Anna R. Panchenko

29 papers Journal 26
YearRankTypeTitle / Venue / Authors
2025 J jnl
Uncovering allosteric communication in cancer-related histone mutations.
Briefings Bioinform.
Shuxiang Li, Jie Shu, James C. Rober, Austin Macklem, Daniel Espiritu, Tanay Debnath, Samuel Tian, Daniel Tian, Maria J. Aristizabal, Anna R. Panchenko
2019 J jnl
Finding driver mutations in cancer: Elucidating the role of background mutational processes.
PLoS Comput. Biol.
Anna-Leigh Brown, Minghui Li, Alexander Goncearenco, Anna R. Panchenko
2018 J jnl
Mutational signatures and mutable motifs in cancer genomes.
Briefings Bioinform.
Igor B. Rogozin, Youri I. Pavlov, Alexander Goncearenco, Subhajyoti De, Artem G. Lada, Eugenia Poliakov, Anna R. Panchenko, David N. Cooper
2017 J jnl
Exploring background mutational processes to decipher cancer genetic heterogeneity.
Nucleic Acids Res.
Alexander Goncearenco, Stephanie L. Rager, Minghui Li, Qing-Xiang Sang, Igor B. Rogozin, Anna R. Panchenko
2016 J jnl
HistoneDB 2.0: a histone database with variants - an integrated resource to explore histones and their variants.
Database J. Biol. Databases Curation
Eli J. Draizen, Alexey K. Shaytan, Leonardo Mariño-Ramírez, Paul B. Talbert, David Landsman, Anna R. Panchenko
2016 J jnl
MutaBind estimates and interprets the effects of sequence variants on protein-protein interactions.
Nucleic Acids Res.
Minghui Li, Franco L. Simonetti, Alexander Goncearenco, Anna R. Panchenko
2012 J jnl
Database resources of the National Center for Biotechnology Information.
Nucleic Acids Res.
Eric W. Sayers, Tanya Barrett, Dennis A. Benson, Evan Bolton, Stephen H. Bryant, Kathi Canese, Vyacheslav Chetvernin, Deanna M. Church, Michael DiCuccio, Scott Federhen, Michael Feolo, Ian M. Fingerman, Lewis Y. Geer, Wolfgang Helmberg, Yuri Kapustin, Sergey Krasnov, David Landsman, David J. Lipman, Zhiyong Lu, Thomas L. Madden, Tom Madej, Donna R. Maglott, Aron Marchler-Bauer, Vadim Miller, Ilene Karsch-Mizrachi, James Ostell, Anna R. Panchenko, Lon Phan, Kim D. Pruitt, Gregory D. Schuler, Edwin Sequeira, Stephen T. Sherry, Martin Shumway, Karl Sirotkin, Douglas J. Slotta, Alexandre Souvorov, Grigory Starchenko, Tatiana A. Tatusova, Lukas Wagner, Yanli Wang, W. John Wilbur, Eugene Yaschenko, Jian Ye
2012 J jnl
IBIS (Inferred Biomolecular Interaction Server) reports, predicts and integrates multiple types of conserved interactions for proteins.
Nucleic Acids Res.
Benjamin A. Shoemaker, Dachuan Zhang, Manoj Tyagi, Ratna R. Thangudu, Jessica H. Fong, Aron Marchler-Bauer, Stephen H. Bryant, Thomas Madej, Anna R. Panchenko
2012 J jnl
MMDB: 3D structures and macromolecular interactions.
Nucleic Acids Res.
Thomas Madej, Kenneth J. Addess, Jessica H. Fong, Lewis Y. Geer, Renata C. Geer, Christopher J. Lanczycki, Chunlei Liu, Shennan Lu, Aron Marchler-Bauer, Anna R. Panchenko, Jie Chen, Paul A. Thiessen, Yanli Wang, Dachuan Zhang, Stephen H. Bryant
2012 J jnl
SPEER-SERVER: a web server for prediction of protein specificity determining sites.
Nucleic Acids Res.
Abhijit Chakraborty, Sapan Mandloi, Christopher J. Lanczycki, Anna R. Panchenko, Saikat Chakrabarti
2011 J jnl
Database resources of the National Center for Biotechnology Information.
Nucleic Acids Res.
Eric W. Sayers, Tanya Barrett, Dennis A. Benson, Evan Bolton, Stephen H. Bryant, Kathi Canese, Vyacheslav Chetvernin, Deanna M. Church, Michael DiCuccio, Scott Federhen, Michael Feolo, Ian M. Fingerman, Lewis Y. Geer, Wolfgang Helmberg, Yuri Kapustin, David Landsman, David J. Lipman, Zhiyong Lu, Thomas L. Madden, Tom Madej, Donna R. Maglott, Aron Marchler-Bauer, Vadim Miller, Ilene Mizrachi, James Ostell, Anna R. Panchenko, Lon Phan, Kim D. Pruitt, Gregory D. Schuler, Edwin Sequeira, Stephen T. Sherry, Martin Shumway, Karl Sirotkin, Douglas J. Slotta, Alexandre Souvorov, Grigory Starchenko, Tatiana A. Tatusova, Lukas Wagner, Yanli Wang, W. John Wilbur, Eugene Yaschenko, Jian Ye
2010 J jnl
ComSin: database of protein structures in bound (complex) and unbound (single) states in relation to their intrinsic disorder.
Nucleic Acids Res.
Michail Yu. Lobanov, Benjamin A. Shoemaker, Sergiy O. Garbuzynskiy, Jessica H. Fong, Anna R. Panchenko, Oxana V. Galzitskaya
2010 J jnl
Database resources of the National Center for Biotechnology Information.
Nucleic Acids Res.
Eric W. Sayers, Tanya Barrett, Dennis A. Benson, Evan Bolton, Stephen H. Bryant, Kathi Canese, Vyacheslav Chetvernin, Deanna M. Church, Michael DiCuccio, Scott Federhen, Michael Feolo, Lewis Y. Geer, Wolfgang Helmberg, Yuri Kapustin, David Landsman, David J. Lipman, Zhiyong Lu, Thomas L. Madden, Tom Madej, Donna R. Maglott, Aron Marchler-Bauer, Vadim Miller, Ilene Mizrachi, James Ostell, Anna R. Panchenko, Kim D. Pruitt, Gregory D. Schuler, Edwin Sequeira, Stephen T. Sherry, Martin Shumway, Karl Sirotkin, Douglas J. Slotta, Alexandre Souvorov, Grigory Starchenko, Tatiana A. Tatusova, Lukas Wagner, Yanli Wang, W. John Wilbur, Eugene Yaschenko, Jian Ye
2010 J jnl
Inferred Biomolecular Interaction Server - a web server to analyze and predict protein interacting partners and binding sites.
Nucleic Acids Res.
Benjamin A. Shoemaker, Dachuan Zhang, Ratna R. Thangudu, Manoj Tyagi, Jessica H. Fong, Aron Marchler-Bauer, Stephen H. Bryant, Tom Madej, Anna R. Panchenko
2010 J jnl
Knowledge-based annotation of small molecule binding sites in proteins.
BMC Bioinform.
Ratna R. Thangudu, Manoj Tyagi, Benjamin A. Shoemaker, Stephen H. Bryant, Anna R. Panchenko, Thomas Madej
2010 J jnl
State of the art: refinement of multiple sequence alignments.
BMC Bioinform.
Saikat Chakrabarti, Christopher J. Lanczycki, Anna R. Panchenko, Teresa M. Przytycka, Paul A. Thiessen, Stephen H. Bryant
2009 — ed.
Advances in Bioinformatics and Computational Biology, 4th Brazilian Symposium on Bioinformatics, BSB 2009, Porto Alegre, Brazil, July 29-31, 2009. Proceedings
BSB
Katia S. Guimarães, Anna R. Panchenko, Teresa M. Przytycka
2009 J jnl
Ensemble approach to predict specificity determinants: benchmarking and validation.
BMC Bioinform.
Saikat Chakrabarti, Anna R. Panchenko
2009 J jnl
Intrinsic Disorder in Protein Interactions: Insights From a Comprehensive Structural Analysis.
PLoS Comput. Biol.
Jessica H. Fong, Benjamin A. Shoemaker, Sergiy O. Garbuzynskiy, Michail Yu. Lobanov, Oxana V. Galzitskaya, Anna R. Panchenko
2008 — ch.
Handling Diverse Protein Interaction Data: Integration, Storage and Retrieval.
Protein-protein Interactions and Networks
Benjamin A. Shoemaker, Anna R. Panchenko
2008 — book
Protein-protein Interactions and Networks: Identification, Computer Analysis, and Prediction
Protein-protein Interactions and Networks
Anna R. Panchenko, Teresa M. Przytycka
2007 J jnl
Deciphering Protein-Protein Interactions. Part I. Experimental Techniques and Databases.
PLoS Comput. Biol.
Benjamin A. Shoemaker, Anna R. Panchenko
2007 J jnl
Deciphering Protein-Protein Interactions. Part II. Computational Methods to Predict Protein and Domain Interaction Partners.
PLoS Comput. Biol.
Benjamin A. Shoemaker, Anna R. Panchenko
2006 J jnl
State of the art: refinement of multiple sequence alignments.
BMC Bioinform.
Saikat Chakrabarti, Christopher J. Lanczycki, Anna R. Panchenko, Teresa M. Przytycka, Paul A. Thiessen, Stephen H. Bryant
2005 J jnl
A structure-based method for protein sequence alignment.
Bioinform.
Maricel G. Kann, Paul A. Thiessen, Anna R. Panchenko, Alejandro A. Schäffer, Stephen F. Altschul, Stephen H. Bryant
2003 J jnl
CDD: a curated Entrez database of conserved domain alignments.
Nucleic Acids Res.
Aron Marchler-Bauer, John B. Anderson, Carol DeWeese-Scott, Natalie D. Fedorova, Lewis Y. Geer, Siqian He, David I. Hurwitz, John D. Jackson, Aviva R. Jacobs, Christopher J. Lanczycki, Cynthia A. Liebert, Chunlei Liu, Thomas Madej, Gabriele H. Marchler, Raja Mazumder, Anastasia N. Nikolskaya, Anna R. Panchenko, Bachoti S. Rao, Benjamin A. Shoemaker, Vahan Simonyan, James S. Song, Paul A. Thiessen, Sona Vasudevan, Yanli Wang, Roxanne A. Yamashita, Jodie J. Yin, Stephen H. Bryant
2003 J jnl
MMDB: Entrez's 3D-structure database.
Nucleic Acids Res.
Jie Chen, John B. Anderson, Carol DeWeese-Scott, Natalie D. Fedorova, Lewis Y. Geer, Siqian He, David I. Hurwitz, John D. Jackson, Aviva R. Jacobs, Christopher J. Lanczycki, Cynthia A. Liebert, Chunlei Liu, Thomas Madej, Aron Marchler-Bauer, Gabriele H. Marchler, Raja Mazumder, Anastasia N. Nikolskaya, Bachoti S. Rao, Anna R. Panchenko, Benjamin A. Shoemaker, Vahan Simonyan, James S. Song, Paul A. Thiessen, Sona Vasudevan, Yanli Wang, Roxanne A. Yamashita, Jodie J. Yin, Stephen H. Bryant
2002 J jnl
CDD: a database of conserved domain alignments with links to domain three-dimensional structure.
Nucleic Acids Res.
Aron Marchler-Bauer, Anna R. Panchenko, Benjamin A. Shoemaker, Paul A. Thiessen, Lewis Y. Geer, Stephen H. Bryant
2002 J jnl
MMDB: Entrez's 3D-structure database.
Nucleic Acids Res.
Yanli Wang, John B. Anderson, Jie Chen, Lewis Y. Geer, Siqian He, David I. Hurwitz, Cynthia A. Liebert, Thomas Madej, Gabriele H. Marchler, Aron Marchler-Bauer, Anna R. Panchenko, Benjamin A. Shoemaker, James S. Song, Paul A. Thiessen, Roxanne A. Yamashita, Stephen H. Bryant