Parallel, scalable, memory-efficient backtracking for combinatoria modeling of large-scale biological systems. - Byung-Hoon Park; Matthew C. Schmidt; Kevin Thomas 002; Tatiana V. Karpinets; Nagiza F. Samatova (IPDPS, 2008)

An Algorithm for the Discovery of Phenotype Related Metabolic Pathways. - Matthew C. Schmidt; Nagiza F. Samatova (BIBM, 2009)

A Fast, Accurate Algorithm for Identifying Functional Modules Through Pairwise Local Alignment of Protein Interaction Networks. - Wenbin Chen 003; Matthew C. Schmidt; Wenhong Tian; Nagiza F. Samatova (BIOCOMP, 2009)

On perturbation theory and an algorithm for maximal clique enumeration in uncertain and noisy graphs. - William Hendrix; Matthew C. Schmidt; Paul Breimyer; Nagiza F. Samatova (KDD Workshop on Knowledge Discovery from Uncertain Data, 2009)

A scalable, parallel algorithm for maximal clique enumeration. - Matthew C. Schmidt; Nagiza F. Samatova; Kevin Thomas 002; Byung-Hoon Park (J. Parallel Distributed Comput., 2009)

On parameterized complexity of the Multi-MCS problem. - Wenbin Chen 003; Matthew C. Schmidt; Nagiza F. Samatova (Theor. Comput. Sci., 2009)

Multiple Alignment of Large Interaction Networks by Fast Identifying Maximal Conserved Patterns. - Wenhong Tian; Matthew C. Schmidt; Wenbin Chen 003; Nagiza F. Samatova (BIOCOMP, 2010)

The Multiple Alignment Algorithm for Metabolic Pathways without Abstraction. - Wenbin Chen 003; Andrea M. Rocha; William Hendrix; Matthew C. Schmidt; Nagiza F. Samatova (ICDM Workshops, 2010)

Theoretical underpinnings for maximal clique enumeration on perturbed graphs. - William Hendrix; Matthew C. Schmidt; Paul Breimyer; Nagiza F. Samatova (Theor. Comput. Sci., 2010)

Efficient alpha, beta-motif Finder for Identification of Phenotype-related Functional Modules. - Matthew C. Schmidt; Andrea M. Rocha; Kanchana Padmanabhan; Zhengzhang Chen; Kathleen Scott; James R. Mihelcic; Nagiza F. Samatova (BMC Bioinform., 2011)

On the parameterized complexity of the Multi-MCT and Multi-MCST problems. - Wenbin Chen 003; Matthew C. Schmidt; Nagiza F. Samatova (J. Comb. Optim., 2011)

Characterization of traffic and structure in the U.S. airport network. - Vineet Mehta; Feanil Patel; Yan Glina; Matthew C. Schmidt; Benjamin A. Miller; Nadya Travinin Bliss (CIDU, 2012)

A scalable signal processing architecture for massive graph analysis. - Benjamin A. Miller; Nicholas Arcolano; Michelle S. Beard; Jeremy Kepner; Matthew C. Schmidt; Nadya T. Bliss; Patrick J. Wolfe (ICASSP, 2012)

NIBBS-Search for Fast and Accurate Prediction of Phenotype-Biased Metabolic Systems. - Matthew C. Schmidt; Andrea M. Rocha; Kanchana Padmanabhan; Yekaterina Shpanskaya; Jillian F. Banfield; Kathleen Scott; James R. Mihelcic; Nagiza F. Samatova (PLoS Comput. Biol., 2012)

An efficient algorithm for pairwise local alignment of protein interaction networks. - Wenbin Chen 006; Matthew C. Schmidt; Wenhong Tian; Nagiza F. Samatova; Shaohong Zhang (J. Bioinform. Comput. Biol., 2015)

Model Selection Framework for Graph-based data. - Rajmonda Sulo Caceres; Leah Weiner; Matthew C. Schmidt; Benjamin A. Miller; William M. Campbell (CoRR, 2016)

Assessing AI-Enhanced Single-Sweep Approximations for Problems with Forward-Peaked Scattering in Slab Geometry. - Japan K. Patel; Matthew C. Schmidt; Anthony Magliari; Todd A. Wareing (CoRR, 2024)