siRNA Library Screening
Loss-of-function screens of druggable targetome against cancer stem-like cells.
Mee Song, Hani Lee, Myung-Hee Nam, Euna Jeong, Somin Kim, Yourae Hong, Nayoung Kim, Hwa Young Yim, Young-Ji Yoo, Jung Seok Kim, Jin-Seok Kim, Yong-Yeon Cho, Gordon B. Mills, Woo-Young Kim, Sukjoon Yoon

FASEB J. 31(2), 625-635(2017)
Analysis of image-based phenotypic parameters for high throughput gene perturbation assays.
Mee Song, Euna Jeong, Tae-Kyu Lee, Yury Tsoy, Yong-Jun Kwon, Sukjoon Yoon

Comput Biol Chem. 58, 192-198(2015)
Omics and Systems Medicine
Patient sample-oriented analysis of gene expression highlights extracellular signatures in breast cancer progression.
Yourae Hong, Nayoung Kim, Chao Li, Euna Jeong, Sukjoon Yoon

Biochem Biophys Res Commun. 487(2), 307-312(2017)
Cardiac glycosidesdisplay selective efficacy for STK11 mutant lung cancer.
Nayoung Kim, Hwa Young Yim, Ningning He, Cheol-Jung Lee, Ju Hyun Kim, Jin-Sung Choi, Hye Suk Lee, Somin Kim, Euna Jeong, Mee Song, Sang-Min Jeon, Woo-Young Kim, Gordon B. Mills, Yong-Yeon Cho, Sukjoon Yoon

Scientific Reports. 6, 29721(2016)
MACE: Mutation-oriented profiling of chemical response and gene expression in cancers.
Euna Jeong, Ningning He, Hyerin Park, Mee Song, Nayoung Kim, Seongjoon Lee, Sukjoon Yoon

Bioinformatics. 31(9), 1508-1514(2015)
Integrated analysis of transcriptomes of cancer cell lines and patient samples reveals STK11/LKB1-driven regulation of cAMP phosphodiesterase-4D (PDE4D).
Ningning He, Nayoung Kim, Mee Song, Choa Park, Somin Kim, Eun Young Park, Hwa Young Yim, Kyunga Kim, Jong Hoon Park, Keun Il Kim, Fan Zhang, Gordon B Mills, Sukjoon Yoon

Mol Cancer Ther. 13(10), 2463-2473(2014)
Systematic analysis of genotype-specific drug responses in cancer.
Nayoung Kim, Ningning He, Changsik Kim, Fan Zhang, Yiling Lu, Qinghua Yu, Katherine Hale, Joel Greshock, Richard Wooster, Sukjoon Yoon, Gordon B Mills

Int. J. of Cancers. 131(10) 2456-2464(2012)
Global analysis of microarray data reveals intrinsic properties in gene expression and tissue selectivity.
Changsik Kim, Jiwon Choi, Hyunjin Park, Yunsun Park, Jungsun Park, Kwanghwi Cho, Taesung Park, Young Yang and Sukjoon Yoon

Bioinformatics. 15;26(14):1723-1730(2010)
Large scale data mining approach for the gene-specific standardization of microarray gene expression data.
Sukjoon Yoon and Young Yang, Jiwon Choi and Jeeweon Seong
Bioinformatics, 22(23), 2898-2904(2006)
Computer-aided drug design
3D shape-based analysis of cell line-specific compound response in cancers.
Ningning He, Xiaoqi Wang, Nayoung Kim, Jong-Seok Lim, Sukjoon Yoon

Journal of Molecular Graphics and Modelling. 43, 41-46(2013)
Enrichment of virtual hits by progressive shape-matching and docking.
Jiwon Choi, Ningning He, Nayoung Kim, Sukjoon Yoon

Journal of Molecular Graphics and Modelling. 32, 82-88(2011)
Sanguinarine is an allosteric activator of AMP-activated protein kinase.
Jiwon Choi, Ningning He, Mi-Kyung Sung, Young Yang and Sukjoon Yoon

Biochem Biophys Res Commun. 413(2), 259-263(2011)
Optimization of high throughput virtual screening by combining shape-matching and docking methods.
Huisun Lee, Jiwon Choi, Irina Kufareva, Ruben Abagyan, Anton Filikov, Young Yang and Sukjoon Yoon

Journal of Chemical Information and Modeling, 48(3), 489-497(2008)
Surrogate Docking: Structure-based virtual screening at high throughput speed.
Sukjoon Yoon, Andrew Smellie, Dave Hartsough and Anton Filikov

Journal of Computer-aided Molecular Design, 19(7), 483-497(2005)
Identification of minimal subset of receptor conformations for improved multiple conformation docking method and two-step scoring.
Sukjoon Yoon and William J. Welsh
Journal of Chemical Information and Computer Sciences(JCICS), 44(1), 88-96(2004)
Amyloid fibril prediction and Protein bioinformatics
NetCSSP: web application for predicting chameleon sequences and amyloid fibril formation.
Changsik Kim, Jiwon Choi, Seong Joon Lee, William J. Welsh and Sukjoon Yoon

Nucleic Acids Research, 37:W469-473(2009)
Rapid assessment of contact-dependent secondary structure propensity: relevance to amyloidogenic sequences.
Sukjoon Yoon and William J. Welsh

PROTEINS: Structure, Function and Bioinformatics, 60(1), 110-117(2005)
Detecting hidden sequence propensity for amyloid fibril formation.
Sukjoon Yoon and William J. Welsh
Protein Science, 13(8), 2149-2160(2004)
Transposon-directed base-exchange mutagenesis (TDEM): a novel mothod for multiple-nucleotide substitutions within a target gene.
YC Kim, Huisun Lee, Sukjoon Yoon and SL Morrison

Biotechniques, 46(7): 534-42(2009)
Qhelix: a computational tool for the improved measurement of inter-helical angles in proteins.
Huisun Lee and Sukjoon Yoon

Protein J, 26(8), 556-561(2007)
Improved method for predicting beta-turn using support vector machine.
Qidong Zhang, Sukjoon Yoon and William J. Welsh
Bioinformatics, 21(10), 2370-2374(2005)