Sam Kwong

Artificial Intelligence, Theory of Computation

43.87
Active project
Updates monthly
Since 1990s, the whole genomes of different species have been sequenced by their corresponding genome sequencing projects. In 1995, the first free-living organism Haemophilus influenzae was sequenced by the Institute for Genomic Research. In 1996, the first eukaryotic genome (Saccharomyces cerevisiase) was completely sequenced. In 2000, the first plant genome, Arabidopsis thaliana, was also sequenced by Arabidopsis Genome Initiative. In 2006, the Human Genome Project (HGP) announced its completion. Following the HGP, the Encyclopedia of DNA Elements (ENCODE) project was started, revealing massive functional elements on the human genome in 2011. The drastically decreasing cost of sequencing also enables the 1000 Genomes Project and Roadmap Epigenomics Project to be carried out. Their results have been published in 2012 and 2015 respectively. Nonetheless, the massive genomic data generated by those projects impose an unforeseen challenge for massive data analysis. In our group, we aim at tackling the challenges by scalable machine learning and data mining methods. **************************************************************************** [Publication List] **************************************************************************** Ka-Chun, Wong. , Yue, Li. & Chengbin, Peng. (2016). A Comparison Study for DNA Motif Modeling on Protein Binding Microarray. IEEE/ACM Transactions on Computational Biology and Bioinformatics. doi:10.1109/TCBB.2015.2443782 Ka-Chun, Wong. , Peng, Chengbin. & Li, Yue. (2016). Evolving Transcription Factor Binding Site Models From Protein Binding Microarray Data. IEEE Transactions on Cybernetics (2015 Impact Factor = 4.943). doi:10.1109/TCYB.2016.2519380 Ka-Chun, Wong*. , Yue, Li. & Chengbin, Peng. (*Corresponding Authorship 2016). Identification of Coupling DNA Motif Pairs on Long-Range Chromatin Interactions in Human K562 Cells. Bioinformatics (2015 Impact Factor = 5.766). doi:10.1093/bioinformatics/btv555 Ka-Chun, Wong*. , Yue, Li. , Chengbin, Peng. , Alan M., Moses. & Zhaolei, Zhang*. (*Co-Corresponding Authorship 2015). Computational Learning on Specificity-Determining Residue-Nucleotide Interactions. Nucleic Acids Research (2015 Impact Factor = 9.202). 43(21). 10180 - 10189. Ka-Chun, Wong. , Chengbin, Peng. & Yue, Li. (2015). Probabilistic Inference on Multiple Normalized Signal Profiles from Next Generation Sequencing: Transcription Factor Binding Sites. IEEE/ACM Transactions on Computational Biology and Bioinformatics. doi:10.1109/TCBB.2015.2424421 Ka-Chun, Wong. , Yue, Li. , Chengbin, Peng. & Zhaolei, Zhang. (2015). SignalSpider: probabilistic pattern discovery on multiple normalized ChIP-Seq signal profiles. Bioinformatics (2015 Impact Factor = 5.766). 31 (1). 17 - 24. doi:10.1093/bioinformatics/btu604 Yue, Li. , Anna, Goldenberg. , Ka-Chun, Wong. & Zhaolei, Zhang. (2014). A probabilistic approach to explore human miRNA targetome by integrating miRNA-overexpression data and sequence information. Bioinformatics. 30 (5). 621 - 628. doi:10.1093/bioinformatics/btt599 Ka-Chun, Wong. , Chengbin, Peng. , Yue, Li. & Tak-Ming, Chan. (2014). Herd Clustering: A synergistic data clustering approach using collective intelligence. Applied Soft Computing (2014 Impact Factor = 2.810). 23. 61 - 75. doi:10.1016/j.asoc.2014.05.034 Yue, Li. , Liang, Cheng. , Ka-Chun, Wong. , Ke, Jin. & Zhaolei, Zhang. (2014). Inferring probabilistic miRNA-mRNA interaction signatures in cancers: a role-switch approach. Nucleic Acids Research. 42(9). e76 doi:10.1093/nar/gku182 Yue, Li. , Liang, Cheng. , Ka-Chun, Wong. , Jiawei, Luo. & Zhaolei, Zhang. (2014). Mirsynergy: detecting synergistic miRNA regulatory modules by overlapping neighbourhood expansion. Bioinformatics. 30 (18). 2627 - 2635. doi:10.1093/bioinformatics/btu373 Graham, Cromar. , Ka-Chun, Wong. , Noeleen, Loughran. , Tuan, On. , Hongyan, Song. , Xuejian, Xiong. , Zhaolei, Zhang. & John, Parkinson. (2014). New tricks for ‘old’ domains: How novel architectures and promiscuous hubs contributed to the organization and evolution of the ECM. Genome Biology and Evolution. 6. 2897 - 2917. doi:10.1093/gbe/evu228 Ka-Chun, Wong. & Zhaolei, Zhang. (2014). SNPdryad: Predicting Deleterious Non-synonymous human SNPs Using Only Orthologous Protein Sequences. Bioinformatics (2014 Impact Factor = 5). 30 (8). 1112 - 1119. doi:10.1093/bioinformatics/btt769 Ka-Chun, Wong. , Tak-Ming, Chan. , Chengbin, Peng. , Yue, Li. & Zhaolei, Zhang. (2013). DNA Motif Elucidation using Belief Propagation. Nucleic Acids Research (2013 Impact Factor = 9). 41 (16). e153 doi:10.1093/nar/gkt574 Yee, Leung. , Man-Hon, Wong. , Ka-Chun, Wong. , Wei, Zhang. & Kwong-Sak, Leung. (2012). A Novel Web-based System for Tropical Cyclone Analysis and Prediction. International Journal of Geographical Information Science. 26 (1). 75 - 97. doi:10.1080/13658816.2011.572075 Ka-Chun, Wong. , Chun-Ho, Wu. , Ricky K.P., Mok. , Chengbin, Peng. & Zhaolei, Zhang. (2012). Evolutionary multimodal optimization using the principle of locality. Information Sciences (2012 Impact Factor = 3.6). 194. 138 - 170. doi:10.1016/j.ins.2011.12.016 Tak-Ming, Chan. , Ka-Chun, Wong. , Kin-Hong, Lee. , Man-Hon, Wong. , Chi-Kong, Lau. , Stephen K.W., Tsui. & Kwong-Sak, Leung. (2011). Discovering approximate-associated sequence patterns for protein-DNA interactions. Bioinformatics. 27 (4). 471 - 478. doi:10.1093/bioinformatics/btq682 Ka-Chun, Wong. , Chengbin, Peng. , Man-Hon, Wong. & Kwong-Sak, Leung. (2011). Generalizing and learning protein-DNA binding sequence representations by an evolutionary algorithm. Soft Computing (2011 Impact Factor = 1.880). 15. 1631 - 1642. doi:10.1007/s00500-011-0692-5 Kwong-Sak, Leung. , Ka-Chun, Wong*. , Tak-Ming, Chan. , Man-Hon, Wong. , Kin-Hong, Lee. , Chi-Kong, Lau. & Stephen K.W., Tsui. (*Corresponding Authorship 2010). Discovering protein–DNA binding sequence patterns using association rule mining. Nucleic Acids Research (2010 Impact Factor = 8). 38. 6324 - 6337. doi:10.1093/nar/gkq500

Featured research View all

Topics(13)

Top co-authors
View all

27 Following View all

226 Followers View all

Skills and expertise(20) View all