Razib Othman

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Education

  • expected 2007, PhD (Computer Science), Universiti Teknologi Malaysia.
  • 2003, MSc (Computer Science), Universiti Teknologi Malaysia.
  • 1999, BSc (Computer Science), Universiti Teknologi Malaysia.


Research Interests (Bioinformatics)

  1. Protein Sequence Analysis.
  2. Protein-Protein Interaction Prediction.
  3. Protein Structure Prediction.
  4. Gene Expression Analysis.
  5. Biological Ontologies, Data Mining, and Data Integration.


Awards

  1. Gold Medal, 34th International Exhibition of Invention New Techniques and Products, Geneva, Switzerland.
  2. The Best Invention of the Pacific Rim Award, 22nd Invention and New Product Exposition, Pittsburgh, USA.
  3. Silver Medal (Engineering Category), 22nd Invention and New Product Exposition, Pittsburgh, USA.
  4. Silver Medal (Design Technical Category), 22nd Invention and New Product Exposition, Pittsburgh, USA.
  5. Bronze Medal (Automotive Category), 22nd Invention and New Product Exposition, Pittsburgh, USA.
  6. Bronze Medal (Computer Software Category), 22nd Invention and New Product Exposition, Pittsburgh, USA.
  7. Gold Medal, 5th Malaysia Technology Expo, Kuala Lumpur, Malaysia.
  8. Gold Medal, 3rd Public Institutions of Higher Learning Research and Development Expo, Kuala Lumpur, Malaysia.
  9. The Best Invention, 8th Industrial Art and Technology Exhibition, Skudai, Malaysia.
  10. Gold Medal (ICT/Manufacturing-Machinery-Idustrial Process Category), 8th Industrial Art and Technology Exhibition, Skudai, Malaysia.
  11. Finalist of Malaysian Innovation Award 2006 by Malaysian Ministry of Science, Technology, and Innovation.
  12. Excellence Scientist Recognition Award 2006 bestowed by Malaysian Ministry of Higher Education.
  13. Young Researcher 2005 bestowed by Malaysian Association of Research Scientists (MARS).
  14. Excellence Scientist Recognition Award 2005 bestowed by Malaysian Ministry of Higher Education.
  15. The Best Fundamental Research Award 2005 bestowed by Universiti Teknologi Malaysia.
  16. Researcher Recognition Award 2005 bestowed by Universiti Teknologi Malaysia.
  17. Excellence Service Award 2005 bestowed by Universiti Teknologi Malaysia.
  18. Excellence Service Award 2003 bestowed by Universiti Teknologi Malaysia.


Publications (2006-present)

  1. Othman R.M. Computational Method for Annotation of Protein Sequence Using Gene Ontology and Intelligent Techniques. (draft). PhD Thesis. Universiti Teknologi Malaysia.
  2. Othman R.M., Deris S., and Illias R.M. A Genetic Split-Merge Algorithm for Splitting the Monolithic Gene Ontology RDF/XML File. (in preparation). Int'l Journal Semantic Computing.
  3. Othman R.M., Deris S., and Illias R.M. A Genetic Similarity Search on the Gene Ontology Terms for Annotation of Anonymous Protein Sequence. (under review). Journal Biomedical Informatics.
  4. Othman R.M., Deris S., and Illias R.M. (Dec 2006). Computational Method for Annotation of Protein Sequence According to Gene Ontology Terms. Int'l Journal Biomedical Sciences 1(3): 186-199.
  5. Othman R.M., Deris S., and Illias R.M. (Jul 2006). UTMGO: A Tool for Searching a Group of Semantically Related Gene Ontology Terms and Application to Annotation of Anonymous Protein Sequence. Int'l Journal Biomedical Sciences 1(2): 111-119 [a GO Bibliography].
  6. Alashwal H.T., Deris S., and Othman R.M. (Jul 2006). One-Class Support Vector Machines for Protein-Protein Interactions Prediction. Int'l Journal Biomedical Sciences 1(2): 120-127.
  7. Othman R.M., Deris S., Illias R.M., Alashwal H.T., Hassan R., and Mohamed F. (May 2006). Incorporating Semantic Similarity Measure in Genetic Algorithm: An Approach for Searching the Gene Ontology Terms. Int'l Journal Computational Intelligence 3(3): 257-266 [a GO Bibliography].
  8. Othman R.M., Deris S., Illias R.M., Zakaria Z., and Mohamad S.M. (Apr 2006). Automatic Clustering of Gene Ontology by Genetic Algorithm. Int'l Journal Information Technology 3(1): 37-46 [a GO Bibliography].
  9. Alashwal H.T., Deris S., and Othman R.M. (Apr 2006). Comparison of Domain and Hydrophobicity Features for the Prediction of Protein-Protein Interactions Using Support Vector Machines. Int'l Journal Information Technology 3(1): 18-24.
  10. Zafar M.F., Mohamad Z., and Othman R.M. (Jan 2006). Writer Independent Online Handwritten Character Recognition Using a Simple Approach. Information Technology Journal 5(3): 476-484.
  11. Zafar M.F., Mohamad Z., and Othman R.M. (Dec 2005). Online Handwritten Character Recognition: An Analysis of Counter-Propagation Neural Net. Trans Engineering, Computing, and Technology 10(1): 232-237.
  12. Alashwal H.T., Deris S., Othman R.M., and Mohamad S.M. (Nov 2006). One-Class Classifier to Predict Protein-Protein Interactions Based on Hydrophobicity Properties. In Proc 2nd Int'l Symp. Biomedical Engineering (ISBME'06), Bangkok, Thailand. pp 63-66.
  13. Alashwal H.T., Deris S., and Othman R.M. (Jun 2006). Proteins Interactions from Protein Sequence Features Using Support Vector Machines. Accepted at the Int'l Conf Bioinformatics & Computational Biology (BIOCOMP'06), Las Vegas, USA.
  14. Alashwal H.T., Deris S., and Othman R.M. (Jun 2006). Support Vector Machines for Predicting Protein-Protein Interactions Using Domains and Hydrophobicity Features. In Abstract Book Int'l Conf Computing & Informatics (ICOCI'06), Kuala Lumpur, Malaysia, pp. 31.
  15. Zafar M.F., Mohamad Z., and Othman R.M. (Apr 2006). Neural Nets for On-line Isolated Handwritten Character Recognition: A Comparative Study. In Proc IEEE Int'l Conf Engineering of Intelligent Systems (ICEIS'2006), Islamabad, Pakistan. pp 30-35.
  16. Mohamad Z., Zafar M.F., and Othman R.M. (Apr 2006). On-Line Cursive Handwriting Recognition: A Survey of Methods and Performances. In Proc 4th Int'l Multiconf Computer Science & Information Technology (CSIT'06), Amman, Jordan. pp 70-84.


Grants

  1. The Development of Feature Selection Tool for Classification of Microarrays Gene Expression Data Using Statistical and Machine Learning Techniques. Funded by Malaysian Ministry of Science, Technology, and Innovation under ScienceFund. Grant no: 02-01-06-SF0068. Amount: MYR197,998. Duration: 24 months (Dec 2006 - Nov 2008).
  2. The Development of Integrated Planning and Scheduling Framework for Dynamic and Reactive Environment of Complex Manufacturing Problem. Funded by Malaysian Ministry of Science, Technology, and Innovation under ScienceFund. Grant no: 01-01-06-SF0004. Amount: MYR98,994. Duration: 18 months (Dec 2006 - May 2008).
  3. Learning Classifiers from Distributed, Semantically Heterogeneous, and Autonomous Data Sources. Funded by Malaysian Ministry of Higher Education under Fundamental Research Grant Scheme. Grant no: 78092. Amount: MYR40,000. Duration: 24 months (Jan 2007 - Dec 2008).
  4. The Development of Semantic Meta-Database: An Ontology Based Semantic Integration of Biological Databases. Funded by Malaysian Ministry of Science, Technology, and Innovation under Intensification of Research in Priority Areas. Grant no: 04-02-06-10050-EAR. Amount: MYR86,000. Duration: 23 months (Aug 2005 - Jun 2007).
  5. The Development of Machine Learning Based Software for Predicting Protein-Protein Interactions and Protein Function from Protein Primary Structure. Funded by Malaysian Ministry of Science, Technology, and Innovation under Intensification of Research in Priority Areas. Grant no: 04-02-06-10049-EAR. Amount: MYR76,000. Duration: 23 months (Aug 2005 - Jun 2007).
  6. The Development of Hybrid Cell Ontology for Storing and Exchanging Computer-Based Biological Models. Funded by Malaysian Ministry of Science, Technology, and Innovation under Intensification of Research in Priority Areas. Grant no: 04-02-06-0072-EA001. Amount: MYR125,000. Duration: 24 months (Jan 2003 - Dec 2004).
  7. The Development of Collaborative Environment with Privacy and Conference Control for 3D Protein Structure Visualization. Funded by Malaysian Ministry of Science, Technology, and Innovation under Intensification of Research in Priority Areas. Grant no: 04-02-06-0063-EA001. Amount: MYR144,000. Duration: 24 months (Jan 2003 - Dec 2004).
  8. The Development of Multi-Agent Systems for Biological Information Retrieval from Heterogeneous Distributed Data and Knowledge Sources. Funded by Malaysian Ministry of Science, Technology, and Innovation under Intensification of Research in Priority Areas. Grant no: 04-02-06-0057-EA001. Amount: MYR260,000. Duration: 36 months (Jan 2003 - Dec 2005).
  9. A Study on Information Extraction from Heterogeneous, Distributed, and Autonomous DNA Databases Using Ontology-Based Agent. Funded by Universiti Teknologi Malaysia under Short Term Grant. Grant no: 75162. Amount: MYR43,500. Duration: 12 months (Aug 2004 - Sep 2005).
  10. A Study on Biomolecular Sequence Alignment Using Machine Learning Techniques. Funded by Universiti Teknologi Malaysia under Short Term Grant. Grant no: 75079. Amount: MYR38,000. Duration: 12 months (Feb 2004 - Jan 2005).
  11. A Study on Component Based Technology for Development of Complex Bioinformatics Software. Funded by Universiti Teknologi Malaysia under Short Term Grant. Grant no: 75031. Amount: MYR19,500. Duration: 12 months (Sep 2003 - Aug 2004).


Software

  1. UTMGO: A Tool for Searching a Group of Semantically Related Gene Ontology Terms and Annotation of Anonymous Protein Sequence.
  2. UTMost-EDEx: A Tool for 2D Engineering Drawing Extraction.
  3. UTMost-DSR: A Tool for Design Structure Recognition.
  4. Metabone-AgroSys: A Software for Multi-Entrprise, Multi-Level, and Distributed Plantation Management.


Group Members

  1. Rohayanti Hassan, Lecturer (Protein Quaternary Structure Prediction).
  2. Zuraini Ali Shah, Lecturer (Protein Sequence Analysis).
  3. Hany Taher Alashwal, PhD Student (Protein-Protein Interaction Prediction).
  4. Zalmiyah Zakaria, PhD Student (Planning in Flexible Manufacturing System).
  5. Muhammad Firdaus Mustapha, MSc Student (Scheduling in Flexible Manufacturing System).
  6. Hashimah Samion, Research Officer.
  7. Norlelawati Abdul Manap, Research Officer.
  8. Sairee Sainel, Research Officer.
  9. Zilfaharinah Hashim, Research Officer.
  10. Norlina Deraman, Assistant Research Officer.
  11. Mohd Asri Pahorudin, Senior Programmer.
  12. Samihah Mardzuki, Programmer.


Collaborators

  1. Hilal A. Lashuel, Laboratory of Molecular Neurobiology and Functional Neuroproteomics, EPFL.
  2. ZILUN Systems Sdn Bhd.
  3. APM Automotive Holdings Bhd.
  4. LKPP Corporation Sdn Bhd.
  5. Strategi Tegas (M) Sdn Bhd.


Contact Info

Razib M. Othman
Laboratory of Artificial Intelligence and Bioinformatics
Department of Software Engineering
Faculty of Computer Science and Information System
Universiti Teknologi Malaysia
81310 UTM Skudai, MALAYSIA
Tel: +607-55-32358
Fax: +607-55-65044
E-mail: razib@utm.my

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