Brian D. Athey

Publication Activity (10 Years)

Years Active: 2001-2022
Publications (10 Years): 7

Top Topics

Infectious Disease

Microscopy Imaging

Top Venues

J. Biomed. Semant.

Publications

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
A comprehensive update on CIDO: the community-based coronavirus infectious disease ontology. J. Biomed. Semant. 13 (1) (2022)
Narathip Reamaroon, Michael W. Sjoding, Jonathan Gryak, Brian D. Athey, Kayvan Najarian, Harm Derksen
Automated detection of acute respiratory distress syndrome from chest X-Rays using Directionality Measure and deep learning features. Comput. Biol. Medicine 134 (2021)
Narathip Reamaroon, Michael W. Sjoding, Harm Derksen, Elyas Sabeti, Jonathan Gryak, Ryan P. Barbaro, Brian D. Athey, Kayvan Najarian
Robust segmentation of lung in chest x-ray: applications in analysis of acute respiratory distress syndrome. BMC Medical Imaging 20 (1) (2020)
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
CIDO: The Community-Based Coronavirus Infectious Disease Ontology. ICBO/ODLS (2020)
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
3D Cell Nuclear Morphology: Microscopy Imaging Dataset and Voxel-Based Morphometry Classification Results. CVPR Workshops (2018)
Alexandr A. Kalinin, Gerald A. Higgins, Narathip Reamaroon, S. M. Reza Soroushmehr, Ari Allyn-Feuer, Ivo D. Dinov, Kayvan Najarian, Brian D. Athey
Deep Learning in Pharmacogenomics: From Gene Regulation to Patient Stratification. CoRR (2018)
Alexandr A. Kalinin, Brian D. Athey, Ivo D. Dinov
Evaluation of Methods for Cell Nuclear Structure Analysis from Microscopy Data. AIST (Supplement) (2018)
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
CLO: The cell line ontology. J. Biomed. Semant. 5 (2014)
William Duren, Terry E. Weymouth, Tim Hull, Gilbert S. Omenn, Brian D. Athey, Charles F. Burant, Alla Karnovsky
MetDisease - connecting metabolites to diseases via literature. Bioinform. 30 (15) (2014)
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
Metscape 2 bioinformatics tool for the analysis and visualization of metabolomics and gene expression data. Bioinform. 28 (3) (2012)
Kenneth D. Mandl, Brian D. Athey, Daniel S. Fritsch, Shawn N. Murphy, Will Ross
Building the SMART Platforms Ecosystem: Toward an Apps-Based Health Information Economy. AMIA (2012)
Maureen A. Sartor, Alexander S. Ade, Zach Wright, David J. States, Gilbert S. Omenn, Brian D. Athey, Alla Karnovsky
Metab2MeSH: annotating compounds with medical subject headings. Bioinform. 28 (10) (2012)
Brian D. Athey, James D. Cavalcoli, H. V. Jagadish, Gilbert S. Omenn, Barbara Mirel, Matthias Kretzler, Charles F. Burant, Raphael D. Isokpehi, Charles DeLisi
The NIH National Center for Integrative Biomedical Informatics (NCIBI). J. Am. Medical Informatics Assoc. 19 (2) (2012)
Luke V. Rasmussen, Brian D. Athey, Andrew D. Boyd, Bradley A. Malin, Shawn N. Murphy
Rethinking the "Honest Broker" in the Changing Face of Security and Privacy. AMIA (2012)
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
Cell Line Ontology: Redesigning the Cell Line Knowledgebase to Aid Integrative Translational Informatics. ICBO (2011)
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
The Biomedical Resource Ontology (BRO) to enable resource discovery in clinical and translational research. J. Biomed. Informatics 44 (1) (2011)
Gang Su, Charles F. Burant, Christopher W. Beecher, Brian D. Athey, Fan Meng
Integrated metabolome and transcriptome analysis of the NCI60 dataset. BMC Bioinform. 12 (S-1) (2011)
Joshua Buckner, Justin Wilson, Mark Seligman, Brian D. Athey, Stanley J. Watson, Fan Meng
The gputools package enables GPU computing in R. Bioinform. 26 (1) (2010)
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
ConceptGen: a gene set enrichment and gene set relation mapping tool. Bioinform. 26 (4) (2010)
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
Metscape: a Cytoscape plug-in for visualizing and interpreting metabolomic data in the context of human metabolic networks. Bioinform. 26 (7) (2010)
Gang Su, Brian D. Athey, Fan Meng
GSearcher: Agile Attribute Querying for Biological Networks. Bioinform. 26 (24) (2010)
Weijian Xuan, Manhong Dai, Joshua Buckner, Barbara Mirel, Jean Song, Brian D. Athey, Stanley J. Watson, Fan Meng
Cross-Domain Neurobiology Data Integration and Exploration. IJCBS (2009)
Weijian Xuan, Manhong Dai, Barbara Mirel, Jean Song, Brian D. Athey, Stanley J. Watson, Fan Meng
Open Biomedical Ontology-based Medline exploration. BMC Bioinform. 10 (S-5) (2009)
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
Michigan molecular interactions r2: from interacting proteins to pathways. Nucleic Acids Res. 37 (Database-Issue) (2009)
David J. States, Alexander S. Ade, Zachary C. Wright, Aaron V. Bookvich, Brian D. Athey
MiSearch adaptive pubMed search tool. Bioinform. 25 (7) (2009)
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
Application of Information Technology: The University of Michigan Honest Broker: A Web-based Service for Clinical and Translational Research and Practice. J. Am. Medical Informatics Assoc. 16 (6) (2009)
Sirarat Sarntivijai, Alexander S. Ade, Brian D. Athey, David J. States
A bioinformatics analysis of the cell line nomenclature. Bioinform. 24 (23) (2008)
Andrew D. Boyd, Charlie Hosner, Dale A. Hunscher, Brian D. Athey, Daniel J. Clauw, Lee A. Green
An 'Honest Broker' mechanism to maintain privacy for patient care and academic medical research. Int. J. Medical Informatics 76 (5-6) (2007)
Brian D. Athey
Integrative Biomedical Informatics. BIBE (2007)
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
Michigan Molecular Interactions (MiMI): putting the jigsaw puzzle together. Nucleic Acids Res. 35 (Database-Issue) (2007)
Pinglang Wang, Manhong Dai, Weijian Xuan, Richard C. McEachin, Anne U. Jackson, Laura J. Scott, Brian D. Athey, Stanley J. Watson, Fan Meng
SNP Function Portal: a web database for exploring the function implication of SNP alleles. ISMB (Supplement of Bioinformatics) (2006)
Andrew D. Boyd, Dale A. Hunscher, Adam J. Kramer, Charles Hosner, Paul R. Saxman, Brian D. Athey, John F. Greden, Daniel J. Clauw
The "Honest Broker" Method of Integrating Interdisciplinary research Data. AMIA (2005)
Thomas J. Hacker, Brian D. Noble, Brian D. Athey
Adaptive data block scheduling for parallel TCP streams. HPDC (2005)
Beth A. Kirschner, Thomas J. Hacker, William A. Adamson, Brian D. Athey
Walden: A Scalable Solution for Grid Account Management. GRID (2004)
Thomas J. Hacker, Brian D. Noble, Brian D. Athey
Improving Throughput and Maintaining Fairness using Parallel TCP. INFOCOM (2004)
William Thigpen, Thomas J. Hacker, Brian D. Athey, Laura F. McGinnis
Distributed Accounting on the Grid. JCIS (2002)
Thomas J. Hacker, Brian D. Athey, Brian Noble
The End-to-End Performance Effects of Parallel TCP Sockets on a Lossy Wide-Area Network. IPDPS (2002)
Thomas J. Hacker, Brian Noble, Brian D. Athey
The effects of systemic packet loss on aggregate TCP flows. SC (2002)
Thomas J. Hacker, Brian D. Athey
A Methodology for Account Management in Grid Computing Environments. GRID (2001)