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Roded Sharan
2010 – today
- 2013
[j56]Roded Sharan, Richard M. Karp: Reconstructing Boolean Models of Signaling. Journal of Computational Biology 20(3): 249-257 (2013)- [j55]Michael Elberfeld, Danny Segev, Colin R. Davidson, Dana Silverbush, Roded Sharan: Approximation algorithms for orienting mixed graphs. Theor. Comput. Sci. 483: 96-103 (2013)
- 2012
- [j54]Nir Atias, Roded Sharan: Comparative analysis of protein networks: hard problems, practical solutions. Commun. ACM 55(5): 88-97 (2012)
- [j53]Yael Silberberg, Assaf Gottlieb, Martin Kupiec, Eytan Ruppin, Roded Sharan: Large-Scale Elucidation of Drug Response Pathways in Humans. Journal of Computational Biology 19(2): 163-174 (2012)
- [j52]Liram Vardi, Eytan Ruppin, Roded Sharan: A Linearized Constraint-Based Approach for Modeling Signaling Networks. Journal of Computational Biology 19(2): 232-240 (2012)
- [j51]Oded Magger, Yedael Y. Waldman, Eytan Ruppin, Roded Sharan: Enhancing the Prioritization of Disease-Causing Genes through Tissue Specific Protein Interaction Networks. PLoS Computational Biology 8(9) (2012)
- [c45]Dima Blokh, Danny Segev, Roded Sharan: Approximation Algorithms and Hardness Results for Shortest Path Based Graph Orientations. CPM 2012: 70-82
- [c44]
- [c43]
- [c42]Bjarni V. Halldórsson, Dima Blokh, Roded Sharan: Estimating Population Size via Line Graph Reconstruction. WABI 2012: 69-80
- [c41]
- 2011
- [j50]Guy Geva, Roded Sharan: Identification of protein complexes from co-immunoprecipitation data. Bioinformatics 27(1): 111-117 (2011)
- [j49]Assaf Gottlieb, Oded Magger, Igor Berman, Eytan Ruppin, Roded Sharan: PRINCIPLE: a tool for associating genes with diseases via network propagation. Bioinformatics 27(23): 3325-3326 (2011)
- [j48]Michael Elberfeld, Vineet Bafna, Iftah Gamzu, Alexander Medvedovsky, Danny Segev, Dana Silverbush, Uri Zwick, Roded Sharan: On the Approximability of Reachability-Preserving Network Orientations. Internet Mathematics 7(4): 209-232 (2011)
- [j47]Liat Perlman, Assaf Gottlieb, Nir Atias, Eytan Ruppin, Roded Sharan: Combining Drug and Gene Similarity Measures for Drug-Target Elucidation. Journal of Computational Biology 18(2): 133-145 (2011)
- [j46]Nir Atias, Roded Sharan: An Algorithmic Framework for Predicting Side Effects of Drugs. Journal of Computational Biology 18(3): 207-218 (2011)
- [j45]Dana Silverbush, Michael Elberfeld, Roded Sharan: Optimally Orienting Physical Networks. Journal of Computational Biology 18(11): 1437-1448 (2011)
- [j44]Tomer Shlomi, Tomer Benyamini, Eyal Gottlieb, Roded Sharan, Eytan Ruppin: Genome-Scale Metabolic Modeling Elucidates the Role of Proliferative Adaptation in Causing the Warburg Effect. PLoS Computational Biology 7(3) (2011)
- [j43]Lior Wolf, Chen Goldberg, Nathan Manor, Roded Sharan, Eytan Ruppin: Gene Expression in the Rodent Brain is Associated with Its Regional Connectivity. PLoS Computational Biology 7(5) (2011)
- [c40]Michael Elberfeld, Danny Segev, Colin R. Davidson, Dana Silverbush, Roded Sharan: Approximation Algorithms for Orienting Mixed Graphs. CPM 2011: 416-428
- [c39]Dana Silverbush, Michael Elberfeld, Roded Sharan: Optimally Orienting Physical Networks. RECOMB 2011: 424-436
- [c38]Roded Sharan: Similarity-based methods to predict drug targets, indications and side-effects. SISAP 2011: 5-6
- 2010
- [j42]Misael Mongiovì, Raffaele Di Natale, Rosalba Giugno, Alfredo Pulvirenti, Alfredo Ferro, Roded Sharan: Sigma: a Set-Cover-Based Inexact Graph Matching Algorithm. J. Bioinformatics and Computational Biology 8(2): 199-218 (2010)
- [j41]Sharon Bruckner, Falk Hüffner, Richard M. Karp, Ron Shamir, Roded Sharan: Topology-Free Querying of Protein Interaction Networks. Journal of Computational Biology 17(3): 237-252 (2010)
- [j40]Tal Peleg, Nir Yosef, Eytan Ruppin, Roded Sharan: Network-Free Inference of Knockout Effects in Yeast. PLoS Computational Biology 6(1) (2010)
- [j39]Oron Vanunu, Oded Magger, Eytan Ruppin, Tomer Shlomi, Roded Sharan: Associating Genes and Protein Complexes with Disease via Network Propagation. PLoS Computational Biology 6(1) (2010)
- [j38]Shiri Freilich, Anat Kreimer, Elhanan Borenstein, Uri Gophna, Roded Sharan, Eytan Ruppin: Decoupling Environment-Dependent and Independent Genetic Robustness across Bacterial Species. PLoS Computational Biology 6(2) (2010)
- [c37]Nir Atias, Roded Sharan: An Algorithmic Framework for Predicting Side-Effects of Drugs. RECOMB 2010: 1-14
- [c36]Iftah Gamzu, Danny Segev, Roded Sharan: Improved Orientations of Physical Networks. WABI 2010: 215-225
2000 – 2009
- 2009
- [j37]Jens Gramm, Tzvika Hartman, Till Nierhoff, Roded Sharan, Till Tantau: On the complexity of SNP block partitioning under the perfect phylogeny model. Discrete Mathematics 309(18): 5610-5617 (2009)
- [j36]Shaul Karni, Hermona Soreq, Roded Sharan: A Network-Based Method for Predicting Disease-Causing Genes. Journal of Computational Biology 16(2): 181-189 (2009)
- [j35]Maxim Kalaev, Vineet Bafna, Roded Sharan: Fast and Accurate Alignment of Multiple Protein Networks. Journal of Computational Biology 16(8): 989-999 (2009)
- [j34]Sharon Bruckner, Falk Hüffner, Richard M. Karp, Ron Shamir, Roded Sharan: Torque: topology-free querying of protein interaction networks. Nucleic Acids Research 37(Web-Server-Issue): 106-108 (2009)
- [c35]Sharon Bruckner, Falk Hüffner, Richard M. Karp, Ron Shamir, Roded Sharan: Topology-Free Querying of Protein Interaction Networks. RECOMB 2009: 74-89
- 2008
- [j33]Maxim Kalaev, Michael E. Smoot, Trey Ideker, Roded Sharan: NetworkBLAST: comparative analysis of protein networks. Bioinformatics 24(4): 594-596 (2008)
- [j32]Banu Dost, Tomer Shlomi, Nitin Gupta, Eytan Ruppin, Vineet Bafna, Roded Sharan: QNet: A Tool for Querying Protein Interaction Networks. Journal of Computational Biology 15(7): 913-925 (2008)
- [c34]Nir Yosef, Roded Sharan, William Stafford Noble: Improved network-based identification of protein orthologs. ECCB 2008: 200-206
- [c33]Oron Vanunu, Roded Sharan: A Propagation-based Algorithm for Inferring Gene-Disease Assocations. German Conference on Bioinformatics 2008: 54-52
- [c32]Maxim Kalaev, Vineet Bafna, Roded Sharan: Fast and Accurate Alignment of Multiple Protein Networks. RECOMB 2008: 246-256
- [c31]Alexander Medvedovsky, Vineet Bafna, Uri Zwick, Roded Sharan: An Algorithm for Orienting Graphs Based on Cause-Effect Pairs and Its Applications to Orienting Protein Networks. WABI 2008: 222-232
- 2007
- [j31]Nir Yosef, Zohar Yakhini, Anya Tsalenko, Vessela N. Kristensen, Anne-Lise Børresen-Dale, Eytan Ruppin, Roded Sharan: A supervised approach for identifying discriminating genotype patterns and its application to breast cancer data. Bioinformatics 23(2): 91-98 (2007)
- [j30]Eitan Hirsh, Roded Sharan: Identification of conserved protein complexes based on a model of protein network evolution. Bioinformatics 23(2): 170-176 (2007)
- [j29]Oleg Rokhlenko, Tomer Shlomi, Roded Sharan, Eytan Ruppin, Ron Y. Pinter: Constraint-based functional similarity of metabolic genes: going beyond network topology. Bioinformatics 23(16): 2139-2146 (2007)
- [j28]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: Pepitope: epitope mapping from affinity-selected peptides. Bioinformatics 23(23): 3244-3246 (2007)
- [j27]Jens Gramm, Till Nierhoff, Roded Sharan, Till Tantau: Haplotyping with missing data via perfect path phylogenies. Discrete Applied Mathematics 155(6-7): 788-805 (2007)
- [j26]Eric P. Xing, Michael I. Jordan, Roded Sharan: Bayesian Haplotype Inference via the Dirichlet Process. Journal of Computational Biology 14(3): 267-284 (2007)
- [c30]Oved Ourfali, Tomer Shlomi, Trey Ideker, Eytan Ruppin, Roded Sharan: SPINE: a framework for signaling-regulatory pathway inference from cause-effect experiments. ISMB/ECCB (Supplement of Bioinformatics) 2007: 359-366
- [c29]Banu Dost, Tomer Shlomi, Nitin Gupta, Eytan Ruppin, Vineet Bafna, Roded Sharan: QNet: A Tool for Querying Protein Interaction Networks. RECOMB 2007: 1-15
- 2006
- [j25]Tomer Shlomi, Daniel Segal, Eytan Ruppin, Roded Sharan: QPath: a method for querying pathways in a protein-protein interaction network. BMC Bioinformatics 7: 199 (2006)
- [j24]Silpa Suthram, Tomer Shlomi, Eytan Ruppin, Roded Sharan, Trey Ideker: A direct comparison of protein interaction confidence assignment schemes. BMC Bioinformatics 7: 360 (2006)
- [j23]Anya Tsalenko, Roded Sharan, Vessela N. Kristensen, Hege Edvardsen, Anne-Lise Børresen-Dale, Amir Ben-Dor, Zohar Yakhini: Analysis of Snp-expression Association Matrices. J. Bioinformatics and Computational Biology 4(2): 259-274 (2006)
- [j22]Eleazar Eskin, Roded Sharan, Eran Halperin: A Note on Phasing Long Genomic Regions Using Local Haplotype Predictions. J. Bioinformatics and Computational Biology 4(3): 639-648 (2006)
- [j21]Jacob Scott, Trey Ideker, Richard M. Karp, Roded Sharan: Efficient Algorithms for Detecting Signaling Pathways in Protein Interaction Networks. Journal of Computational Biology 13(2): 133-144 (2006)
- [j20]Irit Gat-Viks, Richard M. Karp, Ron Shamir, Roded Sharan: Reconstructing Chain Functions in Genetic Networks. SIAM J. Discrete Math. 20(3): 727-740 (2006)
- [j19]Roded Sharan, Bjarni V. Halldórsson, Sorin Istrail: Islands of Tractability for Parsimony Haplotyping. IEEE/ACM Trans. Comput. Biology Bioinform. 3(3): 303-311 (2006)
- [c28]Shaojie Zhang, Ilya Borovok, Yair Aharonowitz, Roded Sharan, Vineet Bafna: A sequence-based filtering method for ncRNA identification and its application to searching for riboswitch elements. ISMB (Supplement of Bioinformatics) 2006: 557-565
- [c27]Jens Gramm, Tzvika Hartman, Till Nierhoff, Roded Sharan, Till Tantau: On the Complexity of SNP Block Partitioning Under the Perfect Phylogeny Model. WABI 2006: 92-102
- [c26]Oleg Rokhlenko, Tomer Shlomi, Roded Sharan, Eytan Ruppin, Ron Y. Pinter: Flux-Based vs. Topology-Based Similarity of Metabolic Genes. WABI 2006: 274-285
- 2005
- [j18]Ron Shamir, Adi Maron-Katz, Amos Tanay, Chaim Linhart, Israel Steinfeld, Roded Sharan, Yosef Shiloh, Ran Elkon: EXPANDER - an integrative program suite for microarray data analysis. BMC Bioinformatics 6: 232 (2005)
- [j17]Roded Sharan, Jens Gramm, Zohar Yakhini, Amir Ben-Dor: Multiplexing Schemes for Generic SNP Genotyping Assays. Journal of Computational Biology 12(5): 514-533 (2005)
- [j16]Eran Segal, Roded Sharan: A Discriminative Model for Identifying Spatial cis-Regulatory Modules. Journal of Computational Biology 12(6): 822-834 (2005)
- [j15]Roded Sharan, Trey Ideker, Brian P. Kelley, Ron Shamir, Richard M. Karp: Identification of Protein Complexes by Comparative Analysis of Yeast and Bacterial Protein Interaction Data. Journal of Computational Biology 12(6): 835-846 (2005)
- [j14]Tzvika Hartman, Roded Sharan: A 1.5-approximation algorithm for sorting by transpositions and transreversals. J. Comput. Syst. Sci. 70(3): 300-320 (2005)
- [c25]Roded Sharan, Bjarni V. Halldórsson, Sorin Istrail: Islands of Tractability for Parsimony Haplotyping. CSB 2005: 65-72
- [c24]Anya Tsalenko, Roded Sharan, Hege Edvardsen, Vessela N. Kristensen, Anne-Lise Børresen-Dale, Amir Ben-Dor, Zohar Yakhini: Analysis of SNP-Expression Association Matrices. CSB 2005: 135-143
- [c23]Roded Sharan, Eugene W. Myers: A motif-based framework for recognizing sequence families. ISMB (Supplement of Bioinformatics) 2005: 387-393
- [c22]Jacob Scott, Trey Ideker, Richard M. Karp, Roded Sharan: Efficient Algorithms for Detecting Signaling Pathways in Protein Interaction Networks. RECOMB 2005: 1-13
- [c21]Silpa Suthram, Tomer Shlomi, Eytan Ruppin, Roded Sharan, Trey Ideker: Comparison of Protein-Protein Interaction Confidence Assignment Schemes. Systems Biology and Regulatory Genomics 2005: 39-50
- 2004
- [j13]Ron Shamir, Roded Sharan: A fully dynamic algorithm for modular decomposition and recognition of cographs. Discrete Applied Mathematics 136(2-3): 329-340 (2004)
- [j12]Ron Shamir, Roded Sharan, Dekel Tsur: Cluster graph modification problems. Discrete Applied Mathematics 144(1-2): 173-182 (2004)
- [j11]Gad Kimmel, Roded Sharan, Ron Shamir: Computational Problems in Noisy SNP and Haplotype Analysis: Block Scores, Block Identification, and Population Stratification. INFORMS Journal on Computing 16(4): 360-370 (2004)
- [j10]Amir Ben-Dor, Tzvika Hartman, Richard M. Karp, Benno Schwikowski, Roded Sharan, Zohar Yakhini: Towards Optimally Multiplexed Applications of Universal Arrays. Journal of Computational Biology 11(2/3): 476-492 (2004)
- [j9]Brian P. Kelley, Bingbing Yuan, Fran Lewitter, Roded Sharan, Brent R. Stockwell, Trey Ideker: PathBLAST: a tool for alignment of protein interaction networks. Nucleic Acids Research 32(Web-Server-Issue): 83-88 (2004)
- [j8]Roded Sharan, Asa Ben-Hur, Gabriela G. Loots, Ivan Ovcharenko: CREME: Cis-Regulatory Module Explorer for the human genome. Nucleic Acids Research 32(Web-Server-Issue): 253-256 (2004)
- [j7]Itsik Pe'er, Tal Pupko, Ron Shamir, Roded Sharan: Incomplete Directed Perfect Phylogeny. SIAM J. Comput. 33(3): 590-607 (2004)
- [c20]Eric P. Xing, Roded Sharan, Michael I. Jordan: Bayesian haplo-type inference via the dirichlet process. ICML 2004
- [c19]Roded Sharan, Amir Ben-Dor, Zohar Yakhini: Multiplexing Schemes for Generic SNP Genotyping Assays. Pacific Symposium on Biocomputing 2004: 140-151
- [c18]Irit Gat-Viks, Ron Shamir, Richard M. Karp, Roded Sharan: Reconstructing Chain Functions in Genetic Networks. Pacific Symposium on Biocomputing 2004: 498-509
- [c17]Eran Segal, Roded Sharan: A discriminative model for identifying spatial cis-regulatory modules. RECOMB 2004: 141-149
- [c16]Roded Sharan, Trey Ideker, Brian P. Kelley, Ron Shamir, Richard M. Karp: Identification of protein complexes by comparative analysis of yeast and bacterial protein interaction data. RECOMB 2004: 282-289
- [c15]Tzvika Hartman, Roded Sharan: A 1.5-Approximation Algorithm for Sorting by Transpositions and Transreversals. WABI 2004: 50-61
- 2003
- [j6]Roded Sharan, Adi Maron-Katz, Ron Shamir: CLICK and EXPANDER: a system for clustering and visualizing gene expression data. Bioinformatics 19(14): 1787-1799 (2003)
- [j5]Irit Gat-Viks, Roded Sharan, Ron Shamir: Scoring clustering solutions by their biological relevance. Bioinformatics 19(18): 2381-2389 (2003)
- [c14]Roded Sharan, Ivan Ovcharenko, Asa Ben-Hur, Richard M. Karp: CREME: a framework for identifying cis-regulatory modules in human-mouse conserved segments. ISMB (Supplement of Bioinformatics) 2003: 283-291
- [c13]Amir Ben-Dor, Tzvika Hartman, Benno Schwikowski, Roded Sharan, Zohar Yakhini: Towards optimally multiplexed applications of universal DNA tag systems. RECOMB 2003: 48-56
- [c12]Gad Kimmel, Roded Sharan, Ron Shamir: Identifying Blocks and Sub-populations in Noisy SNP Data. WABI 2003: 303-319
- 2002
- [j4]Amir Ben-Dor, Itsik Pe'er, Ron Shamir, Roded Sharan: On the Complexity of Positional Sequencing by Hybridization. Journal of Computational Biology 8(4): 361-371 (2002)
- [c11]Amos Tanay, Roded Sharan, Ron Shamir: Discovering statistically significant biclusters in gene expression data. ISMB 2002: 136-144
- [c10]Itsik Pe'er, Ron Shamir, Roded Sharan: On the Generality of Phylogenies from Incomplete Directed Characters. SWAT 2002: 358-367
- [c9]
- 2001
- [j3]Assaf Natanzon, Ron Shamir, Roded Sharan: Complexity classification of some edge modification problems. Discrete Applied Mathematics 113(1): 109-128 (2001)
- [j2]Pavol Hell, Ron Shamir, Roded Sharan: A Fully Dynamic Algorithm for Recognizing and Representing Proper Interval Graphs. SIAM J. Comput. 31(1): 289-305 (2001)
- [c8]Tal Pupko, Roded Sharan, Masami Hasegawa, Ron Shamir, Dan Graur: A Chemical-Distance-Based Test for Positive Darwinian Selection. WABI 2001: 142-155
- [i1]Piotr Berman, Amir Ben-Dor, Itsik Pe'er, Roded Sharan, Ron Shamir: On the Complexity of Positional Sequencing by Hybridization. Electronic Colloquium on Computational Complexity (ECCC) 8(54) (2001)
- 2000
- [j1]Assaf Natanzon, Ron Shamir, Roded Sharan: A Polynomial Approximation Algorithm for the Minimum Fill-In Problem. SIAM J. Comput. 30(4): 1067-1079 (2000)
- [c7]
- [c6]Roded Sharan, Ron Shamir: Center CLICK: A Clustering Algorithm with Applications to Gene Expression Analysis. ISMB 2000: 307-316
1990 – 1999
- 1999
- [c5]Amir Ben-Dor, Itsik Pe'er, Ron Shamir, Roded Sharan: On the Complexity of Positional Sequencing by Hybridization. CPM 1999: 88-100
- [c4]Pavol Hell, Ron Shamir, Roded Sharan: A Fully Dynamic Algorithm for Recognizing and Representing Proper Interval Graphs. ESA 1999: 527-539
- [c3]Assaf Natanzon, Ron Shamir, Roded Sharan: Complexity Classification of Some Edge Modification Problems. WG 1999: 65-77
- 1998
- [c2]Assaf Natanzon, Ron Shamir, Roded Sharan: A Polynomial Approximation Algorithm for the Minimum Fill-In Problem. STOC 1998: 41-47
- 1996
- [c1]Roded Sharan, Avi Wigderson: A New NCAlgorithm for Perfect Matching in Bipartite Cubic Graphs. ISTCS 1996: 202-207
Coauthor Index
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last updated on 2013-04-19 20:41 CEST by the dblp team