Roded Sharan - RankMe

156 papers A* 2A 3B 25C 14Misc 5Journal 92Unranked 13

Year	Rank	Type	Title / Venue / Authors
2026	J	`jnl`	Signing protein-protein interaction networks. Bioinform. Lorenzo Federico Signorini, Martin Kupiec, Roded Sharan
2025	B	`conf`	An Adversarial Scheme for Integrating Multi-modal Data on Protein Function. RECOMB Rami Nasser, Leah V. Schaffer, Trey Ideker, Roded Sharan
2025	C	`conf`	Mutational Signature Refitting on Sparse Pan-Cancer Data. WABI Gal Gilad, Teresa M. Przytycka, Roded Sharan
2025	J	`jnl`	PEANUT: Pathway Enrichment Analysis through Network UTilization. Bioinform. Yair Pickholz Berliner, Roded Sharan
2024	J	`jnl`	A network-based method for associating genes with autism spectrum disorder. Frontiers Bioinform. Neta Zadok, Gil Ast, Roded Sharan
2024	B	`conf`	An Integer Programming Framework for Identifying Stable Components in Asynchronous Boolean Networks. RECOMB Shani Jacobson, Roded Sharan
2024	J	`jnl`	D'or: deep orienter of protein-protein interaction networks. Bioinform. Daniel Pirak, Roded Sharan
2024	—	`conf`	Integer Programming Based Algorithms for Overlapping Correlation Clustering. From Computational Logic to Computational Biology Barel I. Mashiach, Roded Sharan
2024	J	`jnl`	Multi-modal contrastive learning of subcellular organization using DICE. Bioinform. Rami Nasser, Leah V. Schaffer, Trey Ideker, Roded Sharan
2023	J	`jnl`	A mutation-level covariate model for mutational signatures. PLoS Comput. Biol. Itay Kahane, Mark D. M. Leiserson, Roded Sharan
2022	J	`jnl`	Deep Unfolding for Non-Negative Matrix Factorization with Application to Mutational Signature Analysis. J. Comput. Biol. Rami Nasser, Yonina C. Eldar, Roded Sharan
2022	J	`jnl`	Predicting genetic interactions, cell line dependencies and drug sensitivities with variational graph auto-encoder. Frontiers Bioinform. Asia Gervits, Roded Sharan
2022	J	`jnl`	ScalpelSig Designs Targeted Genomic Panels from Data to Detect Activity of Mutational Signatures. J. Comput. Biol. Nicholas Franzese, Jason Fan, Roded Sharan, Mark D. M. Leiserson
2021	J	`jnl`	A data-driven approach for constructing mutation categories for mutational signature analysis. PLoS Comput. Biol. Gal Gilad, Mark D. M. Leiserson, Roded Sharan
2021	J	`jnl`	ANAT 3.0: a framework for elucidating functional protein subnetworks using graph-theoretic and machine learning approaches. BMC Bioinform. Lorenzo Federico Signorini, T. Almozlino, Roded Sharan
2021	J	`jnl`	An automated approach for determining the number of components in non-negative matrix factorization with application to mutational signature learning. Mach. Learn. Sci. Technol. Gal Gilad, Itay Sason, Roded Sharan
2021	J	`jnl`	Long reads capture simultaneous enhancer-promoter methylation status for cell-type deconvolution. Bioinform. Sapir Margalit, Yotam Abramson, Hila Sharim, Zohar Manber, Surajit Bhattacharya, Yi-Wen Chen, Eric Vilain, Hayk Barseghyan, Ran Elkon, Roded Sharan, Yuval Ebenstein
2021	J	`jnl`	deep unfolding for non-negative matrix factorization with application to mutational signature analysis. CoRR Rami Nasser, Yonina C. Eldar, Roded Sharan
2020	B	`conf`	A Mixture Model for Signature Discovery from Sparse Mutation Data. RECOMB Itay Sason, Yuexi Chen, Mark D. M. Leiserson, Roded Sharan
2020	J	`jnl`	A Robustness Analysis of Dynamic Boolean Models of Cellular Circuits. J. Comput. Biol. Ariel Bruner, Roded Sharan
2020	Misc	`conf`	DNA Repair Footprint Uncovers Contribution of DNA Repair Mechanism to MutationalSignatures. PSB Damian Wójtowicz, Mark D. M. Leiserson, Roded Sharan, Teresa M. Przytycka
2020	Misc	`conf`	Session Introduction. PSB Mark D. M. Leiserson, Teresa M. Przytycka, Roded Sharan
2019	—	`conf`	A Robustness Analysis of Dynamic Boolean Models of Cellular Circuits. ISBRA Ariel Bruner, Roded Sharan
2019	B	`conf`	A Sticky Multinomial Mixture Model of Strand-Coordinated Mutational Processes in Cancer. RECOMB Itay Sason, Damian Wójtowicz, Welles Robinson, Mark D. M. Leiserson, Teresa M. Przytycka, Roded Sharan
2019	J	`jnl`	Modeling clinical and molecular covariates of mutational process activity in cancer. Bioinform. Welles Robinson, Roded Sharan, Mark D. M. Leiserson
2018	C	`conf`	A Dynamic Algorithm for Network Propagation. WABI Barak Sternberg, Roded Sharan
2018	J	`jnl`	An optimization framework for network annotation. Bioinform. Sushant Patkar, Roded Sharan
2018	J	`jnl`	Genome Rearrangement with ILP. IEEE ACM Trans. Comput. Biol. Bioinform. Tom Hartmann, Nicolas Wieseke, Roded Sharan, Martin Middendorf, Matthias Bernt
2018	B	`conf`	ModulOmics: Integrating Multi-Omics Data to Identify Cancer Driver Modules. RECOMB Dana Silverbush, Simona Cristea, Gali Yanovich, Tamar Geiger, Niko Beerenwinkel, Roded Sharan
2017	J	`jnl`	A network diffusion approach to inferring sample-specific function reveals functional changes associated with breast cancer. PLoS Comput. Biol. Sushant Patkar, Assaf Magen, Roded Sharan, Sridhar Hannenhalli
2017	J	`jnl`	ANAT 2.0: reconstructing functional protein subnetworks. BMC Bioinform. Yomtov Almozlino, Nir Atias, Dana Silverbush, Roded Sharan
2017	B	`conf`	BeWith: A Between-Within Method for Module Discovery in Cancer using Integrated Analysis of Mutual Exclusivity, Co-occurrence and Functional Interactions (Extended Abstract). RECOMB Phuong Dao, Yoo-Ah Kim, Sanna Madan, Roded Sharan, Teresa M. Przytycka
2017	J	`jnl`	BeWith: A Between-Within method to discover relationships between cancer modules via integrated analysis of mutual exclusivity, co-occurrence and functional interactions. PLoS Comput. Biol. Phuong Dao, Yoo-Ah Kim, Damian Wójtowicz, Sanna Madan, Roded Sharan, Teresa M. Przytycka
2017	J	`jnl`	Complexity and algorithms for copy-number evolution problems. Algorithms Mol. Biol. Mohammed El-Kebir, Benjamin J. Raphael, Ron Shamir, Roded Sharan, Simone Zaccaria, Meirav Zehavi, Ron Zeira
2016	J	`jnl`	An integer programming framework for inferring disease complexes from network data. Bioinform. Arnon Mazza, Konrad Klockmeier, Erich E. Wanker, Roded Sharan
2016	J	`jnl`	An integer programming framework for inferring disease complexes from network data. Bioinform. Arnon Mazza, Konrad Klockmeier, Erich E. Wanker, Roded Sharan
2016	C	`conf`	Copy-Number Evolution Problems: Complexity and Algorithms. WABI Mohammed El-Kebir, Benjamin J. Raphael, Ron Shamir, Roded Sharan, Simone Zaccaria, Meirav Zehavi, Ron Zeira
2016	J	`jnl`	Functional Alignment of Metabolic Networks. J. Comput. Biol. Arnon Mazza, Allon Wagner, Eytan Ruppin, Roded Sharan
2016	Misc	`conf`	Inference of Personalized Drug Targets via Network Propagation. PSB Ortal Shnaps, Eyal Perry, Dana Silverbush, Roded Sharan
2015	B	`conf`	Functional Alignment of Metabolic Networks. RECOMB Arnon Mazza, Allon Wagner, Eytan Ruppin, Roded Sharan
2015	J	`jnl`	Network-Based Integration of Disparate Omic Data To Identify "Silent Players" in Cancer. PLoS Comput. Biol. Matthew Ruffalo, Mehmet Koyutürk, Roded Sharan
2015	J	`jnl`	Preface. J. Comput. Biol. Roded Sharan
2014	J	`jnl`	A minimum-labeling approach for reconstructing protein networks across multiple conditions. Algorithms Mol. Biol. Arnon Mazza, Irit Gat-Viks, Hesso Farhan, Roded Sharan
2014	J	`jnl`	Elucidating Influenza Inhibition Pathways via Network Reconstruction. J. Comput. Biol. Arnon Mazza, Irit Gat-Viks, Roded Sharan
2014	J	`jnl`	Experimental design schemes for learning Boolean network models. Bioinform. Nir Atias, Michal Gershenzon, Katia Labazin, Roded Sharan
2014	J	`jnl`	Network orientation via shortest paths. Bioinform. Dana Silverbush, Roded Sharan
2014	B	`ed.`	Research in Computational Molecular Biology - 18th Annual International Conference, RECOMB 2014, Pittsburgh, PA, USA, April 2-5, 2014, Proceedings RECOMB Roded Sharan
2013	C	`conf`	A Minimum-Labeling Approach for Reconstructing Protein Networks across Multiple Conditions. WABI Arnon Mazza, Irit Gat-Viks, Hesso Farhan, Roded Sharan
2013	J	`jnl`	Approximation algorithms for orienting mixed graphs. Theor. Comput. Sci. Michael Elberfeld, Danny Segev, Colin R. Davidson, Dana Silverbush, Roded Sharan
2013	J	`jnl`	Estimating population size via line graph reconstruction. Algorithms Mol. Biol. Bjarni V. Halldórsson, Dima Blokh, Roded Sharan
2013	J	`jnl`	Reconstructing Boolean Models of Signaling. J. Comput. Biol. Roded Sharan, Richard M. Karp
2013	J	`jnl`	Simultaneous Identification of Multiple Driver Pathways in Cancer. PLoS Comput. Biol. Mark D. M. Leiserson, Dima Blokh, Roded Sharan, Benjamin J. Raphael
2013	J	`jnl`	The Approximability of Shortest Path-Based Graph Orientations of Protein-Protein Interaction Networks. J. Comput. Biol. Dima Blokh, Danny Segev, Roded Sharan
2012	J	`jnl`	A Linearized Constraint-Based Approach for Modeling Signaling Networks. J. Comput. Biol. Liram Vardi, Eytan Ruppin, Roded Sharan
2012	B	`conf`	Approximation Algorithms and Hardness Results for Shortest Path Based Graph Orientations. CPM Dima Blokh, Danny Segev, Roded Sharan
2012	J	`jnl`	Comparative analysis of protein networks: hard problems, practical solutions. Commun. ACM Nir Atias, Roded Sharan
2012	J	`jnl`	Enhancing the Prioritization of Disease-Causing Genes through Tissue Specific Protein Interaction Networks. PLoS Comput. Biol. Oded Magger, Yedael Y. Waldman, Eytan Ruppin, Roded Sharan
2012	C	`conf`	Estimating Population Size via Line Graph Reconstruction. WABI Bjarni V. Halldórsson, Dima Blokh, Roded Sharan
2012	—	`conf`	Invited: From protein networks to disease mechanisms. ICCABS Roded Sharan
2012	J	`jnl`	Large-Scale Elucidation of Drug Response Pathways in Humans. J. Comput. Biol. Yael Silberberg, Assaf Gottlieb, Martin Kupiec, Eytan Ruppin, Roded Sharan
2012	B	`conf`	Reconstructing Boolean Models of Signaling. RECOMB Roded Sharan, Richard M. Karp
2012	C	`conf`	Sign Assignment Problems on Protein Networks. WABI Shay Houri, Roded Sharan
2011	J	`jnl`	An Algorithmic Framework for Predicting Side Effects of Drugs. J. Comput. Biol. Nir Atias, Roded Sharan
2011	B	`conf`	Approximation Algorithms for Orienting Mixed Graphs. CPM Michael Elberfeld, Danny Segev, Colin R. Davidson, Dana Silverbush, Roded Sharan
2011	J	`jnl`	Combining Drug and Gene Similarity Measures for Drug-Target Elucidation. J. Comput. Biol. Liat Perlman, Assaf Gottlieb, Nir Atias, Eytan Ruppin, Roded Sharan
2011	J	`jnl`	Gene Expression in the Rodent Brain is Associated with Its Regional Connectivity. PLoS Comput. Biol. Lior Wolf, Chen Goldberg, Nathan Manor, Roded Sharan, Eytan Ruppin
2011	J	`jnl`	Genome-Scale Metabolic Modeling Elucidates the Role of Proliferative Adaptation in Causing the Warburg Effect. PLoS Comput. Biol. Tomer Shlomi, Tomer Benyamini, Eyal Gottlieb, Roded Sharan, Eytan Ruppin
2011	J	`jnl`	Identification of protein complexes from co-immunoprecipitation data. Bioinform. Guy Geva, Roded Sharan
2011	J	`jnl`	On the Approximability of Reachability-Preserving Network Orientations. Internet Math. Michael Elberfeld, Vineet Bafna, Iftah Gamzu, Alexander Medvedovsky, Danny Segev, Dana Silverbush, Uri Zwick, Roded Sharan
2011	B	`conf`	Optimally Orienting Physical Networks. RECOMB Dana Silverbush, Michael Elberfeld, Roded Sharan
2011	J	`jnl`	Optimally Orienting Physical Networks. J. Comput. Biol. Dana Silverbush, Michael Elberfeld, Roded Sharan
2011	J	`jnl`	PRINCIPLE: a tool for associating genes with diseases via network propagation. Bioinform. Assaf Gottlieb, Oded Magger, Igor Berman, Eytan Ruppin, Roded Sharan
2011	B	`conf`	Similarity-based methods to predict drug targets, indications and side-effects. SISAP Roded Sharan
2010	B	`conf`	An Algorithmic Framework for Predicting Side-Effects of Drugs. RECOMB Nir Atias, Roded Sharan
2010	J	`jnl`	Associating Genes and Protein Complexes with Disease via Network Propagation. PLoS Comput. Biol. Oron Vanunu, Oded Magger, Eytan Ruppin, Tomer Shlomi, Roded Sharan
2010	J	`jnl`	Decoupling Environment-Dependent and Independent Genetic Robustness across Bacterial Species. PLoS Comput. Biol. Shiri Freilich, Anat Kreimer, Elhanan Borenstein, Uri Gophna, Roded Sharan, Eytan Ruppin
2010	C	`conf`	Improved Orientations of Physical Networks. WABI Iftah Gamzu, Danny Segev, Roded Sharan
2010	J	`jnl`	Network-Free Inference of Knockout Effects in Yeast. PLoS Comput. Biol. Tal Peleg, Nir Yosef, Eytan Ruppin, Roded Sharan
2010	J	`jnl`	Prediction of Phenotype Information from Genotype Data. Commun. Inf. Syst. Jens Gramm, Richard M. Karp, William S. Noble, Roded Sharan, Qianfei Wang, Nir Yosef
2010	J	`jnl`	Sigma: a Set-Cover-Based Inexact Graph Matching Algorithm. J. Bioinform. Comput. Biol. Misael Mongiovì, Raffaele Di Natale, Rosalba Giugno, Alfredo Pulvirenti, Alfredo Ferro, Roded Sharan
2010	J	`jnl`	Topology-Free Querying of Protein Interaction Networks. J. Comput. Biol. Sharon Bruckner, Falk Hüffner, Richard M. Karp, Ron Shamir, Roded Sharan
2009	J	`jnl`	A Network-Based Method for Predicting Disease-Causing Genes. J. Comput. Biol. Shaul Karni, Hermona Soreq, Roded Sharan
2009	J	`jnl`	Fast and Accurate Alignment of Multiple Protein Networks. J. Comput. Biol. Maxim Kalaev, Vineet Bafna, Roded Sharan
2009	J	`jnl`	On the complexity of SNP block partitioning under the perfect phylogeny model. Discret. Math. Jens Gramm, Tzvika Hartman, Till Nierhoff, Roded Sharan, Till Tantau
2009	B	`conf`	Topology-Free Querying of Protein Interaction Networks. RECOMB Sharon Bruckner, Falk Hüffner, Richard M. Karp, Ron Shamir, Roded Sharan
2009	J	`jnl`	Torque: topology-free querying of protein interaction networks. Nucleic Acids Res. Sharon Bruckner, Falk Hüffner, Richard M. Karp, Ron Shamir, Roded Sharan
2008	—	`conf`	A Propagation-based Algorithm for Inferring Gene-Disease Assocations. German Conference on Bioinformatics Oron Vanunu, Roded Sharan
2008	C	`conf`	An Algorithm for Orienting Graphs Based on Cause-Effect Pairs and Its Applications to Orienting Protein Networks. WABI Alexander Medvedovsky, Vineet Bafna, Uri Zwick, Roded Sharan
2008	—	`ch.`	Cross-Species Analysis of Protein-protein Interaction Networks. Protein-protein Interactions and Networks Nir Yosef, Eytan Ruppin, Roded Sharan
2008	B	`conf`	Fast and Accurate Alignment of Multiple Protein Networks. RECOMB Maxim Kalaev, Vineet Bafna, Roded Sharan
2008	C	`conf`	Improved network-based identification of protein orthologs. ECCB Nir Yosef, Roded Sharan, William Stafford Noble
2008	J	`jnl`	NetworkBLAST: comparative analysis of protein networks. Bioinform. Maxim Kalaev, Michael E. Smoot, Trey Ideker, Roded Sharan
2008	J	`jnl`	QNet: A Tool for Querying Protein Interaction Networks. J. Comput. Biol. Banu Dost, Tomer Shlomi, Nitin Gupta, Eytan Ruppin, Vineet Bafna, Roded Sharan
2008	J	`jnl`	Structural similarity of genetically interacting proteins. BMC Syst. Biol. Oranit Dror, Dina Schneidman-Duhovny, Alexandra Shulman-Peleg, Ruth Nussinov, Haim J. Wolfson, Roded Sharan
2007	J	`jnl`	A supervised approach for identifying discriminating genotype patterns and its application to breast cancer data. Bioinform. Nir Yosef, Zohar Yakhini, Anya Tsalenko, Vessela N. Kristensen, Anne-Lise Børresen-Dale, Eytan Ruppin, Roded Sharan
2007	J	`jnl`	Bayesian Haplotype Inference via the Dirichlet Process. J. Comput. Biol. Eric P. Xing, Michael I. Jordan, Roded Sharan
2007	J	`jnl`	Constraint-based functional similarity of metabolic genes: going beyond network topology. Bioinform. Oleg Rokhlenko, Tomer Shlomi, Roded Sharan, Eytan Ruppin, Ron Y. Pinter
2007	J	`jnl`	Haplotyping with missing data via perfect path phylogenies. Discret. Appl. Math. Jens Gramm, Till Nierhoff, Roded Sharan, Till Tantau
2007	J	`jnl`	Identification of conserved protein complexes based on a model of protein network evolution. Bioinform. Eitan Hirsh, Roded Sharan
2007	J	`jnl`	Pepitope: epitope mapping from affinity-selected peptides. Bioinform. Itay Mayrose, Osnat Penn, Elana Erez, Nimrod D. Rubinstein, Tomer Shlomi, Natalia Tarnovitski Freund, Erez M. Bublil, Eytan Ruppin, Roded Sharan, Jonathan M. Gershoni, Eric Martz, Tal Pupko
2007	B	`conf`	QNet: A Tool for Querying Protein Interaction Networks. RECOMB Banu Dost, Tomer Shlomi, Nitin Gupta, Eytan Ruppin, Vineet Bafna, Roded Sharan
2007	—	`conf`	SPINE: a framework for signaling-regulatory pathway inference from cause-effect experiments. ISMB/ECCB (Supplement of Bioinformatics) Oved Ourfali, Tomer Shlomi, Trey Ideker, Eytan Ruppin, Roded Sharan
2006	J	`jnl`	A Note on Phasing Long Genomic Regions Using Local Haplotype Predictions. J. Bioinform. Comput. Biol. Eleazar Eskin, Roded Sharan, Eran Halperin
2006	J	`jnl`	A direct comparison of protein interaction confidence assignment schemes. BMC Bioinform. Silpa Suthram, Tomer Shlomi, Eytan Ruppin, Roded Sharan, Trey Ideker
2006	—	`conf`	A sequence-based filtering method for ncRNA identification and its application to searching for riboswitch elements. ISMB (Supplement of Bioinformatics) Shaojie Zhang, Ilya Borovok, Yair Aharonowitz, Roded Sharan, Vineet Bafna
2006	J	`jnl`	Analysis of Snp-expression Association Matrices. J. Bioinform. Comput. Biol. Anya Tsalenko, Roded Sharan, Vessela N. Kristensen, Hege Edvardsen, Anne-Lise Børresen-Dale, Amir Ben-Dor, Zohar Yakhini
2006	J	`jnl`	Efficient Algorithms for Detecting Signaling Pathways in Protein Interaction Networks. J. Comput. Biol. Jacob Scott, Trey Ideker, Richard M. Karp, Roded Sharan
2006	C	`conf`	Flux-Based WABI Oleg Rokhlenko, Tomer Shlomi, Roded Sharan, Eytan Ruppin, Ron Y. Pinter
2006	J	`jnl`	Islands of Tractability for Parsimony Haplotyping. IEEE ACM Trans. Comput. Biol. Bioinform. Roded Sharan, Bjarni V. Halldórsson, Sorin Istrail
2006	C	`conf`	On the Complexity of SNP Block Partitioning Under the Perfect Phylogeny Model. WABI Jens Gramm, Tzvika Hartman, Till Nierhoff, Roded Sharan, Till Tantau
2006	J	`jnl`	QPath: a method for querying pathways in a protein-protein interaction network. BMC Bioinform. Tomer Shlomi, Daniel Segal, Eytan Ruppin, Roded Sharan
2006	J	`jnl`	Reconstructing Chain Functions in Genetic Networks. SIAM J. Discret. Math. Irit Gat-Viks, Richard M. Karp, Ron Shamir, Roded Sharan
2005	J	`jnl`	A 1.5-approximation algorithm for sorting by transpositions and transreversals. J. Comput. Syst. Sci. Tzvika Hartman, Roded Sharan
2005	J	`jnl`	A Discriminative Model for Identifying Spatial cis-Regulatory Modules. J. Comput. Biol. Eran Segal, Roded Sharan
2005	—	`conf`	A motif-based framework for recognizing sequence families. ISMB (Supplement of Bioinformatics) Roded Sharan, Eugene W. Myers
2005	—	`conf`	Analysis of SNP-Expression Association Matrices. CSB Anya Tsalenko, Roded Sharan, Hege Edvardsen, Vessela N. Kristensen, Anne-Lise Børresen-Dale, Amir Ben-Dor, Zohar Yakhini
2005	—	`conf`	Comparison of Protein-Protein Interaction Confidence Assignment Schemes. Systems Biology and Regulatory Genomics Silpa Suthram, Tomer Shlomi, Eytan Ruppin, Roded Sharan, Trey Ideker
2005	B	`conf`	Efficient Algorithms for Detecting Signaling Pathways in Protein Interaction Networks. RECOMB Jacob Scott, Trey Ideker, Richard M. Karp, Roded Sharan
2005	J	`jnl`	Identification of Protein Complexes by Comparative Analysis of Yeast and Bacterial Protein Interaction Data. J. Comput. Biol. Roded Sharan, Trey Ideker, Brian P. Kelley, Ron Shamir, Richard M. Karp
2005	—	`conf`	Islands of Tractability for Parsimony Haplotyping. CSB Roded Sharan, Bjarni V. Halldórsson, Sorin Istrail
2005	J	`jnl`	Multiplexing Schemes for Generic SNP Genotyping Assays. J. Comput. Biol. Roded Sharan, Jens Gramm, Zohar Yakhini, Amir Ben-Dor
2004	C	`conf`	A 1.5-Approximation Algorithm for Sorting by Transpositions and Transreversals. WABI Tzvika Hartman, Roded Sharan
2004	B	`conf`	A discriminative model for identifying spatial cis-regulatory modules. RECOMB Eran Segal, Roded Sharan
2004	J	`jnl`	A fully dynamic algorithm for modular decomposition and recognition of cographs. Discret. Appl. Math. Ron Shamir, Roded Sharan
2004	A*	`conf`	Bayesian haplo-type inference via the dirichlet process. ICML Eric P. Xing, Roded Sharan, Michael I. Jordan
2004	J	`jnl`	CREME: Cis-Regulatory Module Explorer for the human genome. Nucleic Acids Res. Roded Sharan, Asa Ben-Hur, Gabriela G. Loots, Ivan Ovcharenko
2004	J	`jnl`	Cluster graph modification problems. Discret. Appl. Math. Ron Shamir, Roded Sharan, Dekel Tsur
2004	J	`jnl`	Computational Problems in Noisy SNP and Haplotype Analysis: Block Scores, Block Identification, and Population Stratification. INFORMS J. Comput. Gad Kimmel, Roded Sharan, Ron Shamir
2004	B	`conf`	Identification of protein complexes by comparative analysis of yeast and bacterial protein interaction data. RECOMB Roded Sharan, Trey Ideker, Brian P. Kelley, Ron Shamir, Richard M. Karp
2004	J	`jnl`	Incomplete Directed Perfect Phylogeny. SIAM J. Comput. Itsik Pe'er, Tal Pupko, Ron Shamir, Roded Sharan
2004	Misc	`conf`	Multiplexing Schemes for Generic SNP Genotyping Assays. Pacific Symposium on Biocomputing Roded Sharan, Amir Ben-Dor, Zohar Yakhini
2004	J	`jnl`	PathBLAST: a tool for alignment of protein interaction networks. Nucleic Acids Res. Brian P. Kelley, Bingbing Yuan, Fran Lewitter, Roded Sharan, Brent R. Stockwell, Trey Ideker
2004	Misc	`conf`	Reconstructing Chain Functions in Genetic Networks. Pacific Symposium on Biocomputing Irit Gat-Viks, Ron Shamir, Richard M. Karp, Roded Sharan
2004	J	`jnl`	Towards Optimally Multiplexed Applications of Universal Arrays. J. Comput. Biol. Amir Ben-Dor, Tzvika Hartman, Richard M. Karp, Benno Schwikowski, Roded Sharan, Zohar Yakhini
2003	J	`jnl`	CLICK and EXPANDER: a system for clustering and visualizing gene expression data. Bioinform. Roded Sharan, Adi Maron-Katz, Ron Shamir
2003	—	`conf`	CREME: a framework for identifying cis-regulatory modules in human-mouse conserved segments. ISMB (Supplement of Bioinformatics) Roded Sharan, Ivan Ovcharenko, Asa Ben-Hur, Richard M. Karp
2003	C	`conf`	Identifying Blocks and Sub-populations in Noisy SNP Data. WABI Gad Kimmel, Roded Sharan, Ron Shamir
2003	J	`jnl`	Scoring clustering solutions by their biological relevance. Bioinform. Irit Gat-Viks, Roded Sharan, Ron Shamir
2003	B	`conf`	Towards optimally multiplexed applications of universal DNA tag systems. RECOMB Amir Ben-Dor, Tzvika Hartman, Benno Schwikowski, Roded Sharan, Zohar Yakhini
2002	B	`conf`	Cluster Graph Modification Problems. WG Ron Shamir, Roded Sharan, Dekel Tsur
2002	A	`conf`	Discovering statistically significant biclusters in gene expression data. ISMB Amos Tanay, Roded Sharan, Ron Shamir
2002	—	`—`	Graph modification problems and their applications to genomic research Roded Sharan
2002	J	`jnl`	On the Complexity of Positional Sequencing by Hybridization. J. Comput. Biol. Amir Ben-Dor, Itsik Pe'er, Ron Shamir, Roded Sharan
2002	—	`conf`	On the Generality of Phylogenies from Incomplete Directed Characters. SWAT Itsik Pe'er, Ron Shamir, Roded Sharan
2001	C	`conf`	A Chemical-Distance-Based Test for Positive Darwinian Selection. WABI Tal Pupko, Roded Sharan, Masami Hasegawa, Ron Shamir, Dan Graur
2001	J	`jnl`	A Fully Dynamic Algorithm for Recognizing and Representing Proper Interval Graphs. SIAM J. Comput. Pavol Hell, Ron Shamir, Roded Sharan
2001	J	`jnl`	Complexity classification of some edge modification problems. Discret. Appl. Math. Assaf Natanzon, Ron Shamir, Roded Sharan
2001	J	`jnl`	On the Complexity of Positional Sequencing by Hybridization Electron. Colloquium Comput. Complex. Piotr Berman, Amir Ben-Dor, Itsik Pe'er, Roded Sharan, Ron Shamir
2000	J	`jnl`	A Polynomial Approximation Algorithm for the Minimum Fill-In Problem. SIAM J. Comput. Assaf Natanzon, Ron Shamir, Roded Sharan
2000	A	`conf`	Center CLICK: A Clustering Algorithm with Applications to Gene Expression Analysis. ISMB Roded Sharan, Ron Shamir
2000	B	`conf`	Incomplete Directed Perfect Phylogeny. CPM Itsik Pe'er, Ron Shamir, Roded Sharan
1999	A	`conf`	A Fully Dynamic Algorithm for Recognizing and Representing Proper Interval Graphs. ESA Pavol Hell, Ron Shamir, Roded Sharan
1999	B	`conf`	Complexity Classification of Some Edge Modification Problems. WG Assaf Natanzon, Ron Shamir, Roded Sharan
1999	B	`conf`	On the Complexity of Positional Sequencing by Hybridization. CPM Amir Ben-Dor, Itsik Pe'er, Ron Shamir, Roded Sharan
1998	A*	`conf`	A Polynomial Approximation Algorithm for the Minimum Fill-In Problem. STOC Assaf Natanzon, Ron Shamir, Roded Sharan
1996	—	`conf`	A New ISTCS Roded Sharan, Avi Wigderson