Olivier Lichtarge

Publication Activity (10 Years)

Years Active: 1986-2023
Publications (10 Years): 13

Top Topics

Real World Networks

Protein Sequences

Community Detection

Intrinsically Disordered

Top Venues

Nucleic Acids Res.

Publications

Chen Wang, Harikumar Govindarajan, Panagiotis Katsonis, Olivier Lichtarge
. Bioinform. 39 (8) (2023)
Chen Wang, Daniel M. Konecki, David C. Marciano, Harikumar Govindarajan, Amanda M. Williams, Brigitta Wastuwidyaningtyas, Thomas Bourquard, Panagiotis Katsonis, Olivier Lichtarge
Identification of evolutionarily stable functional and immunogenic sites across the SARS-CoV-2 proteome and greater coronavirus family. Bioinform. 37 (22) (2021)
Chih-Hsu Lin, Olivier Lichtarge
Using interpretable deep learning to model cancer dependencies. Bioinform. 37 (17) (2021)
Minh Pham, Stephen J. Wilson, Harikumar Govindarajan, Chih-Hsu Lin, Olivier Lichtarge
Discovery of disease- and drug-specific pathways through community structures of a literature network. Bioinform. 36 (6) (2020)
Minh Pham, Olivier Lichtarge
Graph-Based Information Diffusion Method for Prioritizing Functionally Related Genes in Protein-Protein Interaction Networks. PSB (2020)
Ilya B. Novikov, Angela D. Wilkins, Olivier Lichtarge
An Evolutionary Trace method defines functionally important bases and sites common to RNA families. PLoS Comput. Biol. 16 (3) (2020)
Minh Pham, Stephen J. Wilson, Harikumar Govindarajan, Chih-Hsu Lin, Olivier Lichtarge
Discovery of disease- and drug-specific pathways through community structures of a literature network. Bioinform. 36 (11) (2020)
Chih-Hsu Lin, Daniel M. Konecki, Meng Liu, Stephen J. Wilson, Huda Nassar, Angela D. Wilkins, David F. Gleich, Olivier Lichtarge
Multimodal network diffusion predicts future disease-gene-chemical associations. Bioinform. 35 (9) (2019)
Stephen J. Wilson, Angela D. Wilkins, Chih-Hsu Lin, Rhonald C. Lua, Olivier Lichtarge
Discovery of Functional and Disease Pathways by Community Detection in Protein-Protein Interaction Networks. PSB (2017)
Jonathan Gallion, Angela D. Wilkins, Olivier Lichtarge
Human Kinases Display Mutational Hotspots at Cognate Positions Within Cancer. PSB (2017)
Sam Regenbogen, Angela D. Wilkins, Olivier Lichtarge
Computing Therapy for Precision Medicine: Collaborative Filtering Integrates and Predicts Multi-entity Interactions. PSB (2016)
Rhonald C. Lua, Stephen J. Wilson, Daniel M. Konecki, Angela D. Wilkins, Eric Venner, Daniel H. Morgan, Olivier Lichtarge
UET: a database of evolutionarily-predicted functional determinants of protein sequences that cluster as functional sites in protein structures. Nucleic Acids Res. 44 (Database-Issue) (2016)
Amanda Koire, Panagiotis Katsonis, Olivier Lichtarge
Repurposing Germline Exomes of the Cancer Genome Atlas Demands a Cautious Approach and Sample-Specific Variant Filtering. PSB (2016)
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
Predicting Future Scientific Discoveries Based on a Networked Analysis of the Past Literature. KDD (2015)
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
Automated hypothesis generation based on mining scientific literature. KDD (2014)
Angela D. Wilkins, Eric Venner, David C. Marciano, Serkan Erdin, Benu Atri, Rhonald C. Lua, Olivier Lichtarge
Accounting for epistatic interactions improves the functional analysis of protein structures. Bioinform. 29 (21) (2013)
Serkan Erdin, Eric Venner, Andreas Martin Lisewski, Olivier Lichtarge
Function prediction from networks of local evolutionary similarity in protein structure. BMC Bioinform. 14 (S-3) (2013)
Benjamin J. Bachman, Eric Venner, Rhonald C. Lua, Serkan Erdin, Olivier Lichtarge
ETAscape: analyzing protein networks to predict enzymatic function and substrates in Cytoscape. Bioinform. 28 (16) (2012)
Rhonald C. Lua, Olivier Lichtarge
PyETV: a PyMOL evolutionary trace viewer to analyze functional site predictions in protein complexes. Bioinform. 26 (23) (2010)
R. Matthew Ward, Eric Venner, Bryce Daines, Stephen Murray, Serkan Erdin, David M. Kristensen, Olivier Lichtarge
Evolutionary Trace Annotation Server: automated enzyme function prediction in protein structures using 3D templates. Bioinform. 25 (11) (2009)
David M. Kristensen, R. Matthew Ward, Andreas Martin Lisewski, Serkan Erdin, Brian Y. Chen, Viacheslav Fofanov, Marek Kimmel, Lydia E. Kavraki, Olivier Lichtarge
Prediction of enzyme function based on 3D templates of evolutionarily important amino acids. BMC Bioinform. 9 (2008)
I. Mihalek, I. Res, Olivier Lichtarge
Background frequencies for residue variability estimates: BLOSUM revisited. BMC Bioinform. 8 (2007)
Brian Y. Chen, Drew H. Bryant, Viacheslav Fofanov, David M. Kristensen, Amanda E. Cruess, Marek Kimmel, Olivier Lichtarge, Lydia E. Kavraki
Cavity Scaling: Automated Refinement of Cavity-Aware motifs in protein Function Prediction. J. Bioinform. Comput. Biol. 5 (2a) (2007)
Hyunjung Shin, Andreas Martin Lisewski, Olivier Lichtarge
Graph-Based Protein Functional Classification. BIOCOMP (2007)
Hyunjung Shin, Andreas Martin Lisewski, Olivier Lichtarge
Graph sharpening plus graph integration: a synergy that improves protein functional classification. Bioinform. 23 (23) (2007)
Brian Y. Chen, Viacheslav Fofanov, Drew H. Bryant, Bradley D. Dodson, David M. Kristensen, Andreas Martin Lisewski, Marek Kimmel, Olivier Lichtarge, Lydia E. Kavraki
The MASH Pipeline for Protein Function Prediction and an Algorithm for the Geometric Refinement of 3D Motifs. J. Comput. Biol. 14 (6) (2007)
Brian Y. Chen, Viacheslav Fofanov, Drew H. Bryant, Bradley D. Dodson, David M. Kristensen, Andreas Martin Lisewski, Marek Kimmel, Olivier Lichtarge, Lydia E. Kavraki
Geometric Sieving: Automated Distributed Optimization of 3D Motifs for Protein Function Prediction. RECOMB (2006)
I. Mihalek, I. Res, Olivier Lichtarge
Evolutionary trace report_maker: a new type of service for comparative analysis of proteins. Bioinform. 22 (13) (2006)
Daniel H. Morgan, David M. Kristensen, David Mittelman, Olivier Lichtarge
ET viewer: an application for predicting and visualizing functional sites in protein structures. Bioinform. 22 (16) (2006)
I. Mihalek, I. Res, Olivier Lichtarge
A structure and evolution-guided Monte Carlo sequence selection strategy for multiple alignment-based analysis of proteins. Bioinform. 22 (2) (2006)
Brian Y. Chen, Viacheslav Fofanov, David M. Kristensen, Marek Kimmel, Olivier Lichtarge, Lydia E. Kavraki
Algorithms for Structural Comparison and Statistical Analysis of 3D Protein Motifs. Pacific Symposium on Biocomputing (2005)
I. Res, I. Mihalek, Olivier Lichtarge
An evolution based classifier for prediction of protein interfaces without using protein structures. Bioinform. 21 (10) (2005)
Barbara Hayes-Roth, Bruce G. Buchanan, Olivier Lichtarge, Mike Hewitt, Russ B. Altman, James F. Brinkley, Craig Cornelius, Bruce S. Duncan, Oleg Jardetzky
PROTEAN: Deriving Protein Structure from Constraints. AAAI (1986)