {A knowledge based approach for representing and reasoning about signaling networks}, url = {10.1093/bioinformatics/bth918}, volume = {20 Suppl 1}, year = {2004} }

TY - JOUR ID - Bar_etal04 L3 - citeulike-article-id:1700360 N2 - MOTIVATION: In this paper we propose to use recent developments in knowledge representation languages and reasoning methodologies for representing and reasoning about signaling networks. Our approach is different from most other qualitative systems biology approaches in that it is based on reasoning (or inferencing) rather than simulation. Some of the advantages of our approach are, we can use recent advances in reasoning with incomplete and partial information to deal with gaps in signal network knowledge; and can perform various kinds of reasoning such as planning, hypothetical reasoning and explaining observations. RESULTS: Using our approach we have developed the system BioSigNet-RR for representation and reasoning about signaling networks. We use a NFkappaB related signaling pathway to illustrate the kinds of reasoning and representation that our system can currently do. AVAILABILITY: The system is available on the Web at http://www.public.asu.edu/~cbaral/biosignet JF - Bioinformatics EP - I22 TI - A knowledge based approach for representing and reasoning about signaling networks VL - 20 Suppl 1 SP - I15 KW - 15262776 AU - Baral, C AU - Chancellor, K AU - Tran, N AU - Tran, NL AU - Joy, A AU - Berens, M PY - 2004/Aug// UR - http://dx.doi.org/10.1093/bioinformatics/bth918 ER -