Brian D. Athey

According to our database, Brian D. Athey authored at least 39 papers between 2001 and 2022.

Collaborative distances:

• Dijkstra number of four.
• Erdős number of three.

2022

A comprehensive update on CIDO: the community-based coronavirus infectious disease ontology.

Yongqun He, Hong Yu, Anthony Huffman, Asiyah Yu Lin, Darren A. Natale, John Beverley, Ling Zheng, Yehoshua Perl, Zhigang Wang, Yingtong Liu, Edison Ong, Yang Wang, Philip Huang, Long Tran, Jinyang Du, Zalan Shah, Easheta Shah, Roshan Desai, Hsin-Hui Huang, Yujia Tian, Eric Merrell, William D. Duncan, Sivaram Arabandi, Lynn M. Schriml, Jie Zheng, Anna Maria Masci, Liwei Wang, Hongfang Liu, Fatima Zohra Smaili, Robert Hoehndorf, Zoë May Pendlington, Paola Roncaglia, Xianwei Ye, Jiangan Xie, Yi-Wei Tang, Xiaolin Yang, Suyuan Peng, Luxia Zhang, Luonan Chen, Junguk Hur, Gilbert S. Omenn, Brian D. Athey, Barry Smith

J. Biomed. Semant., 2022

2021

Automated detection of acute respiratory distress syndrome from chest X-Rays using Directionality Measure and deep learning features.

Narathip Reamaroon, Michael W. Sjoding, Jonathan Gryak, Brian D. Athey, Kayvan Najarian, Harm Derksen

Comput. Biol. Medicine, 2021

2020

Robust segmentation of lung in chest x-ray: applications in analysis of acute respiratory distress syndrome.

Narathip Reamaroon, Michael W. Sjoding, Harm Derksen, Elyas Sabeti, Jonathan Gryak, Ryan P. Barbaro, Brian D. Athey, Kayvan Najarian

BMC Medical Imaging, 2020

CIDO: The Community-Based Coronavirus Infectious Disease Ontology.

Yongqun He, Hong Yu, Edison Ong, Yang Wang, Yingtong Liu, Anthony Huffman, Hsin-Hui Huang, John Beverley, Asiyah Yu Lin, William D. Duncan, Sivaram Arabandi, Jiangan Xie, Junguk Hur, Xiaolin Yang, Luonan Chen, Gilbert S. Omenn, Brian D. Athey, Barry Smith

Proceedings of the 11th International Conference on Biomedical Ontologies (ICBO) joint with the 10th Workshop on Ontologies and Data in Life Sciences (ODLS) and part of the Bolzano Summer of Knowledge (BoSK 2020), 2020

2018

Deep Learning in Pharmacogenomics: From Gene Regulation to Patient Stratification.

Alexandr A. Kalinin, Gerald A. Higgins, Narathip Reamaroon, S. M. Reza Soroushmehr, Ari Allyn-Feuer, Ivo D. Dinov, Kayvan Najarian, Brian D. Athey

CoRR, 2018

3D Cell Nuclear Morphology: Microscopy Imaging Dataset and Voxel-Based Morphometry Classification Results.

Alexandr A. Kalinin, Ari Allyn-Feuer, Alexander S. Ade, Gordon-Victor Fon, Walter Meixner, David Dilworth, Jeffrey R. de Wet, Gerald A. Higgins, Gen Zheng, Amy Creekmore, John W. Wiley, James E. Verdone, Robert W. Veltri, Kenneth J. Pienta, Donald S. Coffey, Brian D. Athey, Ivo D. Dinov

Proceedings of the 2018 IEEE Conference on Computer Vision and Pattern Recognition Workshops, 2018

Evaluation of Methods for Cell Nuclear Structure Analysis from Microscopy Data.

Alexandr A. Kalinin, Brian D. Athey, Ivo D. Dinov

Proceedings of the Supplementary Proceedings of the Seventh International Conference on Analysis of Images, Social Networks and Texts (AIST 2018), Moscow, Russia, July 5, 2018

2014

CLO: The cell line ontology.

Sirarat Sarntivijai, Yu Lin, Zuoshuang Xiang, Terrence F. Meehan, Alexander D. Diehl, Uma D. Vempati, Stephan C. Schürer, Chao Pang, James Malone, Helen E. Parkinson, Yue Liu, Terue Takatsuki, Kaoru Saijo, Hiroshi Masuya, Yukio Nakamura, Matthew H. Brush, Melissa A. Haendel, Jie Zheng, Christian J. Stoeckert Jr., Bjoern Peters, Christopher J. Mungall, Thomas E. Carey, David J. States, Brian D. Athey, Yongqun He

J. Biomed. Semant., 2014

MetDisease - connecting metabolites to diseases via literature.

William Duren, Terry E. Weymouth, Tim Hull, Gilbert S. Omenn, Brian D. Athey, Charles F. Burant, Alla Karnovsky

Bioinform., 2014

2012

The NIH National Center for Integrative Biomedical Informatics (NCIBI).

Brian D. Athey, James D. Cavalcoli, H. V. Jagadish, Gilbert S. Omenn, Barbara Mirel, Matthias Kretzler, Charles F. Burant, Raphael D. Isokpehi, Charles DeLisi

J. Am. Medical Informatics Assoc., 2012

Metab2MeSH: annotating compounds with medical subject headings.

Maureen A. Sartor, Alexander S. Ade, Zach Wright, David J. States, Gilbert S. Omenn, Brian D. Athey, Alla Karnovsky

Bioinform., 2012

Metscape 2 bioinformatics tool for the analysis and visualization of metabolomics and gene expression data.

Alla Karnovsky, Terry E. Weymouth, Tim Hull, V. Glenn Tarcea, Giovanni Scardoni, Carlo Laudanna, Maureen A. Sartor, Kathleen A. Stringer, H. V. Jagadish, Charles F. Burant, Brian D. Athey, Gilbert S. Omenn

Bioinform., 2012

Rethinking the "Honest Broker" in the Changing Face of Security and Privacy.

Luke V. Rasmussen, Brian D. Athey, Andrew D. Boyd, Bradley A. Malin, Shawn N. Murphy

Proceedings of the AMIA 2012, 2012

Building the SMART Platforms Ecosystem: Toward an Apps-Based Health Information Economy.

Kenneth D. Mandl, Brian D. Athey, Daniel S. Fritsch, Shawn N. Murphy, Will Ross

Proceedings of the AMIA 2012, 2012

2011

The Biomedical Resource Ontology (BRO) to enable resource discovery in clinical and translational research.

Jessica D. Tenenbaum, Patricia L. Whetzel, Kent Anderson, Charles D. Borromeo, Ivo D. Dinov, Davera Gabriel, Beth A. Kirschner, Barbara Mirel, Timothy D. Morris, Natasha Fridman Noy, Csongor Nyulas, David Rubenson, Paul R. Saxman, Harpreet Singh, Nancy Whelan, Zach Wright, Brian D. Athey, Michael J. Becich, Geoffrey S. Ginsburg, Mark A. Musen, Kevin A. Smith, Alice F. Tarantal, Daniel L. Rubin, Peter Lyster

J. Biomed. Informatics, 2011

Integrated metabolome and transcriptome analysis of the NCI60 dataset.

Gang Su, Charles F. Burant, Christopher W. Beecher, Brian D. Athey, Fan Meng

BMC Bioinform., 2011

Cell Line Ontology: Redesigning the Cell Line Knowledgebase to Aid Integrative Translational Informatics.

Sirarat Sarntivijai, Zuoshuang Xiang, Terrence F. Meehan, Alexander D. Diehl, Uma Vempati, Stephan C. Schürer, Chao Pang, James Malone, Helen E. Parkinson, Brian D. Athey, Yongqun He

Proceedings of the 2nd International Conference on Biomedical Ontology, 2011

2010

GSearcher: Agile Attribute Querying for Biological Networks.

Gang Su, Brian D. Athey, Fan Meng

Bioinform., 2010

ConceptGen: a gene set enrichment and gene set relation mapping tool.

Maureen A. Sartor, Vasudeva Mahavisno, Venkateshwar G. Keshamouni, James D. Cavalcoli, Zach Wright, Alla Karnovsky, Rork Kuick, H. V. Jagadish, Barbara Mirel, Terry E. Weymouth, Brian D. Athey, Gilbert S. Omenn

Bioinform., 2010

Metscape: a Cytoscape plug-in for visualizing and interpreting metabolomic data in the context of human metabolic networks.

Jing Gao, V. Glenn Tarcea, Alla Karnovsky, Barbara R. Mirel, Terry E. Weymouth, Christopher W. Beecher, James D. Cavalcoli, Brian D. Athey, Gilbert S. Omenn, Charles F. Burant, H. V. Jagadish

Bioinform., 2010

The gputools package enables GPU computing in R.

Joshua Buckner, Justin Wilson, Mark Seligman, Brian D. Athey, Stanley J. Watson, Fan Meng

Bioinform., 2010

2009

Michigan molecular interactions r2: from interacting proteins to pathways.

V. Glenn Tarcea, Terry E. Weymouth, Alexander S. Ade, Aaron V. Bookvich, Jing Gao, Vasudeva Mahavisno, Zach Wright, Adriane Chapman, Magesh Jayapandian, Arzucan Özgür, Yuanyuan Tian, James D. Cavalcoli, Barbara Mirel, Jignesh M. Patel, Dragomir R. Radev, Brian D. Athey, David J. States, H. V. Jagadish

Nucleic Acids Res., 2009

Application of Information Technology: The University of Michigan Honest Broker: A Web-based Service for Clinical and Translational Research and Practice.

Andrew D. Boyd, Paul R. Saxman, Dale A. Hunscher, Kevin A. Smith, Timothy D. Morris, Michelle Kaston, Frederick Bayoff, Bruce Rogers, Pamela Hayes, Namrata Rajeev, Eva Kline-Rogers, Kim Eagle, Daniel J. Clauw, John F. Greden, Lee A. Green, Brian D. Athey

J. Am. Medical Informatics Assoc., 2009

Open Biomedical Ontology-based Medline exploration.

Weijian Xuan, Manhong Dai, Barbara Mirel, Jean Song, Brian D. Athey, Stanley J. Watson, Fan Meng

BMC Bioinform., 2009

MiSearch adaptive pubMed search tool.

David J. States, Alexander S. Ade, Zachary C. Wright, Aaron V. Bookvich, Brian D. Athey

Bioinform., 2009

Cross-Domain Neurobiology Data Integration and Exploration.

Weijian Xuan, Manhong Dai, Joshua Buckner, Barbara Mirel, Jean Song, Brian D. Athey, Stanley J. Watson, Fan Meng

Proceedings of the International Joint Conferences on Bioinformatics, 2009

2008

A bioinformatics analysis of the cell line nomenclature.

Sirarat Sarntivijai, Alexander S. Ade, Brian D. Athey, David J. States

Bioinform., 2008

2007

Michigan Molecular Interactions (MiMI): putting the jigsaw puzzle together.

Magesh Jayapandian, Adriane Chapman, V. Glenn Tarcea, Cong Yu, Aaron Elkiss, Angela Ianni, Bin Liu, Arnab Nandi, Carlos Santos, Philip C. Andrews, Brian D. Athey, David J. States, H. V. Jagadish

Nucleic Acids Res., 2007

An 'Honest Broker' mechanism to maintain privacy for patient care and academic medical research.

Andrew D. Boyd, Charlie Hosner, Dale A. Hunscher, Brian D. Athey, Daniel J. Clauw, Lee A. Green

Int. J. Medical Informatics, 2007

Integrative Biomedical Informatics.

Brian D. Athey

Proceedings of the 7th IEEE International Conference on Bioinformatics and Bioengineering, 2007

2006

SNP Function Portal: a web database for exploring the function implication of SNP alleles.

Pinglang Wang, Manhong Dai, Weijian Xuan, Richard C. McEachin, Anne U. Jackson, Laura J. Scott, Brian D. Athey, Stanley J. Watson, Fan Meng

Proceedings of the Proceedings 14th International Conference on Intelligent Systems for Molecular Biology 2006, 2006

2005

Adaptive data block scheduling for parallel TCP streams.

Thomas J. Hacker, Brian D. Noble, Brian D. Athey

Proceedings of the 14th IEEE International Symposium on High Performance Distributed Computing, 2005

The "Honest Broker" Method of Integrating Interdisciplinary research Data.

Andrew D. Boyd, Dale A. Hunscher, Adam J. Kramer, Charles Hosner, Paul R. Saxman, Brian D. Athey, John F. Greden, Daniel J. Clauw

Proceedings of the AMIA 2005, 2005

2004

Improving Throughput and Maintaining Fairness using Parallel TCP.

Thomas J. Hacker, Brian D. Noble, Brian D. Athey

Proceedings of the Proceedings IEEE INFOCOM 2004, 2004

Walden: A Scalable Solution for Grid Account Management.

Beth A. Kirschner, Thomas J. Hacker, William A. Adamson, Brian D. Athey

Proceedings of the 5th International Workshop on Grid Computing (GRID 2004), 2004

2002

The effects of systemic packet loss on aggregate TCP flows.

Thomas J. Hacker, Brian Noble, Brian D. Athey

Proceedings of the 2002 ACM/IEEE conference on Supercomputing, 2002

Distributed Accounting on the Grid.

William Thigpen, Thomas J. Hacker, Brian D. Athey, Laura F. McGinnis

Proceedings of the 6th Joint Conference on Information Science, 2002

The End-to-End Performance Effects of Parallel TCP Sockets on a Lossy Wide-Area Network.

Thomas J. Hacker, Brian D. Athey, Brian Noble

Proceedings of the 16th International Parallel and Distributed Processing Symposium (IPDPS 2002), 2002

2001

A Methodology for Account Management in Grid Computing Environments.

Thomas J. Hacker, Brian D. Athey

Proceedings of the Grid Computing, 2001