Olivier Lichtarge

33 papers A* 3B 1Misc 6Journal 22Unranked 1
YearRankTypeTitle / Venue / Authors
2023 J jnl
ShinyBioHEAT: an interactive shiny app to identify phenotype driver genes in
Bioinform.
Chen Wang, Harikumar Govindarajan, Panagiotis Katsonis, Olivier Lichtarge
2021 J jnl
Identification of evolutionarily stable functional and immunogenic sites across the SARS-CoV-2 proteome and greater coronavirus family.
Bioinform.
Chen Wang, Daniel M. Konecki, David C. Marciano, Harikumar Govindarajan, Amanda M. Williams, Brigitta Wastuwidyaningtyas, Thomas Bourquard, Panagiotis Katsonis, Olivier Lichtarge
2021 J jnl
Using interpretable deep learning to model cancer dependencies.
Bioinform.
Chih-Hsu Lin, Olivier Lichtarge
2020 J jnl
An Evolutionary Trace method defines functionally important bases and sites common to RNA families.
PLoS Comput. Biol.
Ilya B. Novikov, Angela D. Wilkins, Olivier Lichtarge
2020 J jnl
Discovery of disease- and drug-specific pathways through community structures of a literature network.
Bioinform.
Minh Pham, Stephen J. Wilson, Harikumar Govindarajan, Chih-Hsu Lin, Olivier Lichtarge
2020 J jnl
Discovery of disease- and drug-specific pathways through community structures of a literature network.
Bioinform.
Minh Pham, Stephen J. Wilson, Harikumar Govindarajan, Chih-Hsu Lin, Olivier Lichtarge
2020 Misc conf
Graph-Based Information Diffusion Method for Prioritizing Functionally Related Genes in Protein-Protein Interaction Networks.
PSB
Minh Pham, Olivier Lichtarge
2019 J jnl
Multimodal network diffusion predicts future disease-gene-chemical associations.
Bioinform.
Chih-Hsu Lin, Daniel M. Konecki, Meng Liu, Stephen J. Wilson, Huda Nassar, Angela D. Wilkins, David F. Gleich, Olivier Lichtarge
2017 Misc conf
Discovery of Functional and Disease Pathways by Community Detection in Protein-Protein Interaction Networks.
PSB
Stephen J. Wilson, Angela D. Wilkins, Chih-Hsu Lin, Rhonald C. Lua, Olivier Lichtarge
2017 Misc conf
Human Kinases Display Mutational Hotspots at Cognate Positions Within Cancer.
PSB
Jonathan Gallion, Angela D. Wilkins, Olivier Lichtarge
2016 Misc conf
Computing Therapy for Precision Medicine: Collaborative Filtering Integrates and Predicts Multi-entity Interactions.
PSB
Sam Regenbogen, Angela D. Wilkins, Olivier Lichtarge
2016 Misc conf
Repurposing Germline Exomes of the Cancer Genome Atlas Demands a Cautious Approach and Sample-Specific Variant Filtering.
PSB
Amanda Koire, Panagiotis Katsonis, Olivier Lichtarge
2016 J jnl
UET: a database of evolutionarily-predicted functional determinants of protein sequences that cluster as functional sites in protein structures.
Nucleic Acids Res.
Rhonald C. Lua, Stephen J. Wilson, Daniel M. Konecki, Angela D. Wilkins, Eric Venner, Daniel H. Morgan, Olivier Lichtarge
2015 A* conf
Predicting Future Scientific Discoveries Based on a Networked Analysis of the Past Literature.
KDD
Meenakshi Nagarajan, Angela D. Wilkins, Benjamin J. Bachman, Ilya B. Novikov, Shenghua Bao, Peter J. Haas, María E. Terrón-Díaz, Sumit Bhatia, Anbu K. Adikesavan, Jacques J. Labrie, Sam Regenbogen, Christie M. Buchovecky, Curtis R. Pickering, Linda Kato, Andreas Martin Lisewski, Ana Lelescu, Houyin Zhang, Stephen Boyer, Griff Weber, Ying Chen, Lawrence A. Donehower, W. Scott Spangler, Olivier Lichtarge
2014 A* conf
Automated hypothesis generation based on mining scientific literature.
KDD
W. Scott Spangler, Angela D. Wilkins, Benjamin J. Bachman, Meena Nagarajan, Tajhal Dayaram, Peter J. Haas, Sam Regenbogen, Curtis R. Pickering, Austin Comer, Jeffrey N. Myers, Ioana Stanoi, Linda Kato, Ana Lelescu, Jacques J. Labrie, Neha Parikh, Andreas Martin Lisewski, Lawrence A. Donehower, Ying Chen, Olivier Lichtarge
2013 J jnl
Accounting for epistatic interactions improves the functional analysis of protein structures.
Bioinform.
Angela D. Wilkins, Eric Venner, David C. Marciano, Serkan Erdin, Benu Atri, Rhonald C. Lua, Olivier Lichtarge
2013 J jnl
Function prediction from networks of local evolutionary similarity in protein structure.
BMC Bioinform.
Serkan Erdin, Eric Venner, Andreas Martin Lisewski, Olivier Lichtarge
2012 J jnl
ETAscape: analyzing protein networks to predict enzymatic function and substrates in Cytoscape.
Bioinform.
Benjamin J. Bachman, Eric Venner, Rhonald C. Lua, Serkan Erdin, Olivier Lichtarge
2010 J jnl
PyETV: a PyMOL evolutionary trace viewer to analyze functional site predictions in protein complexes.
Bioinform.
Rhonald C. Lua, Olivier Lichtarge
2009 J jnl
Evolutionary Trace Annotation Server: automated enzyme function prediction in protein structures using 3D templates.
Bioinform.
R. Matthew Ward, Eric Venner, Bryce Daines, Stephen Murray, Serkan Erdin, David M. Kristensen, Olivier Lichtarge
2008 J jnl
Prediction of enzyme function based on 3D templates of evolutionarily important amino acids.
BMC Bioinform.
David M. Kristensen, R. Matthew Ward, Andreas Martin Lisewski, Serkan Erdin, Brian Y. Chen, Viacheslav Fofanov, Marek Kimmel, Lydia E. Kavraki, Olivier Lichtarge
2007 J jnl
Background frequencies for residue variability estimates: BLOSUM revisited.
BMC Bioinform.
Ivana Mihalek, I. Res, Olivier Lichtarge
2007 J jnl
Cavity Scaling: Automated Refinement of Cavity-Aware motifs in protein Function Prediction.
J. Bioinform. Comput. Biol.
Brian Y. Chen, Drew H. Bryant, Viacheslav Fofanov, David M. Kristensen, Amanda E. Cruess, Marek Kimmel, Olivier Lichtarge, Lydia E. Kavraki
2007 J jnl
Graph sharpening plus graph integration: a synergy that improves protein functional classification.
Bioinform.
Hyunjung Shin, Andreas Martin Lisewski, Olivier Lichtarge
2007 — conf
Graph-Based Protein Functional Classification.
BIOCOMP
Hyunjung Shin, Andreas Martin Lisewski, Olivier Lichtarge
2007 J jnl
The MASH Pipeline for Protein Function Prediction and an Algorithm for the Geometric Refinement of 3D Motifs.
J. Comput. Biol.
Brian Y. Chen, Viacheslav Fofanov, Drew H. Bryant, Bradley D. Dodson, David M. Kristensen, Andreas Martin Lisewski, Marek Kimmel, Olivier Lichtarge, Lydia E. Kavraki
2006 J jnl
A structure and evolution-guided Monte Carlo sequence selection strategy for multiple alignment-based analysis of proteins.
Bioinform.
Ivana Mihalek, I. Res, Olivier Lichtarge
2006 J jnl
ET viewer: an application for predicting and visualizing functional sites in protein structures.
Bioinform.
Daniel H. Morgan, David M. Kristensen, David Mittelman, Olivier Lichtarge
2006 J jnl
Evolutionary trace report_maker: a new type of service for comparative analysis of proteins.
Bioinform.
Ivana Mihalek, I. Res, Olivier Lichtarge
2006 B conf
Geometric Sieving: Automated Distributed Optimization of 3D Motifs for Protein Function Prediction.
RECOMB
Brian Y. Chen, Viacheslav Fofanov, Drew H. Bryant, Bradley D. Dodson, David M. Kristensen, Andreas Martin Lisewski, Marek Kimmel, Olivier Lichtarge, Lydia E. Kavraki
2005 Misc conf
Algorithms for Structural Comparison and Statistical Analysis of 3D Protein Motifs.
Pacific Symposium on Biocomputing
Brian Y. Chen, Viacheslav Fofanov, David M. Kristensen, Marek Kimmel, Olivier Lichtarge, Lydia E. Kavraki
2005 J jnl
An evolution based classifier for prediction of protein interfaces without using protein structures.
Bioinform.
I. Res, Ivana Mihalek, Olivier Lichtarge
1986 A* conf
PROTEAN: Deriving Protein Structure from Constraints.
AAAI
Barbara Hayes-Roth, Bruce G. Buchanan, Olivier Lichtarge, Mike Hewitt, Russ B. Altman, James F. Brinkley, Craig Cornelius, Bruce S. Duncan, Oleg Jardetzky