Dongsup Kim

Orcid: 0000-0002-5916-6799

According to our database1, Dongsup Kim authored at least 31 papers between 2002 and 2022.

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Bibliography

2022
DeepLUCIA: predicting tissue-specific chromatin loops using Deep Learning-based Universal Chromatin Interaction Annotator.
Bioinform., 2022

2020
CRDS: Consensus Reverse Docking System for target fishing.
Bioinform., 2020

Prediction of mutation effects using a deep temporal convolutional network.
Bioinform., 2020

2019
FP2VEC: a new molecular featurizer for learning molecular properties.
Bioinform., 2019

2018
3DIV: A 3D-genome Interaction Viewer and database.
Nucleic Acids Res., 2018

KRDS: a web server for evaluating drug resistance mutations in kinases by molecular docking.
J. Cheminformatics, 2018

2017
Utilizing random Forest QSAR models with optimized parameters for target identification and its application to target-fishing server.
BMC Bioinform., 2017

Deep convolutional neural networks for pan-specific peptide-MHC class I binding prediction.
BMC Bioinform., 2017

2016
Structure-based Markov random field model for representing evolutionary constraints on functional sites.
BMC Bioinform., 2016

Library of binding protein scaffolds (LibBP): a computational platform for selection of binding protein scaffolds.
Bioinform., 2016

2013
Interaction network among functional drug groups.
BMC Syst. Biol., 2013

FitSearch: a robust way to interpret a yeast fitness profile in terms of drug's mode-of-action.
BMC Genom., 2013

2012
A checkpoints capturing timing-robust Boolean model of the budding yeast cell cycle regulatory network.
BMC Syst. Biol., 2012

Large-scale reverse docking profiles and their applications.
BMC Bioinform., 2012

Coevolved Residues and the Functional Association for Intrinsically Disordered Proteins.
Proceedings of the Biocomputing 2012: Proceedings of the Pacific Symposium, 2012

2011
Drug-drug relationship based on target information: application to drug target identification.
BMC Syst. Biol., 2011

Modeling allosteric signal propagation using protein structure networks.
BMC Bioinform., 2011

2010
PostMod: sequence based prediction of kinase-specific phosphorylation sites with indirect relationship.
BMC Bioinform., 2010

Linear predictive coding representation of correlated mutation for protein sequence alignment.
BMC Bioinform., 2010

2009
A new method for revealing correlated mutations under the structural and functional constraints in proteins.
Bioinform., 2009

SIMPRO: simple protein homology detection method by using indirect signals.
Bioinform., 2009

2008
Inference of Protein Complex Activities from Chemical-Genetic Profile and Its Applications: Predicting Drug-Target Pathways.
PLoS Comput. Biol., 2008

Application of nonnegative matrix factorization to improve profile-profile alignment features for fold recognition and remote homolog detection.
BMC Bioinform., 2008

2007
Predicting and improving the protein sequence alignment quality by support vector regression.
BMC Bioinform., 2007

Inference of Gene Regulatory Networks Using Time Sliding Comparison and Transcriptional Lagging Time from Time Series Gene Expression Profiles.
Proceedings of the 7th IEEE International Conference on Bioinformatics and Bioengineering, 2007

2006
AtRTPrimer: database for Arabidopsis genome-wide homogeneous and specific RT-PCR primer-pairs.
BMC Bioinform., 2006

2005
Fold recognition by combining profile-profile alignment and support vector machine.
Bioinform., 2005

2003
Raptor: Optimal Protein Threading by Linear Programming.
J. Bioinform. Comput. Biol., 2003

A computational pipeline for protein structure prediction and analysis at genome scale.
Bioinform., 2003

Protein Threading by Linear Programming.
Proceedings of the 8th Pacific Symposium on Biocomputing, 2003

2002
Automated assignment of backbone NMR peaks using constrained bipartite matching.
Comput. Sci. Eng., 2002


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