Book Chapters

General help on programming, in particular the development of enterprise systems for the life sciences, can be found in:
Boyle J. (2008). "Programming Languages" in Edwards D, Hansen D and Stajich J (Eds), Bioinformatics Tools and Applications, Springer (forthcoming).

General information on Cytoscape, and how to contribute, can be found in:
Killcoyne S, Carter G, Smith J, Boyle J (2008). "Cytoscape: A community based framework for network modeling" Methods in Molecular Biology (forthcoming)

Journal Articles

S. Killcoyne, J. Boyle "Managing Chaos: Lessons Learned Developing Software in the Life Sciences, Bridging the Cultural Divide Between Software Engineers and Scientists", Computing in Science and Engineering. Vol. 11, No. 6, pp. 20-29, 2009.

J. Boyle, H. Rovira, C. Cavnor, D. Burdick, S. Killcoyne, I. Shmulevich, "Adaptable Data Management for Systems Biology Investigations", BMC Bioinformatics Vol. 10, No. 79, 2009.

J. Boyle, C. Cavnor, S. Killcoyne, I. Shmulevich, "Systems biology driven software design for the research enterprise", BMC Bioinformatics, Vol. 9, No. 295, 2008.