Ahmet Sacan


ahmet.sacan@drexel.edu
http://sacan.biomed.drexel.edu/ahmet
School of Biomedical Engineering, Science and Health Systems
Drexel University University
Bossone 702, 3120 Market Street.
Philadelphia, PA 19104
Tel: (215) 895-1804
Fax: (215) 895-4983



  • See my Curriculum Vitae for more detailed information.
  • Research Interests: Indexing and Data Mining in Biological Databases, Protein Sequence and Structure, Similarity Search, Protein Structure Modeling, Protein-Protein Interaction, Automated Cell Tracking
  • Calendar: If you plan to stop by my office, take a look at my calendar to find a time I am available. Unless noted on the calendar, I can usually be found in my office (Bossone 702) between 9am-5pm.
  • Software Development: The Software page lists some of the software I have developed.


Teaching


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Publications

  1. Smolign: A Spatial Motifs Based Multiple Protein Structures Alignment Method.
    Sun, H., Sacan, A., Ferhatosmanoglu, H., & Wang, Y. (2011). IEEE/ACM Transactions on Computational Biology and Bioinformatics. [bib]
  2. Comparing the Yeast Retrograde Response and {NF-kB} Stress Responses.
    Srinivasan, V., Kriete, A., Sacan, A., & Jazwinski, M. S. (2010). Aging Cell, 9(6), 933-941. [bib]
  3. Sequence alignment reveals possible MAPK docking motifs on HIV proteins.
    Evans, P., Sacan, A., Ungar, L., & Tozeren, A. (2010). PLoS Pathogens, 5(1), 8942. [bib]
  4. Comparison of Multidimensional Data Access Methods For Feature-based Image Retrieval.
    Arslan, S., Açar, E., Sacan, A., Toroslu, H. İ., & Yazıcı, A. (2010). Proceedings of the 20th International Conference on Pattern Recognition (ICPR), Istanbul, Turkey. [bib]
  5. Online Education Experiences: Information Technologies Certificate Program at METU.
    Yukselturk, E., Yazici, A., Kaya, O., & Sacan, A. (2010). ACM Annual Conference on Innovation and Technology in Computer Science Education (ITiCSE). [bib]
  6. Computer and Information Science: Proceedings of the 25th International Symposium on Computer and Information Sciences, Lecture Notes in Electrical Engineering.
    Gelenbe, E., Lent, R., Sakellari, G., Sacan, A., Toroslu, H., & Yazici, A. (Eds.). (2010). (Vol. 62). Heidelberg: Springer. [bib]
  7. MicroarrayDesigner: an online search tool and repository for near-optimal microarray experimental designs.
    Sacan, A., Ferhatosmanoglu, N., & Ferhatosmanoglu, H. (2009). BMC Bioinformatics, 10, 304-309. [bib]
  8. Secondary Bitmap Indexes with Vertical and Horizontal Partitioning.
    Canahuate, G., Apaydin, T., Sacan, A., & Ferhatosmanoglu, H. (2009). Proceedings of the 12th International Conference on Extending Database Technology (EDBT), Saint-Petersburg, Russia. [bib]
  9. Proceedings of the 24th International Symposium on Computer and Information Sciences.
    Vural, F. Y., Yazici, A., Toroslu, H., Can, T., Senkul, P., & Sacan, A. (Eds.). (2009). IEEE Computer Society. [bib]
  10. Distance-based Indexing of Residue Contacts for Protein Structure Retrieval and Alignment.
    Sacan, A., Toroslu, H. I., & Ferhatosmanoglu, H. (2008). Proceedings of the IEEE 8th International Symposium on Bioinformatics \& Bioengineering (BIBE), Athens, Greece. [bib]
  11. Integrated Search and Alignment of Protein Structures.
    Sacan, A., Toroslu, H. I., & Ferhatosmanoglu, H. (2008). Bioinformatics, 24(24), 2872-2879. [bib]
  12. Prediction of Cysteine Bridges using Sequence Alignments.
    Sacan, A. (2008). Middle East Technical University, Department of Computer Engineering. [bib]
  13. Contacts-based indexing, retrieval, and alignment of protein structures.
    Sacan, A., Toroslu, H. I., & Ferhatosmanoglu, H. (2008). Fifth Midwest Database Research Symposium. [bib]
  14. Similarity Search and Analysis of Protein Sequences and Structures: A Residue Contacts Based Approach.
    Sacan, A. (2008). PhD Thesis , Middle East Technical University, Turkey. [bib]
  15. Smolign: A Spatial Motifs Based Multiple Protein Structures Alignment Method.
    Sun, H., Sacan, A., Ferhatosmanoglu, H., & Wang, Y. (2008). Ohio Collaborative Conference on Bioinformatics (OCCBIO), Toledo, OH. [bib]
  16. Automated Data Discovery in Similarity Score Queries.
    Altiparmak, F., Tosun, A., Ferhatosmanoglu, H., & Sacan, A. (2008). International Conference of Database Systems for Advanced Applications (DASFAA), Lecture Notes in Computer Science, India. [bib]
  17. Approximate Similarity Search in Genomic Sequence Databases using Landmark-Guided Embedding.
    Sacan, A., & Toroslu, H. I. (2008). Proceedings of the 1st International Workshop on Similarity Search and Applications (SISAP, an ICDE workshop), Cancun, Mexico. [bib]
  18. CellTrack: An Open-Source Software for Cell Tracking and Motility Analysis.
    Sacan, A., Ferhatosmanoglu, H., & Coskun, H. (2008). Bioinformatics, 24(14), 1647-1649. [bib]
  19. LFM-Pro: A Tool for Detecting Significant Local Structural Sites in Proteins.
    Sacan, A., Ozturk, O., Ferhatosmanoglu, H., & Wang, Y. (2007). Bioinformatics, 23(6), 709-716. [bib]
  20. Amino acid substitution matrices based on 4-body Delaunay contact profiles.
    Sacan, A., & Toroslu, H. I. (2007). Proceedings of the IEEE 7th International Symposium on Bioinformatics \& Bioengineering (BIBE), Boston, USA. [bib]
  21. LFM-Pro: a tool for mining family-specific sites in protein structure databases.
    Sacan, A., Ozturk, O., Ferhatosmanoglu, H., & Wang, Y. (2006). Third Midwest Database Research Symposium. [bib]
  22. Mapping Protein Sequences and Structures to Feature Spaces for Efficient Indexing.
    Sacan, A. (2005). Proceedings of the International Symposium on Health Informatics and Bioinformatics (HIBIT). [bib]

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index.txt · Last modified: 2010/10/15 13:35 by Ahmet Sacan