Dina Sokol-- Publications

Prof. Sokol -- Publications

Journal Papers:

  1. S. H. Geizhals and D. Sokol (2018). Finding Maximal 2-dimensional Palindromes. Submitted to Journal of Discrete Algorithms 2018.

  2. A. Amir, M. Amit, G. M. Landau, and D. Sokol. Period Recovery of Strings over the Hamming and Edit Distances. Theoretical Computer Science, (710), 2-18, 2018.

  3. M. Amit, M. Crochemore, G.M. Landau, and D. Sokol. Locating Maximal Approximate Runs in a String. Theoretical Computer Science (700), 45-62, 2017.

  4. S. Marcus and D. Sokol. 2D Lyndon Words and Applications. Algorithmica 77 (1), 116-133, 2017.

  5. D. Sokol and J. Tojeira. Speeding up the Detection of Tandem Repeats over the Edit Distance. Theoretical Computer Science (2013), http://dx.doi.org/10.1016/j.tcs.2013.04.021

  6. S. Neuburger and D. Sokol. Succinct 2D Dictionary Matching. Algorithmica, DOI: 10.1007/s00453-012-9615-9), February 2012. URL to article

  7. Y. Liang, D. Sokol, S. Zelikovitz and S. I. Levitan (2012). Classification of Tandem Repeats in the Human Genome. International Journal of Knowledge Discovery in Bioinformatics, 3(3), 1-21.

  8. D. Sokol and F. Atagun. TRedD: A Database for Tandem Repeats over the Edit Distance. Database (2010); 2010: article ID baq003, 10.1093/database/baq003. URL to article

  9. D. Sokol, F. Adkins, Z. Che, and K. Pfabe. Finding Repeats Within Strings. DIMACS Educational Module Series 09-2, 2009. URL to article     URL to module list

  10. G. Kucherov and D. Sokol. Approximate Tandem Repeats. Encyclopedia of Algorithms, 2008.

  11. D. Sokol, G. Benson, and J. Tojeira. Tandem Repeats over the Edit Distance. Bioinformatics 2007 23(2): e30-e35 URL to article.

  12. A. Amir, G. M. Landau, M. Lewenstein and D. Sokol. Dynamic Text and Static Pattern Matching. ACM Transactions on Algorithms, 3(2), 2007.

  13. C. Harel, M. Lewenstein and D. Sokol. Approximate Parameterized Matching. ACM Transactions on Algorithms, 3(3), 2007.

  14. A. Amir, G. M. Landau and D. Sokol. Inplace 2-Dimensional Matching in Compressed Images. Journal of Algorithms, 49, 2, p. 240-261, 2003.

  15. A. Amir, G. M. Landau and D. Sokol. Inplace Run-Length 2-Dimensional Compressed Search. Theoretical Computer Science, 290, 3, p. 1361--1383, 2003.

  16. G. M. Landau, J. P. Schmidt and D. Sokol. An Algorithm for Approximate Tandem Repeats. Journal of Computational Biology, Volume 8, p. 1-18, 2001.

Conference Proceedings:

  1. A. Amir, G.M. Landau, S. Marcus, and D. Sokol. Two-Dimensional Maximal Repetitions, LIPIcs-Leibniz International Proceedings in Informatics 112, pages 2:1--2:14, 26th Annual European Symposium on Algorithms (ESA) 2018.

  2. A. Amir, M. Amit, G.M. Landau, and D. Sokol. Period Recovery over the Hamming and Edit Distances, Latin American Symposium on Theoretical Informatics, pages 55-67, 2016.

  3. S. Geizhals and D. Sokol. Finding Maximal 2-Dimensional Palindromes. LIPIcs-Leibniz International Proceedings in Informatics: 54, pages 19:1--19:12, 27th Annual Symposium on Combinatorial Pattern Matching CPM 2016.

  4. S. Marcus and D. Sokol. On 2D Lyndon Words. International Symposium on String Processing and Information Retrieval SPIRE 2013, pages 206-217.

  5. Y. Liang, D. Sokol, and S. Zelikovitz. Clustering Tandem Repeats via Trinucleotides. In proceedings of IEEE International Conference on Data Mining, Workshop on Biological Data Mining, pages 64-71, IEEE Computer Society, 2012.

  6. S. Neuburger and D. Sokol. Succinct 2D Dictionary Matching with No Slowdown. Proc. 18th International Workshop on Algorithms and Data Structures (WADS), Lecture Notes in Computer Science, Springer-Verlag, p. 619-630, 2011.

  7. S. Neuburger and D. Sokol. Small-space 2d Dictionary Matching. In Proceedings of the 21st Combinatorial Pattern Matching Conference, NYU-Poly, NY, 6129: 27-39, 2010.

  8. D. Sokol and R. Rakhamimov. TandemGraph: A Graphical Tool for Modeling String Regularities. Proceedings of BIOCOMP '09: International Conference on Bioinformatics & Computational Biology, 536-540. (Las Vegas, NV), 2009.

  9. D. Sokol, G. Benson, and J. Tojeira. Tandem Repeats over the Edit Distance. Presented at the 5th European Conference on Computational Biology, ECCB 2006.

  10. D. Sokol and J. Tojeira. Filtering Tandem Repeats in DNA Sequences. Proceedings of BIOCOMP '06: International Conference on Bioinformatics & Computational Biology, (Las Vegas, NV), 2006.
  11. C. Harel, M. Lewenstein and D. Sokol. Approximate Parameterized Matching. Proceedings of ESA 2004: 12th Annual European Symposium on Algorithms, p. 414, 2004.

  12. A. Amir, G. M. Landau and D. Sokol. Inplace 2-D Matching in Compressed Images. Proceedings of the 14th Annual ACM-SIAM Symposium on Discrete Algorithms, 2003.

  13. A. Amir, G. M. Landau, M. Lewenstein and D. Sokol. Dynamic Text and Static Pattern Matching. Workshop on Algorithms and Data Structures, WADS 2003, pages 340-352.

  14. A. Amir, G. M. Landau and D. Sokol. Inplace Run-Length 2-Dimensional Compressed Search. Proceedings of the 11th Annual ACM-SIAM Symposium on Discrete Algorithms, 2000.