Publications

Publications
Journal Papers:

9. Amin, R., Karim, M.M. and Sikder, A.R., “Prediction of the post-translational modification sites on dengue virus E protein and deciphering their role in pathogenesis”, International Journal of Bioinformatics Research and Applications. Vol.6 No.5, 2010

8. Biswas A.K., Noman N. and Sikder, A.R., Machine Learning approach to predict protein phosphorylation sites by incorporating evolutionary information”, BMC Bioinformatics 2010, 11:273

7. Sikder A.R. and Zomaya A.Y., “Analysis on Protein Phosphorylation Site Predictors with an Independent Dataset”, International Journal of Bioinformatics Research and Applications.Vol.5, No.1, 2009 pp.20-37

6. Yoo P. D., Sikder A.R., Zhou B. B. and Zomaya A.Y. “Improved IGRN for protein domain boundary Prediction”, BMC Bioinformatics 2008, 9(Suppl 1):S12

5. Yoo P. D., Sikder A.R., Taheri J., Zhou B. B. and Zomaya A.Y. ” DomNet: Domain Boundary Prediction Using Enhanced General Regression Networks and New Profiles”, IEEE Transactions on NanoBioscience, Vol 7, no.2, 2008.

4. Sikder A.R. and Zomaya A.Y. “Inferring the Protein Domain Boundary of Discontinuous Domain”, IEEE Transactions on NanoBioscience,Vol 7, no. 3, 2008.

3. Sikder A.R., “Bioinformatics in Bangladesh: An Optimistics View” Plant Tissue Cult. & Biotech. 18(1): 85-88, 2008 (June).

2. Sikder A.R. and Zomaya A.Y. “Improving the performance of DomainDiscovery of protein domain boundary assignment using inter-domain linker index”, BMC Bioinformatics 2006, 7(Suppl 5):S6.

1. Sikder A.R. and Zomaya A.Y. “An Overview of Protein Folding Techniques: Issues and Perspectives”, International Journal of Bioinformatics Research and Applications.Vol.1, No.1, 2005 pp.121-143
Peer Reviewed Conferences:
Oral Presentation
1. Sikder A.R. “Genetic Testing, a step to personalized Medicine”, International Symposium on Regulatory and Safety Issues in Commercialization of Biotechnology Research in Developing Countries” held in Dhaka, Bangladesh from 2-4 December 2008.
2. Yoo P. D., Sikder A.R., Zhou B. B. and Zomaya A.Y. “Improved IGRN for protein domain boundary Prediction”, InCOB2007 Hong Kong, Aug 27-31.
3. Sikder A.R. and Zomaya A.Y. “Improving the performance of DomainDiscovery of protein domain boundary assignment using inter-domain linker index”, Bioinformatics Australia 2006
“Connecting Australian Bioinformatics” 21-22 November 2006, Sydney Convention AND Exhibition Centre, Darling Harbour, Sydney, NSW.

4. Sikder A.R. and Zomaya A.Y. “Improving the performance of DomainDiscovery of protein domain boundary assignment using inter-domain linker index”, InCOB2006 New Delhi, India.

5. Sikder A.R. and Kay J. “Enhanced Multiple Choice Question for Formative Assessment in E-learning and User Modeling”, 2004, International Conference on E-Learn 2004 — World Conference on E-Learning in Corporate, Government, Healthcare, and Higher Education held in Washington, DC, USA, November 1-5, 2004.

Poster Presentation

1. Sikder A. R., Veretnik S., Zomaya A.Y. and Bourne P.E. “DomainDiscovery: A Novel Algorithm for Protein Domain Boundary Assignment Using Support Vector Machine”, ISMB, Fortaleza, Brazil, August 6-10, 2006

2. Sikder A. R., Veretnik S., Zomaya A.Y. and Bourne P.E. “DomainDiscovery: A Novel Algorithm for Protein Domain Boundary Assignment Using SVM”, 2006, LSS Computational Bioinformatics Conference Aug 14-18, 2006 Stanford University, California, USA.

3. Sikder A.R. and Zomaya A.Y. “Protein Homology modeling Using Sequence-Sequence Profiles with PAM Matrices”, 2005, 7th International Conference Bioinformatics, June 9-12, 2005, Tartu, Estonia.

Seminar Presentation
1. Sikder A.R., “Bioinformatics in Bangladesh: an optimistic view”, Bioinformatics: Prospects and Opportunities for Bangladesh, Center of Excellence, D.U., August 5, 2008
2. Sikder A.R., “Promise of Genomics and Bioinformatics” Department of Biotechnology, Bangladesh Agricultural University, Aug 29, 2008.
3. Sikder A.R., “Domain Boundary Prediction?” IUPUI, USA, April 1, 2008.
4. Sikder A.R., “Domain Boundary Prediction Using Machine Learning?,” WRI, USA, May 22, 2008.
Thesis:
1. Thesis Title: Inferring protein domain boundaries and protein structure from amino acid sequences, submitted in 2007, University of Sydney, Australia.

2. Thesis Title: Enhanced Multiple Choice Questions for Formative Assessment in E-Learning and User Modeling submitted in 2003, University of Sydney, Australia.