Ali Cakmak

Publications

Cicek, A., Qi, X., Cakmak, A., Johnson, S., Zhan, X., Alshalwi, S., Ozsoyoglu, Z. M., & Ozsoyoglu, T. M. (2014). An Online System for Metabolic Network Analysis. DATABASE journal, Oxford Press.
Coskun, M., Qi, X., Cakmak, A., Cheng, R., Cicek, A., Yang, L., Jadeja, R., Dash, R., Lai, N., Ozsoyoglu, T., & Ozsoyoglu, Z. M. (2012). PathCase-SB: integrating data sources and providing tools for systems biology research.. BMC systems biology, 6 (1), 67.
Coskun, S., Qi, X., Cakmak, A., Cheng, E., Cicek, A., Yang, L., Jajeda, R., Dash, R., Lai, N., Ozsoyoglu, T., & Ozsoyoglu, Z. M. (2012). PathCase-SB: integrating data sources and providing tools for systems biology research.. BMC Systems Biology Journal, 6 (67).
Cakmak, A., Qi, X., Cicek, A., Bederman, I., Henderson, L., Drumm, M., & Ozsoyoglu, T. (2012). A New Metabolomics Analysis Technique: Steady-State metabolic network Dynamics Analysis. Journal of Bioinformatics and Computational Biology, 10 (2).
Cakmak, A., Qi, X., Coskun, M., Dashiell, M., Cheng, R., Cicek, A., Lai, N., Ozsoyoglu, T., & Ozsoyoglu, Z. M. (2011). PathCase-SB architecture and database design.. BMC systems biology, 5 , 188.
Cakmak, A., Qi, X., Coskun, S., Das, M., Cheng, E., Cicek, A., Lai, N., Ozsoyoglu, T., & Ozsoyoglu, Z. M. (2011). PathCase-SB Architecture and Database Design. BMC Systems Biology Journal, 5 (9).
Cakmak, A., Hanson, R., & Ozsoyoglu, T. (2010). Querying Metabolism under Different Physiological Conditions. Journal of Bioinformatics and Computational Biology, 8 (2).
Cakmak, A., Dsouza, A., Hanson, R., Ozsoyoglu, Z., & Ozsoyoglu, T. (2009). Analyzing metabolomics data for automated prediction of underlying biological mechanisms. BMC Bioinformatics (Submitted).
Elliott, B., Kirac, M., Cakmak, A., Yavas, G., Mayes, S., Cheng, E., Wang, Y., Gupta, C., Ozsoyoglu, T., & Ozsoyoglu, Z. M. (2009). Corrigendum for Elliott, B. et al.,‘PathCase pathways database system’, Bioinformatics, Nov. 2008, 24 (21), pp. 2526–2533.. Bioinformatics, 25 (20).
Elliott, B., Kirac, M., Cakmak, A., Yavas, G., Mayes, S., Cheng, E., Wang, Y., Gupta, C., Ozsoyoglu, T., & Ozsoyoglu, Z. M. (2008). PathCase: pathways database system. Bioinformatics, 24 (21), 2526–2533.