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  • 2024

    TRIBAL: Tree Inference of B Cell Clonal Lineages

    Weber, L. L., Reiman, D., Roddur, M. S., Qi, Y., El-Kebir, M. & Khan, A. A., 2024, Research in Computational Molecular Biology - 28th Annual International Conference, RECOMB 2024, Proceedings. Ma, J. (ed.). Springer, p. 364-367 4 p. (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics); vol. 14758 LNCS).

    Research output: Chapter in Book/Report/Conference proceedingConference contribution

    Open Access
  • 2023

    Balancing Minimum Free Energy and Codon Adaptation Index for Pareto Optimal RNA Design

    Gu, X., Qi, Y. & El-Kebir, M., Aug 2023, 23rd International Workshop on Algorithms in Bioinformatics, WABI 2023. Belazzougui, D. & Ouangraoua, A. (eds.). Schloss Dagstuhl- Leibniz-Zentrum fur Informatik GmbH, Dagstuhl Publishing, 21. (Leibniz International Proceedings in Informatics, LIPIcs; vol. 273).

    Research output: Chapter in Book/Report/Conference proceedingConference contribution

  • Inferring Temporally Consistent Migration Histories

    Roddur, M. S., Snir, S. & El-Kebir, M., Aug 2023, 23rd International Workshop on Algorithms in Bioinformatics, WABI 2023. Belazzougui, D. & Ouangraoua, A. (eds.). Schloss Dagstuhl- Leibniz-Zentrum fur Informatik GmbH, Dagstuhl Publishing, 9. (Leibniz International Proceedings in Informatics, LIPIcs; vol. 273).

    Research output: Chapter in Book/Report/Conference proceedingConference contribution

  • 2022

    CORSID Enables de novo Identification of Transcription Regulatory Sequences and Genes in Coronaviruses

    Zhang, C., Sashittal, P. & El-Kebir, M., 2022, Research in Computational Molecular Biology - 26th Annual International Conference, RECOMB 2022, Proceedings. Pe’er, I. (ed.). Springer, p. 360-362 3 p. (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics); vol. 13278 LNBI).

    Research output: Chapter in Book/Report/Conference proceedingConference contribution

    Open Access
  • Emerging Topics in Cancer Evolution

    El-Kebir, M., Morris, Q., Oesper, L. & Sahinalp, S. C., 2022, Pacific Symposium on Biocomputing 2022, PSB 2022. Altman, R. B., Dunker, A. K., Hunter, L., Ritchie, M. D. & Klein, T. E. (eds.). World Scientific, p. 397-401 5 p.

    Research output: Chapter in Book/Report/Conference proceedingConference contribution

    Open Access
  • 2021

    Parsimonious clone tree reconciliation in cancer

    Sashittal, P., Zaccaria, S. & El-Kebir, M., Jul 1 2021, 21st International Workshop on Algorithms in Bioinformatics, WABI 2021. Carbone, A. & El-Kebir, M. (eds.). Schloss Dagstuhl- Leibniz-Zentrum fur Informatik GmbH, Dagstuhl Publishing, 9. (Leibniz International Proceedings in Informatics, LIPIcs; vol. 201).

    Research output: Chapter in Book/Report/Conference proceedingConference contribution

  • 2020

    Phyolin: Identifying a linear perfect phylogeny in single-cell DNA sequencing data of tumors

    Weber, L. L. & El-Kebir, M., Aug 1 2020, 20th International Workshop on Algorithms in Bioinformatics, WABI 2020. Kingsford, C. & Pisanti, N. (eds.). Schloss Dagstuhl- Leibniz-Zentrum fur Informatik GmbH, Dagstuhl Publishing, 5. (Leibniz International Proceedings in Informatics, LIPIcs; vol. 172).

    Research output: Chapter in Book/Report/Conference proceedingConference contribution

  • 2018

    On the non-uniqueness of solutions to the perfect phylogeny mixture problem

    Pradhan, D. & El-Kebir, M., 2018, Comparative Genomics - 16th International Conference, RECOMB-CG 2018, Proceedings. Ouangraoua, A. & Blanchette, M. (eds.). Springer, p. 277-293 17 p. (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics); vol. 11183 LNBI).

    Research output: Chapter in Book/Report/Conference proceedingConference contribution

  • Parsimonious migration history problem: Complexity and algorithms

    El-Kebir, M., Aug 1 2018, 18th International Workshop on Algorithms in Bioinformatics, WABI 2018. Parida, L. & Ukkonen, E. (eds.). Schloss Dagstuhl- Leibniz-Zentrum fur Informatik GmbH, Dagstuhl Publishing, 24. (Leibniz International Proceedings in Informatics, LIPIcs; vol. 113).

    Research output: Chapter in Book/Report/Conference proceedingConference contribution

  • 2017

    The copy-number tree mixture deconvolution problem and applications to multi-sample bulk sequencing tumor data

    Zaccaria, S., El-Kebir, M., Klau, G. W. & Raphael, B. J., 2017, Research in Computational Molecular Biology - 21st Annual International Conference, RECOMB 2017, Proceedings. Sahinalp, S. C. (ed.). Springer, p. 318-335 18 p. (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics); vol. 10229 LNCS).

    Research output: Chapter in Book/Report/Conference proceedingConference contribution

    Open Access
  • 2016

    Copy-number evolution problems: Complexity and algorithms

    El-Kebir, M., Raphael, B. J., Shamir, R., Sharan, R., Zaccaria, S., Zehavi, M. & Zeira, R., 2016, Algorithms in Bioinformatics - 16th International Workshop, WABI 2016, Proceedings. Frith, M. & Pedersen, C. N. S. (eds.). Springer, p. 137-149 13 p. (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics); vol. 9838 LNCS).

    Research output: Chapter in Book/Report/Conference proceedingConference contribution

  • 2012

    Charge group partitioning in biomolecular simulation

    Canzar, S., El-Kebir, M., Pool, R., Elbassioni, K., Malde, A. K., Mark, A. E., Geerke, D. P., Stougie, L. & Klau, G. W., 2012, Research in Computational Molecular Biology - 16th Annual International Conference, RECOMB 2012, Proceedings. p. 29-43 15 p. (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics); vol. 7262 LNBI).

    Research output: Chapter in Book/Report/Conference proceedingConference contribution

    Open Access
  • 2011

    A mathematical programming approach to marker-assisted gene pyramiding

    Canzar, S. & El-Kebir, M., 2011, Algorithms in Bioinformatics - 11th International Workshop, WABI 2011, Proceedings. p. 26-38 13 p. (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics); vol. 6833 LNBI).

    Research output: Chapter in Book/Report/Conference proceedingConference contribution

    Open Access
  • Lagrangian relaxation applied to sparse global network alignment

    El-Kebir, M., Heringa, J. & Klau, G. W., 2011, Pattern Recognition in Bioinformatics - 6th IAPR International Conference, PRIB 2011, Proceedings. p. 225-236 12 p. (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics); vol. 7036 LNBI).

    Research output: Chapter in Book/Report/Conference proceedingConference contribution

    Open Access