WordSeeker: concurrent bioinformatics software for discovering genome-wide patterns and word-based genomic signatures. - Jens Lichtenberg; Kyle Kurz; Xiaoyu Liang; Rami Al-ouran; Lev Neiman; Lee J. Nau; Joshua D. Welch; Edwin Jacox; Thomas Bitterman; Klaus Ecker; Laura Elnitski; Frank Drews; et al. (BMC Bioinform., 2010)

Applying software product line engineering in building web portals for supercomputing services. - Piyush Diwan; Patricia Carey; Eric Franz; Yixue Li; Thomas Bitterman; David E. Hudak; Rajiv Ramnath (SAC, 2013)

OSC OnDemand: a web platform integrating access to HPC systems, web and VNC applications. - David E. Hudak; Thomas Bitterman; Patricia Carey; Douglas Johnson; Eric Franz; Shaun Brady; Piyush Diwan (XSEDE, 2013)

Simulation as a service (SMaaS): a cloud-based framework to support the educational use of scientific software. - Thomas Bitterman; Prasad Calyam; Alex Berryman; David E. Hudak; Lin Li; Alan Chalker; Steve Gordon; Da Zhang; Da Cai; Changpil Lee; Rajiv Ramnath (Int. J. Cloud Comput., 2014)