A Simple Parallel Tree Contraction Algorithm. - Karl R. Abrahamson; Norm Dadoun; David G. Kirkpatrick; Teresa M. Przytycka (J. Algorithms, 1989)

Parallel Construction of near Optimal binary Trees. - David G. Kirkpatrick; Teresa M. Przytycka (SPAA, 1990)

An optimal parallel minimax tree algorithm. - David G. Kirkpatrick; Teresa M. Przytycka (SPDP, 1990)

Parallel recognition of complement reducible graphs and cotree construction. - David G. Kirkpatrick; Teresa M. Przytycka (Discret. Appl. Math., 1990)

On a Lower Bound for Short Noncontractible Cycles in Embedded Graphs. - Teresa M. Przytycka; Józef H. Przytycki (SIAM J. Discret. Math., 1990)

Subexponentially computable truncations of Jones-types polynomials. - Teresa M. Przytycka; Józef H. Przytycki (Graph Structure Theory, 1991)

Surface triangulations without short noncontractible cycles. - Teresa M. Przytycka; Józef H. Przytycki (Graph Structure Theory, 1991)

Parallel Construction of Trees with Optimal Weighted Path Length. - Lawrence L. Larmore; Teresa M. Przytycka (SPAA, 1991)

Parallel Algorithms for Parity Graphs. - Teresa M. Przytycka; Derek G. Corneil (J. Algorithms, 1991)

Optimal Tree Ranking is in NC. - Pilar de la Torre; Raymond Greenlaw; Teresa M. Przytycka (Parallel Process. Lett., 1992)

Parallel Construction of Optimal Alphabetic Trees. - Lawrence L. Larmore; Teresa M. Przytycka; Wojciech Rytter (SPAA, 1993)

Grid intersection graphs and boxicity. - S. Bellantoni; Irith Ben-Arroyo Hartman; Teresa M. Przytycka; Sue Whitesides (Discret. Math., 1993)

A Work-Time Trade-off in Parallel Computation of Huffman Trees and Concave Least Weight Subsequence Problem. - Christos Levcopoulos; Teresa M. Przytycka (Parallel Process. Lett., 1994)

A Fast Algorithm for Optimum Height-Limited Alphabetic Binary Trees. - Lawrence L. Larmore; Teresa M. Przytycka (SIAM J. Comput., 1994)

Computing the Agreement of Trees with Bounded Degrees. - Martin Farach; Teresa M. Przytycka; Mikkel Thorup (ESA, 1995)

Grid Intersection and Box Intersection Graphs on Surfaces (Extended Abstract). - Jan Kratochvíl; Teresa M. Przytycka (GD, 1995)

On the Agreement of Many Trees. - Martin Farach; Teresa M. Przytycka; Mikkel Thorup (Inf. Process. Lett., 1995)

Constructing Huffman Trees in Parallel. - Lawrence L. Larmore; Teresa M. Przytycka (SIAM J. Comput., 1995)

Sparse dynamic programming for maximum agreement subtree problem. - Teresa M. Przytycka (Mathematical Hierarchies and Biology, 1996)

Optimal Cost-Sensitive Distributed Minimum Spanning Tree Algorithm. - Teresa M. Przytycka; Lisa Higham (SWAT, 1996)

Parallel Construction of Binary Trees with Near Optimal Weighted Path Lengt. - David G. Kirkpatrick; Teresa M. Przytycka (Algorithmica, 1996)

On the Complexity of String Folding. - Mike Paterson; Teresa M. Przytycka (Discret. Appl. Math., 1996)

Parallel Maximum Independent Set in Convex Bipartite Graphs. - Artur Czumaj; Krzysztof Diks; Teresa M. Przytycka (Inf. Process. Lett., 1996)

A Simple, Efficient Algorithm for Maximum Finding on Rings. - Lisa Higham; Teresa M. Przytycka (Inf. Process. Lett., 1996)

A Parallel Algorithm for Optimum Height-Limited Alphabetic Binary Trees. - Lawrence L. Larmore; Teresa M. Przytycka (J. Parallel Distributed Comput., 1996)

General Techniques for Comparing Unrooted Evolutionary Trees. - Ming-Yang Kao; Tak Wah Lam; Teresa M. Przytycka; Wing-Kin Sung; Hing-Fung Ting (STOC, 1997)

Parallel Algorithms for the Hamiltonian Cycle and Hamiltonian Path Problems in Semicomplete Bipartite Digraphs. - Jørgen Bang-Jensen; Mohamed El Haddad; Yannis Manoussakis; Teresa M. Przytycka (Algorithmica, 1997)

A simple construction of high representativity triangulations. - Teresa M. Przytycka; Józef H. Przytycki (Discret. Math., 1997)

The Optimal Alphabetic Tree Problem Revisited. - Lawrence L. Larmore; Teresa M. Przytycka (J. Algorithms, 1998)

Asymptotically Optimal Election on Weighted Rings. - Lisa Higham; Teresa M. Przytycka (SIAM J. Comput., 1998)

On an Optimal Split Tree Problem. - S. Rao Kosaraju; Teresa M. Przytycka; Ryan S. Borgstrom (WADS, 1999)

An O(nlog n) Algorithm for the Maximum Agreement Subtree Problem for Binary Trees. - Richard Cole 001; Martin Farach-Colton; Ramesh Hariharan; Teresa M. Przytycka; Mikkel Thorup (SIAM J. Comput., 2000)

Scale-free networks versus evolutionary drift. - Teresa M. Przytycka; Yi-Kuo Yu (Comput. Biol. Chem., 2004)

Predicting protein-protein interaction by searching evolutionary tree automorphism space. - Raja Jothi; Maricel G. Kann; Teresa M. Przytycka (ISMB (Supplement of Bioinformatics), 2005)

Chordal Graphs in Computational Biology - New Insights and Applications. - Teresa M. Przytycka (International Conference on Computational Science (2), 2006)

An Important Connection Between Network Motifs and Parsimony Models. - Teresa M. Przytycka (RECOMB, 2006)

Decomposition of overlapping protein complexes: A graph theoretical method for analyzing static and dynamic protein associations. - Elena Zotenko; Katia S. Guimarães; Raja Jothi; Teresa M. Przytycka (Algorithms Mol. Biol., 2006)

COCO-CL: hierarchical clustering of homology relations based on evolutionary correlations. - Raja Jothi; Elena Zotenko; Asba Tasneem; Teresa M. Przytycka (Bioinform., 2006)

State of the art: refinement of multiple sequence alignments. - Saikat Chakrabarti 001; Christopher J. Lanczycki; Anna R. Panchenko; Teresa M. Przytycka; Paul A. Thiessen; Stephen H. Bryant (BMC Bioinform., 2006)

Graph Theoretical Insights into Evolution of Multidomain Proteins. - Teresa M. Przytycka; George B. Davis; Nan Song; Dannie Durand (J. Comput. Biol., 2006)

A Rigorous Analysis of the Pattern of Intron Conservation Supports the Coelomata Clade of Animals. - Jie Zheng 002; Igor B. Rogozin; Eugene V. Koonin; Teresa M. Przytycka (RECOMB-CG, 2007)

Bringing Folding Pathways into Strand Pairing Prediction. - Jieun K. Jeong; Piotr Berman; Teresa M. Przytycka (WABI, 2007)

Discovering functional linkages and uncharacterized cellular pathways using phylogenetic profile comparisons: a comprehensive assessment. - Raja Jothi; Teresa M. Przytycka; L. Aravind (BMC Bioinform., 2007)

Stability of Characters and Construction of Phylogenetic Trees. - Teresa M. Przytycka (J. Comput. Biol., 2007)

Protein Interaction Network Based Prediction of Domain-Domain and Domain-Peptide Interactions. - Katia S. Guimarães; Teresa M. Przytycka (Protein-protein Interactions and Networks, 2008)

Interrogating domain-domain interactions with parsimony based approaches. - Katia S. Guimarães; Teresa M. Przytycka (BMC Bioinform., 2008)

DOMINE: a database of protein domain interactions. - Balaji Raghavachari; Asba Tasneem; Teresa M. Przytycka; Raja Jothi (Nucleic Acids Res., 2008)

Why Do Hubs in the Yeast Protein Interaction Network Tend To Be Essential: Reexamining the Connection between the Network Topology and Essentiality. - Elena Zotenko; Julián Mestre; Dianne P. O'Leary; Teresa M. Przytycka (PLoS Comput. Biol., 2008)

Improving Strand Pairing Prediction through Exploring Folding Cooperativity. - Jieun K. Jeong; Piotr Berman; Teresa M. Przytycka (IEEE ACM Trans. Comput. Biol. Bioinform., 2008)

Maximum Agreement Subtree (of 3 or More Trees). - Teresa M. Przytycka (Encyclopedia of Algorithms, 2008)

Session Introduction. - Tanya Y. Berger-Wolf; Teresa M. Przytycka; Mona Singh 001 (Pacific Symposium on Biocomputing, 2009)

Graph theoretical approach to study eQTL: a case study of Plasmodium falciparum. - Yang Huang; Stefan Wuchty; Michael T. Ferdig; Teresa M. Przytycka (Bioinform., 2009)

The crosstalk between EGF, IGF, and Insulin cell signaling pathways - computational and experimental analysis. - Rafal Zielinski; Pawel F. Przytycki; Jie Zheng 002; David Zhang; Teresa M. Przytycka; Jacek Capala (BMC Syst. Biol., 2009)

Session Introduction. - Tanya Y. Berger-Wolf; Teresa M. Przytycka; Mona Singh 001; Donna K. Slonim (Pacific Symposium on Biocomputing, 2010)

Simultaneous Identification of Causal Genes and Dys-Regulated Pathways in Complex Diseases. - Yoo-Ah Kim; Stefan Wuchty; Teresa M. Przytycka (RECOMB, 2010)

Toward the dynamic interactome: it's about time. - Teresa M. Przytycka; Mona Singh 001; Donna K. Slonim (Briefings Bioinform., 2010)

SimBoolNet - a Cytoscape plugin for dynamic simulation of signaling networks. - Jie Zheng 002; David Zhang; Pawel F. Przytycki; Rafal Zielinski; Jacek Capala; Teresa M. Przytycka (Bioinform., 2010)

Prediction of Trans-regulators of Recombination Hotspots in Mouse Genome. - Min Wu 008; Chee Keong Kwoh 001; Teresa M. Przytycka; Jing Li 002; Jie Zheng 002 (BIBM, 2011)

Identifying Causal Genes and Dysregulated Pathways in Complex Diseases. - Yoo-Ah Kim; Stefan Wuchty; Teresa M. Przytycka (PLoS Comput. Biol., 2011)

Guest Editors' Introduction to the Special Section on Bioinformatics Research and Applications. - Mark Borodovsky; Teresa M. Przytycka; Sanguthevar Rajasekaran; Alexander Zelikovsky (IEEE ACM Trans. Comput. Biol. Bioinform., 2011)

Integration of genomic and epigenomic features to predict meiotic recombination hotspots in human and mouse. - Min Wu 008; Chee Keong Kwoh 001; Teresa M. Przytycka; Jing Li 002; Jie Zheng 002 (BCB, 2012)

Detecting SNP-Induced Structural Changes in RNA: Application to Disease Studies. - Raheleh Salari; Chava Kimchi-Sarfaty; Michael M. Gottesman; Teresa M. Przytycka (RECOMB, 2012)

Identification of sequence-structure RNA binding motifs for SELEX-derived aptamers. - Jan Hoinka; Elena Zotenko; Adam Friedman; Zuben E. Sauna; Teresa M. Przytycka (Bioinform., 2012)

Chapter 5: Network Biology Approach to Complex Diseases. - Dong-Yeon Cho; Yoo-Ah Kim; Teresa M. Przytycka (PLoS Comput. Biol., 2012)

Teasing Apart Translational and Transcriptional Components of Stochastic Variations in Eukaryotic Gene Expression. - Raheleh Salari; Damian Wójtowicz; Jie Zheng 002; David Levens; Yitzhak Pilpel; Teresa M. Przytycka (PLoS Comput. Biol., 2012)

Modeling cell heterogeneity: from single-cell variations to mixed cells populations. - Eric Batchelor; Maricel G. Kann; Teresa M. Przytycka; Benjamin J. Raphael; Damian Wójtowicz (Pacific Symposium on Biocomputing, 2013)

Module Cover - A New Approach to Genotype-Phenotype Studies. - Yoo-Ah Kim; Raheleh Salari; Stefan Wuchty; Teresa M. Przytycka (Pacific Symposium on Biocomputing, 2013)

Dissecting Cancer Heterogeneity with a Probabilistic Genotype-Phenotype Model. - Dong-Yeon Cho; Teresa M. Przytycka (RECOMB, 2013)

AptaCluster - A Method to Cluster HT-SELEX Aptamer Pools and Lessons from Its Application. - Jan Hoinka; Alexey Berezhnoy; Zuben E. Sauna; Eli Gilboa; Teresa M. Przytycka (RECOMB, 2014)

LDsplit: screening for cis-regulatory motifs stimulating meiotic recombination hotspots by analysis of DNA sequence polymorphisms. - Peng Yang 010; Min Wu 008; Jing Guo; Chee Keong Kwoh 001; Teresa M. Przytycka; Jie Zheng 002 (BMC Bioinform., 2014)

When and How the Perfect Phylogeny Model Explains Evolution. - Paola Bonizzoni; Anna Paola Carrieri; Gianluca Della Vedova; Riccardo Dondi; Teresa M. Przytycka (Discrete and Topological Models in Molecular Biology, 2014)

MEMCover: integrated analysis of mutual exclusivity and functional network reveals dysregulated pathways across multiple cancer types. - Yoo-Ah Kim; Dong-Yeon Cho; Phuong Dao; Teresa M. Przytycka (Bioinform., 2015)

WeSME: Uncovering Mutual Exclusivity of Cancer Mutations. - Yoo-Ah Kim; Sanna Madan; Teresa M. Przytycka (BCB, 2016)

AptaTRACE: Elucidating Sequence-Structure Binding Motifs by Uncovering Selection Trends in HT-SELEX Experiments. - Phuong Dao; Jan Hoinka; Yijie Wang 004; Mayumi Takahashi; Jiehua Zhou; Fabrizio Costa; John Rossi; John Burnett; Rolf Backofen; Teresa M. Przytycka (RECOMB, 2016)

ISMB 2016 Proceedings. - Pierre Baldi; Teresa M. Przytycka (Bioinform., 2016)

Generalized logical model based on network topology to capture the dynamical trends of cellular signaling pathways. - Fan Zhang 089; Haoting Chen; Li Na Zhao; Hui Liu 026; Teresa M. Przytycka; Jie Zheng 002 (BMC Syst. Biol., 2016)

Preface. - Teresa M. Przytycka (J. Comput. Biol., 2016)

Ups and Downs of Poised RNA Polymerase II in B-Cells. - Phuong Dao; Damian Wójtowicz; Steevenson Nelson; David Levens; Teresa M. Przytycka (PLoS Comput. Biol., 2016)

Understanding Genotype-Phenotype Effects in Cancer via Network Approaches. - Yoo-Ah Kim; Dong-Yeon Cho; Teresa M. Przytycka (PLoS Comput. Biol., 2016)

Maximum Agreement Subtree (of 3 or More Trees). - Teresa M. Przytycka (Encyclopedia of Algorithms, 2016)

BeWith: A Between-Within Method for Module Discovery in Cancer using Integrated Analysis of Mutual Exclusivity, Co-occurrence and Functional Interactions (Extended Abstract). - Phuong Dao; Yoo-Ah Kim; Sanna Madan; Roded Sharan; Teresa M. Przytycka (RECOMB, 2017)

NetREX: Network Rewiring Using EXpression - Towards Context Specific Regulatory Networks. - Yijie Wang 004; Dong-Yeon Cho; Hangnoh Lee; Brian Oliver; Teresa M. Przytycka (RECOMB, 2017)

WeSME: uncovering mutual exclusivity of cancer drivers and beyond. - Yoo-Ah Kim; Sanna Madan; Teresa M. Przytycka (Bioinform., 2017)

BeWith: A Between-Within method to discover relationships between cancer modules via integrated analysis of mutual exclusivity, co-occurrence and functional interactions. - Phuong Dao; Yoo-Ah Kim; Damian Wójtowicz; Sanna Madan; Roded Sharan; Teresa M. Przytycka (PLoS Comput. Biol., 2017)

AptaBlocks: Accelerating the Design of RNA-Based Drug Delivery Systems. - Yijie Wang 004; Jan Hoinka; Piotr Swiderski; Teresa M. Przytycka (RECOMB, 2018)

Detecting presence of mutational signatures in cancer with confidence. - Xiaoqing Huang; Damian Wójtowicz; Teresa M. Przytycka (Bioinform., 2018)

A Sticky Multinomial Mixture Model of Strand-Coordinated Mutational Processes in Cancer. - Itay Sason; Damian Wójtowicz; Welles Robinson; Mark D. M. Leiserson; Teresa M. Przytycka; Roded Sharan (RECOMB, 2019)

Accurate Sub-population Detection and Mapping Across Single Cell Experiments with PopCorn. - Yijie Wang 004; Jan Hoinka; Teresa M. Przytycka (RECOMB, 2019)

Session Introduction. - Mark D. M. Leiserson; Teresa M. Przytycka; Roded Sharan (PSB, 2020)

DNA Repair Footprint Uncovers Contribution of DNA Repair Mechanism to MutationalSignatures. - Damian Wójtowicz; Mark D. M. Leiserson; Roded Sharan; Teresa M. Przytycka (PSB, 2020)

Reconstruction of Gene Regulatory Networks by Integrating Biological Model and a Recommendation System. - Yijie Wang 004; Justin M. Fear; Isabelle Berger; Hangnoh Lee; Brian Oliver; Teresa M. Przytycka (RECOMB, 2020)

Bioinformatics pipeline using JUDI: Just Do It! - Soumitra Pal 001; Teresa M. Przytycka (Bioinform., 2020)

AptaBlocks Online: A Web-Based Toolkit for the In Silico Design of Oligonucleotide Sticky Bridges. - Jan Hoinka; Yijie Wang 004; Teresa M. Przytycka (J. Comput. Biol., 2020)

Embedding gene sets in low-dimensional space. - Jan Hoinka; Teresa M. Przytycka (Nat. Mach. Intell., 2020)

ISMB/ECCB 2021 proceedings. - Christophe Dessimoz; Teresa M. Przytycka (Bioinform., 2021)

Algorithmic Approaches to Study Mutational Processes in Cancer (Invited Talk). - Teresa M. Przytycka (WABI, 2023)

Stochastic Modeling of Gene Expression Evolution Uncovers Tissue- and Sex-Specific Properties of Expression Evolution in the Drosophila Genus. - Soumitra Pal 001; Brian Oliver; Teresa M. Przytycka (J. Comput. Biol., 2023)

Exploring tumor-normal cross-talk with TranNet: Role of the environment in tumor progression. - Bayarbaatar Amgalan; Chi-Ping Day; Teresa M. Przytycka (PLoS Comput. Biol., 2023)

Rosalind Franklin Society Proudly Announces the 2023 Award Recipient for Journal of Computational Biology. - Teresa M. Przytycka (J. Comput. Biol., 2024)

A Partition Function Algorithm to Evaluate Inferred Subclonal Structures in Single-Cell Sequencing Data. - Farid Rashidi Mehrabadi; Erfan Sadeqi Azer; John D. Bridgers; Eva Pérez-Guijarro; Kerrie Marie; Howard H. Yang; Charli Gruen; Chih Hao Wu; Welles Robinson; Huaitian Liu; Can Kizilkale; Michael C. Kelly; et al. (RECOMB, 2025)

Improved Algorithms for Bi-Partition Function Computation. - John D. Bridgers; Jan Hoinka; S. Cenk Sahinalp; Salem Malikic; Teresa M. Przytycka; Funda Ergün (WABI, 2025)

Mutational Signature Refitting on Sparse Pan-Cancer Data. - Gal Gilad; Teresa M. Przytycka; Roded Sharan (WABI, 2025)