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Mohammed Zaki

TitleProfessor
InstitutionRensselaer Polytechnic Institute
DepartmentComputer Science
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     Bibliographic 
     selected publications
    Publications listed below are automatically derived from MEDLINE/PubMed and other sources, which might result in incorrect or missing publications. Faculty can login to make corrections and additions.
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    1. Ramakrishnan V, Srinivasan SP, Salem SM, Matthews SJ, Colón W, Zaki M. Geofold: topology-based protein unfolding pathways capture the effects of engineered disulfides on kinetic stability. Proteins. 2012 Mar; 80(3):920-34.
      View in: PubMed
    2. Salem S, Zaki MJ, Bystroff C. FlexSnap: flexible non-sequential protein structure alignment. Algorithms Mol Biol. 2010; 5:12.
      View in: PubMed
    3. Lund AW, Bilgin CC, Hasan MA, McKeen LM, Stegemann JP, Yener B, Zaki MJ, Plopper GE. Quantification of spatial parameters in 3D cellular constructs using graph theory. J Biomed Biotechnol. 2009; 2009:928286.
      View in: PubMed
    4. Qureshi AH, Chaoji V, Maiguel D, Faridi MH, Barth CJ, Salem SM, Singhal M, Stoub D, Krastins B, Ogihara M, Zaki MJ, Gupta V. Proteomic and phospho-proteomic profile of human platelets in basal, resting state: insights into integrin signaling. PLoS One. 2009; 4(10):e7627.
      View in: PubMed
    5. Salem S, Zaki MJ, Bystroff C. Iterative non-sequential protein structural alignment. J Bioinform Comput Biol. 2009 Jun; 7(3):571-96.
      View in: PubMed
    6. Shentu Z, Al Hasan M, Bystroff C, Zaki MJ. Context shapes: Efficient complementary shape matching for protein-protein docking. Proteins. 2008 Feb 15; 70(3):1056-73.
      View in: PubMed
    7. Phoophakdee B, Zaki MJ. TRELLIS+: an effective approach for indexing genome-scale sequences using suffix trees. Pac Symp Biocomput. 2008; 90-101.
      View in: PubMed
    8. Zaki MJ, Bystroff C. Protein structure prediction. Preface. Methods Mol Biol. 2008; 413:v-vii.
      View in: PubMed
    9. Gao F, Zaki MJ. Indexing protein structures using suffix trees. Methods Mol Biol. 2008; 413:147-69.
      View in: PubMed
    10. Salem S, Zaki MJ. Iterative non-sequential protein structural alignment. Comput Syst Bioinformatics Conf. 2008; 7:183-94.
      View in: PubMed
    11. Zaki MJ, Karypis G, Yang J. Data Mining in Bioinformatics (BIOKDD). Algorithms Mol Biol. 2007; 2:4.
      View in: PubMed
    12. Zhang Y, Zaki MJ. SMOTIF: efficient structured pattern and profile motif search. Algorithms Mol Biol. 2006; 1:22.
      View in: PubMed
    13. Zhang Y, Zaki MJ. EXMOTIF: efficient structured motif extraction. Algorithms Mol Biol. 2006; 1:21.
      View in: PubMed
    14. Gao F, Zaki MJ. PSIST: indexing protein structures using suffix trees. Proc IEEE Comput Syst Bioinform Conf. 2005; 212-22.
      View in: PubMed
    15. Zaki MJ, Nadimpally V, Bardhan D, Bystroff C. Predicting protein folding pathways. Bioinformatics. 2004 Aug 4; 20 Suppl 1:i386-93.
      View in: PubMed
    16. Zaki MJ, Jin S, Bystroff C. Mining residue contacts in proteins using local structure predictions. IEEE Trans Syst Man Cybern B Cybern. 2003; 33(5):789-801.
      View in: PubMed
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    Mount Sinai Profiles is managed by Conduits - The Institutes for Translational Sciences at Icahn School of Medicine, supported by the National Center for Research Resources and the National Center for Advancing Translational Sciences of the National Institutes of Health through Grant Number UL1TR000067