RAMAZAN S. AYGUN
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BIOINFORMATICS & SEQUENCE ALIGNMENT

Heterotrimeric G proteins interact with G protein-coupled receptors in response to stimulation by hormones, neurotransmitters, chemokines, and sensory signals to intracellular signaling cascades. We provide a robust computational method for finding new G proteins and their homologs using SVM based pattern recognition algorithm.

In addition, we have developed a greedy hierarchical classifier for classifying biological data. Building proper hierarchical multi-class classifiers are imporrant to have accuracy.

Moreover, we have developed sequence alignment algorithms using maximum contiguous subarrays. While it can be parallelized effectively, our method does not require inputting gap penalty parameters.


P U B L I C A T I O N S


  1. Aygun, R. S., Kandadi, H. SEAL: A Divide-and-Conquer Approach For Sequence Alignment. Network Modeling Analysis in Health Informatics and Bioinformatics. December 2015, 4:25
  2. Begum, S.; Aygun, R.S., "Analyzing the Performance of Hierarchical Binary Classifiers for Multi-class Classification Problem Using Biological Data," Machine Learning and Applications (ICMLA), 2012 11th International Conference on , vol.2, no., pp.145,150, 12-15 Dec. 2012
  3. Preti Jain, Puneet Wadhwa, Ramazan Aygun, and Gopi Podila. “Vector–G: Multi-Modular SVM-Based Heterotrimeric G-Protein Prediction” In Silico Biol. 8, 0013 (2008)
  4. Begum, S.; Aygun, R.S., " Greedy Hierarchical Binary Classifiers for Multi-class Classification of Biological Data," Network Modeling Analysis in Health Informatics and Bioinformatics, 3:53, Feb 2014. DOI: 10.1007/s13721-014-0053-2
  5. Preti Jain, Wadhwa P, Freije N, Aygun R, Podila G. A Robust Method for Identification and Comparative Genomics of G Proteins in Eukaryotes, PBR 2006 (Poster, non-refereed)
  6. Preti Jain, Brar S, Freije N, Wadhwa P, Aygun R, Podila G. Prediction of G-Proteins using Support Vector Machines: A Machine Learning Algorithm, PBR 2006 (Poster, non-refereed)

ADDRESS
Computer Science Department
Technology Hall (OKT) N360
University of Alabama in Huntsville
Huntsville, AL 35899

CONTACT
Email: ramazan dot aygun at uah dot edu
Phone: +1 (256) 824 6455
Fax: +1 (256)824 6239