An Empirical Comparison of Supervised Machine Learning Techniques in Bioinformatics. - Aik Choon Tan; David R. Gilbert (APBC, 2003)

Integrative machine learning approach for multi-class SCOP protein fold classification. - Aik Choon Tan; David R. Gilbert; Yves Deville (German Conference on Bioinformatics, 2003)

An Assessment of Feature Relevance in Predicting Protein Function from Sequence. - Ali Al-Shahib; Chao He; Aik Choon Tan; Mark A. Girolami; David R. Gilbert (IDEAL, 2004)

Simple decision rules for classifying human cancers from gene expression profiles. - Aik Choon Tan; Daniel Q. Naiman; Lei Xu 014; Raimond L. Winslow; Donald Geman (Bioinform., 2005)

Robust prostate cancer marker genes emerge from direct integration of inter-study microarray data. - Lei Xu 014; Aik Choon Tan; Daniel Q. Naiman; Donald Geman; Raimond L. Winslow (Bioinform., 2005)

Microarray Classification from Several Two-Gene Expression Comparisons. - Donald Geman; Bahman Afsari; Aik Choon Tan; Daniel Q. Naiman (ICMLA, 2008)

Merging microarray data from separate breast cancer studies provides a robust prognostic test. - Lei Xu 014; Aik Choon Tan; Raimond L. Winslow; Donald Geman (BMC Bioinform., 2008)

BEReX: Biomedical Entity-Relationship eXplorer. - Minji Jeon; Sunwon Lee; Kyubum Lee; Aik Choon Tan; Jaewoo Kang (Bioinform., 2014)

Bioinformatics-driven discovery of rational combination for overcoming EGFR-mutant lung cancer resistance to EGFR therapy. - Jihye Kim 004; Vihas T. Vasu; Rangnath Mishra; Katherine R. Singleton; Minjae Yoo; Sonia M. Leach; Eveline Farias-Hesson; Robert J. Mason; Jaewoo Kang; Preveen Ramamoorthy; Jeffrey A. Kern; Lynn E. Heasley; et al. (Bioinform., 2014)

Identifying kinase dependency in cancer cells by integrating high-throughput drug screening and kinase inhibition data. - Karen A. Ryall; Jimin Shin; Minjae Yoo; Trista K. Hinz; Jihye Kim 004; Jaewoo Kang; Lynn E. Heasley; Aik Choon Tan (Bioinform., 2015)

DSigDB: drug signatures database for gene set analysis. - Minjae Yoo; Jimin Shin; Jihye Kim 004; Karen A. Ryall; Kyubum Lee; Sunwon Lee; Minji Jeon; Jaewoo Kang; Aik Choon Tan (Bioinform., 2015)

Systems biology approaches for advancing the discovery of effective drug combinations. - Karen A. Ryall; Aik Choon Tan (J. Cheminformatics, 2015)

BRONCO: Biomedical entity Relation ONcology COrpus for extracting gene-variant-disease-drug relations. - Kyubum Lee; Sunwon Lee; Sungjoon Park; Sunkyu Kim; Suhkyung Kim; Kwanghun Choi; Aik Choon Tan; Jaewoo Kang (Database J. Biol. Databases Curation, 2016)

HiPub: translating PubMed and PMC texts to networks for knowledge discovery. - Kyubum Lee; Won-Ho Shin; Byounggun Kim; Sunwon Lee; Yonghwa Choi; Sunkyu Kim; Minji Jeon; Aik Choon Tan; Jaewoo Kang (Bioinform., 2016)

IMPACT: a whole-exome sequencing analysis pipeline for integrating molecular profiles with actionable therapeutics in clinical samples. - Jennifer Hintzsche; Jihye Kim 004; Vinod Kumar Yadav; Carol Amato; Steven E. Robinson; Eric Seelenfreund; Yiqun Shellman; Joshua Wisell; Allison Applegate; Martin McCarter; Neil Box; John Tentler; et al. (J. Am. Medical Informatics Assoc., 2016)

GSEA-InContext: identifying novel and common patterns in expression experiments. - Rani K. Powers; Andrew Goodspeed; Harrison Pielke-Lombardo; Aik Choon Tan; James C. Costello (Bioinform., 2018)

Deep learning of mutation-gene-drug relations from the literature. - Kyubum Lee; Byounggun Kim; Yonghwa Choi; Sunkyu Kim; Won-Ho Shin; Sunwon Lee; Sungjoon Park; Seongsoon Kim; Aik Choon Tan; Jaewoo Kang (BMC Bioinform., 2018)

PAGER 2.0: an update to the pathway, annotated-list and gene-signature electronic repository for Human Network Biology. - Zongliang Yue; Qi Zheng; Michael T. Neylon; Minjae Yoo; Jimin Shin; Zhiying Zhao; Aik Choon Tan; Jake Y. Chen (Nucleic Acids Res., 2018)

ReSimNet: drug response similarity prediction using Siamese neural networks. - Minji Jeon; Donghyeon Park; Jinhyuk Lee; Hwisang Jeon; Miyoung Ko; Sunkyu Kim; Yonghwa Choi; Aik Choon Tan; Jaewoo Kang (Bioinform., 2019)

Exploring the molecular mechanisms of Traditional Chinese Medicine components using gene expression signatures and connectivity map. - Minjae Yoo; Jimin Shin; Hyunmin Kim; Jihye Kim 004; Jaewoo Kang; Aik Choon Tan (Comput. Methods Programs Biomed., 2019)

TIMEx: tumor-immune microenvironment deconvolution web-portal for bulk transcriptomics using pan-cancer scRNA-seq signatures. - Mengyu Xie; Kyubum Lee; John H. Lockhart; Scott D. Cukras; Rodrigo Carvajal; Amer A. Beg; Elsa R. Flores; Mingxiang Teng; Christine H. Chung; Aik Choon Tan (Bioinform., 2021)

Deep Learning of Histopathology Images at the Single Cell Level. - Kyubum Lee; John H. Lockhart; Mengyu Xie; Ritu Chaudhary; Robbert J. C. Slebos; Elsa R. Flores; Christine H. Chung; Aik Choon Tan (Frontiers Artif. Intell., 2021)

Crowdsourced identification of multi-target kinase inhibitors for RET- and TAU- based disease: The Multi-Targeting Drug DREAM Challenge. - Zhaoping Xiong; Minji Jeon; Robert J. Allaway; Jaewoo Kang; Donghyeon Park; Jinhyuk Lee; Hwisang Jeon; Miyoung Ko; Hualiang Jiang; Mingyue Zheng; Aik Choon Tan; Xindi Guo; et al. (PLoS Comput. Biol., 2021)

Editorial: AI and data science in drug development and public health: Highlights from the MCBIOS 2022 conference. - Ramin Homayouni; Prashanti Manda; Aik Choon Tan; Zhaohui S. Qin (Frontiers Big Data, 2023)

NuKit: A deep learning platform for fast nucleus segmentation of histopathological images. - Ching-Nung Lin; Christine H. Chung; Aik Choon Tan (J. Bioinform. Comput. Biol., 2023)

PATH-SURVEYOR: pathway level survival enquiry for immuno-oncology and drug repurposing. - Alyssa N. Obermayer; Darwin Chang; Gabrielle Nobles; Mingxiang Teng; Aik Choon Tan; Xuefeng Wang; Y. Ann Chen; Steven Eschrich; Paulo C. Rodriguez; G. Daniel Grass; Soheil Meshinchi; Ahmad Tarhini; et al. (BMC Bioinform., 2023)

An Epigenomic fingerprint of human cancers by landscape interrogation of super enhancers at the constituent level. - Xiang Liu; Nancy Gillis; Chang Jiang; Anthony McCofie; Timothy I. Shaw; Aik Choon Tan; Bo Zhao; Lixin Wan; Derek R. Duckett; Mingxiang Teng (PLoS Comput. Biol., 2024)