Lenore J. Cowen

Publication Activity (10 Years)

Years Active: 1986-2022
Publications (10 Years): 13

Top Topics

Remote Homology Detection

Protein Function

Top Venues

IEEE ACM Trans. Comput. Biol. Bioinform.

Publications

Blessing Kolawole, Lenore J. Cowen
Combining spectral clustering and large cut algorithms to find compensatory functional modules from yeast physical and genetic interaction data with GLASS. BCB (2022)
John Lazarsfeld, Jonathan Rodríguez, Mert Erden, Yuelin Liu, Lenore J. Cowen
Majority Vote Cascading: A Semi-Supervised Framework for Improving Protein Function Prediction. IEEE ACM Trans. Comput. Biol. Bioinform. 19 (4) (2022)
Polina Shpilker, John Freeman, Hailey McKelvie, Jill Ashey, Jay-Miguel Fonticella, Hollie Putnam, Jane Greenberg, Lenore J. Cowen, Alva L. Couch, Noah M. Daniels
MEDFORD: A human and machine readable metadata markup language. CoRR (2022)
Kapil Devkota, Henri Schmidt, Matthew Werenski, James M. Murphy, Mert Erden, Victor Arsenescu, Lenore J. Cowen
GLIDER: function prediction from GLIDE-based neighborhoods. Bioinform. 38 (13) (2022)
Mert Erden, Megan Gelement, Sarrah Hakimjee, Kyla Levin, Mary-Joy Sidhom, Kapil Devkota, Lenore J. Cowen
Neighborhood embedding and re-ranking of disease genes with ADAGIO. BCB (2022)
Lenore J. Cowen, Xiaozhe Hu, Junyuan Lin, Yue Shen, Kaiyi Wu
Random-Walk Based Approximate k-Nearest Neighbors Algorithm for Diffusion State Distance. LSSC (2021)
Lenore J. Cowen, Judith Klein-Seetharaman, Hollie Putnam
Bioinformatics of corals: Investigating heterogeneous omics data from coral holobionts for insight into reef health and resillience. PSB (2021)
Kapil Devkota, James M. Murphy, Lenore J. Cowen
GLIDE: combining local methods and diffusion state embeddings to predict missing interactions in biological networks. Bioinform. 36 (Supplement-1) (2020)
Lenore J. Cowen
Preface Special Issue: RECOMB 2019. J. Comput. Biol. 27 (4) (2020)
John Lazarsfeld, Jonathan Rodríguez, Mert Erden, Yuelin Liu, Lenore J. Cowen
Majority Vote Cascading: A Semi-Supervised Framework for Improving Protein Function Prediction. BCB (2019)
Junyuan Lin, Lenore J. Cowen, Benjamin J. Hescott, Xiaozhe Hu
Computing the diffusion state distance on graphs via algebraic multigrid and random projections. Numer. Linear Algebra Appl. 25 (3) (2018)
Sarah Hall-Swan, Jake Crawford, Rebecca Newman, Lenore J. Cowen
Detangling PPI Networks to Uncover Functionally Meaningful Clusters. BCB (2017)
Mengfei Cao, Lenore J. Cowen
When should we NOT transfer functional annotation between sequence paralogs? PSB (2017)
Noah M. Daniels, Andrew Gallant, Norman Ramsey, Lenore J. Cowen
MRFy: Remote Homology Detection for Beta-Structural Proteins Using Markov Random Fields and Stochastic Search. IEEE ACM Trans. Comput. Biol. Bioinform. 12 (1) (2015)
Mengfei Cao, Christopher M. Pietras, Xian Feng, Kathryn J. Doroschak, Thomas Schaffner, Jisoo Park, Hao Zhang, Lenore J. Cowen, Benjamin J. Hescott
New directions for diffusion-based network prediction of protein function: incorporating pathways with confidence. Bioinform. 30 (12) (2014)
Noah M. Daniels, Andrew Gallant, Norman Ramsey, Lenore J. Cowen
MRFy: Remote Homology Detection for Beta-Structural Proteins Using Markov Random Fields and Stochastic Search. BCB (2013)
Andrew Gallant, Mark D. M. Leiserson, Maxim Kachalov, Lenore J. Cowen, Benjamin J. Hescott
Genecentric: a package to uncover graph-theoretic structure in high-throughput epistasis data. BMC Bioinform. 14 (2013)
Noah M. Daniels, Andrew Gallant, Jian Peng, Lenore J. Cowen, Michael Baym, Bonnie Berger
Compressive genomics for protein databases. Bioinform. 29 (13) (2013)
Sara L. Su, Connor Gramazio, Daniela Extrum-Fernandez, Caitlin Crumm, Lenore J. Cowen, Matthew Menke, Megan Strait
Molli: Interactive Visualization for Exploratory Protein Analysis. IEEE Computer Graphics and Applications 32 (5) (2012)
Noah M. Daniels, Raghavendra Hosur, Bonnie Berger, Lenore J. Cowen
SMURFLite: combining simplified Markov random fields with simulated evolution improves remote homology detection for beta-structural proteins into the twilight zone. Bioinform. 28 (9) (2012)
Andrew Gallant, Mark D. M. Leiserson, Maxim Kachalov, Lenore J. Cowen, Benjamin J. Hescott
Genecentric: a package to uncover graph-theoretic structure in high-throughput epistasis data. BCB (2012)
Noah M. Daniels, Shilpa Nadimpalli, Lenore J. Cowen
Formatt: Correcting Protein Multiple Structural Alignments by Incorporating Sequence Alignment. BMC Bioinform. 13 (2012)
Mengfei Cao, Lenore J. Cowen
Remote homology detection on alpha-structural proteins using simulated evolution. BCB (2012)
Mark D. M. Leiserson, Diana Tatar, Lenore J. Cowen, Benjamin J. Hescott
Inferring Mechanisms of Compensation from E-MAP and SGA Data Using Local Search Algorithms for Max Cut. J. Comput. Biol. 18 (11) (2011)
Mark D. M. Leiserson, Diana Tatar, Lenore J. Cowen, Benjamin J. Hescott
Inferring Mechanisms of Compensation from E-MAP and SGA Data Using Local Search Algorithms for Max Cut. RECOMB (2011)
Benjamin J. Hescott, Mark D. M. Leiserson, Lenore J. Cowen, Donna K. Slonim
Evaluating Between-Pathway Models with Expression Data. J. Comput. Biol. 17 (3) (2010)
Allen W. Bryan Jr., Matthew Menke, Lenore J. Cowen, Susan Lindquist, Bonnie Berger
BETASCAN: Probable β-amyloids Identified by Pairwise Probabilistic Analysis. PLoS Comput. Biol. 5 (3) (2009)
Lenore J. Cowen, Robert Cowen, Arthur Steinberg
Totally Greedy Coin Sets and Greedy Obstructions. Electron. J. Comb. 15 (1) (2008)
Arthur Brady, Lenore J. Cowen
Compact Routing on Power Law Graphs with Additive Stretch. ALENEX (2006)
Joanne F. Houlahan, Lenore J. Cowen, Gerald M. Masson
Hypercube sandwich approach to conferencing. J. Supercomput. 10 (3) (1996)
Joanne F. Houlahan, Lenore J. Cowen, Gerald M. Masson
Hypercube Sandwich Approach to Conferencing. PDPTA (1995)
Daniel J. Kleitman, Fernando R. Lasaga, Lenore J. Cowen
Asymptotic enumeration of full graphs. J. Graph Theory 20 (1) (1995)
Lenore J. Cowen, Robert Cowen, Douglas R. Woodall
Defective colorings of graphs in surfaces: Partitions into subgraphs of bounded valency. J. Graph Theory 10 (2) (1986)