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Vineet Bafna: [Publications] [Author Rank by year] [Co-authors] [Prefers] [Cites] [Cited by]

Publications of Author

  1. Amit Gupta, Anindo Banerjea, Vikas Jha, Vineet Bafna, P. C. P. Bhatt
    Parallel Implementation of Logic Languages. [Citation Graph (0, 0)][DBLP]
    CONPAR, 1990, pp:154-165 [Conf]
  2. Vineet Bafna, Eugene L. Lawler, Pavel A. Pevzner
    Approximation Algorithms for Multiple Sequence Alignment. [Citation Graph (0, 0)][DBLP]
    CPM, 1994, pp:43-53 [Conf]
  3. Vineet Bafna, S. Muthukrishnan, R. Ravi
    Computing Similarity between RNA Strings. [Citation Graph (0, 0)][DBLP]
    CPM, 1995, pp:1-16 [Conf]
  4. Vineet Bafna, Shaojie Zhang
    FastR: Fast Database Search Tool for Non-Coding RNA. [Citation Graph (0, 0)][DBLP]
    CSB, 2004, pp:52-61 [Conf]
  5. Dekel Tsur, Stephen Tanner, Ebrahim Zandi, Vineet Bafna, Pavel A. Pevzner
    Identification of Post-Translational Modifications via Blind Search of Mass-Spectra. [Citation Graph (0, 0)][DBLP]
    CSB, 2005, pp:157-166 [Conf]
  6. Bjarni V. Halldórsson, Vineet Bafna, Nathan Edwards, Ross Lippert, Shibu Yooseph, Sorin Istrail
    Combinatorial Problems Arising in SNP and Haplotype Analysis. [Citation Graph (0, 0)][DBLP]
    DMTCS, 2003, pp:26-47 [Conf]
  7. Giuseppe Lancia, Vineet Bafna, Sorin Istrail, Ross Lippert, Russell Schwartz
    SNPs Problems, Complexity, and Algorithms. [Citation Graph (0, 0)][DBLP]
    ESA, 2001, pp:182-193 [Conf]
  8. Vineet Bafna, Pavel A. Pevzner
    Genome Rearrangements and Sorting by Reversals [Citation Graph (0, 0)][DBLP]
    FOCS, 1993, pp:148-157 [Conf]
  9. Vineet Bafna, Piotr Berman, Toshihiro Fujito
    Constant Ratio Approximations of the Weighted Feedback Vertex Set Problem for Undirected Graphs. [Citation Graph (0, 0)][DBLP]
    ISAAC, 1995, pp:142-151 [Conf]
  10. Pankaj Agarwal, Vineet Bafna
    The Ribosome Scanning Model for Translation Initiation: Implications for Gene Prediction and Full-Length cDNA Detection. [Citation Graph (0, 0)][DBLP]
    ISMB, 1998, pp:2-7 [Conf]
  11. Vineet Bafna, Nathan Edwards
    SCOPE: a probabilistic model for scoring tandem mass spectra against a peptide database. [Citation Graph (0, 0)][DBLP]
    ISMB (Supplement of Bioinformatics), 2001, pp:13-21 [Conf]
  12. Vineet Bafna, Daniel H. Huson
    The Conserved Exon Method for Gene Finding. [Citation Graph (0, 0)][DBLP]
    ISMB, 2000, pp:3-12 [Conf]
  13. 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. [Citation Graph (0, 0)][DBLP]
    ISMB (Supplement of Bioinformatics), 2006, pp:557-565 [Conf]
  14. Pankaj Agarwal, Vineet Bafna
    Detecting non-adjoining correlations with signals in DNA. [Citation Graph (0, 0)][DBLP]
    RECOMB, 1998, pp:2-8 [Conf]
  15. Vineet Bafna, Vikas Bansal
    Improved Recombination Lower Bounds for Haplotype Data. [Citation Graph (0, 0)][DBLP]
    RECOMB, 2005, pp:569-584 [Conf]
  16. Vineet Bafna, Nathan Edwards
    On de novo interpretation of tandem mass spectra for peptide identification. [Citation Graph (0, 0)][DBLP]
    RECOMB, 2003, pp:9-18 [Conf]
  17. Vineet Bafna, Bjarni V. Halldórsson, Russell Schwartz, Andrew G. Clark, Sorin Istrail
    Haplotypes and informative SNP selection algorithms: don't block out information. [Citation Graph (0, 0)][DBLP]
    RECOMB, 2003, pp:19-27 [Conf]
  18. Vineet Bafna, Haixu Tang, Shaojie Zhang
    Consensus Folding of Unaligned RNA Sequences Revisited. [Citation Graph (0, 0)][DBLP]
    RECOMB, 2005, pp:172-187 [Conf]
  19. Banu Dost, Buhm Han, Shaojie Zhang, Vineet Bafna
    Structural Alignment of Pseudoknotted RNA. [Citation Graph (0, 0)][DBLP]
    RECOMB, 2006, pp:143-158 [Conf]
  20. Bjarni V. Halldórsson, Vineet Bafna, Nathan Edwards, Ross Lippert, Shibu Yooseph, Sorin Istrail
    A Survey of Computational Methods for Determining Haplotypes. [Citation Graph (0, 0)][DBLP]
    Computational Methods for SNPs and Haplotype Inference, 2002, pp:26-47 [Conf]
  21. Banu Dost, Tomer Shlomi, Nitin Gupta 0002, Eytan Ruppin, Vineet Bafna, Roded Sharan
    QNet: A Tool for Querying Protein Interaction Networks. [Citation Graph (0, 0)][DBLP]
    RECOMB, 2007, pp:1-15 [Conf]
  22. Richa Agarwala, Vineet Bafna, Martin Farach, Babu O. Narayanan, Mike Paterson, Mikkel Thorup
    On the Approximability of Numerical Taxonomy (Fitting Distances by Tree Metrics). [Citation Graph (0, 0)][DBLP]
    SODA, 1996, pp:365-372 [Conf]
  23. Vineet Bafna, Pavel A. Pevzner
    Sorting Permutations by Transpositions. [Citation Graph (0, 0)][DBLP]
    SODA, 1995, pp:614-623 [Conf]
  24. Bang Ye Wu, Giuseppe Lancia, Vineet Bafna, Kun-Mao Chao, R. Ravi, Chuan Yi Tang
    A Polynomial Time Approximation Scheme for Minimum Routing Cost Spanning Trees. [Citation Graph (0, 0)][DBLP]
    SODA, 1998, pp:21-32 [Conf]
  25. Romeo Rizzi, Vineet Bafna, Sorin Istrail, Giuseppe Lancia
    Practical Algorithms and Fixed-Parameter Tractability for the Single Individual SNP Haplotyping Problem. [Citation Graph (0, 0)][DBLP]
    WABI, 2002, pp:29-43 [Conf]
  26. Vineet Bafna, Babu O. Narayanan, R. Ravi
    Non-Overlapping Local Alignments (Weighted Independent Sets of Axis Parallel Rectangles). [Citation Graph (0, 0)][DBLP]
    WADS, 1995, pp:506-517 [Conf]
  27. Vineet Bafna, Babu O. Narayanan, R. Ravi
    Nonoverlapping Local Alignments (weighted Independent Sets of Axis-parallel Rectangles). [Citation Graph (0, 0)][DBLP]
    Discrete Applied Mathematics, 1996, v:71, n:1-3, pp:41-53 [Journal]
  28. Vineet Bafna, Dan Gusfield, Sridhar Hannenhalli, Shibu Yooseph
    A Note on Efficient Computation of Haplotypes via Perfect Phylogeny. [Citation Graph (0, 0)][DBLP]
    Journal of Computational Biology, 2004, v:11, n:5, pp:858-866 [Journal]
  29. Vineet Bafna, Dan Gusfield, Giuseppe Lancia, Shibu Yooseph
    Haplotyping as Perfect Phylogeny: A Direct Approach. [Citation Graph (0, 0)][DBLP]
    Journal of Computational Biology, 2003, v:10, n:3/4, pp:323-340 [Journal]
  30. Vineet Bafna, Sridhar Hannenhalli, Ken Rice, Lisa Vawter
    Ligand-Receptor Pairing Via Tree Comparison. [Citation Graph (0, 0)][DBLP]
    Journal of Computational Biology, 2000, v:7, n:1-2, pp:59-70 [Journal]
  31. Russell Schwartz, Bjarni V. Halldórsson, Vineet Bafna, Andrew G. Clark, Sorin Istrail
    Robustness of Inference of Haplotype Block Structure. [Citation Graph (0, 0)][DBLP]
    Journal of Computational Biology, 2003, v:10, n:1, pp:13-20 [Journal]
  32. Richa Agarwala, Vineet Bafna, Martin Farach, Mike Paterson, Mikkel Thorup
    On the Approximability of Numerical Taxonomy (Fitting Distances by Tree Metrics). [Citation Graph (0, 0)][DBLP]
    SIAM J. Comput., 1999, v:28, n:3, pp:1073-1085 [Journal]
  33. Vineet Bafna, Pavel A. Pevzner
    Genome Rearrangements and Sorting by Reversals. [Citation Graph (0, 0)][DBLP]
    SIAM J. Comput., 1996, v:25, n:2, pp:272-289 [Journal]
  34. Bang Ye Wu, Giuseppe Lancia, Vineet Bafna, Kun-Mao Chao, R. Ravi, Chuan Yi Tang
    A Polynomial-Time Approximation Scheme for Minimum Routing Cost Spanning Trees. [Citation Graph (0, 0)][DBLP]
    SIAM J. Comput., 1999, v:29, n:3, pp:761-778 [Journal]
  35. Vineet Bafna, Piotr Berman, Toshihiro Fujito
    A 2-Approximation Algorithm for the Undirected Feedback Vertex Set Problem. [Citation Graph (0, 0)][DBLP]
    SIAM J. Discrete Math., 1999, v:12, n:3, pp:289-297 [Journal]
  36. Vineet Bafna, Pavel A. Pevzner
    Sorting by Transpositions. [Citation Graph (0, 0)][DBLP]
    SIAM J. Discrete Math., 1998, v:11, n:2, pp:224-240 [Journal]
  37. Vineet Bafna, Vikas Bansal
    The Number of Recombination Events in a Sample History: Conflict Graph and Lower Bounds. [Citation Graph (0, 0)][DBLP]
    IEEE/ACM Trans. Comput. Biology Bioinform., 2004, v:1, n:2, pp:78-90 [Journal]
  38. Shaojie Zhang, Brian Haas, Eleazar Eskin, Vineet Bafna
    Searching Genomes for Noncoding RNA Using FastR. [Citation Graph (0, 0)][DBLP]
    IEEE/ACM Trans. Comput. Biology Bioinform., 2005, v:2, n:4, pp:366-379 [Journal]
  39. Vineet Bafna, Sorin Istrail, Giuseppe Lancia, Romeo Rizzi
    Polynomial and APX-hard cases of the individual haplotyping problem. [Citation Graph (0, 0)][DBLP]
    Theor. Comput. Sci., 2005, v:335, n:1, pp:109-125 [Journal]
  40. Vineet Bafna, Bala Kalyanasundaram, Kirk Pruhs
    Not All Insertion Methods Yield Constant Approximate Tours in the Euclidean Plane. [Citation Graph (0, 0)][DBLP]
    Theor. Comput. Sci., 1994, v:125, n:2, pp:345-360 [Journal]
  41. Vineet Bafna, Eugene L. Lawler, Pavel A. Pevzner
    Approximation Algorithms for Multiple Sequence Alignment. [Citation Graph (0, 0)][DBLP]
    Theor. Comput. Sci., 1997, v:182, n:1-2, pp:233-244 [Journal]

  42. HapCUT: an efficient and accurate algorithm for the haplotype assembly problem. [Citation Graph (, )][DBLP]


  43. Fast and Accurate Alignment of Multiple Protein Networks. [Citation Graph (, )][DBLP]


  44. Shared Peptides in Mass Spectrometry Based Protein Quantification. [Citation Graph (, )][DBLP]


  45. Optimizing PCR Assays for DNA Based Cancer Diagnostics. [Citation Graph (, )][DBLP]


  46. Compressing Genomic Sequence Fragments Using SlimGene. [Citation Graph (, )][DBLP]


  47. An Algorithm for Orienting Graphs Based on Cause-Effect Pairs and Its Applications to Orienting Protein Networks. [Citation Graph (, )][DBLP]


  48. Optimization of primer design for the detection of variable genomic lesions in cancer. [Citation Graph (, )][DBLP]


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