Benjamin A. Shoemaker

22 papers Journal 21
YearRankTypeTitle / Venue / Authors
2023 J jnl
PubChem 2023 update.
Nucleic Acids Res.
Sunghwan Kim, Jie Chen, Tiejun Cheng, Asta Gindulyte, Jia He, Siqian He, Qingliang Li, Benjamin A. Shoemaker, Paul A. Thiessen, Bo Yu, Leonid Zaslavsky, Jian Zhang, Evan E. Bolton
2021 J jnl
PubChem in 2021: new data content and improved web interfaces.
Nucleic Acids Res.
Sunghwan Kim, Jie Chen, Tiejun Cheng, Asta Gindulyte, Jia He, Siqian He, Qingliang Li, Benjamin A. Shoemaker, Paul A. Thiessen, Bo Yu, Leonid Zaslavsky, Jian Zhang, Evan Bolton
2019 J jnl
PubChem 2019 update: improved access to chemical data.
Nucleic Acids Res.
Sunghwan Kim, Jie Chen, Tiejun Cheng, Asta Gindulyte, Jia He, Siqian He, Qingliang Li, Benjamin A. Shoemaker, Paul A. Thiessen, Bo Yu, Leonid Zaslavsky, Jian Zhang, Evan Bolton
2017 J jnl
PubChem BioAssay: 2017 update.
Nucleic Acids Res.
Yanli Wang, Stephen H. Bryant, Tiejun Cheng, Jiyao Wang, Asta Gindulyte, Benjamin A. Shoemaker, Paul A. Thiessen, Siqian He, Jian Zhang
2016 J jnl
Literature information in PubChem: associations between PubChem records and scientific articles.
J. Cheminformatics
Sunghwan Kim, Paul A. Thiessen, Tiejun Cheng, Bo Yu, Benjamin A. Shoemaker, Jiyao Wang, Evan Bolton, Yanli Wang, Stephen H. Bryant
2016 J jnl
PubChem Substance and Compound databases.
Nucleic Acids Res.
Sunghwan Kim, Paul A. Thiessen, Evan Bolton, Jie Chen, Gang Fu, Asta Gindulyte, Lianyi Han, Jane He, Siqian He, Benjamin A. Shoemaker, Jiyao Wang, Bo Yu, Jian Zhang, Stephen H. Bryant
2014 J jnl
PubChem BioAssay: 2014 update.
Nucleic Acids Res.
Yanli Wang, Tugba O. Suzek, Jian Zhang, Jiyao Wang, Siqian He, Tiejun Cheng, Benjamin A. Shoemaker, Asta Gindulyte, Stephen H. Bryant
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
PubChem's BioAssay Database.
Nucleic Acids Res.
Yanli Wang, Jewen Xiao, Tugba O. Suzek, Jian Zhang, Jiyao Wang, Zhigang Zhou, Lianyi Han, Karen Karapetyan, Svetlana Dracheva, Benjamin A. Shoemaker, Evan Bolton, Asta Gindulyte, Stephen H. Bryant
2010 J jnl
An overview of the PubChem BioAssay resource.
Nucleic Acids Res.
Yanli Wang, Evan Bolton, Svetlana Dracheva, Karen Karapetyan, Benjamin A. Shoemaker, Tugba O. Suzek, Jiyao Wang, Jewen Xiao, Jian Zhang, Stephen H. Bryant
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
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
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
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
2005 J jnl
CDD: a Conserved Domain Database for protein classification.
Nucleic Acids Res.
Aron Marchler-Bauer, John B. Anderson, Praveen F. Cherukuri, Carol DeWeese-Scott, Lewis Y. Geer, Marc Gwadz, Siqian He, David I. Hurwitz, John D. Jackson, Zhaoxi Ke, Christopher J. Lanczycki, Cynthia A. Liebert, Chunlei Liu, Fu Lu, Gabriele H. Marchler, Mikhail Mullokandov, Benjamin A. Shoemaker, Vahan Simonyan, James S. Song, Paul A. Thiessen, Roxanne A. Yamashita, Jodie J. Yin, Dachuan Zhang, 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