2008 | ||
---|---|---|
67 | EE | Nir Yosef, Roded Sharan, William Stafford Noble: Improved network-based identification of protein orthologs. ECCB 2008: 200-206 |
66 | Oron Vanunu, Roded Sharan: A Propagation-based Algorithm for Inferring Gene-Disease Assocations. German Conference on Bioinformatics 2008: 54-52 | |
65 | EE | Maxim Kalaev, Vineet Bafna, Roded Sharan: Fast and Accurate Alignment of Multiple Protein Networks. RECOMB 2008: 246-256 |
64 | EE | 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 |
63 | EE | Maxim Kalaev, Mike Smoot, Trey Ideker, Roded Sharan: NetworkBLAST: comparative analysis of protein networks. Bioinformatics 24(4): 594-596 (2008) |
62 | EE | 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) |
2007 | ||
61 | EE | 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 |
60 | EE | Banu Dost, Tomer Shlomi, Nitin Gupta, Eytan Ruppin, Vineet Bafna, Roded Sharan: QNet: A Tool for Querying Protein Interaction Networks. RECOMB 2007: 1-15 |
59 | EE | 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) |
58 | EE | Eitan Hirsh, Roded Sharan: Identification of conserved protein complexes based on a model of protein network evolution. Bioinformatics 23(2): 170-176 (2007) |
57 | EE | Nir Yosef, Zohar Yakhini, Anya Tsalenko, Vessela 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) |
56 | EE | 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) |
55 | EE | 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) |
54 | EE | Eric P. Xing, Michael I. Jordan, Roded Sharan: Bayesian Haplotype Inference via the Dirichlet Process. Journal of Computational Biology 14(3): 267-284 (2007) |
2006 | ||
53 | EE | 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 |
52 | EE | Oleg Rokhlenko, Tomer Shlomi, Roded Sharan, Eytan Ruppin, Ron Y. Pinter: Flux-Based vs. Topology-Based Similarity of Metabolic Genes. WABI 2006: 274-285 |
51 | EE | 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 |
50 | EE | 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) |
49 | EE | Roded Sharan, Bjarni V. Halldórsson, Sorin Istrail: Islands of Tractability for Parsimony Haplotyping. IEEE/ACM Trans. Comput. Biology Bioinform. 3(3): 303-311 (2006) |
48 | EE | Anya Tsalenko, Roded Sharan, Vessela 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) |
47 | EE | 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) |
46 | EE | 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) |
45 | EE | 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) |
2005 | ||
44 | EE | Anya Tsalenko, Roded Sharan, Hege Edvardsen, Vessela Kristensen, Anne-Lise Børresen-Dale, Amir Ben-Dor, Zohar Yakhini: Analysis of SNP-Expression Association Matrices. CSB 2005: 135-143 |
43 | EE | Roded Sharan, Bjarni V. Halldórsson, Sorin Istrail: Islands of Tractability for Parsimony Haplotyping. CSB 2005: 65-72 |
42 | EE | Roded Sharan, Eugene W. Myers: A motif-based framework for recognizing sequence families. ISMB (Supplement of Bioinformatics) 2005: 387-393 |
41 | EE | Jacob Scott, Trey Ideker, Richard M. Karp, Roded Sharan: Efficient Algorithms for Detecting Signaling Pathways in Protein Interaction Networks. RECOMB 2005: 1-13 |
40 | EE | 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 |
39 | EE | 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) |
38 | EE | Tzvika Hartman, Roded Sharan: A 1.5-approximation algorithm for sorting by transpositions and transreversals. J. Comput. Syst. Sci. 70(3): 300-320 (2005) |
37 | EE | 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) |
36 | EE | Eran Segal, Roded Sharan: A Discriminative Model for Identifying Spatial cis-Regulatory Modules. Journal of Computational Biology 12(6): 822-834 (2005) |
35 | EE | 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) |
2004 | ||
34 | EE | Eric P. Xing, Roded Sharan, Michael I. Jordan: Bayesian haplo-type inference via the dirichlet process. ICML 2004 |
33 | EE | Roded Sharan, Amir Ben-Dor, Zohar Yakhini: Multiplexing Schemes for Generic SNP Genotyping Assays. Pacific Symposium on Biocomputing 2004: 140-151 |
32 | EE | Irit Gat-Viks, Ron Shamir, Richard M. Karp, Roded Sharan: Reconstructing Chain Functions in Genetic Networks. Pacific Symposium on Biocomputing 2004: 498-509 |
31 | EE | Eran Segal, Roded Sharan: A discriminative model for identifying spatial cis-regulatory modules. RECOMB 2004: 141-149 |
30 | EE | 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 |
29 | EE | Tzvika Hartman, Roded Sharan: A 1.5-Approximation Algorithm for Sorting by Transpositions and Transreversals. WABI 2004: 50-61 |
28 | EE | Ron Shamir, Roded Sharan: A fully dynamic algorithm for modular decomposition and recognition of cographs. Discrete Applied Mathematics 136(2-3): 329-340 (2004) |
27 | EE | Ron Shamir, Roded Sharan, Dekel Tsur: Cluster graph modification problems. Discrete Applied Mathematics 144(1-2): 173-182 (2004) |
26 | EE | 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) |
25 | EE | 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) |
24 | 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) | |
23 | 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) | |
22 | EE | Itsik Pe'er, Tal Pupko, Ron Shamir, Roded Sharan: Incomplete Directed Perfect Phylogeny. SIAM J. Comput. 33(3): 590-607 (2004) |
2003 | ||
21 | EE | 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 |
20 | EE | Amir Ben-Dor, Tzvika Hartman, Benno Schwikowski, Roded Sharan, Zohar Yakhini: Towards optimally multiplexed applications of universal DNA tag systems. RECOMB 2003: 48-56 |
19 | EE | Gad Kimmel, Roded Sharan, Ron Shamir: Identifying Blocks and Sub-populations in Noisy SNP Data. WABI 2003: 303-319 |
18 | 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) | |
17 | Irit Gat-Viks, Roded Sharan, Ron Shamir: Scoring clustering solutions by their biological relevance. Bioinformatics 19(18): 2381-2389 (2003) | |
2002 | ||
16 | Amos Tanay, Roded Sharan, Ron Shamir: Discovering statistically significant biclusters in gene expression data. ISMB 2002: 136-144 | |
15 | EE | Itsik Pe'er, Ron Shamir, Roded Sharan: On the Generality of Phylogenies from Incomplete Directed Characters. SWAT 2002: 358-367 |
14 | EE | Ron Shamir, Roded Sharan, Dekel Tsur: Cluster Graph Modification Problems. WG 2002: 379-390 |
13 | 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) | |
2001 | ||
12 | EE | Tal Pupko, Roded Sharan, Masami Hasegawa, Ron Shamir, Dan Graur: A Chemical-Distance-Based Test for Positive Darwinian Selection. WABI 2001: 142-155 |
11 | Assaf Natanzon, Ron Shamir, Roded Sharan: Complexity classification of some edge modification problems. Discrete Applied Mathematics 113(1): 109-128 (2001) | |
10 | EE | 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) |
9 | EE | 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) |
2000 | ||
8 | EE | Itsik Pe'er, Ron Shamir, Roded Sharan: Incomplete Directed Perfect Phylogeny. CPM 2000: 143-153 |
7 | Roded Sharan, Ron Shamir: Center CLICK: A Clustering Algorithm with Applications to Gene Expression Analysis. ISMB 2000: 307-316 | |
6 | EE | Assaf Natanzon, Ron Shamir, Roded Sharan: A Polynomial Approximation Algorithm for the Minimum Fill-In Problem. SIAM J. Comput. 30(4): 1067-1079 (2000) |
1999 | ||
5 | EE | Amir Ben-Dor, Itsik Pe'er, Ron Shamir, Roded Sharan: On the Complexity of Positional Sequencing by Hybridization. CPM 1999: 88-100 |
4 | EE | Pavol Hell, Ron Shamir, Roded Sharan: A Fully Dynamic Algorithm for Recognizing and Representing Proper Interval Graphs. ESA 1999: 527-539 |
3 | EE | Assaf Natanzon, Ron Shamir, Roded Sharan: Complexity Classification of Some Edge Modification Problems. WG 1999: 65-77 |
1998 | ||
2 | EE | Assaf Natanzon, Ron Shamir, Roded Sharan: A Polynomial Approximation Algorithm for the Minimum Fill-In Problem. STOC 1998: 41-47 |
1996 | ||
1 | Roded Sharan, Avi Wigderson: A New NCAlgorithm for Perfect Matching in Bipartite Cubic Graphs. ISTCS 1996: 202-207 |