Works matching AU Bryant, Stephen H.

Results: 78

Supporting precision medicine by data mining across multi-disciplines: an integrative approach for generating comprehensive linkages between single nucleotide variants (SNVs) and drug-binding sites.

Published in:

Bioinformatics, 2017, v. 33, n. 11, p. 1621, doi. 10.1093/bioinformatics/btx031

By:

Choudhury, Amrita Roy;
Tiejun Cheng;
Phan, Lon;
Bryant, Stephen H.;
Yanli Wang

Publication type:

Article

FSelector: a Ruby gem for feature selection.

Published in:

Bioinformatics, 2012, v. 28, n. 21, p. 2851, doi. 10.1093/bioinformatics/bts528

By:

Cheng, Tiejun;
Wang, Yanli;
Bryant, Stephen H.

Publication type:

Article

Investigating the correlations among the chemical structures, bioactivity profiles and molecular targets of small molecules.

Published in:

Bioinformatics, 2010, v. 26, n. 22, p. 2881, doi. 10.1093/bioinformatics/btq550

By:

Tiejun Cheng;
Yanli Wang;
Bryant, Stephen H.

Publication type:

Article

A novel method for mining highly imbalanced high-throughput screening data in PubChem.

Published in:

Bioinformatics, 2009, v. 25, n. 24, p. 3310, doi. 10.1093/bioinformatics/btp589

By:

Qingliang Li;
Yanli Wang;
Bryant, Stephen H.

Publication type:

Article

A survey of across-target bioactivity results of small molecules in PubChem.

Published in:

Bioinformatics, 2009, v. 25, n. 17, p. 2251, doi. 10.1093/bioinformatics/btp380

By:

Han, Lianyi;
Wang, Yanli;
Bryant, Stephen H.

Publication type:

Article

A new chemoinformatics approach with improved strategies for effective predictions of potential drugs.

Published in:

Journal of Cheminformatics, 2018, v. 10, n. 1, p. 1, doi. 10.1186/s13321-018-0303-x

By:

Hao, Ming;
Bryant, Stephen H.;
Wang, Yanli

Publication type:

Article

A structure-based method for protein sequence alignment.

Published in:

Bioinformatics, 2005, v. 21, n. 8, p. 1451

By:

Stephen H. Bryant

Publication type:

Article

Cheminformatics analysis of the AR agonist and antagonist datasets in PubChem.

Published in:

Journal of Cheminformatics, 2016, v. 8, p. 1, doi. 10.1186/s13321-016-0150-6

By:

Ming Hao;
Bryant, Stephen H.;
Yanli Wang

Publication type:

Article

Target enhanced 2D similarity search by using explicit biological activity annotations and profiles.

Published in:

Journal of Cheminformatics, 2015, v. 7, p. 1, doi. 10.1186/s13321-015-0103-5

By:

Xiang Yu;
Geer, Lewis Y.;
Lianyi Han;
Bryant, Stephen H.

Publication type:

Article

PubChem structure-activity relationship (SAR) clusters.

Published in:

Journal of Cheminformatics, 2015, v. 7, n. 1, p. 1, doi. 10.1186/s13321-015-0070-x

By:

Sunghwan Kim;
Lianyi Han;
Bo Yu;
Hähnke, Volker D.;
Bolton, Evan E.;
Bryant, Stephen H.

Publication type:

Article

PubChem atom environments.

Published in:

Journal of Cheminformatics, 2015, v. 7, n. 1, p. 1, doi. 10.1186/s13321-015-0076-4

By:

Hähnke, Volker D.;
Bolton, Evan E.;
Bryant, Stephen H.

Publication type:

Article

PubChem: atom environments for molecule standardization.

Published in:

2013

By:

Hähnke, Volker;
Bolton, Evan E.;
Bryant, Stephen H.

Publication type:

Conference Paper/Materials

PubChem3D: conformer ensemble accuracy.

Published in:

Journal of Cheminformatics, 2013, v. 5, n. 1, p. 1, doi. 10.1186/1758-2946-5-1

By:

Kim, Sunghwan;
Bolton, Evan E.;
Bryant, Stephen H.

Publication type:

Article

Effects of multiple conformers per compound upon 3-D similarity search and bioassay data analysis.

Published in:

Journal of Cheminformatics, 2012, v. 4, n. 1, p. 28, doi. 10.1186/1758-2946-4-28

By:

Kim, Sunghwan;
Bolton, Evan E.;
Bryant, Stephen H.

Publication type:

Article

PubChem3D: Diversity of shape.

Published in:

Journal of Cheminformatics, 2011, v. 3, n. 1, p. 1, doi. 10.1186/1758-2946-3-9

By:

Bolton, Evan E.;
Sunghwan Kim;
Bryant, Stephen H.

Publication type:

Article

PubChem3D: Conformer generation.

Published in:

Journal of Cheminformatics, 2011, v. 3, n. 1, p. 1, doi. 10.1186/1758-2946-3-4

By:

Bolton, Evan E.;
Sunghwan Kim;
Bryant, Stephen H.

Publication type:

Article

PubChem3D: Similar conformers.

Published in:

Journal of Cheminformatics, 2011, v. 3, n. 1, p. 1, doi. 10.1186/1758-2946-3-13

By:

Bolton, Evan E.;
Sunghwan Kim;
Bryant, Stephen H.

Publication type:

Article

Homology Inference of Protein-Protein Interactions via Conserved Binding Sites.

Published in:

PLoS ONE, 2012, v. 7, n. 1, p. 1, doi. 10.1371/journal.pone.0028896

By:

Tyagi, Manoj;
Thangudu, Ratna R.;
Dachuan Zhang;
Bryant, Stephen H.;
Madej, Thomas;
Panchenko, Anna R.

Publication type:

Article

Predicting drug-target interactions by dual-network integrated logistic matrix factorization.

Published in:

Scientific Reports, 2017, p. 40376, doi. 10.1038/srep40376

By:

Hao, Ming;
Bryant, Stephen H.;
Wang, Yanli

Publication type:

Article

Comparison of sequence and structure alignments for protein domains.

Published in:

Proteins, 2002, v. 48, n. 3, p. 439, doi. 10.1002/prot.10163

By:

Marchler-Bauer, Aron;
Panchenko, Anna R.;
Ariel, Naomi;
Bryant, Stephen H.

Publication type:

Article

Identification of homologous core structures.

Published in:

Proteins, 1999, v. 35, n. 1, p. 70, doi. 10.1002/(SICI)1097-0134(19990401)35:1<70::AID-PROT7>3.0.CO;2-9

By:

Matsuo, Yo;
Bryant, Stephen H.

Publication type:

Article

Threading with explicit models for evolutionary conservation of structure and sequence.

Published in:

Proteins, 1999, v. 37, n. S3, p. 133, doi. 10.1002/(SICI)1097-0134(1999)37:3+<133::AID-PROT18>3.0.CO;2-D

By:

Panchenko, Anna;
Marchler-Bauer, Aron;
Bryant, Stephen H.

Publication type:

Article

A measure of progress in fold recognition?

Published in:

Proteins, 1999, v. 37, n. S3, p. 218, doi. 10.1002/(SICI)1097-0134(1999)37:3+<218::AID-PROT28>3.0.CO;2-X

By:

Marchler-Bauer, Aron;
Bryant, Stephen H.

Publication type:

Article

Extent and nature of contacts between protein molecules in crystal lattices and between subunits of protein oligomers.

Published in:

Proteins, 1997, v. 28, n. 4, p. 494, doi. 10.1002/(SICI)1097-0134(199708)28:4<494::AID-PROT4>3.0.CO;2-A

By:

Dasgupta, Swagata;
Iyer, Ganesh H.;
Bryant, Stephen H.;
Lawrence, Charles E.;
Bell, Jeffrey A.

Publication type:

Article

A retrospective analysis of CASP2 threading predictions.

Published in:

Proteins, 1997, v. 29, n. S1, p. 83, doi. 10.1002/(SICI)1097-0134(1997)1+<83::AID-PROT12>3.0.CO;2-N

By:

Marchler-Bauer, Aron;
Levitt, Michael;
Bryant, Stephen H.

Publication type:

Article

Critical assessment of methods of protein structure prediction (CASP): Round II.

Published in:

Proteins, 1997, v. 29, n. S1, p. 2, doi. 10.1002/(SICI)1097-0134(1997)1+<2::AID-PROT2>3.0.CO;2-T

By:

Moult, John;
Hubbard, Tim;
Bryant, Stephen H.;
Fidelis, Krzysztof;
Pedersen, Jan T.

Publication type:

Article

Measures of threading specificity and accuracy.

Published in:

Proteins, 1997, v. 29, n. S1, p. 74, doi. 10.1002/(SICI)1097-0134(1997)1+<74::AID-PROT11>3.0.CO;2-O

By:

Marchler-Bauer, Aron;
Bryant, Stephen H.

Publication type:

Article

Evaluation of threading specificity and accuracy.

Published in:

Proteins, 1996, v. 26, n. 2, p. 172, doi. 10.1002/(SICI)1097-0134(199610)26:2<172::AID-PROT7>3.0.CO;2-I

By:

Bryant, Stephen H.

Publication type:

Article

Threading a database of protein cores.

Published in:

Proteins, 1995, v. 23, n. 3, p. 356, doi. 10.1002/prot.340230309

By:

Madej, Thomas;
Gibrat, Jean-François;
Bryant, Stephen H.

Publication type:

Article

An empirical energy function for threading protein sequence through the folding motif.

Published in:

Proteins, 1993, v. 16, n. 1, p. 92, doi. 10.1002/prot.340160110

By:

Bryant, Stephen H.;
Lawrence, Charles E.

Publication type:

Article

The frequency of ion-pair substructures in proteins is quantitatively related to electrostatic potential: A statistical model for nonbonded interactions.

Published in:

Proteins, 1991, v. 9, n. 2, p. 108, doi. 10.1002/prot.340090205

By:

Bryant, Stephen H.;
Lawrence, Charles E.

Publication type:

Article

The surface area of monomeric proteins: Significance of power law behavior.

Published in:

Proteins, 1989, v. 6, n. 4, p. 418, doi. 10.1002/prot.340060408

By:

Bryant, Stephen H.;
Islam, Suhail A.;
Weaver, David L.

Publication type:

Article

PKB: A program system and data base for analysis of protein structure.

Published in:

Proteins, 1989, v. 5, n. 3, p. 233, doi. 10.1002/prot.340050307

By:

Bryant, Stephen H.

Publication type:

Article

Open-source chemogenomic data-driven algorithms for predicting drug–target interactions.

Published in:

Briefings in Bioinformatics, 2019, p. 1465, doi. 10.1093/bib/bby010

By:

Hao, Ming;
Bryant, Stephen H;
Wang, Yanli

Publication type:

Article

Annotation of functional sites with the Conserved Domain Database.

Published in:

Database: The Journal of Biological Databases & Curation, 2012, v. 2012, p. 1, doi. 10.1093/database/bar058

By:

Derbyshire, Myra K.;
Lanczycki, Christopher J.;
Bryant, Stephen H.;
Marchler-Bauer, Aron

Publication type:

Article

Automatic annotation of experimentally derived, evolutionarily conserved post-translational modifications onto multiple genomes.

Published in:

Database: The Journal of Biological Databases & Curation, 2011, v. 2011, n. 19, p. 1

By:

Sridhara, Viswanadham;
Marchler-Bauer, Aron;
Bryant, Stephen H.;
Geer, Lewis Y.

Publication type:

Article

Structure-Based Virtual Screening for Drug Discovery: a Problem-Centric Review.

Published in:

AAPS Journal, 2012, v. 14, n. 1, p. 133, doi. 10.1208/s12248-012-9322-0

By:

Tiejun Cheng;
Qingliang Li;
Zhigang Zhou;
Yanli Wang;
Bryant, Stephen H.

Publication type:

Article

Computational analysis of the cathepsin B inhibitors activities through LR-MMPBSA binding affinity calculation based on docked complex.

Published in:

Journal of Computational Chemistry, 2009, v. 30, n. 14, p. 2165, doi. 10.1002/jcc.21214

By:

ZHIGANG ZHOU;
YANLI WANG;
BRYANT, STEPHEN H.

Publication type:

Article

CLAN LETHALS AND INTER-YEAR ALLELISM IN DEATH VALLEY DROSOPHILA PSEUDOOBSCURA.

Published in:

Genetics, 1980, v. 95, n. 4, p. 1023

By:

BRYANT, STEPHEN H.

Publication type:

Article

THE FREQUENCY AND ALLELISM OF LETHAL CHROMOSOMES IN ISOLATED DESERT POPULATIONS OF DROSOPHILA PSEUDOOBSCURA.

Published in:

Genetics, 1976, v. 84, n. 4, p. 777

By:

BRYANT, STEPHEN H.

Publication type:

Article

Database resources of the National Center for Biotechnology Information.

Published in:

Nucleic Acids Research, 2005, v. 33, n. suppl 1, p. d39

By:

Wheeler, David L.;
Barrett, Tanya;
Benson, Dennis A.;
Bryant, Stephen H.;
Canese, Kathi;
Church, Deanna M.;
DiCuccio, Michael;
Edgar, Ron;
Federhen, Scott;
Helmberg, Wolfgang;
Kenton, David L.;
Khovayko, Oleg;
Lipman, David J.;
Madden, Thomas L.;
Maglott, Donna R.;
Ostell, James;
Pontius, Joan U.;
Pruitt, Kim D.;
Schuler, Gregory D.;
Schriml, Lynn M.

Publication type:

Article

CD-Search: protein domain annotations on the fly.

Published in:

Nucleic Acids Research, 2004, v. 32, n. suppl 2, p. w327, doi. 10.1093/nar/gkh454

By:

Marchler-Bauer, Aron;
Bryant, Stephen H.

Publication type:

Article

CDD: a database of conserved domain alignments with links to domain three-dimensional structure.

Published in:

Nucleic Acids Research, 2002, v. 30, n. 1, p. 281, doi. 10.1093/nar/30.1.281

By:

Marchler-Bauer, Aron;
Panchenko, Anna R.;
Shoemaker, Benjamin A.;
Thiessen, Paul A.;
Geer, Lewis Y.;
Bryant, Stephen H.

Publication type:

Article

MMDB: Entrez’s 3D-structure database.

Published in:

Nucleic Acids Research, 2002, v. 30, n. 1, p. 249, doi. 10.1093/nar/30.1.249

By:

Wang, Yanli;
Anderson, John B.;
Chen, Jie;
Geer, Lewis Y.;
He, Siqian;
Hurwitz, David I.;
Liebert, Cynthia A.;
Madej, Thomas;
Marchler, Gabriele H.;
Marchler-Bauer, Aron;
Panchenko, Anna R.;
Shoemaker, Benjamin A.;
Song, James S.;
Thiessen, Paul A.;
Yamashita, Roxanne A.;
Bryant, Stephen H.

Publication type:

Article

MMDB: 3D structure data in Entrez.

Published in:

Nucleic Acids Research, 2000, v. 28, n. 1, p. 243, doi. 10.1093/nar/28.1.243

By:

Wang, Yanli;
Addess, Kenneth J.;
Geer, Lewis;
Madej, Thomas;
Marchler-Bauer, Aron;
Zimmerman, Diane;
Bryant, Stephen H.

Publication type:

Article

MMDB: Entrez's 3D structure database.

Published in:

Nucleic Acids Research, 1999, v. 27, n. 1, p. 240

By:

Marchler‐Bauer, Aron;
Addess, Kenneth J.;
Chappey, Colombe;
Geer, Lewis;
Madej, Thomas;
Matsuo, Yo;
Wang, Yanli;
Bryant, Stephen H.

Publication type:

Article

Improving protein structure similarity searches using domain boundaries based on conserved sequence information.

Published in:

BMC Structural Biology, 2009, v. 9, p. 1, doi. 10.1186/1472-6807-9-33

By:

Thompson, Kenneth Evan;
Yanli Wang;
Madej, Tom;
Bryant, Stephen H.

Publication type:

Article

Protein homologous cores and loops: important clues to evolutionary relationships between structurally similar proteins.

Published in:

BMC Structural Biology, 2007, v. 7, p. 23, doi. 10.1186/1472-6807-7-23

By:

Madej, Thomas;
Panchenko, Anna R.;
Chen, Jie;
Bryant, Stephen H.

Publication type:

Article

Knowledge-based annotation of small moleculebinding sites in proteins.

Published in:

BMC Bioinformatics, 2010, v. 11, p. 365, doi. 10.1186/1471-2105-11-365

By:

Thangudu, Ratna R.;
Tyagi, Manoj;
Shoemaker, Benjamin A.;
Bryant, Stephen H.;
Panchenko, Anna R.;
Madej, Thomas

Publication type:

Article

State of the art: refinement of multiple sequence alignments.

Published in:

BMC Bioinformatics, 2006, v. 7, p. 499, doi. 10.1186/1471-2105-7-499

By:

Chakrabarti, Saikat;
Lanczycki, Christopher J;
Panchenko, Anna R;
Przytycka, Teresa M;
Thiessen, Paul A;
Bryant, Stephen H

Publication type:

Article