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Career Summary

Biography

Nasimul Noman received his PhD degree in Frontier Informatics from the Graduate School of Frontier Sciences, University of Tokyo in 2007. He served in the Department of Computer Science and Engineering, University of Dhaka as a faculty member. He was a postdoctoral researcher in the Graduate School of Engineering, University of Tokyo with JSPS fellowship. He was working as a research fellow in the Graduate School of Information Since and Technology in University of Tokyo before he joined the University of Newcastle in 2013.

His current research focus is the application of evolutionary computation for synthesis of gene networks for systems and synthetic biology. His research interests also include development of evolutionary algorithms and their application in computational biology and bioinformatics. 

Qualifications

  • PhD, University of Tokyo - Japan, 22/03/2007
  • Bachelor of Science (Computer Science), University of Dhaka - Bangladesh, 22/11/1999
  • Master of Science (Computer Science), University of Dhaka - Bangladesh, 11/07/2001

Research

Research keywords

  • Bioinformatics
  • Computational Biology
  • Evolutionary Algorithms
  • Synthetic Biology
  • Systems Biology

Research expertise

My major research area is modeling, simulation, reconstruction and optimization of biological networks. I have been working with different types of deterministic and stochastic modeling, simulation and analysis of genetic networks for systems and synthetic biology. I have worked in model based reconstruction of genetic networks from gene expression data for quite long. Evolutionary algorithms are my preferred method for optimization and in silico construction of biological networks.

I am fascinated by the field of Evolutionary Computation. My favorite topics are Differential Evolution, Local Search, Memetic Algorithms, Adaptive Evolutionary Algorithms and Genetic Based Machine Learning (GMBL). I have been working for long for development, analysis and application of EC. To me the application of evolutionary algorithms for solving different real world problems, particularly in computational biology and bioinformatics, is very challenging and appealing.

I have active research experience in some bioinformatics research topics. The topics of bioinformatics I am interested/experienced in are protein phosphorylation and glycosylation site detection, promoter site prediction, protein secondary structure prediction, regulatory motif detection, etc. I have been working for enhancement, extension and effective utilization of machine learning algorithms for solving different problems in bioinformatics and computational biology.

Languages

  • Bengali
  • English

Fields of Research

CodeDescriptionPercentage
080108Neural, Evolutionary And Fuzzy Computation40
060114Systems Biology40
060102Bioinformatics20

Collaboration

My current research collaborators are

1. Prof. Hitoshi Iba, University of Tokyo.

2. A/Prof. Yannic Rondelez, University of Tokyo.

Administrative

Administrative expertise

In my appointment in University of Dhaka, I have served as student adviser. Besides, I have worked in different administrative committees such as course curriculum development committee, examination coordination committee etc.

Teaching

Teaching keywords

  • Computer Algorithms
  • Data Structure
  • Evolutionary Computation
  • Theory of Computation

Teaching expertise

In my previous appointments, I taught many undergraduate and graduate courses of Computer Science and Engineering. Some of the courses I taught recently are as follows:

• Introduction to Bioinformatics

• Compiler Design

• Introduction to Circuit Analysis

• Microprocessor and Assembly Language

• Data Structure

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Publications

For publications that are currently unpublished or in-press, details are shown in italics.

Click on a category title below to expand the list of citations for that specific category.

Book (1 outputs)

YearCitationAltmetricsLink
2011Iba H, Noman N, New Frontier in Evolutionary Algorithms, World Scientific Publishing Company, London, 304 (2011) [A2]

Chapter (2 outputs)

YearCitationAltmetricsLink
2014Noman N, Palafox L, Iba H, 'Inferring Genetic Networks with a Recurrent Neural Network Model Using Differential Evolution', Springer Handbook of Bio-/Neuroinformatics, Springer, Berlin Heidelberg 355-373 (2014)
2007Noman N, Iba H, 'Inferring Regulations in a Genomic Network from Gene Expression Profiles.', Analysis of Biological Data: A Soft Computing Approach, World Scientific 205-229 (2007)

Journal article (10 outputs)

YearCitationAltmetricsLink
2013Palafox L, Noman N, Iba H, 'Reverse Engineering of Gene Regulatory Networks Using Dissipative Particle Swarm Optimization', IEEE TRANSACTIONS ON EVOLUTIONARY COMPUTATION, 17 577-587 (2013) [C1]
2013Noman N, Palafox L, Iba H, 'Evolving Genetic Networks for Synthetic Biology', NEW GENERATION COMPUTING, 31 71-88 (2013) [C1]
2012Ibrahim M, Noman N, Iba H, 'Finding Perfect and Imperfect Biclusters from Gene Expression Data: A Heuristic and A Metaheuristic Approach.', International Journal of Applied Chemistry, 8 (2012)
2011Azad AKM, Shahid S, Noman N, Lee H, 'Prediction of plant promoters based on hexamers and random triplet pair analysis', ALGORITHMS FOR MOLECULAR BIOLOGY, 6 (2011) [C1]
2011Noman N, Iba H, 'epsilon constrained differential evolution for economic dispatch with valve-point effect', INTERNATIONAL JOURNAL OF BIO-INSPIRED COMPUTATION, 3 346-357 (2011) [C1]
2010Kabir M, Noman N, Iba H, 'Reverse engineering gene regulatory network from microarray data using linear time-variant model', BMC BIOINFORMATICS, 11 (2010) [C1]
2010Biswas AK, Noman N, Sikder AR, 'Machine learning approach to predict protein phosphorylation sites by incorporating evolutionary information', BMC BIOINFORMATICS, 11 (2010) [C1]
2008Noman N, Iba H, 'Differential evolution for economic load dispatch problems', ELECTRIC POWER SYSTEMS RESEARCH, 78 1322-1331 (2008) [C1]
2008Noman N, Iba H, 'Accelerating differential evolution using an adaptive local search', IEEE TRANSACTIONS ON EVOLUTIONARY COMPUTATION, 12 107-125 (2008) [C2]
2007Noman N, Iba H, 'Inferring gene regulatory networks using differential evolution with local search heuristics', IEEE-ACM TRANSACTIONS ON COMPUTATIONAL BIOLOGY AND BIOINFORMATICS, 4 634-647 (2007)
Show 7 more

Conference (25 outputs)

YearCitationAltmetricsLink
2013Hettiarachchi DS, Noman N, Iba H, 'Messy Genetic Algorithm for Evolving Mathematical Function Evaluating Variable Length Gene Regulatory Networks', 2013 IEEE CONGRESS ON EVOLUTIONARY COMPUTATION (CEC), Cancun, MEXICO (2013)
2013Palafox LF, Noman N, Iba H, 'Extending Population Based Incremental Learning using Dirichlet Processes', 2013 IEEE CONGRESS ON EVOLUTIONARY COMPUTATION (CEC), Cancun, MEXICO (2013)
2012Noman N, Palafox L, Iba H, 'On model selection criteria in reverse engineering gene networks using RNN model', Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics) (2012) [E1]
2012Komiya K, Noman N, Iba H, 'The search for robust topologies of oscillatory gene regulatory networks by evolutionary computation', GECCO'12 - Proceedings of the 14th International Conference on Genetic and Evolutionary Computation Companion (2012) [E1]
2012He C, Noman N, Iba H, 'An improved artificial bee colony algorithm with non-separable operator', Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics) (2012) [E1]
2011Noman N, Bollegala D, Iba H, 'An Adaptive Differential Evolution Algorithm', 2011 IEEE CONGRESS ON EVOLUTIONARY COMPUTATION (CEC), New Orleans, LA (2011) [E1]
2011Noman N, Bollegala D, Iba H, 'Differential Evolution with Self Adaptive Local Search', GECCO-2011: PROCEEDINGS OF THE 13TH ANNUAL GENETIC AND EVOLUTIONARY COMPUTATION CONFERENCE, Dublin, IRELAND (2011) [E1]
2011Noman N, Iba H, 'Solving Dynamic Economic Dispatch Problems using Cellular Differential Evolution', 2011 IEEE CONGRESS ON EVOLUTIONARY COMPUTATION (CEC), New Orleans, LA (2011) [E1]
2011Vatanutanon J, Noman N, Iba H, 'Polynomial Selection Scheme with Dynamic Parameter Estimation in Cellular Genetic Algorithm', GECCO-2011: PROCEEDINGS OF THE 13TH ANNUAL GENETIC AND EVOLUTIONARY COMPUTATION CONFERENCE, Dublin, IRELAND (2011) [E1]
2011Bollegala D, Noman N, Iba H, 'RankDE: Learning a Ranking Function for Information Retrieval using Differential Evolution', GECCO-2011: PROCEEDINGS OF THE 13TH ANNUAL GENETIC AND EVOLUTIONARY COMPUTATION CONFERENCE, Dublin, IRELAND (2011) [E1]
2010Ishiwata H, Noman N, Iba H, 'Emergence of Cooperation in a Bio-inspired Multi-agent System', AI 2010: ADVANCES IN ARTIFICIAL INTELLIGENCE, Univ S Australia, Adelaide, AUSTRALIA (2010) [E1]
2010Mondal BS, Sarkar AK, Hasan MM, Noman N, 'Reconstruction of gene regulatory networks using differential evolution', Proceedings of 2010 13th International Conference on Computer and Information Technology, ICCIT 2010 (2010) [E1]
2010Noman N, Iba H, 'Cellular Differential Evolution Algorithm', AI 2010: ADVANCES IN ARTIFICIAL INTELLIGENCE, Univ S Australia, Adelaide, AUSTRALIA (2010) [E1]
2010Vatanutanon J, Noman N, Iba H, 'Polynomial selection: A new way to tune selective pressure', Proceedings - 2010 2nd World Congress on Nature and Biologically Inspired Computing, NaBIC 2010 (2010) [E1]
2010Ibrahim M, Noman N, Iba H, 'On the complexity and completeness of robust biclustering algorithm (ROBA)', 2010 4th International Conference on Bioinformatics and Biomedical Engineering, iCBBE 2010 (2010) [E1]
2010Noman N, Vatanutanon J, Iba H, 'Tuning selection pressure in differential evolution using local selection', Proceedings - 2010 2nd World Congress on Nature and Biologically Inspired Computing, NaBIC 2010 (2010) [E1]
2010Hasan MM, Noman N, Iba H, 'A prior knowledge based approach to infer gene regulatory networks', ISB 2010 Proceedings - International Symposium on Biocomputing (2010) [E1]
2006Noman N, Iba H, 'On the reconstruction of gene regulatory networks from noisy expression profiles', 2006 IEEE CONGRESS ON EVOLUTIONARY COMPUTATION, VOLS 1-6, Vancouver, CANADA (2006)
2006Noman N, Iba H, 'Inference of genetic networks using S-system: Information criteria for model selection', GECCO 2006: GENETIC AND EVOLUTIONARY COMPUTATION CONFERENCE, VOL 1 AND 2, Seattle, WA (2006)
2006Noman N, Lba H, 'A new generation alternation model for differential evolution', GECCO 2006: Genetic and Evolutionary Computation Conference, Vol 1 and 2, Seattle, WA (2006)
2006Noman N, Iba H, 'On the reconstruction of gene regulatory networks from noisy expression profiles', 2006 IEEE Congress on Evolutionary Computation, CEC 2006 (2006)
2005Noman N, Iba H, 'Reverse engineering genetic networks using evolutionary computation.', Genome informatics. International Conference on Genome Informatics. (2005)
2005Noman N, Iba H, 'Enhancing Differential Evolution performance with local search for high dimensional function optimization', GECCO 2005: GENETIC AND EVOLUTIONARY COMPUTATION CONFERENCE, VOLS 1 AND 2, Washington, DC (2005)
2005Noman N, Iba H, 'Inference of gene regulatory networks using S-system and differential evolution', GECCO 2005: GENETIC AND EVOLUTIONARY COMPUTATION CONFERENCE, VOLS 1 AND 2, Washington, DC (2005)
2004Noman N, Okada K, Hosoyama N, Iba H, 'Use of clustering to improve the layout of gene network for visualization', CEC2004: PROCEEDINGS OF THE 2004 CONGRESS ON EVOLUTIONARY COMPUTATION, VOLS 1 AND 2, Portland, OR (2004)
Show 22 more
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Grants and Funding

Summary

Number of grants2
Total funding$6,200

- Indicates that the researcher may be seeking students for this project.

Click on a grant title below to expand the full details for that specific grant.

2014 (2 grants)

New Staff Grant$5,000
Funding Body: University of Newcastle - Faculty of Engineering & Built Environment

Project Team
Doctor Nasimul Noman
SchemeRole
New Staff GrantChief Investigator
Total AmountFunding StartFunding Finish
$5,00020142014
GNo:G1400989

15th International Conference on Systems Biology, Melbourne, 14-18 September, 2014$1,200
Funding Body: University of Newcastle - Faculty of Engineering & Built Environment

Project Team
Doctor Nasimul Noman
SchemeRole
Travel GrantChief Investigator
Total AmountFunding StartFunding Finish
$1,20020142015
GNo:G1400795
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Research Supervision

Number of current supervisions0

No Supervisions.

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Dr Nasimul Noman

Work Phone(02) 4921 6867
Email
PositionLecturer
School of Elect Engineering and Computer Science
Faculty of Engineering and Built Environment
The University of Newcastle, Australia
Office
ES228,
Callaghan
University Drive
Callaghan NSW 2308
Australia
URL:www.newcastle.edu.au/profile/