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ORCIDOlivier Lichtarge
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2020 – today
- 2023
[j22]Chen Wang
, Harikumar Govindarajan, Panagiotis Katsonis, Olivier Lichtarge:
ShinyBioHEAT: an interactive shiny app to identify phenotype driver genes in E.coli and B.subtilis. Bioinform. 39(8) (2023)- 2021
- [j21]Chih-Hsu Lin, Olivier Lichtarge:
Using interpretable deep learning to model cancer dependencies. Bioinform. 37(17): 2675-2681 (2021) - [j20]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): 4033-4040 (2021) - 2020
- [j19]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): 1881-1888 (2020) - [j18]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): 3623 (2020) - [j17]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) - [c11]Minh Pham, Olivier Lichtarge:
Graph-Based Information Diffusion Method for Prioritizing Functionally Related Genes in Protein-Protein Interaction Networks. PSB 2020: 439-450
2010 – 2019
- 2019
- [j16]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): 1536-1543 (2019) - 2017
- [c10]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: 336-347 - [c9]Jonathan Gallion, Angela D. Wilkins, Olivier Lichtarge:
Human Kinases Display Mutational Hotspots at Cognate Positions Within Cancer. PSB 2017: 414-425 - 2016
- [j15]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): 308-312 (2016) - [c8]Sam Regenbogen, Angela D. Wilkins, Olivier Lichtarge:
Computing Therapy for Precision Medicine: Collaborative Filtering Integrates and Predicts Multi-entity Interactions. PSB 2016: 21-32 - [c7]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: 207-218 - 2015
- [c6]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: 2019-2028 - 2014
- [c5]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: 1877-1886 - 2013
- [j14]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): 2714-2721 (2013) - [j13]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): S6 (2013) - 2012
- [j12]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): 2186-2188 (2012) - 2010
- [j11]Rhonald C. Lua, Olivier Lichtarge:
PyETV: a PyMOL evolutionary trace viewer to analyze functional site predictions in protein complexes. Bioinform. 26(23): 2981-2982 (2010)
2000 – 2009
- 2009
- [j10]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): 1426-1427 (2009) - 2008
- [j9]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) - 2007
- [j8]Hyunjung Shin, Andreas Martin Lisewski, Olivier Lichtarge:
Graph sharpening plus graph integration: a synergy that improves protein functional classification. Bioinform. 23(23): 3217-3224 (2007) - [j7]I. Mihalek, I. Res, Olivier Lichtarge:
Background frequencies for residue variability estimates: BLOSUM revisited. BMC Bioinform. 8 (2007) - [j6]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): 353-382 (2007) - [j5]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): 791-816 (2007) - [c4]Hyunjung Shin, Andreas Martin Lisewski, Olivier Lichtarge:
Graph-Based Protein Functional Classification. BIOCOMP 2007: 738-744 - 2006
- [j4]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): 149-156 (2006) - [j3]I. Mihalek, I. Res, Olivier Lichtarge:
Evolutionary trace report_maker: a new type of service for comparative analysis of proteins. Bioinform. 22(13): 1656-1657 (2006) - [j2]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): 2049-2050 (2006) - [c3]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: 500-515 - 2005
- [j1]I. Res, I. Mihalek, Olivier Lichtarge:
An evolution based classifier for prediction of protein interfaces without using protein structures. Bioinform. 21(10): 2496-2501 (2005) - [c2]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
1980 – 1989
- 1986
- [c1]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: 904-909
Coauthor Index
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