Bounded-Wait Merge in Shapiro's Concurrent Prolog. - Anthony J. Kusalik (New Gener. Comput., 1984)

Serialization of Process Reduction in Concurrent Prolog. - Anthony J. Kusalik (New Gener. Comput., 1984)

A Logical Treatment of Secondary Storage. - Ian T. Foster; Anthony J. Kusalik (SLP, 1986)

Specification and Initialization of a Logic Computer System. - Anthony J. Kusalik (New Gener. Comput., 1986)

Improving First-Class Array Expressions Using Prolog. - Carl McCrosky; Anthony J. Kusalik (ICLP/SLP, 1988)

Secondary storage in a concurrent logic programming environment. - Anthony J. Kusalik (J. Syst. Softw., 1990)

Towards Generalized Visualization Support for Logic Programming. - Anthony J. Kusalik; Gregory M. Oster (ICLP, 1993)

A Constraint-Based Declarative Display Description Language for Visualization. - Anthony J. Kusalik; Gregory M. Oster (LPE, 1993)

Programmer-Oriented Visualization of Parallel Logic Program Execution. - Anthony J. Kusalik; Steven D. Prestwich (LPE, 1993)

High-Level Visualisation of Parallel Logic Program Execution. - Steven D. Prestwich; Anthony J. Kusalik (PARLE, 1994)

Colour Tagging for Prolog Visualization (Poster Abstract). - Michael Dobrohoczki; Anthony J. Kusalik; Eric Neufeld (JICSLP, 1996)

Visualizing Parallel Logic Program Execution for Performance Tuning. - Anthony J. Kusalik; Steven D. Prestwich (JICSLP, 1996)

Visual Metaphors fro Understanding Logic Program Execution. - Eric Neufeld; Anthony J. Kusalik; Michael Dobrohoczki (Graphics Interface, 1997)

Resolving Color Conflicts During Color Unification. - Anthony J. Kusalik; Eric Neufeld (LPE, 1997)

Application of a Multi-Structure Neural Network (MSNN) to Sorting Pistachio Nuts. - Ahmad Ghazanfari; Anthony J. Kusalik; Joseph Irudayaraj (Int. J. Neural Syst., 1997)

Icola - Incremental Constraint-Based Graphics for Visualization. - Gregory M. Oster; Anthony J. Kusalik (Constraints An Int. J., 1998)

An Implementation Architecture for Orthogonally Persistent Deductive Object-Oriented Database Systems. - Mohammad Ashrafuzzaman; Anthony J. Kusalik (IDEAS, 1999)

Preface. - Mireille Ducassé; Anthony J. Kusalik; Germán Puebla (WLPE@ICLP, 1999)

Area-Efficient VLSI Layouts for Binary Hypercubes. - Alpesh Patel; Anthony J. Kusalik; Carl McCrosky (IEEE Trans. Computers, 2000)

Proceedings of the Eleventh Workshop on Logic Programming Environments (WLPE'01) - Anthony J. Kusalik (CoRR, 2001)

A Genetic K-means Clustering Algorithm Applied to Gene Expression Data. - Fang-Xiang Wu; Wen-Jun Zhang 005; Anthony J. Kusalik (AI, 2003)

An Algorithm to Reconstruct a Target DNA Sequence from Its Spectrum Connected at a Given Level. - Fang-Xiang Wu; Wen-Jun Zhang 005; Anthony J. Kusalik (BIBE, 2003)

Determination of the Minimum Sample Size in Microarray Experiments to Cluster Genes Using K-means Clustering. - Fang-Xiang Wu; Wen-Jun Zhang 005; Anthony J. Kusalik (BIBE, 2003)

Model-Based Clustering with Genes Expression Dynamics for Time-Course Gene Expression Data. - Fang-Xiang Wu; Wen-Jun Zhang 005; Anthony J. Kusalik (BIBE, 2004)

A. Genetic Algorithm for Inferring Time Delays in Gene Regulatory Networks. - Fang-Xiang Wu; Anthony J. Kusalik; Wen-Jun Zhang 005 (CSB, 2004)

State-Space Model for Gene Regulatory Networks with Time Delays. - Fang-Xiang Wu; Wen-Jun Zhang 005; Anthony J. Kusalik (CSB, 2004)

Modeling Gene Expression from Microarray Expression Data with State-Space Equations. - Fang-Xiang Wu; Wen-Jun Zhang 005; Anthony J. Kusalik (Pacific Symposium on Biocomputing, 2004)

Genetic Weighted K-means for Large-Scale Clustering Problems. - Fang-Xiang Wu; Anthony J. Kusalik; Wen-Jun Zhang 005 (FLAIRS, 2005)

Dynamic Model-based Clustering for Time-course Gene Expression Data. - Fang-Xiang Wu; Wen-Jun Zhang 005; Anthony J. Kusalik (J. Bioinform. Comput. Biol., 2005)

On Determination of Minimum Sample Size for Discovery of Temporal Gene Expression Patterns. - Fang-Xiang Wu; Wen-Jun Zhang 005; Anthony J. Kusalik (IMSCCS (1), 2006)

Determination of the minimum number of microarray experiments for discovery of gene expression patterns. - Fang-Xiang Wu; Wen-Jun Zhang 005; Anthony J. Kusalik (BMC Bioinform., 2006)

Optimally-connected Hidden Markov Models for Predicting Mhc-binding Peptides. - Chenhong Zhang; Mikelis G. Bickis; Fang-Xiang Wu; Anthony J. Kusalik (J. Bioinform. Comput. Biol., 2006)

Using a State-Space Model and Location Analysis to Infer Time-Delayed Regulatory Networks. - Chushin Koh; Fang-Xiang Wu; Gopalan Selvaraj; Anthony J. Kusalik (EURASIP J. Bioinform. Syst. Biol., 2009)

The oligodeoxynucleotide sequences corresponding to never-expressed peptide motifs are mainly located in the non-coding strand. - Giovanni Capone; Giuseppe Novello; Candida Fasano; Brett Trost; Mikelis G. Bickis; Anthony J. Kusalik; Darja Kanduc (BMC Bioinform., 2010)

Computational prediction of eukaryotic phosphorylation sites. - Brett Trost; Anthony J. Kusalik (Bioinform., 2011)

A multi-edge graph based de novo peptide sequencing method for HCD spectra. - Yan Yan 029; Anthony J. Kusalik; Fang-Xiang Wu (BIBM, 2013)

DAPPLE: a pipeline for the homology-based prediction of phosphorylation sites. - Brett Trost; Ryan Arsenault; Philip J. Griebel; Scott Napper; Anthony J. Kusalik (Bioinform., 2013)

Computational phosphorylation site prediction in plants using random forests and organism-specific instance weights. - Brett Trost; Anthony J. Kusalik (Bioinform., 2013)

The UniFrac significance test generates different outputs given semantically equivalent inputs. - Jeffrey R. Long; Qingxiang Yan; Brett Trost; Anthony J. Kusalik (BCB, 2014)

NovoPair: De novo peptide sequencing for tandem mass spectra pair. - Yan Yan 029; Anthony J. Kusalik; Fang-Xiang Wu (BIBM, 2014)

NovoGMET: De Novo Peptide Sequencing Using Graphs with Multiple Edge Types (GMET) for ETD/ECD Spectra. - Yan Yan 029; Anthony J. Kusalik; Fang-Xiang Wu (ISBRA, 2014)

A better sequence-read simulator program for metagenomics. - Stephen Johnson; Brett Trost; Jeffrey R. Long; Vanessa Pittet; Anthony J. Kusalik (BMC Bioinform., 2014)

Equivalent input produces different output in the UniFrac significance test. - Jeffrey R. Long; Vanessa Pittet; Brett Trost; Qingxiang Yan; David Vickers; Monique Haakensen; Anthony J. Kusalik (BMC Bioinform., 2014)

Case study: using sequence homology to identify putative phosphorylation sites in an evolutionarily distant species (honeybee). - Brett Trost; Scott Napper; Anthony J. Kusalik (Briefings Bioinform., 2015)

NovoExD: De novo Peptide Sequencing for ETD/ECD Spectra. - Yan Yan 029; Anthony J. Kusalik; Fang-Xiang Wu (IEEE ACM Trans. Comput. Biol. Bioinform., 2017)

Sample Size and Reproducibility of Gene Set Analysis. - Farhad Maleki; Katie L. Ovens; Ian McQuillan; Anthony J. Kusalik (BIBM, 2018)

Comparing Four Genome-Wide Association Study (GWAS) Programs with Varied Input Data Quantity. - Yan Yan 029; Connor Burbridge; Jin-Hong Shi; Juxin Liu; Anthony J. Kusalik (BIBM, 2018)

Gene Set Databases: A Fountain of Knowledge or a Siren Call? - Farhad Maleki; Katie L. Ovens; Ian McQuillan; Elham Rezaei; Alan M. Rosenberg; Anthony J. Kusalik (BCB, 2019)

Gene Set Overlap: An Impediment to Achieving High Specificity in Over-representation Analysis. - Farhad Maleki; Anthony J. Kusalik (BIOINFORMATICS, 2019)

Method Choice in Gene Set Analysis Has Important Consequences for Analysis Outcome. - Farhad Maleki; Katie L. Ovens; Elham Rezaei; Alan M. Rosenberg; Anthony J. Kusalik (BIOINFORMATICS, 2019)

Antimicrobial resistance genetic factor identification from whole-genome sequence data using deep feature selection. - Jin-Hong Shi; Yan Yan 029; Matthew G. Links; Longhai Li; Jo-Anne R. Dillon; Michael Horsch; Anthony J. Kusalik (BMC Bioinform., 2019)

Effects of input data quantity on genome-wide association studies (GWAS). - Yan Yan 029; Connor Burbridge; Jin-Hong Shi; Juxin Liu; Anthony J. Kusalik (Int. J. Data Min. Bioinform., 2019)

Measuring consistency among gene set analysis methods: A systematic study. - Farhad Maleki; Katie L. Ovens; Daniel J. Hogan; Elham Rezaei; Alan M. Rosenberg; Anthony J. Kusalik (J. Bioinform. Comput. Biol., 2019)

MDIPA: a microRNA-drug interaction prediction approach based on non-negative matrix factorization. - Ali Akbar Jamali; Anthony J. Kusalik; Fang-Xiang Wu (Bioinform., 2020)

EPIphany - A Platform for Analysis and Visualization of Peptide Immunoarray Data. - Zoe Parker Cates; Antonio Facciuolo; Daniel J. Hogan; Philip J. Griebel; Scott Napper; Anthony J. Kusalik (Frontiers Bioinform., 2021)

NMTF-DTI: A Nonnegative Matrix Tri-factorization Approach With Multiple Kernel Fusion for Drug-Target Interaction Prediction. - Ali Akbar Jamali; Anthony J. Kusalik; Fang-Xiang Wu (IEEE ACM Trans. Comput. Biol. Bioinform., 2023)

Discovering Knowledge Embedded in Gene Set Databases: A Mathematical Modelling Approach. - Katie L. Ovens; Ebunoluwa Makinde; Samuel Horovatin; Elham Rezaei; Alan M. Rosenberg; Lingling Jin; Ian McQuillan; Anthony J. Kusalik; Farhad Maleki (ICCBB, 2024)