Adam T. Zemla

20 papers A 1Journal 16Unranked 3
YearRankTypeTitle / Venue / Authors
2025 J jnl
Design of cross-reactive antigens with machine learning and high-throughput experimental evaluation.
Frontiers Bioinform.
Chelsy Chesterman, Thomas Desautels, Luz-Jeannette Sierra, Kathryn T. Arrildt, Adam T. Zemla, Edmond Y. Lau, Shivshankar Sundaram, Jason Laliberte, Lynn Chen, Aaron Ruby, Mark Mednikov, Sylvie Bertholet, Dong Yu, Kate Luisi, Enrico Malito, Corey P. Mallett, Matthew J. Bottomley, Robert A. van den Berg, Daniel M. Faissol
2023 J jnl
Clustering Protein Binding Pockets and Identifying Potential Drug Interactions: A Novel Ligand-Based Featurization Method.
J. Chem. Inf. Model.
Garrett A. Stevenson, Dan Kirshner, Brian J. Bennion, Yue Yang, Xiaohua Zhang, Adam T. Zemla, Marisa W. Torres, Aidan Epstein, Derek Jones, Hyojin Kim, W. F. Drew Bennett, Sergio Ernesto Wong, Jonathan E. Allen, Felice C. Lightstone
2021 J jnl
High-Throughput Virtual Screening of Small Molecule Inhibitors for SARS-CoV-2 Protein Targets with Deep Fusion Models.
CoRR
Garrett A. Stevenson, Derek Jones, Hyojin Kim, W. F. Drew Bennett, Brian J. Bennion, Monica Borucki, Feliza Bourguet, Aidan Epstein, Magdalena Franco, Brooke Harmon, Stewart He, Max P. Katz, Daniel A. Kirshner, Victoria Lao, Edmond Y. Lau, Jacky Lo, Kevin McLoughlin, Richard Mosesso, Deepa K. Murugesh, Oscar A. Negrete, Edwin A. Saada, Brent Segelke, Maxwell Stefan, Marisa W. Torres, Dina Weilhammer, Sergio Ernesto Wong, Yue Yang, Adam T. Zemla, Xiaohua Zhang, Fangqiang Zhu, Felice C. Lightstone, Jonathan E. Allen
2021 A conf
High-throughput virtual screening of small molecule inhibitors for SARS-CoV-2 protein targets with deep fusion models.
SC
Garrett A. Stevenson, Derek Jones, Hyojin Kim, W. F. Drew Bennett, Brian J. Bennion, Monica Borucki, Feliza Bourguet, Aidan Epstein, Magdalena Franco, Brooke Harmon, Stewart He, Max P. Katz, Daniel A. Kirshner, Victoria Lao, Edmond Y. Lau, Jacky Lo, Kevin McLoughlin, Richard Mosesso, Deepa K. Murugesh, Oscar A. Negrete, Edwin A. Saada, Brent Segelke, Maxwell Stefan, Marisa W. Torres, Dina Weilhammer, Sergio Ernesto Wong, Yue Yang, Adam T. Zemla, Xiaohua Zhang, Fangqiang Zhu, Felice C. Lightstone, Jonathan E. Allen
2021 J jnl
Improved Protein-Ligand Binding Affinity Prediction with Structure-Based Deep Fusion Inference.
J. Chem. Inf. Model.
Derek Jones, Hyojin Kim, Xiaohua Zhang, Adam T. Zemla, Garrett Stevenson, W. F. Drew Bennett, Daniel A. Kirshner, Sergio Ernesto Wong, Felice C. Lightstone, Jonathan E. Allen
2020 J jnl
Improved Protein-ligand Binding Affinity Prediction with Structure-Based Deep Fusion Inference.
CoRR
Derek Jones, Hyojin Kim, Xiaohua Zhang, Adam T. Zemla, Garrett Stevenson, William D. Bennett, Dan Kirshner, Sergio Ernesto Wong, Felice C. Lightstone, Jonathan E. Allen
2011 J jnl
A Semi-Quantitative, Synteny-Based Method to Improve Functional Predictions for Hypothetical and Poorly Annotated Bacterial and Archaeal Genes.
PLoS Comput. Biol.
Alexis P. Yelton, Brian C. Thomas, Sheri L. Simmons, Paul Wilmes, Adam T. Zemla, Michael P. Thelen, Nicholas Justice, Jillian F. Banfield
2011 J jnl
StralSV: assessment of sequence variability within similar 3D structures and application to polio RNA-dependent RNA polymerase.
BMC Bioinform.
Adam T. Zemla, Dorothy M. Lang, Tanya Kostova, Raul Andino, Carol L. Ecale Zhou
2009 J jnl
SpaK/SpaR Two-component System Characterized by a Structure-driven Domain-fusion Method and
PLoS Comput. Biol.
Anu Chakicherla, Carol L. Ecale Zhou, Martha Ligon Dang, Virginia Rodriguez, J. Norman Hansen, Adam T. Zemla
2007 J jnl
MvirDB - a microbial database of protein toxins, virulence factors and antibiotic resistance genes for bio-defence applications.
Nucleic Acids Res.
Carol L. Ecale Zhou, Jason Smith, Marisa Lam, Adam T. Zemla, Matthew D. Dyer, Tom Slezak
2006 J jnl
MannDB - A microbial database of automated protein sequence analyses and evidence integration for protein characterization.
BMC Bioinform.
Carol L. Ecale Zhou, Marisa Lam, Jason Smith, Adam T. Zemla, Matthew D. Dyer, Thomas A. Kuczmarski, Elizabeth A. Vitalis, Thomas R. Slezak
2005 J jnl
AS2TS system for protein structure modeling and analysis.
Nucleic Acids Res.
Adam T. Zemla, Carol L. Ecale Zhou, Tom Slezak, Tom Kuczmarski, D. Rama, Clinton Torres, D. Sawicka, Daniel Barsky
2005 J jnl
Computational approaches for identification of conserved/unique binding pockets in the A chain of ricin.
Bioinform.
Carol L. Ecale Zhou, Adam T. Zemla, Diana C. Roe, Malin M. Young, Marisa Lam, Joseph S. Schoeniger, Rod Balhorn
2003 J jnl
Comparative Genomics Tools Applied to Bioterrorism Defence.
Briefings Bioinform.
Tom Slezak, Tom Kuczmarski, Linda L. Ott, Clinton Torres, Dan Medeiros, Jason Smith, Brian Truitt, Nisha Mulakken, Marisa Lam, Elizabeth A. Vitalis, Adam T. Zemla, Carol L. Ecale Zhou, Shea N. Gardner
2003 J jnl
LGA: a method for finding 3D similarities in protein structures.
Nucleic Acids Res.
Adam T. Zemla
2002 J jnl
Rapid development of nucleic acid diagnostics.
Proc. IEEE
J. Patrick Fitch, Shea N. Gardner, Thomas A. Kuczmarski, Stefan Kurtz, Rich Myers, Linda L. Ott, Thomas R. Slezak, Elizabeth A. Vitalis, Adam T. Zemla, Paula M. McCready
2001 J jnl
A study of quality measures for protein threading models.
BMC Bioinform.
Susana Cristobal, Adam T. Zemla, Daniel Fischer, Leszek Rychlewski, Arne Elofsson
1996 — conf
Lapack for Fortran90 Compiler.
HPCN Europe
Jack J. Dongarra, Jeremy Du Croz, Sven Hammarling, Jerzy Wasniewski, Adam T. Zemla
1995 — conf
A Proposal for a Fortran 90 Interface for LAPACK.
PARA
Jack J. Dongarra, Jeremy Du Croz, Sven Hammarling, Jerzy Wasniewski, Adam T. Zemla
1994 — conf
Wavelet Transforms Computing on PVM.
PARA
Adam T. Zemla