Publications

Journals and Pre-print:

1. DPP-PseAAC: A DNA-binding protein prediction model using Chou’s general PseAAC[link]
   M. Saifur Rahman, Swakkhar Shatabda, Sanjay Saha M. Kaykobad, M. Sohel Rahman
   Journal of Theoretical Biology, 2018
2. iPro70-FMWin: identifying Sigma70 promoters using multiple windowing and minimal features[link]
   Md. Siddiqur Rahman, Usma Aktar, Md Rafsan Jani, Swakkhar Shatabda
   Molecular Genetics and Genomics, 2018
3. iPromoter-FSEn: Identification of bacterial σ70 promoter sequences using feature subspace based ensemble classifier[link]
   Md. Siddiqur Rahman, Usma Aktar, Md Rafsan Jani, Swakkhar Shatabda
   Genomics, 2018
4. iRSpot-SF: Prediction of recombination hotspots by incorporating sequence based features into Chou's Pseudo components[link]
   Md AbdullahAl Maruf, Swakkhar Shatabda
   Genomics, 2018
5. EvoStruct-Sub: An accurate Gram-positive protein subcellular localization predictor using evolutionary and structural features[link]
   Md. Raihan Uddin, Alok Sharma, Dewan Md Farid, Md. Mahmudur Rahman, Abdollah Dehzangi, Swakkhar Shatabda
   Journal of Theoretical Biology, 2018
6. iProtGly‐SS: Identifying protein glycation sites using sequence and structure based features[link]
   Md Mofijul Islam, Sanjay Saha, Md Mahmudur Rahman, Swakkhar Shatabda , Dewan Md Farid and Abdollah Dehzangi
   Proteins: Structure, Function, and Bioinformatics 2018
7. iPHLoc-ES: Identification of bacteriophage protein locations using evolutionary and structural features[link]
   Swakkhar Shatabda ,Sanjay Saha, Alok Sharma ,Abdollah Dehzangi
   Journal of Theoretical Biology, 2017
8. iDTI-ESBoost: Identification of Drug Target Interaction Using Evolutionary and Structural Features with Boosting[link]
   Farshid Rayhan, Sajid Ahmed, Swakkhar Shatabda, Dewan Md Farid, Zaynab Mousavian, Abdollah Dehzangi and M. Sohel Rahman
   Scientific Reports, 2017
9. iDNAProt-ES: Identification of DNA-binding Proteins Using Evolutionary and Structural Features[link]
   Shahana Yasmin Chowdhury, Swakkhar Shatabda, Abdollah Dehzangi
   Scientific Reports, 2017
10. HMMBinder: DNA-Binding Protein Prediction Using HMM Profile Based Features[link]
    Rianon Zaman, Shahana Yasmin Chowdhury, Mahmood A. Rashid, Alok Sharma, Abdollah Dehzangi and Swakkhar Shatabda
    BioMed Research International, 2017
11. A novel and effective scoring scheme for structure classification and pairwise similarity measurement[pdf]
    Rezaul Karim, Md Aziz, Momin Al, Swakkhar Shatabda, M Sohel Rahman
    arXiv preprint arXiv:1610.01052, 2016
12. Efficient conformational space exploration in ab initio protein folding simulation. [pdf] [link]
    Ahammed Ullah, Nasif Ahmed, Subrata Dey Pappu, Swakkhar Shatabda, A. Z. M. Dayem Ullah, M. Sohel Rahman
    Royal Society Open Science, 2(8), 150238, 2015
13. Comograd and phog: From computer vision to fast and accurate protein tertiary structure retrieval. [pdf] [link]
    Rezaul Karim, Mohd Momin Al Aziz, Swakkhar Shatabda, M Sohel Rahman, Md Abul Kashem Mia, Farhana Zaman, Salman Rakin
    Scientific Reports 5: 13275. 2015

Conference Papers:

1. CylcoAnt: Sequencing Cyclic Peptides Using Hybrid Ants.
   Sujata Baral, Swakkhar Shatabda , Mahmood A Rashid
   (accepted in Gecco 2017)
2. A new effective algorithm for protein chain lattice fit problem.
   Farhan Anan Himu, Khushnur Binte Jahangir, Md Ziauddin Ridoy, Shayantonee Dhar, Swakkhar Shatabda
   IEEE International WIE Conference on Electrical and Computer Engineering (WIECON-ECE), 2015
3. GreMuTRRR: A novel genetic algorithm to solve distance geometry problem for protein structures
   Md Lisul Islam, Swakkhar Shatabda, M Sohel Rahman
   8th International Conference on Electrical and Computer Engineering, 2014
4. Constraint-Based Evolutionary Local Search for Protein Structures with Secondary Motifs
   Swakkhar Shatabda, MA Hakim Newton, Abdul Sattar
   Pacific Rim International Conference on Artificial Intelligence, 2014