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ORCIDLenore Cowen
Lenore J. Cowen
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- affiliation: Tufts University, Medford, USA
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2020 – today
- 2024
[c43]Kapil Devkota
, Anselm Blumer, Xiaozhe Hu, Lenore Cowen:
Fast Approximate IsoRank for Scalable Global Alignment of Biological Networks. RECOMB 2024: 1-16- [i5]Christopher Ratigan, Lenore Cowen:
The VOROS: Lifting ROC curves to 3D. CoRR abs/2402.18689 (2024) - [i4]Nicholas Rabb, Nitya Nadgir, Jan P. de Ruiter, Lenore Cowen:
Quantifying Media Influence on Covid-19 Mask-Wearing Beliefs. CoRR abs/2403.03684 (2024) - 2023
- [j46]Nicholas Rabb, Lenore Cowen, Jan P. de Ruiter:
Investigating the effect of selective exposure, audience fragmentation, and echo-chambers on polarization in dynamic media ecosystems. Appl. Netw. Sci. 8(1): 78 (2023) - [j45]Samuel Sledzieski, Kapil Devkota, Rohit Singh, Lenore Cowen, Bonnie Berger:
TT3D: Leveraging precomputed protein 3D sequence models to predict protein-protein interactions. Bioinform. 39(10) (2023) - [e3]Jonathan W. Berry, David B. Shmoys, Lenore Cowen, Uwe Naumann:
SIAM Conference on Applied and Computational Discrete Algorithms, ACDA 2023, Seattle, WA, USA, May 31 - June 2, 2023. SIAM 2023, ISBN 978-1-61197-771-4 [contents] - 2022
- [j44]Polina Shpilker, John Freeman, Hailey McKelvie, Jill Ashey, Jay-Miguel Fonticella, Hollie Putnam, Jane Greenberg, Lenore Cowen, Alva L. Couch, Noah M. Daniels:
MEDFORD: A human- and machine-readable metadata markup language. Database J. Biol. Databases Curation 2022(2022) (2022) - [j43]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): 3395-3406 (2022) - [j42]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): 1933-1945 (2022) - [c42]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: 11:1-11:11 - [c41]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: 14:1-14:4 - [c40]Monsurat Olaosebikan, Claudia Aranda Barrios, Blessing Kolawole, Lenore Cowen, Orit Shaer:
Identifying Cognitive and Creative Support Needs for Remote Scientific Collaboration using VR: Practices, Affordances, and Design Implications. Creativity & Cognition 2022: 97-110 - [c39]Monsurat Olaosebikan, Claudia Aranda Barrios, Lenore Cowen, Orit Shaer:
Embodied Notes: A Cognitive Support Tool For Remote Scientific Collaboration in VR. CHI Extended Abstracts 2022: 279:1-279:6 - [c38]Nicholas Rabb, Lenore Cowen:
Cognitive Cascades within Media Ecosystems: Simulating Fragmentation, Selective Exposure and Media Tactics to Investigate Polarization. COMPLEX NETWORKS (1) 2022: 3-15 - [i3]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 abs/2204.09610 (2022) - 2021
- [j41]Lenore Cowen, Kapil Devkota, Xiaozhe Hu, James M. Murphy, Kaiyi Wu:
Diffusion State Distances: Multitemporal Analysis, Fast Algorithms, and Applications to Biological Networks. SIAM J. Math. Data Sci. 3(1): 142-170 (2021) - [c37]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: 3-15 - [c36]Polina Shpilker, John Freeman, Hailey McKelvie, Jill Ashey, Jay-Miguel Fonticella, Hollie Putnam, Jane Greenberg, Lenore Cowen, Alva L. Couch, Noah M. Daniels:
MEtaData Format for Open Reef Data (MEDFORD). MTSR 2021: 206-211 - [c35]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 - [i2]Nicholas Rabb, Lenore Cowen, Jan P. de Ruiter, Matthias Scheutz:
Cognitive Contagion: How to model (and potentially counter) the spread of fake news. CoRR abs/2107.02828 (2021) - 2020
- [j40]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): i464-i473 (2020) - [j39]Lenore J. Cowen:
Preface Special Issue: RECOMB 2019. J. Comput. Biol. 27(4): 441 (2020) - [i1]Lenore Cowen, Kapil Devkota, Xiaozhe Hu, James M. Murphy, Kaiyi Wu:
Diffusion State Distances: Multitemporal Analysis, Fast Algorithms, and Applications to Biological Networks. CoRR abs/2003.03616 (2020)
2010 – 2019
- 2019
- [c34]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: 51-60 - [e2]Lenore J. Cowen:
Research in Computational Molecular Biology - 23rd Annual International Conference, RECOMB 2019, Washington, DC, USA, May 5-8, 2019, Proceedings. Lecture Notes in Computer Science 11467, Springer 2019, ISBN 978-3-030-17082-0 [contents] - 2018
- [j38]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) - [c33]Lenore Cowen, Xiaoqian Jiang:
Highlights Talks at ACM BCB 2018. BCB 2018: 564 - 2017
- [c32]Sarah Hall-Swan, Jake Crawford, Rebecca Newman, Lenore J. Cowen:
Detangling PPI Networks to Uncover Functionally Meaningful Clusters. BCB 2017: 752-753 - [c31]Mengfei Cao, Lenore J. Cowen:
When should we NOT transfer functional annotation between sequence paralogs? PSB 2017: 15-26 - [e1]Nurit Haspel, Lenore J. Cowen, Amarda Shehu, Tamer Kahveci, Giuseppe Pozzi:
Proceedings of the 8th ACM International Conference on Bioinformatics, Computational Biology, and Health Informatics, BCB 2017, Boston, MA, USA, August 20-23, 2017. ACM 2017, ISBN 978-1-4503-4722-8 [contents] - 2016
- [r2]Lenore J. Cowen:
Packet Routing. Encyclopedia of Algorithms 2016: 1500-1503 - 2015
- [j37]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): 4-16 (2015) - 2014
- [j36]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): 219-227 (2014) - 2013
- [j35]Noah M. Daniels, Andrew Gallant, Jian Peng, Lenore J. Cowen, Michael Baym, Bonnie Berger:
Compressive genomics for protein databases. Bioinform. 29(13): 283-290 (2013) - [j34]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: 23 (2013) - [c30]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: 133 - 2012
- [j33]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): 1216-1222 (2012) - [j32]Noah M. Daniels, Shilpa Nadimpalli, Lenore J. Cowen:
Formatt: Correcting Protein Multiple Structural Alignments by Incorporating Sequence Alignment. BMC Bioinform. 13: 259 (2012) - [j31]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): 62-69 (2012) - [c29]Mengfei Cao, Lenore J. Cowen:
Remote homology detection on alpha-structural proteins using simulated evolution. BCB 2012: 353-360 - [c28]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: 576-578 - 2011
- [j30]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): 1399-1409 (2011) - [c27]Shilpa Nadimpalli, Noah M. Daniels, Lenore Cowen:
Formatt: correcting protein multiple structural alignments by sequence peeking. BCB 2011: 315-319 - [c26]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: 154-167 - 2010
- [j29]Anoop Kumar, Lenore Cowen:
Recognition of beta-structural motifs using hidden Markov models trained with simulated evolution. Bioinform. 26(12): 287-293 (2010) - [j28]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): 477-487 (2010) - [j27]Matthew Menke, Bonnie Berger, Lenore Cowen:
Markov random fields reveal an N-terminal double beta-propeller motif as part of a bacterial hybrid two-component sensor system. Proc. Natl. Acad. Sci. USA 107(9): 4069-4074 (2010) - [c25]Noah M. Daniels, Anoop Kumar, Lenore Cowen, Matthew Menke:
Touring Protein Space with Matt. ISBRA 2010: 18-28
2000 – 2009
- 2009
- [j26]Anoop Kumar, Lenore Cowen:
Augmented training of hidden Markov models to recognize remote homologs via simulated evolution. Bioinform. 25(13): 1602-1608 (2009) - [j25]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) - [c24]Benjamin J. Hescott, Mark D. M. Leiserson, Lenore Cowen, Donna K. Slonim:
Evaluating Between-Pathway Models with Expression Data. RECOMB 2009: 372-385 - 2008
- [j24]Lenore J. Cowen, Robert Cowen, Arthur Steinberg:
Totally Greedy Coin Sets and Greedy Obstructions. Electron. J. Comb. 15(1) (2008) - [j23]Marta Arias, Lenore Cowen, Kofi A. Laing:
Compact roundtrip routing with topology-independent node names. J. Comput. Syst. Sci. 74(5): 775-795 (2008) - [j22]Matthew Menke, Bonnie Berger, Lenore Cowen:
Matt: Local Flexibility Aids Protein Multiple Structure Alignment. PLoS Comput. Biol. 4(1) (2008) - [c23]Xintao Wei, Lenore Cowen, Carla E. Brodley, Arthur Brady, D. Sculley, Donna K. Slonim:
A Distance-Based Method for Detecting Horizontal Gene Transfer in Whole Genomes. ISBRA 2008: 26-37 - [r1]Lenore Cowen:
Packet Routing. Encyclopedia of Algorithms 2008 - 2006
- [j21]Marta Arias, Lenore Cowen, Kofi A. Laing, Rajmohan Rajaraman, Orjeta Taka:
Compact Routing with Name Independence. SIAM J. Discret. Math. 20(3): 705-726 (2006) - [c22]Arthur Brady, Lenore J. Cowen:
Compact Routing on Power Law Graphs with Additive Stretch. ALENEX 2006: 119-128 - [c21]Arthur Brady, Lenore Cowen:
Compact routing with additive stretch using distance labelings. SPAA 2006: 233 - [c20]Arthur Brady, Lenore Cowen:
Exact Distance Labelings Yield Additive-Stretch Compact Routing Schemes. DISC 2006: 339-354 - 2005
- [j20]Matthew Menke, Jonathan King, Bonnie Berger, Lenore Cowen:
Wrap-and-Pack: A New Paradigm for Beta Structural Motif Recognition with Application to Recognizing Beta Trefoils. J. Comput. Biol. 12(6): 777-795 (2005) - 2004
- [j19]Adam Cannon, Lenore Cowen:
Approximation Algorithms for the Class Cover Problem. Ann. Math. Artif. Intell. 40(3-4): 215-224 (2004) - [j18]Bill Bogstad, Lenore Cowen:
The distinguishing number of the hypercube. Discret. Math. 283(1-3): 29-35 (2004) - [j17]Lenore Cowen, Christopher G. Wagner:
Compact roundtrip routing in directed networks. J. Algorithms 50(1): 79-95 (2004) - [c19]Matthew Menke, Eben Scanlon, Jonathan King, Bonnie Berger, Lenore Cowen:
Wrap-and-pack: a new paradigm for beta structural motif recognition with application to recognizing beta trefoils. RECOMB 2004: 298-307 - 2003
- [c18]Marta Arias, Lenore Cowen, Kofi A. Laing:
Compact roundtrip routing with topology-independent node names. PODC 2003: 43-52 - [c17]Marta Arias, Lenore Cowen, Kofi A. Laing, Rajmohan Rajaraman, Orjeta Taka:
Compact routing with name independence. SPAA 2003: 184-192 - 2002
- [j16]Lenore Cowen, Jerrold R. Griggs, Douglas B. West:
Foreword. Discret. Math. 257(2-3): 191-192 (2002) - [j15]Lenore Cowen, Phil Bradley, Matthew Menke, Jonathan King, Bonnie Berger:
Predicting the Beta-Helix Fold from Protein Sequence Data. J. Comput. Biol. 9(2): 261-276 (2002) - [j14]Lenore Cowen, Ronald Fagin, Joe Kilian, Jon M. Kleinberg:
Guest Editor's Foreword. J. Comput. Syst. Sci. 65(1): 1 (2002) - 2001
- [j13]Lenore Cowen:
Compact Routing with Minimum Stretch. J. Algorithms 38(1): 170-183 (2001) - [c16]Phil Bradley, Lenore Cowen, Matthew Menke, Jonathan King, Bonnie Berger:
Predicting the beta-helix fold from protein sequence data. RECOMB 2001: 59-67 - 2000
- [c15]Adam Cannon, Lenore Cowen:
Approximation Algorithms for the Class Cover Problem. AI&M 2000 - [c14]Lenore Cowen, Christopher G. Wagner:
Compact roundtrip routing in directed networks (extended abstract). PODC 2000: 51-59
1990 – 1999
- 1999
- [j12]C. T. Cheng, Lenore Cowen:
On the local distinguishing numbers of cycles. Discret. Math. 196(1-3): 97-108 (1999) - [c13]Lenore Cowen:
Compact Routing with Minimum Stretch. SODA 1999: 255-260 - [c12]Lenore Cowen, Christopher G. Wagner:
Compact Roundtrip Routing for Digraphs. SODA 1999: 885-886 - 1998
- [j11]Lenore Cowen, Joan Feigenbaum, Sampath Kannan:
A Formal Framework for Evaluating Heuristic Programs. Ann. Math. Artif. Intell. 22(3-4): 193-206 (1998) - [j10]Baruch Awerbuch, Bonnie Berger, Lenore Cowen, David Peleg:
Near-Linear Time Construction of Sparse Neighborhood Covers. SIAM J. Comput. 28(1): 263-277 (1998) - 1997
- [j9]Lenore Cowen, Rudolf Mathar:
The Offset Problem. Comb. Probab. Comput. 6(2): 159-164 (1997) - [j8]Lenore Cowen, Wayne Goddard, C. Esther Jesurum:
Defective coloring revisited. J. Graph Theory 24(3): 205-219 (1997) - [c11]Lenore Cowen, Wayne Goddard, C. Esther Jesurum:
Coloring with Defect. SODA 1997: 548-557 - 1996
- [j7]Baruch Awerbuch, Bonnie Berger, Lenore Cowen, David Peleg:
Fast Distributed Network Decompositions and Covers. J. Parallel Distributed Comput. 39(2): 105-114 (1996) - [j6]Joanne F. Houlahan, Lenore J. Cowen, Gerald M. Masson:
Hypercube sandwich approach to conferencing. J. Supercomput. 10(3): 271-283 (1996) - [c10]Lenore Cowen, Joan Feigenbaum, Sampath Kannan:
A Formal Framework for Evaluating Heuristic Programs. ICALP 1996: 634-645 - [c9]Lenore Cowen, Rudolf Mathar:
The Offset Problem (Abstract). PODC 1996: 313 - 1995
- [j5]Bonnie Berger, Lenore Cowen:
Scheduling with Concurrency-Based Constraints. J. Algorithms 18(1): 98-123 (1995) - [j4]Daniel J. Kleitman, Fernando R. Lasaga, Lenore J. Cowen:
Asymptotic enumeration of full graphs. J. Graph Theory 20(1): 59-69 (1995) - [c8]Joanne F. Houlahan, Lenore J. Cowen, Gerald M. Masson:
Hypercube Sandwich Approach to Conferencing. PDPTA 1995: 481-490 - 1994
- [j3]Baruch Awerbuch, Bonnie Berger, Lenore Cowen, David Peleg:
Low-Diameter Graph Decomposition Is in NC. Random Struct. Algorithms 5(3): 441-452 (1994) - [c7]Baruch Awerbuch, Lenore Cowen, Mark A. Smith:
Efficient asynchronous distributed symmetry breaking. STOC 1994: 214-223 - 1993
- [j2]Rudolf Mathar, Lenore Cowen:
Concurrence Probabilities for a Locally Slotted Packet Radio Network by Combinatorial Methods. Perform. Evaluation 17(1): 43-51 (1993) - [c6]Baruch Awerbuch, Bonnie Berger, Lenore Cowen, David Peleg:
Near-Linear Cost Sequential and Distribured Constructions of Sparse Neighborhood Covers. FOCS 1993: 638-647 - 1992
- [c5]Baruch Awerbuch, Bonnie Berger, Lenore Cowen, David Peleg:
Fast Network Decomposition (Extended Abstract). PODC 1992: 169-177 - [c4]Baruch Awerbuch, Bonnie Berger, Lenore Cowen, David Peleg:
Low-Diameter Graph Decomposition is in NC. SWAT 1992: 83-93 - 1991
- [c3]Bonnie Berger, Lenore Cowen:
Complexity Results and Algorithms for { <, <=, = }-Constrained Scheduling. SODA 1991: 137-147
1980 – 1989
- 1989
- [c2]Mihir Bellare, Lenore Cowen, Shafi Goldwasser:
On the Structure of Secret Key Exchange Protocols. CRYPTO 1989: 604-605 - [c1]Mihir Bellare, Lenore Cowen, Shafi Goldwasser:
On the Structure of Secret Key Exchange Protocols. Distributed Computing And Cryptography 1989: 79-92 - 1986
- [j1]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): 187-195 (1986)
Coauthor Index
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