Mona Singh

ORCID

Publication Activity (10 Years)

Years Active: 1990-2023
Publications (10 Years): 14

Top Venues

Massachusetts Institute of Technology, Cambridge, MA, USA (PHD)

Education History

Massachusetts Institute of Technology, Cambridge, MA, USA

PHD

Publications

Sean B. King, Mona Singh
Primate protein-ligand interfaces exhibit significant conservation and unveil human-specific evolutionary drivers. PLoS Comput. Biol. 19 (3) (2023)
Joshua L. Wetzel, Kaiqian Zhang, Mona Singh
Learning Probabilistic Protein-DNA Recognition Codes from DNA-Binding Specificities Using Structural Mappings. RECOMB (2022)
Daniel Munro, Mona Singh
DeMaSk: a deep mutational scanning substitution matrix and its use for variant impact prediction. Bioinform. 36 (22-23) (2021)
Chaitanya Aluru, Mona Singh
Improved inference of tandem domain duplications. Bioinform. 37 (Supplement) (2021)
Sean B. King, Mona Singh
Comparative genomic analysis reveals varying levels of mammalian adaptation to coronavirus infections. PLoS Comput. Biol. 17 (11) (2021)
Chaitanya Aluru, Mona Singh
Identifying Evolutionary Origins of Repeat Domains in Protein Families. BCB (2020)
Borislav H. Hristov, Bernard Chazelle, Mona Singh
A Guided Network Propagation Approach to Identify Disease Genes that Combines Prior and New Information. RECOMB (2020)
Mona Singh
Sequence, Structure and Network Methods to Uncover Cancer Genes. BCB (2018)
Daniel Munro, Dario Ghersi, Mona Singh
Two critical positions in zinc finger domains are heavily mutated in three human cancer types. PLoS Comput. Biol. 14 (6) (2018)
Alejandro Ochoa, Mona Singh
Domain prediction with probabilistic directional context. Bioinform. 33 (16) (2017)
Borislav H. Hristov, Mona Singh
Network-Based Coverage of Mutational Profiles Reveals Cancer Genes. RECOMB (2017)
Borislav H. Hristov, Mona Singh
Network-based coverage of mutational profiles reveals cancer genes. CoRR (2017)
Alejandro Ochoa, John D. Storey, Manuel Llinás, Mona Singh
-Value: Stratified Statistics for Protein Domain Prediction. PLoS Comput. Biol. 11 (11) (2015)
Yuri Pritykin, Dario Ghersi, Mona Singh
Genome-Wide Detection and Analysis of Multifunctional Genes. PLoS Comput. Biol. 11 (10) (2015)
Dario Ghersi, Mona Singh
molBLOCKS: decomposing small molecule sets and uncovering enriched fragments. Bioinform. 30 (14) (2014)
Peng Jiang, Mona Singh, Hilary A. Coller
Computational Assessment of the Cooperativity between RNA Binding Proteins and MicroRNAs in Transcript Decay. PLoS Comput. Biol. 9 (5) (2013)
Dario Ghersi, Mona Singh
Disentangling function from topology to infer the network properties of disease genes. BMC Syst. Biol. 7 (2013)
Tamer Kahveci, Mona Singh
Guest Editorial for ACM BCB. IEEE ACM Trans. Comput. Biol. Bioinform. 10 (5) (2013)
Jimin Song, Mona Singh
From Hub Proteins to Hub Modules: The Relationship Between Essentiality and Centrality in the Yeast Interactome at Different Scales of Organization. PLoS Comput. Biol. 9 (2) (2013)
Yuri Pritykin, Mona Singh
Simple Topological Features Reflect Dynamics and Modularity in Protein Interaction Networks. PLoS Comput. Biol. 9 (10) (2013)
Carl Kingsford, Elena Zaslavsky, Mona Singh
A cost-aggregating integer linear program for motif finding. J. Discrete Algorithms 9 (4) (2011)
Alejandro Ochoa, Manuel Llinás, Mona Singh
Using context to improve protein domain identification. BMC Bioinform. 12 (2011)
John A. Capra, Katrin Paeschke, Mona Singh, Virginia A. Zakian
. PLoS Comput. Biol. 6 (7) (2010)
Peng Jiang, Mona Singh
SPICi: a fast clustering algorithm for large biological networks. Bioinform. 26 (8) (2010)
Tanya Y. Berger-Wolf, Teresa M. Przytycka, Mona Singh, Donna K. Slonim
Session Introduction. Pacific Symposium on Biocomputing (2010)
Mona Singh
Predicting and Analyzing Cellular Networks. ISBRA (2010)
Teresa M. Przytycka, Mona Singh, Donna K. Slonim
Toward the dynamic interactome: it's about time. Briefings Bioinform. 11 (1) (2010)
Tanya Y. Berger-Wolf, Teresa M. Przytycka, Mona Singh
Session Introduction. Pacific Symposium on Biocomputing (2009)
Anton V. Persikov, Robert Osada, Mona Singh
zinc finger proteins. Bioinform. 25 (1) (2009)
Chen Yanover, Mona Singh, Elena Zaslavsky
are better than one: an ensemble-based motif finder and its application to regulatory element prediction. Bioinform. 25 (7) (2009)
Jimin Song, Mona Singh
How and when should interactome-derived clusters be used to predict functional modules and protein function? Bioinform. 25 (23) (2009)
Zia Khan, Joshua S. Bloom, Leonid Kruglyak, Mona Singh
A practical algorithm for finding maximal exact matches in large sequence datasets using sparse suffix arrays. Bioinform. 25 (13) (2009)
Eric Banks, Elena Nabieva, Bernard Chazelle, Ryan Peterson, Mona Singh
Analyzing and Interrogating Biological Networks (Abstract). BICoB (2009)
John A. Capra, Roman A. Laskowski, Janet M. Thornton, Mona Singh, Thomas A. Funkhouser
Predicting Protein Ligand Binding Sites by Combining Evolutionary Sequence Conservation and 3D Structure. PLoS Comput. Biol. 5 (12) (2009)
Zia Khan, Joshua S. Bloom, Benjamin A. Garcia, Mona Singh, Leonid Kruglyak
Protein quantification across hundreds of experimental conditions. Proc. Natl. Acad. Sci. USA 106 (37) (2009)
Eric Banks, Elena Nabieva, Bernard Chazelle, Mona Singh
Organization of Physical Interactomes as Uncovered by Network Schemas. PLoS Comput. Biol. 4 (10) (2008)
John A. Capra, Mona Singh
Characterization and prediction of residues determining protein functional specificity. Bioinform. 24 (13) (2008)
John A. Capra, Mona Singh
Predicting functionally important residues from sequence conservation. Bioinform. 23 (15) (2007)
Elena Zaslavsky, Mona Singh
A combinatorial optimization approach for diverse motif finding applications. Algorithms Mol. Biol. 1 (2006)
Carl Kingsford, Elena Zaslavsky, Mona Singh
A Compact Mathematical Programming Formulation for DNA Motif Finding. CPM (2006)
Elena Nabieva, Kam Jim, Amit Agarwal, Bernard Chazelle, Mona Singh
Whole-proteome prediction of protein function via graph-theoretic analysis of interaction maps. ISMB (Supplement of Bioinformatics) (2005)
Carleton L. Kingsford, Bernard Chazelle, Mona Singh
Solving and analyzing side-chain positioning problems using linear and integer programming. Bioinform. 21 (7) (2005)
Bernard Chazelle, Carl Kingsford, Mona Singh
A Semidefinite Programming Approach to Side Chain Positioning with New Rounding Strategies. INFORMS J. Comput. 16 (4) (2004)
Robert Osada, Elena Zaslavsky, Mona Singh
Comparative analysis of methods for representing and searching for transcription factor binding sites. Bioinform. 20 (18) (2004)
Dawn J. Brooks, Jacques R. Fresco, Mona Singh
A novel method for estimating ancestral amino acid composition and its application to proteins of the Last Universal Ancestor. Bioinform. 20 (14) (2004)
Bernard Chazelle, Carl Kingsford, Mona Singh
The Side-Chain Positioning Problem: A Semidefinite Programming Formulation With New Rounding Schemes. PCK50 (2003)
Mona Singh, Peter S. Kim
Towards predicting coiled-coil protein interactions. RECOMB (2001)
Baruch Awerbuch, Margrit Betke, Ronald L. Rivest, Mona Singh
Piecemeal Graph Exploration by a Mobile Robot. Inf. Comput. 152 (2) (1999)
Mona Singh, Bonnie Berger, Peter S. Kim, James M. Berger, Andrea G. Cochran
Computational learning reveals coiled coil-like motifs in histidine kinase linker domains. Proc. Natl. Acad. Sci. USA 95 (6) (1998)
Bonnie Berger, Mona Singh
An Iterative Method for Improved Protein Structural Motif Recognition. J. Comput. Biol. 4 (3) (1997)
Bonnie Berger, Mona Singh
An iterative method for improved protein structural motif recognition. RECOMB (1997)
Baruch Awerbuch, Margrit Betke, Ronald L. Rivest, Mona Singh
Piecemeal Graph Exploration by a Mobile Robot (Extended Abstract). COLT (1995)
Margrit Betke, Ronald L. Rivest, Mona Singh
Piecemeal Learning of an Unknown Environment. Mach. Learn. 18 (2-3) (1995)
Margrit Betke, Ronald L. Rivest, Mona Singh
Piecemeal Learning of an Unknown Environment. COLT (1993)
Avrim Blum, Mona Singh
Terms. COLT (1990)

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Publication Activity (10 Years)

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Mona Singh