A Dynamic Numerical Method for Models of the Urine Concentrating Mechanism. - Harold E. Layton; E. Bruce Pitman; Mark A. Knepper (SIAM J. Appl. Math., 1995)

Mining Temporal Patterns from iTRAQ Mass Spectrometry(LC-MS/MS) Data. - Fahad Saeed; Trairak Pisitkun; Mark A. Knepper; Jason D. Hoffert (BICoB, 2011)

High performance phosphorylation site assignment algorithm for mass spectrometry data using multicore systems. - Fahad Saeed; Jason D. Hoffert; Trairak Pisitkun; Mark A. Knepper (BCB, 2012)

An efficient dynamic programming algorithm for phosphorylation site assignment of large-scale mass spectrometry data. - Fahad Saeed; Trairak Pisitkun; Jason D. Hoffert; Guanghui Wang 015; Marjan Gucek; Mark A. Knepper (BIBM Workshops, 2012)

An efficient algorithm for clustering of large-scale mass spectrometry data. - Fahad Saeed; Trairak Pisitkun; Mark A. Knepper; Jason D. Hoffert (BIBM, 2012)

A high performance algorithm for clustering of large-scale protein mass spectrometry data using multi-core architectures. - Fahad Saeed; Jason D. Hoffert; Mark A. Knepper (ASONAM, 2013)

Exploiting thread-level and instruction-level parallelism to cluster mass spectrometry data using multicore architectures. - Fahad Saeed; Jason D. Hoffert; Trairak Pisitkun; Mark A. Knepper (Netw. Model. Anal. Health Informatics Bioinform., 2014)

CAMS-RS: Clustering Algorithm for Large-Scale Mass Spectrometry Data Using Restricted Search Space and Intelligent Random Sampling. - Fahad Saeed; Jason D. Hoffert; Mark A. Knepper (IEEE ACM Trans. Comput. Biol. Bioinform., 2014)

AbDesigner3D: a structure-guided tool for peptide-based antibody production. - Thammakorn Saethang; Kenneth Hodge; Ingorn Kimkong; D. Michael Payne; Mark A. Knepper; Trairak Pisitkun (Bioinform., 2018)

PTM-Logo: a program for generation of sequence logos based on position-specific background amino-acid probabilities. - Thammakorn Saethang; Kenneth Hodge; Chin-Rang Yang; Yue Zhao; Ingorn Kimkong; Mark A. Knepper; Trairak Pisitkun (Bioinform., 2019)