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USD 150 /hr
Hire Dr. Ryangguk K.
United States
USD 150 /hr
Bioinformatics consultant with +15 years of experience with genomic variant annotation pipelines
Profile Summary
Subject Matter Expertise
Services
Consulting
Scientific and Technical Consulting
Data & AI
Data Visualization,
Big Data Analytics
Work Experience
CEO/Founder
Oak Bioinformatics, LLC
December 2020 - Present
Bioinformatics Scientist
Kiromic BioPharma, Inc
July 2021 - December 2021
Bioinformatics specialist
In Silico Solutions, LLC
January 2011 - June 2021
Postdoctoral Researcher
University of North Carolina at Charlotte
January 2008 - December 2010
Postdoctoral Researcher
Georgia Institute of Technology
January 2006 - December 2007
Education
PhD in Biotechnology
Seoul National University
March 1998 - August 2004
MS in Biotechnology
Seoul National University
March 1996 - February 1998
Certifications
- Certification details not provided.
Publications
JOURNAL ARTICLE
Ryangguk Kim, Efstathios-Iason Vlachavas, Konstantinos Voutetakis, Vivian Kosmidou, Spyridon Tsikalakis, Spyridon Roditis, Konstantinos Pateas, Kymberleigh Pagel, Stephan Wolf, Gregor Warsow, et al. (2025). Molecular and functional profiling unravels targetable vulnerabilities in colorectal cancer . Molecular Oncology.
Pagel KA, Kim R, Moad K, Busby B, Lily Zheng, Collin Tokheim, Ryan M, Karchin R (2020). Integrated Informatics Analysis of Cancer-Related Variants . JCO clinical cancer informatics.
Masica DL, Douville C, Collin Tokheim, Bhattacharya R, Kim R, Moad K, Ryan MC, Karchin R (2017). CRAVAT 4: Cancer-Related Analysis of Variants Toolkit . Cancer research.
Zhang Y, Liang Huang, Haiqing Fu, Smith OK, Lin CM, Koichi Utani, Mishal Rao, William Reinhold, Redon CE, Ryan M, et al. (2016). A replicator-specific binding protein essential for site-specific initiation of DNA replication in mammalian cells . Nature communications.
Smith OK, Kim R, Haiqing Fu, Martin MM, Lin CM, Koichi Utani, Zhang Y, Marks AB, Lalande M, Chamberlain S, et al. (2016). Distinct epigenetic features of differentiation-regulated replication origins . Epigenetics & chromatin.
Collin Tokheim, Bhattacharya R, Niknafs N, Gygax DM, Kim R, Ryan M, Masica DL, Karchin R (2016). Exome-Scale Discovery of Hotspot Mutation Regions in Human Cancer Using 3D Protein Structure . Cancer research.
Douville C, Masica DL, Stenson PD, David N. Cooper, Gygax DM, Kim R, Ryan M, Karchin R (2015). Assessing the Pathogenicity of Insertion and Deletion Variants with the Variant Effect Scoring Tool (VEST-Indel) . Human mutation.
Haiqing Fu, Martin MM, Regairaz M, Liang Huang, You Y, Lin CM, Ryan M, Kim R, Shimura T, Pommier Y, et al. (2015). The DNA repair endonuclease Mus81 facilitates fast DNA replication in the absence of exogenous damage . Nature communications.
Kim R, Smith OK, Wong WC, Ryan AM, Ryan MC, Aladjem MI (2015). ColoWeb: a resource for analysis of colocalization of genomic features . BMC genomics.
Niknafs N, Kim D, Kim R, Mark Diekhans, Ryan M, Stenson PD, David N. Cooper, Karchin R (2013). MuPIT interactive: webserver for mapping variant positions to annotated, interactive 3D structures . Human genetics.
Haiqing Fu, Maunakea AK, Martin MM, Liang Huang, Zhang Y, Ryan M, Kim R, Lin CM, Zhao K, Aladjem MI (2013). Methylation of histone H3 on lysine 79 associates with a group of replication origins and helps limit DNA replication once per cell cycle . PLoS genetics.
Douville C, Carter H, Kim R, Niknafs N, Mark Diekhans, Stenson PD, David N. Cooper, Ryan M, Karchin R (2013). CRAVAT: cancer-related analysis of variants toolkit . Bioinformatics (Oxford, England).
Turner D, Kim R, Guo JT (2012). TFinDit: transcription factor-DNA interaction data depository . BMC bioinformatics.
Ryan MC, Cleland J, Kim R, Wong WC, John Weinstein (2012). SpliceSeq: a resource for analysis and visualization of RNA-Seq data on alternative splicing and its functional impacts . Bioinformatics (Oxford, England).
Ryan MC, Cleland J, Kim R, Wong WC, John Weinstein (2012). SpliceSeq: a resource for analysis and visualization of RNA-Seq data on alternative splicing and its functional impacts . Bioinformatics (Oxford, England).
Kim R, Corona RI, Hong B, Guo JT (2011). Benchmarks for flexible and rigid transcription factor-DNA docking . BMC structural biology.
Martin MM, Ryan M, Kim R, Anna Zakas, Haiqing Fu, Lin CM, William Reinhold, Sean Davis, Bilke S, Liu H, et al. (2011). Genome-wide depletion of replication initiation events in highly transcribed regions . Genome research.
Kim R, Guo JT (2010). Systematic analysis of short internal indels and their impact on protein folding . BMC structural biology.
Kim R, Guo JT (2009). PDA: an automatic and comprehensive analysis program for protein-DNA complex structures . BMC genomics.
Kim R, Skolnick J (2008). Assessment of programs for ligand binding affinity prediction . Journal of computational chemistry.
PREPRINT
Ryangguk Kim, Kulaga Anton, Borysova Olga, Karmazin Alexey, Koval Maria, Usanov Nikolay, Fedorova Alina, Evfratov Sergey, Pushkareva Malvina, Tacutu Robi(2024). Just-DNA-Seq, open-source personal genomics platform: longevity science for everyone . arXiv
Kymberleigh A Pagel, Rick Kim, Kyle Moad, Ben Busby, Lily Zheng, Matthew Hynes-Grace, Collin Tokheim, Michael Ryan, Rachel Karchin (2019). OpenCRAVAT, an open source collaborative platform for the annotation of human genetic variation .
CONFERENCE PAPER
Ryangguk Kim, J. McCafferty, Jun-tao Guo (2009). A systematic study of homologous protein structures with insertions/deletions. Comput Syst Bioinformatics Conf.
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