Andrey Rzhetsky

60 papers A 3B 1C 1Misc 6Journal 38Unranked 9

Year	Rank	Type	Title / Venue / Authors
2025	J	`jnl`	An effective encoding of human medical conditions in disease space provides a versatile framework for deciphering disease associations. Quant. Biol. Tianxin Xu, Yu Li, Xin Gao, Andrey Rzhetsky, Gengjie Jia
2023	J	`jnl`	Author Correction: The high-dimensional space of human diseases built from diagnosis records and mapped to genetic loci. Nat. Comput. Sci. Gengjie Jia, Yu Li, Xue Zhong, Kanix Wang, Milton Pividori, Rabab Alomairy, Aniello Esposito, Hatem Ltaief, Chikashi Terao, Masato Akiyama, Koichi Matsuda, David E. Keyes, Hae Kyung Im, Takashi Gojobori, Yoichiro Kamatani, Michiaki Kubo, Nancy J. Cox, James A. Evans, Xin Gao, Andrey Rzhetsky
2023	J	`jnl`	The high-dimensional space of human diseases built from diagnosis records and mapped to genetic loci. Nat. Comput. Sci. Gengjie Jia, Yu Li, Xue Zhong, Kanix Wang, Milton Pividori, Rabab Alomairy, Aniello Esposito, Hatem Ltaief, Chikashi Terao, Masato Akiyama, Koichi Matsuda, David E. Keyes, Hae Kyung Im, Takashi Gojobori, Yoichiro Kamatani, Michiaki Kubo, Nancy J. Cox, James A. Evans, Xin Gao, Andrey Rzhetsky
2022	J	`jnl`	OrganoID: A versatile deep learning platform for tracking and analysis of single-organoid dynamics. PLoS Comput. Biol. Jonathan M. Matthews, Brooke Schuster, Sara Saheb Kashaf, Ping Liu, Rakefet Ben-Yishay, Dana Ishay-Ronen, Evgeny Izumchenko, Le Shen, Christopher R. Weber, Margaret Bielski, Sonia S. Kupfer, Mustafa Bilgic, Andrey Rzhetsky, Savas Tay
2022	J	`jnl`	Prediction of robust scientific facts from literature. Nat. Mach. Intell. Alexander V. Belikov, Andrey Rzhetsky, James A. Evans
2021	J	`jnl`	Lightweight Mobile Automated Assistant-to-physician for Global Lower-resource Areas. CoRR Chao Zhang, Hanxin Zhang, Atif Ali Khan, Ted Kim, Olasubomi Omoleye, Oluwamayomikun Abiona, Amy Lehman, Christopher O. Olopade, Olufunmilayo I. Olopade, Pedro Lopes, Andrey Rzhetsky
2021	J	`jnl`	Observable variations in human sex ratio at birth. PLoS Comput. Biol. Yanan Long, Qi Chen, Henrik Larsson, Andrey Rzhetsky
2021	—	`conf`	Soft Sensing Transformer: Hundreds of Sensors are Worth a Single Word. IEEE BigData Chao Zhang, Jaswanth K. Yella, Yu Huang, Xiaoye Qian, Sergei Petrov, Andrey Rzhetsky, Sthitie Bom
2021	J	`jnl`	Soft Sensing Transformer: Hundreds of Sensors are Worth a Single Word. CoRR Chao Zhang, Jaswanth K. Yella, Yu Huang, Xiaoye Qian, Sergei Petrov, Andrey Rzhetsky, Sthitie Bom
2020	J	`jnl`	Detecting signal from science: The structure of research communities and prior knowledge improves prediction of genetic regulatory experiments. CoRR Alexander V. Belikov, Andrey Rzhetsky, James A. Evans
2020	J	`jnl`	Measurable health effects associated with the daylight saving time shift. PLoS Comput. Biol. Hanxin Zhang, Torsten Dahlén, Atif Ali Khan, Gustaf Edgren, Andrey Rzhetsky
2019	—	`conf`	BioRelEx 1.0: Biological Relation Extraction Benchmark. BioNLP@ACL Hrant Khachatrian, Lilit Nersisyan, Karen Hambardzumyan, Tigran Galstyan, Anna Hakobyan, Arsen Arakelyan, Andrey Rzhetsky, Aram Galstyan
2018	J	`jnl`	Centralized "big science" communities more likely generate non-replicable results. CoRR Valentin Danchev, Andrey Rzhetsky, James A. Evans
2018	J	`jnl`	RIDDLE: Race and ethnicity Imputation from Disease history with Deep LEarning. PLoS Comput. Biol. Ji-Sung Kim, Xin Gao, Andrey Rzhetsky
2017	J	`jnl`	RIDDLE: Race and ethnicity Imputation from Disease history with Deep LEarning. CoRR Ji-Sung Kim, Andrey Rzhetsky
2016	—	`conf`	The Big Mechanism Program: Changing How Science Is Done. DAMDID/RCDL Andrey Rzhetsky
2014	J	`jnl`	DiseaseConnect: a comprehensive web server for mechanism-based disease-disease connections. Nucleic Acids Res. Chun-Chi Liu, Yu-Ting Tseng, Wenyuan Li, Chia-Yu Wu, Ilya Mayzus, Andrey Rzhetsky, Fengzhu Sun, Michael S. Waterman, Jeremy J. W. Chen, Preet M. Chaudhary, Joseph Loscalzo, Edward Crandall, Xianghong Jasmine Zhou
2014	J	`jnl`	Environmental and State-Level Regulatory Factors Affect the Incidence of Autism and Intellectual Disability. PLoS Comput. Biol. Andrey Rzhetsky, Steven C. Bagley, Kanix Wang, Christopher S. Lyttle, Edwin H. Cook Jr., Russ B. Altman, Robert D. Gibbons
2014	J	`jnl`	Quantifying the Impact and Extent of Undocumented Biomedical Synonymy. PLoS Comput. Biol. David R. Blair, Kanix Wang, Svetlozar Nestorov, James A. Evans, Andrey Rzhetsky
2013	J	`jnl`	Representation of probabilistic scientific knowledge. J. Biomed. Semant. Larisa N. Soldatova, Andrey Rzhetsky, Kurt De Grave, Ross D. King
2013	J	`jnl`	Tradition and Innovation in Scientists' Research Strategies CoRR Jacob G. Foster, Andrey Rzhetsky, James A. Evans
2012	—	`conf`	Global and Local Approach of Part-of-Speech Tagging for Large Corpora. AAAI Fall Symposium: Information Retrieval and Knowledge Discovery in Biomedical Text Shi Yu, Robert Grossman, Andrey Rzhetsky
2011	A	`conf`	A distributed look-up architecture for text mining applications using MapReduce. SC Atilla Soner Balkir, Ian T. Foster, Andrey Rzhetsky
2011	A	`conf`	A distributed look-up architecture for text mining applications using mapreduce. HPDC Atilla Soner Balkir, Ian T. Foster, Andrey Rzhetsky
2011	—	`ed.`	ACM International Conference on Bioinformatics, Computational Biology and Biomedicine, BCB' 11, Chicago, IL, USA - July 31 - August 03, 2011 BCB Robert Grossman, Andrey Rzhetsky, Sun Kim, Wei Wang
2011	J	`jnl`	Benchmarking Ontologies: Bigger or Better? PLoS Comput. Biol. Lixia Yao, Anna Divoli, Ilya Mayzus, James A. Evans, Andrey Rzhetsky
2011	J	`jnl`	Conflicting Biomedical Assumptions for Mathematical Modeling: The Case of Cancer Metastasis. PLoS Comput. Biol. Anna Divoli, Eneida A. Mendonça, James A. Evans, Andrey Rzhetsky
2011	J	`jnl`	Representation of research hypotheses. J. Biomed. Semant. Larisa N. Soldatova, Andrey Rzhetsky
2011	B	`conf`	Understanding Etiology of Complex Neurodevelopmental Disorders: Two Approaches. AIME Andrey Rzhetsky
2011	J	`jnl`	War of Ontology Worlds: Mathematics, Computer Code, or Esperanto? PLoS Comput. Biol. Andrey Rzhetsky, James A. Evans
2010	C	`conf`	Discovering and Counting Biomedical Verbs. ICMLA Sonjia Waxmonsky, John Goldsmith, Andrey Rzhetsky
2009	J	`jnl`	Getting Started in Text Mining: Part Two. PLoS Comput. Biol. Andrey Rzhetsky, Michael R. Seringhaus, Mark B. Gerstein
2009	J	`jnl`	How to Get the Most out of Your Curation Effort. PLoS Comput. Biol. Andrey Rzhetsky, Hagit Shatkay, W. John Wilbur
2009	J	`jnl`	Looking at Cerebellar Malformations through Text-Mined Interactomes of Mice and Humans. PLoS Comput. Biol. Ivan Iossifov, Raul Rodriguez-Esteban, Ilya Mayzus, Kathleen J. Millen, Andrey Rzhetsky
2008	J	`jnl`	Multi-dimensional classification of biomedical text: Toward automated, practical provision of high-utility text to diverse users. Bioinform. Hagit Shatkay, Fengxia Pan, Andrey Rzhetsky, W. John Wilbur
2008	J	`jnl`	Quantitative systems-level determinants of drug targets. BMC Bioinform. Lixia Yao, Andrey Rzhetsky
2006	J	`jnl`	Imitating Manual Curation of Text-Mined Facts in Biomedicine. PLoS Comput. Biol. Raul Rodriguez-Esteban, Ivan Iossifov, Andrey Rzhetsky
2006	—	`conf`	Mining biomedical texts for disease-related pathways. BioNLP@NAACL-HLT Andrey Rzhetsky
2006	J	`jnl`	New directions in biomedical text annotation: definitions, guidelines and corpus construction. BMC Bioinform. W. John Wilbur, Andrey Rzhetsky, Hagit Shatkay
2005	J	`jnl`	The Fifth Georgia Tech - Oak Ridge National Laboratory International Conference in Bioinformatics: Bioinform. Mark Borodovsky, Andrey Rzhetsky, Dmitrij Frishman
2004	J	`jnl`	GeneWays: a system for extracting, analyzing, visualizing, and integrating molecular pathway data. J. Biomed. Informatics Andrey Rzhetsky, Ivan Iossifov, Tomohiro Koike, Michael Krauthammer, Pauline Kra, Mitzi Morris, Hong Yu, Pablo Ariel Duboué, Wubin Weng, W. John Wilbur
2004	J	`jnl`	Probabilistic inference of molecular networks from noisy data sources. Bioinform. Ivan Iossifov, Michael Krauthammer, Carol Friedman, Vasileios Hatzivassiloglou, Joel S. Bader, Kevin P. White, Andrey Rzhetsky
2003	J	`jnl`	Learning to predict protein-protein interactions from protein sequences. Bioinform. Shawn M. Gomez, William Stafford Noble, Andrey Rzhetsky
2002	Misc	`conf`	Automatic extraction of gene and protein synonyms from MEDLINE and journal articles. AMIA Hong Yu, Vasileios Hatzivassiloglou, Carol Friedman, Andrey Rzhetsky, W. John Wilbur
2002	J	`jnl`	Automatically identifying gene/protein terms in MEDLINE abstracts. J. Biomed. Informatics Hong Yu, Vasileios Hatzivassiloglou, Andrey Rzhetsky, W. John Wilbur
2002	A	`conf`	Of truth and pathways: chasing bits of information through myriads of articles. ISMB Michael Krauthammer, Pauline Kra, Ivan Iossifov, Shawn M. Gomez, George Hripcsak, Vasileios Hatzivassiloglou, Carol Friedman, Andrey Rzhetsky
2002	Misc	`conf`	Towards the Prediction of Complete Protein-Protein Interaction Networks. Pacific Symposium on Biocomputing Shawn M. Gomez, Andrey Rzhetsky
2002	J	`jnl`	Two biomedical sublanguages: a description based on the theories of Zellig Harris. J. Biomed. Informatics Carol Friedman, Pauline Kra, Andrey Rzhetsky
2001	J	`jnl`	Birth of scale-free molecular networks and the number of distinct DNA and protein domains per genome. Bioinform. Andrey Rzhetsky, Shawn M. Gomez
2001	—	`conf`	Disambiguating proteins, genes, and RNA in text: a machine learning approach. ISMB (Supplement of Bioinformatics) Vasileios Hatzivassiloglou, Pablo Ariel Duboué, Andrey Rzhetsky
2001	—	`conf`	GENIES: a natural-language processing system for the extraction of molecular pathways from journal articles. ISMB (Supplement of Bioinformatics) Carol Friedman, Pauline Kra, Hong Yu, Michael Krauthammer, Andrey Rzhetsky
2001	—	`conf`	GeneWays: A System for Mining Text and for Integrating Data on Molecular Pathways. German Conference on Bioinformatics Andrey Rzhetsky, Michael Krauthammer, Tomohiro Koike, Pauline Kra, Shawn M. Gomez, Hong Yu, Pablo Ariel Duboué, Wubin Weng, Stephen B. Johnson, Vasileios Hatzivassiloglou, Carol Friedman
2001	Misc	`conf`	Markov Chain Monte Carlo Computation of Confidence Intervals for Substitution-Rate Variation in Proteins. Pacific Symposium on Biocomputing Andrey Rzhetsky, Pavel Morozov
2000	J	`jnl`	A knowledge model for analysis and simulation of regulatory networks. Bioinform. Andrey Rzhetsky, Tomohiro Koike, Sergey Kalachikov, Shawn M. Gomez, Michael Krauthammer, Sabina H. Kaplan, Pauline Kra, James J. Russo, Carol Friedman
2000	Misc	`conf`	Using BLAST, A DNA and Protein Sequence Comparison Tool, for Finding Gene and Protein Names in Journal Articles. AMIA Michael Krauthammer, Andrey Rzhetsky, Pavel Morozov, Carol Friedman
1999	Misc	`conf`	A Knowledge Model for Analysis and Simulation of Regulatory Based on Information in Electronic Publications. AMIA Andrey Rzhetsky, Tomohiro Koike, Sergey Kalachikov, Pauline Kra, Carol Friedman
1999	Misc	`conf`	Representing genomic knowledge in the UMLS semantic network. AMIA Hong Yu, Carol Friedman, Andrey Rzhetsky, Pauline Kra
1997	—	`ed.`	Mathematical Hierarchies and Biology, Proceedings of a DIMACS Workshop, November 13-15, 1996 Mathematical Hierarchies and Biology Boris G. Mirkin, Fred R. McMorris, Fred S. Roberts, Andrey Rzhetsky
1996	—	`conf`	Fitting models of intron evolution to aldehyde dehydrogenase data. Mathematical Hierarchies and Biology Andrey Rzhetsky, Francisco José Ayala, Lily C. Hsu, Cheng Chang, Akira Yoshida
1994	J	`jnl`	METREE: a program package for inferring and testing minimum-evolution trees. Comput. Appl. Biosci. Andrey Rzhetsky, Masatoshi Nei