Ron Shamir - RankMe

201 papers A* 6A 9B 27C 5Misc 1Journal 138Unranked 15

Year	Rank	Type	Title / Venue / Authors
2025	J	`jnl`	Predicting appropriateness of antibiotic treatment among ICU patients with hospital-acquired infection. npj Digit. Medicine Ella Goldschmidt, Ella Rannon, Daniel Bernstein, Asaf Wasserman, Michael Roimi, Anat Shrot, Dan Coster, Ron Shamir
2025	A	`conf`	Towards Regulatory-Confirmed Adaptive Clinical Trials: Machine Learning Opportunities and Solutions. AISTATS Omer Noy Klein, Alihan Hüyük, Ron Shamir, Uri Shalit, Mihaela van der Schaar
2025	J	`jnl`	Towards Regulatory-Confirmed Adaptive Clinical Trials: Machine Learning Opportunities and Solutions. CoRR Omer Noy Klein, Alihan Hüyük, Ron Shamir, Uri Shalit, Mihaela van der Schaar
2024	J	`jnl`	The predictive capacity of polygenic risk scores for disease risk is only moderately influenced by imputation panels tailored to the target population. Bioinform. Hagai Levi, Ran Elkon, Ron Shamir
2023	J	`jnl`	Time-dependent Iterative Imputation for Multivariate Longitudinal Clinical Data. CoRR Omer Noy, Ron Shamir
2022	J	`jnl`	3CAC: improving the classification of phages and plasmids in metagenomic assemblies using assembly graphs. Bioinform. Lianrong Pu, Ron Shamir
2022	J	`jnl`	Data Set-Adaptive Minimizer Order Reduces Memory Usage in J. Comput. Biol. Dan Flomin, David Pellow, Ron Shamir
2022	J	`jnl`	Parameterized syncmer schemes improve long-read mapping. PLoS Comput. Biol. Abhinav Dutta, David Pellow, Ron Shamir
2022	J	`jnl`	The DOMINO web-server for active module identification analysis. Bioinform. Hagai Levi, Nima Rahmanian, Ran Elkon, Ron Shamir
2021	J	`jnl`	2020 ISCB Innovatory Award: Xiaole Shirley Liu. Bioinform. Christiana N. Fogg, Diane E. Kovats, Ron Shamir
2021	J	`jnl`	2020 ISCB Overton Prize: Jian Peng. Bioinform. Christiana N. Fogg, Diane E. Kovats, Ron Shamir
2021	J	`jnl`	2020 ISCB accomplishments by a Senior Scientist Award: Steven Salzberg. Bioinform. Christiana N. Fogg, Diane E. Kovats, Ron Shamir
2021	J	`jnl`	2020 Outstanding contributions to ISCB award: Judith Blake. Bioinform. Christiana N. Fogg, Diane E. Kovats, Ron Shamir
2021	—	`conf`	Improving the efficiency of de Bruijn graph construction using compact universal hitting sets. BCB Yael Ben-Ari, Dan Flomin, Lianrong Pu, Yaron Orenstein, Ron Shamir
2021	J	`jnl`	Sorting cancer karyotypes using double-cut-and-joins, duplications and deletions. Bioinform. Ron Zeira, Ron Shamir
2020	J	`jnl`	2019 ISCB Innovator Award Recognizes William Stafford Noble. Bioinform. Christiana N. Fogg, Ron Shamir, Diane E. Kovats
2020	J	`jnl`	2019 ISCB Overton Prize: Christophe Dessimoz. Bioinform. Christiana N. Fogg, Ron Shamir, Diane E. Kovats
2020	J	`jnl`	2019 Outstanding Contributions to ISCB Awarded to Barb Bryant. Bioinform. Christiana N. Fogg, Ron Shamir, Diane E. Kovats
2020	J	`jnl`	Bonnie Berger named ISCB 2019 ISCB Accomplishments by a Senior Scientist Award recipient. Bioinform. Christiana N. Fogg, Ron Shamir, Diane E. Kovats
2020	J	`jnl`	MONET: Multi-omic module discovery by omic selection. PLoS Comput. Biol. Nimrod Rappoport, Roy Safra, Ron Shamir
2020	J	`jnl`	PRODIGY: personalized prioritization of driver genes. Bioinform. Gal Dinstag, Ron Shamir
2020	J	`jnl`	PlasClass improves plasmid sequence classification. PLoS Comput. Biol. David Pellow, Itzik Mizrahi, Ron Shamir
2019	J	`jnl`	2019 ISCB Innovator Award recognizes William Stafford Noble. F1000Research Diane E. Kovats, Ron Shamir, Christiana N. Fogg
2019	J	`jnl`	2019 ISCB Overton Prize: Christophe Dessimoz. F1000Research Diane E. Kovats, Ron Shamir, Christiana N. Fogg
2019	J	`jnl`	NEMO: cancer subtyping by integration of partial multi-omic data. Bioinform. Nimrod Rappoport, Ron Shamir
2019	J	`jnl`	PROMO: an interactive tool for analyzing clinically-labeled multi-omic cancer datasets. BMC Bioinform. Dvir Netanely, Neta Stern, Itay Laufer, Ron Shamir
2018	J	`jnl`	2018 ISCB Innovator Award recognizes M. Madan Babu. Bioinform. Christiana N. Fogg, Diane E. Kovats, Ron Shamir
2018	J	`jnl`	2018 ISCB Innovator Award recognizes M. Madan Babu. PLoS Comput. Biol. Christiana N. Fogg, Diane E. Kovats, Ron Shamir
2018	J	`jnl`	2018 ISCB Overton Prize awarded to Cole Trapnell. Bioinform. Christiana N. Fogg, Diane E. Kovats, Ron Shamir
2018	J	`jnl`	2018 ISCB Overton Prize awarded to Cole Trapnell. PLoS Comput. Biol. Christiana N. Fogg, Diane E. Kovats, Ron Shamir
2018	J	`jnl`	2018 ISCB accomplishments by a senior scientist award. PLoS Comput. Biol. Christiana N. Fogg, Diane E. Kovats, Ron Shamir
2018	J	`jnl`	2018 outstanding contributions to ISCB award: Russ Altman. PLoS Comput. Biol. Christiana N. Fogg, Diane E. Kovats, Ron Shamir
2018	J	`jnl`	ADEPTUS: a discovery tool for disease prediction, enrichment and network analysis based on profiles from many diseases. Bioinform. David Amar, Amir Vizel, Carmit Levy, Ron Shamir
2018	J	`jnl`	Faucet: streaming de novo assembly graph construction. Bioinform. Roye Rozov, Gil Goldshlager, Eran Halperin, Ron Shamir
2018	J	`jnl`	Message from the ISCB: 2018 ISCB Accomplishments by a Senior Scientist Award. Bioinform. Christiana N. Fogg, Diane E. Kovats, Ron Shamir
2018	J	`jnl`	Message from the ISCB: 2018 Outstanding Contributions to ISCB Award: Russ Altman. Bioinform. Christiana N. Fogg, Diane E. Kovats, Ron Shamir
2017	J	`jnl`	A Linear-Time Algorithm for the Copy Number Transformation Problem. J. Comput. Biol. Ron Zeira, Meirav Zehavi, Ron Shamir
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
2017	J	`jnl`	Designing small universal k-mer hitting sets for improved analysis of high-throughput sequencing. PLoS Comput. Biol. Yaron Orenstein, David Pellow, Guillaume Marçais, Ron Shamir, Carl Kingsford
2017	J	`jnl`	Extracting replicable associations across multiple studies: Empirical Bayes algorithms for controlling the false discovery rate. PLoS Comput. Biol. David Amar, Ron Shamir, Daniel Yekutieli
2017	J	`jnl`	Improving the performance of minimizers and winnowing schemes. Bioinform. Guillaume Marçais, David Pellow, Daniel Bork, Yaron Orenstein, Ron Shamir, Carl Kingsford
2017	J	`jnl`	Reconstructing cancer karyotypes from short read data: the half empty and half full glass. BMC Bioinform. Rami Eitan, Ron Shamir
2017	J	`jnl`	Recycler: an algorithm for detecting plasmids from de novo assembly graphs. Bioinform. Roye Rozov, Aya Brown Kav, David Bogumil, Naama Shterzer, Eran Halperin, Itzhak Mizrahi, Ron Shamir
2017	J	`jnl`	Sorting by Cuts, Joins, and Whole Chromosome Duplications. J. Comput. Biol. Ron Zeira, Ron Shamir
2016	B	`conf`	A Linear-Time Algorithm for the Copy Number Transformation Problem. CPM Ron Shamir, Meirav Zehavi, Ron Zeira
2016	C	`conf`	Compact Universal k-mer Hitting Sets. WABI Yaron Orenstein, David Pellow, Guillaume Marçais, Ron Shamir, Carl Kingsford
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
2015	J	`jnl`	A hierarchical Bayesian model for flexible module discovery in three-way time-series data. Bioinform. David Amar, Daniel Yekutieli, Adi Maron-Katz, Talma Hendler, Ron Shamir
2015	J	`jnl`	Design of shortest double-stranded DNA sequences covering all Bioinform. Yaron Orenstein, Ron Shamir
2015	B	`conf`	Sorting by Cuts, Joins and Whole Chromosome Duplications. CPM Ron Zeira, Ron Shamir
2014	J	`jnl`	Fast lossless compression via cascading Bloom filters. BMC Bioinform. Roye Rozov, Ron Shamir, Eran Halperin
2013	J	`jnl`	Design of shortest double-stranded DNA sequences covering all Bioinform. Yaron Orenstein, Ron Shamir
2013	J	`jnl`	Dissection of Regulatory Networks that Are Altered in Disease via Differential Co-expression. PLoS Comput. Biol. David Amar, Hershel Safer, Ron Shamir
2013	J	`jnl`	RAP: Accurate and Fast Motif Finding Based on Protein-Binding Microarray Data. J. Comput. Biol. Yaron Orenstein, Eran Mick, Ron Shamir
2013	J	`jnl`	Systematic inference of highways of horizontal gene transfer in prokaryotes. Bioinform. Mukul S. Bansal, Guy Banay, Timothy J. Harlow, J. Peter Gogarten, Ron Shamir
2012	J	`jnl`	Constructing Logical Models of Gene Regulatory Networks by Integrating Transcription Factor-DNA Interactions with Expression Data: An Entropy-Based Approach. J. Comput. Biol. Guy Karlebach, Ron Shamir
2012	B	`conf`	Gene Regulation, Protein Networks and Disease: A Computational Perspective. CPM Ron Shamir
2012	J	`jnl`	MGMR: leveraging RNA-Seq population data to optimize expression estimation. BMC Bioinform. Roye Rozov, Eran Halperin, Ron Shamir
2012	J	`jnl`	Network-Induced Classification Kernels for Gene Expression Profile Analysis. J. Comput. Biol. Ofer Lavi, Gideon Dror, Ron Shamir
2011	J	`jnl`	A Note on the Fixed Parameter Tractability of the Gene-Duplication Problem. IEEE ACM Trans. Comput. Biol. Bioinform. Mukul S. Bansal, Ron Shamir
2011	J	`jnl`	An O(n J. Discrete Algorithms Michal Ozery-Flato, Ron Shamir
2011	J	`jnl`	Detecting Highways of Horizontal Gene Transfer. J. Comput. Biol. Mukul S. Bansal, Guy Banay, J. Peter Gogarten, Ron Shamir
2011	J	`jnl`	Preface: 2 J. Comput. Biol. Pavel A. Pevzner, Ron Shamir
2011	J	`jnl`	SPIKE: a database of highly curated human signaling pathways. Nucleic Acids Res. Arnon Paz, Zippora Brownstein, Yaara Ber, Shani Bialik, Eyal David, Dorit Sagir, Igor Ulitsky, Ran Elkon, Adi Kimchi, Karen B. Avraham, Yosef Shiloh, Ron Shamir
2011	B	`conf`	Understanding Gene Sequence Variation in the Context of Transcription Regulation in Yeast. RECOMB Irit Gat-Viks, Renana Meller, Martin Kupiec, Ron Shamir
2011	—	`conf`	Using Computational Biology Methods to Improve Post-silicon Microprocessor Testing. Haifa Verification Conference Ron Zeira, Dmitry Korchemny, Ron Shamir
2010	J	`jnl`	A Faster Algorithm for Simultaneous Alignment and Folding of RNA. J. Comput. Biol. Michal Ziv-Ukelson, Irit Gat-Viks, Ydo Wexler, Ron Shamir
2010	—	`conf`	Detecting Highways of Horizontal Gene Transfer. RECOMB-CG Mukul S. Bansal, J. Peter Gogarten, Ron Shamir
2010	B	`conf`	Discovering Transcriptional Modules by Combined Analysis of Expression Profiles and Regulatory Sequences. RECOMB Yonit Halperin, Chaim Linhart, Igor Ulitsky, Ron Shamir
2010	J	`jnl`	Minimally perturbing a gene regulatory network to avoid a disease phenotype: the glioma network as a test case. BMC Syst. Biol. Guy Karlebach, Ron Shamir
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`	Assessing the Quality of Whole Genome Alignments in Bacteria. Adv. Bioinformatics Firas Swidan, Ron Shamir
2009	J	`jnl`	Faster pattern matching with character classes using prime number encoding. J. Comput. Syst. Sci. Chaim Linhart, Ron Shamir
2009	J	`jnl`	Identifying functional modules using expression profiles and confidence-scored protein interactions. Bioinform. Igor Ulitsky, Ron Shamir
2009	J	`jnl`	Increasing the Power of Association Studies by Imputation-based Sparse Tag SNP Selection. Commun. Inf. Syst. Ofir Davidovich, Eran Halperin, Gad Kimmel, Ron Shamir
2009	J	`jnl`	Matching with don't-cares and a small number of mismatches. Inf. Process. Lett. Chaim Linhart, Ron Shamir
2009	J	`jnl`	Sorting Cancer Karyotypes by Elementary Operations. J. Comput. Biol. Michal Ozery-Flato, Ron Shamir
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	C	`conf`	A Faster Algorithm for RNA Co-folding. WABI Michal Ziv-Ukelson, Irit Gat-Viks, Ydo Wexler, Ron Shamir
2008	J	`jnl`	Computational Problems in Perfect Phylogeny Haplotyping: Typing without Calling the Allele. IEEE ACM Trans. Comput. Biol. Bioinform. Tamar Barzuza, Jacques S. Beckmann, Ron Shamir, Itsik Pe'er
2008	B	`conf`	Detecting Disease-Specific Dysregulated Pathways Via Analysis of Clinical Expression Profiles. RECOMB Igor Ulitsky, Richard M. Karp, Ron Shamir
2008	J	`jnl`	Evolution and Selection in Yeast Promoters: Analyzing the Combined Effect of Diverse Transcription Factor Binding Sites. PLoS Comput. Biol. Daniela Raijman, Ron Shamir, Amos Tanay
2008	J	`jnl`	SPIKE - a database, visualization and analysis tool of cellular signaling pathways. BMC Bioinform. Ran Elkon, Rita Vesterman, Nira Amit, Igor Ulitsky, Idan Zohar, Mali Weisz, Gilad Mass, Nir Orlev, Giora Sternberg, Ran Blekhman, Jackie Assa, Yosef Shiloh, Ron Shamir
2008	—	`conf`	Sorting Cancer Karyotypes by Elementary Operations. RECOMB-CG Michal Ozery-Flato, Ron Shamir
2008	J	`jnl`	Sorting Genomes with Centromeres by Translocations. J. Comput. Biol. Michal Ozery-Flato, Ron Shamir
2007	J	`jnl`	GEVALT: An integrated software tool for genotype analysis. BMC Bioinform. Ofir Davidovich, Gad Kimmel, Ron Shamir
2007	J	`jnl`	Identification of functional modules using network topology and high-throughput data. BMC Syst. Biol. Igor Ulitsky, Ron Shamir
2007	J	`jnl`	Improved algorithms for the random cluster graph model. Random Struct. Algorithms Ron Shamir, Dekel Tsur
2007	J	`jnl`	Preface. Discret. Appl. Math. Sorin Istrail, Pavel A. Pevzner, Ron Shamir
2007	B	`conf`	Rearrangements in Genomes with Centromeres Part I: Translocations. RECOMB Michal Ozery-Flato, Ron Shamir
2007	J	`jnl`	Sorting by Reciprocal Translocations via Reversals Theory. J. Comput. Biol. Michal Ozery-Flato, Ron Shamir
2007	J	`jnl`	Special issue on computational molecular biology. J. Comput. Syst. Sci. Richard M. Karp, Ming Li, Pavel A. Pevzner, Ron Shamir
2006	J	`jnl`	A Probabilistic Methodology for Integrating Knowledge and Experiments on Biological Networks. J. Comput. Biol. Irit Gat-Viks, Amos Tanay, Daniela Raijman, Ron Shamir
2006	J	`jnl`	A simpler and faster 1.5-approximation algorithm for sorting by transpositions. Inf. Comput. Tzvika Hartman, Ron Shamir
2006	B	`conf`	An O(n CPM Michal Ozery-Flato, Ron Shamir
2006	J	`jnl`	Reconstructing Chain Functions in Genetic Networks. SIAM J. Discret. Math. Irit Gat-Viks, Richard M. Karp, Ron Shamir, Roded Sharan
2006	A	`conf`	Some Computational Challenges in Today's Bio-medicine. ESA Ron Shamir
2006	—	`conf`	Sorting by Translocations Via Reversals Theory. Comparative Genomics Michal Ozery-Flato, Ron Shamir
2005	J	`jnl`	A Block-Free Hidden Markov Model for Genotypes and Its Application to Disease Association. J. Comput. Biol. Gad Kimmel, Ron Shamir
2005	J	`jnl`	Accurate identification of alternatively spliced exons using support vector machine. Bioinform. Gideon Dror, Rotem Sorek, Ron Shamir
2005	J	`jnl`	Guest Editors' foreword. J. Comput. Syst. Sci. Richard M. Karp, Ming Li, Pavel A. Pevzner, Ron Shamir
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`	Tag SNP selection in genotype data for maximizing SNP prediction accuracy. ISMB (Supplement of Bioinformatics) Eran Halperin, Gad Kimmel, Ron Shamir
2005	J	`jnl`	The Degenerate Primer Design Problem: Theory and Applications. J. Comput. Biol. Chaim Linhart, Ron Shamir
2005	B	`conf`	The Factor Graph Network Model for Biological Systems. RECOMB Irit Gat-Viks, Amos Tanay, Daniela Raijman, Ron Shamir
2005	J	`jnl`	The Incomplete Perfect Phylogeny Haplotype Problem. J. Bioinform. Comput. Biol. Gad Kimmel, Ron Shamir
2004	J	`jnl`	A fully dynamic algorithm for modular decomposition and recognition of cographs. Discret. Appl. Math. Ron Shamir, Roded Sharan
2004	J	`jnl`	A note on tolerance graph recognition. Discret. Appl. Math. Ryan B. Hayward, Ron Shamir
2004	J	`jnl`	Cluster graph modification problems. Discret. Appl. Math. Ron Shamir, Roded Sharan, Dekel Tsur
2004	—	`conf`	Computational Dissection of Regulatory Networks Using Diverse High-Throughput Data. CSB Ron Shamir
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`	Computational Problems in Perfect Phylogeny Haplotyping: Xor-Genotypes and Tag SNPs. CPM Tamar Barzuza, Jacques S. Beckmann, Ron Shamir, Itsik Pe'er
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	B	`conf`	Maximum likelihood resolution of multi-block genotypes. RECOMB Gad Kimmel, Ron Shamir
2004	—	`conf`	Modeling and Analysis of Heterogeneous Regulation in Biological Networks. Regulatory Genomics Irit Gat-Viks, Amos Tanay, Ron Shamir
2004	J	`jnl`	Modeling and Analysis of Heterogeneous Regulation in Biological Networks. J. Comput. Biol. Irit Gat-Viks, Amos Tanay, Ron Shamir
2004	J	`jnl`	Multilevel Modeling and Inference of Transcription Regulation. J. Comput. Biol. Amos Tanay, Ron Shamir
2004	J	`jnl`	PIVOT: Protein Interacions VisualizatiOn Tool. Bioinform. Nir Orlev, Ron Shamir, Yosef Shiloh
2004	Misc	`conf`	Reconstructing Chain Functions in Genetic Networks. Pacific Symposium on Biocomputing Irit Gat-Viks, Ron Shamir, Richard M. Karp, Roded Sharan
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`	Chain functions and scoring functions in genetic networks. ISMB (Supplement of Bioinformatics) Irit Gat-Viks, Ron Shamir
2003	J	`jnl`	Handling Long Targets and Errors in Sequencing by Hybridization. J. Comput. Biol. Eran Halperin, Shay Halperin, Tzvika Hartman, Ron Shamir
2003	C	`conf`	Identifying Blocks and Sub-populations in Noisy SNP Data. WABI Gad Kimmel, Roded Sharan, Ron Shamir
2003	B	`conf`	Modeling transcription programs: inferring binding site activity and dose-response model optimization. RECOMB Amos Tanay, Ron Shamir
2003	J	`jnl`	Scoring clustering solutions by their biological relevance. Bioinform. Irit Gat-Viks, Roded Sharan, Ron Shamir
2003	J	`jnl`	The Restriction Scaffold Problem. J. Comput. Biol. Amir Ben-Dor, Richard M. Karp, Benno Schwikowski, Ron Shamir
2003	J	`jnl`	Two Notes on Genome Rearrangement. J. Bioinform. Comput. Biol. Michal Ozery-Flato, Ron Shamir
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	J	`jnl`	Foreword. J. Comput. Syst. Sci. Ming Li, Pavel A. Pevzner, Ron Shamir
2002	B	`conf`	Handling long targets and errors in sequencing by hybridization. RECOMB Eran Halperin, Shay Halperin, Tzvika Hartman, Ron Shamir
2002	—	`conf`	Improved Algorithms for the Random Cluster Graph Model. SWAT Ron Shamir, Dekel Tsur
2002	J	`jnl`	Large Scale Sequencing by Hybridization. J. Comput. Biol. Ron Shamir, Dekel Tsur
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
2002	A	`conf`	The degenerate primer design problem. ISMB Chaim Linhart, Ron Shamir
2002	B	`conf`	The restriction scaffold problem. RECOMB Amir Ben-Dor, Richard M. Karp, Benno Schwikowski, Ron Shamir
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	—	`conf`	Computational expansion of genetic networks. ISMB (Supplement of Bioinformatics) Amos Tanay, Ron Shamir
2001	B	`conf`	Large scale sequencing by hybridization. RECOMB Ron Shamir, Dekel Tsur
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	J	`jnl`	A clustering algorithm based on graph connectivity. Inf. Process. Lett. Erez Hartuv, Ron Shamir
2000	J	`jnl`	Algorithms for Optical Mapping. J. Comput. Biol. Richard M. Karp, Ron Shamir
2000	J	`jnl`	An Algorithm Combining Discrete and Continuous Methods for Optical Mapping. J. Comput. Biol. Richard M. Karp, Itsik Pe'er, Ron Shamir
2000	A	`conf`	Center CLICK: A Clustering Algorithm with Applications to Gene Expression Analysis. ISMB Roded Sharan, Ron Shamir
2000	J	`jnl`	Foreword. Discret. Appl. Math. Sorin Istrail, Pavel A. Pevzner, Ron Shamir
2000	B	`conf`	Incomplete Directed Perfect Phylogeny. CPM Itsik Pe'er, Ron Shamir, Roded Sharan
2000	J	`jnl`	Preface: Special RECOMB 2000 Issue. J. Comput. Biol. Ron Shamir
2000	B	`ed.`	Proceedings of the Fourth Annual International Conference on Computational Molecular Biology, RECOMB 2000, Tokyo, Japan, April 8-11, 2000 RECOMB Ron Shamir, Satoru Miyano, Sorin Istrail, Pavel A. Pevzner, Michael S. Waterman
2000	A	`conf`	Spectrum Alignment: Efficient Resequencing by Hybridization. ISMB Itsik Pe'er, Ron Shamir
1999	J	`jnl`	A Faster and Simpler Algorithm for Sorting Signed Permutations by Reversals. SIAM J. Comput. Haim Kaplan, Ron Shamir, Robert Endre Tarjan
1999	A	`conf`	A Fully Dynamic Algorithm for Recognizing and Representing Proper Interval Graphs. ESA Pavol Hell, Ron Shamir, Roded Sharan
1999	A	`conf`	An Algorithm Combining Discrete and Continuous Methods for Optical Mapping. ISMB Richard M. Karp, Itsik Pe'er, Ron Shamir
1999	B	`conf`	An algorithm for clustering cDNAs for gene expression analysis. RECOMB Erez Hartuv, Armin O. Schmitt, Jörg Lange, Sebastian Meier-Ewert, Hans Lehrach, Ron Shamir
1999	J	`jnl`	Bounded Degree Interval Sandwich Problems. Algorithmica Haim Kaplan, Ron Shamir
1999	J	`jnl`	Clustering Gene Expression Patterns. J. Comput. Biol. Amir Ben-Dor, Ron Shamir, Zohar Yakhini
1999	B	`conf`	Complexity Classification of Some Edge Modification Problems. WG Assaf Natanzon, Ron Shamir, Roded Sharan
1999	J	`jnl`	Construction of Physical Maps from Oligonucleotide Fingerprints Data. J. Comput. Biol. Guy Mayraz, Ron Shamir
1999	B	`conf`	Construction of physical maps from oligonucleotide fingerprints data. RECOMB Guy Mayraz, Ron Shamir
1999	J	`jnl`	Faster Subtree Isomorphism. J. Algorithms Ron Shamir, Dekel Tsur
1999	B	`conf`	On the Complexity of Positional Sequencing by Hybridization. CPM Amir Ben-Dor, Itsik Pe'er, Ron Shamir, Roded Sharan
1999	J	`jnl`	Tractability of Parameterized Completion Problems on Chordal, Strongly Chordal, and Proper Interval Graphs. SIAM J. Comput. Haim Kaplan, Ron Shamir, Robert Endre Tarjan
1998	A*	`conf`	A Polynomial Approximation Algorithm for the Minimum Fill-In Problem. STOC Assaf Natanzon, Ron Shamir, Roded Sharan
1998	B	`conf`	Algorithms for optical mapping. RECOMB Richard M. Karp, Ron Shamir
1998	J	`jnl`	Foreword. Discret. Appl. Math. Sorin Istrail, Pavel A. Pevzner, Ron Shamir
1998	A*	`conf`	The Maximum Subforest Problem: Approximation and Exact Algorithms (Extended Abstract). SODA Ron Shamir, Dekel Tsur
1998	J	`jnl`	The median problems for breakpoints are NP-complete Electron. Colloquium Comput. Complex. Itsik Pe'er, Ron Shamir
1997	A*	`conf`	Faster and Simpler Algorithm for Sorting Signed Permutations by Reversals. SODA Haim Kaplan, Ron Shamir, Robert Endre Tarjan
1997	B	`conf`	Faster and simpler algorithm for sorting signed permutations by reversals. RECOMB Haim Kaplan, Ron Shamir, Robert Endre Tarjan
1997	—	`conf`	Faster subtree isomorphism. ISTCS Ron Shamir, Dekel Tsur
1997	J	`jnl`	Realizing Interval Graphs with Size and Distance Constraints. SIAM J. Discret. Math. Itsik Pe'er, Ron Shamir
1997	J	`jnl`	Satisfiability Problems on Intervals and Unit Intervals. Theor. Comput. Sci. Itsik Pe'er, Ron Shamir
1996	J	`jnl`	Pathwidth, Bandwidth, and Completion Problems to Proper Interval Graphs with Small Cliques. SIAM J. Comput. Haim Kaplan, Ron Shamir
1996	—	`conf`	Physical Maps and Interval Sandwich Problems: Bounded Degrees Help. ISTCS Haim Kaplan, Ron Shamir
1995	J	`jnl`	Four Strikes Against Physical Mapping of DNA. J. Comput. Biol. Paul W. Goldberg, Martin Charles Golumbic, Haim Kaplan, Ron Shamir
1995	J	`jnl`	Graph Sandwich Problems. J. Algorithms Martin Charles Golumbic, Haim Kaplan, Ron Shamir
1995	A	`conf`	Interval Graphs with Side (and Size) Constraints. ESA Itsik Pe'er, Ron Shamir
1994	J	`jnl`	Balancing Problems in Acyclic Networks. Discret. Appl. Math. Endre Boros, Peter L. Hammer, Mark E. Hartmann, Ron Shamir
1994	J	`jnl`	Efficient Algorithms for Minimum-Cost Flow Problems with Piecewise-Linear Convex Costs. Algorithmica Yaron Pinto, Ron Shamir
1994	J	`jnl`	The Domatic Number Problem on Some Perfect Graph Families. Inf. Process. Lett. Haim Kaplan, Ron Shamir
1994	A*	`conf`	Tractability of parameterized completion problems on chordal and interval graphs: Minimum Fill-in and Physical Mapping FOCS Haim Kaplan, Ron Shamir, Robert Endre Tarjan
1993	J	`jnl`	A fast algorithm for constructing monge sequences in transportation problems with forbidden arcs. Discret. Math. Ron Shamir
1993	J	`jnl`	A randomized scheme for speeding up algorithms for linear and convex programming problems with high constraints-to-variables ratio. Math. Program. Ilan Adler, Ron Shamir
1993	B	`conf`	Algorithms and Complexity of Sandwich Problems in Graphs (Extended Abstract). WG Martin Charles Golumbic, Haim Kaplan, Ron Shamir
1993	J	`jnl`	Complexity and Algorithms for Reasoning about Time: A Graph-Theoretic Approach. J. ACM Martin Charles Golumbic, Ron Shamir
1993	J	`jnl`	Monge and Feasibility Sequences in General Flow Problems. Discret. Appl. Math. Ilan Adler, Alan J. Hoffman, Ron Shamir
1992	J	`jnl`	A Polynomial Algorithm for Balancing Acyclic Data Flow Graphs. IEEE Trans. Computers Endre Boros, Peter L. Hammer, Ron Shamir
1992	J	`jnl`	A polynomial algorithm for an integer quadratic non-separable transportation problem. Math. Program. Dorit S. Hochbaum, Ron Shamir, J. George Shanthikumar
1992	A*	`conf`	Algorithms and Complexity for Reasoning about Time. AAAI Martin Charles Golumbic, Ron Shamir
1992	—	`conf`	Interval Graphs, Interval Orders and the Consistency of Temporal Events. ISTCS Martin Charles Golumbic, Ron Shamir
1991	J	`jnl`	Strongly Polynomial Algorithms for the High Multiplicity Scheduling Problem. Oper. Res. Dorit S. Hochbaum, Ron Shamir
1990	A*	`conf`	Characterization and Algorithms for Greedily Solvable Transportation Problems. SODA Ron Shamir, Brenda L. Dietrich
1990	J	`jnl`	Minimizing the number of tardy job units under release time constraints. Discret. Appl. Math. Dorit S. Hochbaum, Ron Shamir
1989	J	`jnl`	An O(n log2 n) Algorithm for the Maximum Weighted Tardiness Problem. Inf. Process. Lett. Dorit S. Hochbaum, Ron Shamir
1987	J	`jnl`	A simplex variant solving an J. Complex. Ilan Adler, Richard M. Karp, Ron Shamir
1986	J	`jnl`	A Family of Simplex Variants Solving an Math. Oper. Res. Ilan Adler, Richard M. Karp, Ron Shamir