Chaok Seok - RankMe

36 papers Journal 36

Year	Rank	Type	Title / Venue / Authors
2025	J	`jnl`	Deep learning molecular interaction motifs from receptor structures alone. J. Cheminformatics Seeun Kim, Simaek Oh, Hyeonuk Woo, Jiho Sim, Chaok Seok, Hahnbeom Park
2025	J	`jnl`	SHARP: Generating Synthesizable Molecules via Fragment-Based Hierarchical Action-Space Reinforcement Learning for Pareto Optimization. J. Chem. Inf. Model. Jeonghyeon Kim, Seongok Ryu, Woohyeong Lee, Ansoo Lee, Hahnbeom Park, Chaok Seok
2024	J	`jnl`	CSearch: chemical space search via virtual synthesis and global optimization. J. Cheminformatics Hakjean Kim, Seongok Ryu, Nuri Jung, Jinsol Yang, Chaok Seok
2024	J	`jnl`	Protein loop structure prediction by community-based deep learning and its application to antibody CDR H3 loop modeling. PLoS Comput. Biol. Hyeonuk Woo, Yubeen Kim, Chaok Seok
2023	J	`jnl`	Benchmarking applicability of medium-resolution cryo-EM protein structures for structure-based drug design. J. Comput. Chem. Seho Lee, Chaok Seok, Hahnbeom Park
2023	J	`jnl`	GalaxyDock2-HEME: Protein-ligand docking for heme proteins. J. Comput. Chem. Changsoo Lee, Jinsol Yang, Sohee Kwon, Chaok Seok
2023	J	`jnl`	HProteome-BSite: predicted binding sites and ligands in human 3D proteome. Nucleic Acids Res. Jiho Sim, Sohee Kwon, Chaok Seok
2022	J	`jnl`	GalaxyWater-CNN: Prediction of Water Positions on the Protein Structure by a 3D-Convolutional Neural Network. J. Chem. Inf. Model. Sangwoo Park, Chaok Seok
2021	J	`jnl`	GalaxyHeteromer: protein heterodimer structure prediction by template-based and Nucleic Acids Res. Taeyong Park, Jonghun Won, Minkyung Baek, Chaok Seok
2021	J	`jnl`	GalaxyWater-wKGB: Prediction of Water Positions on Protein Structure Using wKGB Statistical Potential. J. Chem. Inf. Model. Lim Heo, Sangwoo Park, Chaok Seok
2020	J	`jnl`	GalaxySagittarius: Structure- and Similarity-Based Prediction of Protein Targets for Druglike Compounds. J. Chem. Inf. Model. Jinsol Yang, Sohee Kwon, Sang-Hun Bae, Kyoung Mii Park, Changsik Yoon, Ji-Hyun Lee, Chaok Seok
2020	J	`jnl`	Prediction of Molecular Electronic Transitions Using Random Forests. J. Chem. Inf. Model. Beomchang Kang, Chaok Seok, Juyong Lee
2019	J	`jnl`	GalaxyDock3: Protein-ligand docking that considers the full ligand conformational flexibility. J. Comput. Chem. Jinsol Yang, Minkyung Baek, Chaok Seok
2019	J	`jnl`	GalaxyRefine2: simultaneous refinement of inaccurate local regions and overall protein structure. Nucleic Acids Res. Gyu Rie Lee, Jonghun Won, Lim Heo, Chaok Seok
2019	J	`jnl`	GalaxyTongDock: Symmetric and asymmetric ab initio protein-protein docking web server with improved energy parameters. J. Comput. Chem. Taeyong Park, Minkyung Baek, Hasup Lee, Chaok Seok
2018	J	`jnl`	GalaxyGPCRloop: Template-Based and Ab Initio Structure Sampling of the Extracellular Loops of G-Protein-Coupled Receptors. J. Chem. Inf. Model. Jonghun Won, Gyu Rie Lee, Hahnbeom Park, Chaok Seok
2017	J	`jnl`	Absolute binding free energies for octa-acids and guests in SAMPL5 - Evaluating binding free energies for octa-acid and guest complexes in the SAMPL5 blind challenge. J. Comput. Aided Mol. Des. Florentina Tofoleanu, Juyong Lee, Frank C. Pickard IV, Gerhard König, Jing Huang, Minkyung Baek, Chaok Seok, Bernard R. Brooks
2017	J	`jnl`	Absolute binding free energy calculations of CBClip host-guest systems in the SAMPL5 blind challenge. J. Comput. Aided Mol. Des. Juyong Lee, Florentina Tofoleanu, Frank C. Pickard IV, Gerhard König, Jing Huang, Ana Damjanovic, Minkyung Baek, Chaok Seok, Bernard R. Brooks
2017	J	`jnl`	GalaxyDock BP2 score: a hybrid scoring function for accurate protein-ligand docking. J. Comput. Aided Mol. Des. Minkyung Baek, Woong-Hee Shin, Hwan Won Chung, Chaok Seok
2017	J	`jnl`	GalaxyHomomer: a web server for protein homo-oligomer structure prediction from a monomer sequence or structure. Nucleic Acids Res. Minkyung Baek, Taeyong Park, Lim Heo, Chiwook Park, Chaok Seok
2016	J	`jnl`	Evaluation of GalaxyDock Based on the Community Structure-Activity Resource 2013 and 2014 Benchmark Studies. J. Chem. Inf. Model. Woong-Hee Shin, Gyu Rie Lee, Chaok Seok
2016	J	`jnl`	Galaxy7TM: flexible GPCR-ligand docking by structure refinement. Nucleic Acids Res. Gyu Rie Lee, Chaok Seok
2015	J	`jnl`	GalaxyPepDock: a protein-peptide docking tool based on interaction similarity and energy optimization. Nucleic Acids Res. Hasup Lee, Lim Heo, Myeong Sup Lee, Chaok Seok
2014	J	`jnl`	GalaxySite: ligand-binding-site prediction by using molecular docking. Nucleic Acids Res. Lim Heo, Woong-Hee Shin, Myeong Sup Lee, Chaok Seok
2013	J	`jnl`	GalaxyDock2: Protein-ligand docking using beta-complex and global optimization. J. Comput. Chem. Woong-Hee Shin, Jae-Kwan Kim, Deok-Soo Kim, Chaok Seok
2013	J	`jnl`	GalaxyGemini: a web server for protein homo-oligomer structure prediction based on similarity. Bioinform. Hasup Lee, Hahnbeom Park, Junsu Ko, Chaok Seok
2013	J	`jnl`	GalaxyRefine: protein structure refinement driven by side-chain repacking. Nucleic Acids Res. Lim Heo, Hahnbeom Park, Chaok Seok
2012	J	`jnl`	GalaxyDock: Protein-Ligand Docking with Flexible Protein Side-chains. J. Chem. Inf. Model. Woong-Hee Shin, Chaok Seok
2012	J	`jnl`	GalaxyTBM: template-based modeling by building a reliable core and refining unreliable local regions. BMC Bioinform. Junsu Ko, Hahnbeom Park, Chaok Seok
2012	J	`jnl`	GalaxyWEB server for protein structure prediction and refinement. Nucleic Acids Res. Junsu Ko, Hahnbeom Park, Lim Heo, Chaok Seok
2011	J	`jnl`	LigDockCSA: Protein-ligand docking using conformational space annealing. J. Comput. Chem. Woong-Hee Shin, Lim Heo, Juyong Lee, Junsu Ko, Chaok Seok, Jooyoung Lee
2011	J	`jnl`	The FALC-Loop web server for protein loop modeling. Nucleic Acids Res. Junsu Ko, Dongseon Lee, Hahnbeom Park, Evangelos A. Coutsias, Julian Lee, Chaok Seok
2005	J	`jnl`	Rotational superposition and least squares: The SVD and quaternions approaches yield identical results. Reply to the preceding comment by G. Kneller. J. Comput. Chem. Evangelos A. Coutsias, Chaok Seok, Ken A. Dill
2004	J	`jnl`	A kinematic view of loop closure. J. Comput. Chem. Evangelos A. Coutsias, Chaok Seok, Matthew P. Jacobson, Ken A. Dill
2004	J	`jnl`	Using quaternions to calculate RMSD. J. Comput. Chem. Evangelos A. Coutsias, Chaok Seok, Ken A. Dill
2003	J	`jnl`	MOPED: Method for optimizing physical energy parameters using decoys. J. Comput. Chem. Chaok Seok, J. Ben Rosen, John D. Chodera, Ken A. Dill