Athey

Brian D. Athey, Ph.D.

Michael A. Savageau Collegiate Professor and Chair
Department of Computational Medicine and Bioinformatics
Professor, Department of Psychiatry and
Department of Internal Medicine
Associate Director, Biomedical Informatics

University of Michigan Medical School
2017 Palmer Commons
100 Washtenaw Ave. Ann Arbor, MI 48109-2218
Office: 734-615-9292
Email: bleu@umich.edu

 

 

Brian D. Athey, Ph.D.; Michael A. Savageau Collegiate Professor and Chair; Department of Computational Medicine & Bioinformatics; Professor of Psychiatry and Internal Medicine; University of Michigan Medical School. The Department of Computational Medicine and Bioinformatics has trained over 50 PhDs and 50 MS students in Bioinformatics since 2005. Brian is Principal investigator of the NIH funded Training Program in Bioinformatics, now entering its 9th year.  Brian is actively engaged in developing a new field called psychiatric “pharmacoepigenomics”. A national leader in translational biomedical informatics, Dr. Athey is the founding Principal Investigator of the NIH Roadmap National Center for Integrative Biomedical Informatics (NCIBI), one of eight NIH National Biomedical Computing Centers (2006-2012).  Brian currently serves as co-founder and Chief Scientific Officer of the tranSMART Foundation, a non-profit company founded to coordinate the development of the open source tranSMART communtiy and its code base.  The tranSMART platform supports an integrated open data sharing and analytics platform used world-wide to accelerate clinical and translational research. Brian has led the National Library of Medicine (NLM) Next-Generation Internet (NGI) Visible Human Project and the DARPA Virtual Soldier Project. He is a key national leader in the NIH Clinical and Translational Scientists (CTSA) Informatics Community.  Brian is a highly sought after national informatics lecturer, with over 90 papers, 165 invited talks, and numerous national advisory boards. Brian has served as a special advisor to the Defense Scinces Office (DSO), DARPA (1994-1999); and to the NIH Office of the Director (OD) and to the NIH Chief Information Officer (CIO) (2007-2010). He serves as Chair of the Scientific Advisory Board of Assurex Health, the leading company in the world offering psychiatric pharmacogenomics services. Brian was awarded a “Peace Fellowship” from the Federation of American Scientists (FAS) in 2000-2004 for his work countering Bioterrorism in the 1990s.

What's on this Page?


Consulting Positions
Scientific Activities
Grant/Contract Support
Military Service

Honors and Awards
Memberships & Prof. Societies
Editorial Advisory Board

Peer Reviewed Services
Teaching Activities


  Biography
   

Dr. Brian Athey received his Ph.D. in Cellular and Molecular Biology (Biophysics concentration) from the University of Michigan (1990), with a research focus in macromolecular structural biology. Dr. Athey is currently an Associate Professor of Biomedical Informatics in the University of Michigan Medical School Departments of Psychiatry and Internal Medicine; Brian is also an Associate Professor of Bioinformatics and Computational Biology in the UM Bioinformatics Graduate Program, and he is an active course master in the Program. In addition, he is founding Associate Director of the University of Michigan Center for Computational Medicine and Bioinformatics (ccmb.med.umich.edu), which has responsibility for the university-wide bioinformatics  graduate program, interdisciplinary pilot grant programs, and for providing access to computing and data infrastructures for “omics” and systems biology technology throughout CCMB and beyond to medical school and campus researchers.  Brian is the Principal Investigator of the NIH National Center for Integrative Biomedical Informatics (www.ncibi.org), only one of seven NIH National Centers for Biomedical Computing (NCBC), a centerpiece of the NIH Roadmap initiative.  He is also the Director of the funded Clinical and Translational Sciences Award (CTSA) Biomedical Informatics Program, housed in the Michigan Center for Clinical and Health Research (MICHR). He has responsibility to direct the U-M Health Informatics Research Organization (HIRO), the U-M wide health informatics faculty consortium, and oversight of the MICHR Clinical Research Informatics Core. Dr. Athey is co-chair of the national CTSA informatics consortia working group.

During his Ph.D. thesis research in the 1980s, Brian proposed the double helical crossed-linker model for the structure of chromatin, at that time controversial, but now thought to be the correct model for this critical macromolecular complex, and featured in many textbooks.  In the mid 1990s, Brian served as the Director of Biological Imaging Programs at the Environmental Research Institute of Michigan (ERIM; now part of General Dynamics). Dr. Athey is also a founding member of the Michigan Nanotechnology Institute for Medicine and Biology (www.nano.med.umich.edu). Brian was also a longtime collaborator and friend for the world famous and late Professor Emmett Leith, the inventor of off-axis holography. He and Leith invented and demonstrated an incoherent white light holographic microscope in 2001 with their student Kurt Mills and collaborator David Dilworth.  Brian is well known for his work with the National Library of Medicine (NLM) Visible Human Project where he has been a leader in establishing a nationwide Internet2 end-to-end test-bed demonstration project with NIH/NLM sponsorship in collaboration with Pittsburgh Supercomputing Center (vhp.med.umich.edu). The NLM VHP naturally lead to the establishment of the very successful DARPA Virtual Soldier Project (VHP) (www.virtualsoldier.us), a nationwide consortium of which he was the Principal Investigator, which builds from the VHP to extend it from basic human anatomy to physiological modeling, functional simulation and prediction after a traumatic injury.  Many of these projects are well known internationally.  Dr. Athey has published over 50 papers in the scientific literature, and has given well over 200 talks nationally, including several keynotes and plenary talks.  Brian was awarded  a Peace Fellowship of the Federation of American Scientists (FAS.org) in 2000, for his efforts in the 1990s to prevent biological warfare and terrorism. He is also a founding board member of Scientists and Engineers for America (www.sefora.org).

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  Research Interests
 
1.
‘Integrative Biomedical Informatics’ and ‘Translational Bioinformatics’: This research thrust is leading to increased understanding of systems models and mechanisms of human health and disease, and will contribute to our understanding of the basis of ‘Personalized Medicine’. These new disciplines involve integration of diverse bioinformatics data-types and information bases into disease-specific models and networks, allowing a researcher to explore the systems properties and complexity of biological and biomedical systems. This relies heavily on computer and information sciences, biostatistics, and bioinformatics. 

I have been pursuing this research vein for 7 years, and is already quite productive, leading to several significant team-science based grant and contract activities I lead.  It  The major efforts are 1) the NIH National Center for Integrative Biomedical Informatics, NCIBI.org; 7 years in operation;  200 papers published, 16 cited over 100 times, 1 papers cited 1000 times; 2) the Biomedical Informatics Core of the UM Clinical and Translational Sciences Award (CTSA) in the Michigan Institute for Clinical and Health Research (MICHR), now in year 6; 3) the NIH Regional Metabolomics Center (Data Core Lead); and 4) US academic lead and Co-CEO, tranSMART Foundation, an open source data sharing and informatics world-wide community.

 
2.
Computational Multiscale Modeling and Simulation of Macroscopic and Microscopic Biological Systems: This research thrust has two components: 1) A  ‘macroscopic’ Human Systems Biology (HSB) modeling and simulation thrust, building from earlier work on the NIH Visible Human Project (Anatomy), and the DARPA Virtual Soldier Project (Physiology, Function, Pathology); and 2) A ‘Microscopic’ cellular systems approach to further understand the hierarchal nature of the structure, function, and dynamics of the eukaryotic chromatin fiber.  These are both long-standing research interests, and both involve multiscale theory, systems modeling, computer image processing, ontological descriptions and machine learning for extension and linkage to other informational components, cutting-edge integrative biomedical informatics, and experimental verification using epigenomic and structural biology.
 
3.
Interdisciplinary Team Science. I am a natural leader of interdisciplinary science teams which include combinations of experts from biology, medicine, bioinformatics, computer science, information science, bioengineering, mathematics, statistics, systems modeling, and complexity science.  I will continue to pursue ‘big science’ and ‘small science’ in this fashion, collaborating with experts from diverse fields of knowledge related to research thrusts 1 and 2. I will also continue to teach interdisciplinary science at the graduate level, using bioinformatics, computational biology, and clinical informatics as touchstones.
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  Selected References
   

Athey BD, Smith MF, Rankert DA, Williams SP, Langmore JP (1990) The Diameters of Frozen-Hydrated Chromatin Fibers Increase with DNA Linker Length: Evidence in Support of Variable Diameter Models for Chromatin. Journal of Cell Biology 111:795-806. I was one of the co-discoverers of the Crossed-linker model for Chromatin. This is one of the key early references.

Dai, M, Wang P, Boyd AD, Kostov G, Athey BD, Jones EG, Bunney WE, Myers RM, Speed TP, Akil H, Watson SJ, Meng F (2005) Evolving gene/transcript definitions significantly alter the interpretation of GeneChip data. Nucleic Acids Research 33(20):e175, pp. 1-9.

Kim YJ, Boyd AD, Athey BD, Patel JM (2005) “miBLAST: scalable evaluation of a batch of nucleotide sequence queries with BLAST.” Nucleic Acids Research 33(13):4335-44.

Wang P, Dai M, Xuan W, McEachin RC, Jackson AU, Scott LJ, Athey BD, Watson SJ, Meng F (2006) SNP Function Portal: A web database for exploring the function implication of SNP alleles. Bioinformatics Jul 22(14):e523-529. PMID: 16873516.

Boyd AD, Hosner C, Hunscher DA, Athey BD, Clauw DJ, Green L (2007) An 'Honest Broker' Mechanism to Maintain Privacy for Patient Care and Academic Medical Research. International Journal of Medical Informatics 76(5-6):407-411, May-June 2007.

Jayapandian M, Chapman A, Tarcea VG, Yu C, Elkiss A, Ianni A, Liu B, Nandi A, Santos C, Andrews P, Athey BD, States D, Jagadish HV (2007) Michigan Molecular Interactions (MiMI): Putting the Jigsaw Puzzle Together. Nucleic Acids Research 2007, 35:D566-D571.

Xuan W, Dai M, Mirel B, Wilson J, Athey BD, Watson SJ, Meng F (2007) Pubviz: An Interactive Visual Search Interface for Medline. Proceedings of the Computational Systems Bioinformatics Conference (CSB2007) (in press).

Sarntivijai S, Ade A, Athey BD, States DJ, Lee AW (2007) Cell Line Ontology: A Bioinformatics Approach to Knowledge-Based Cell Culture Data Structure. Bioinformatics (accepted).

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Biographical Sketch

 
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  Brian D. Athey, Ph.D. Professor/Bioinformatics and Computational Biology
Associate Director (UM) Center for Computational Medicine and Biology
Director, Michigan Center for Biological Information
Director, Biomedical Informatics, UM Depression Center
 
Institution & Location
Degree
Year(s)
Field of Study

St. John's College, Annapolis, MD
University of Michigan, Dearborn, MI
University of Michigan, Ann Arbor, MI

University of Michigan, Ann Arbor, MI


B.S.
Ph.D.

Postdoctoral
1976-1977
1982
1990

1990-1993

Classical Studies
Biochemistry, Physics
Cell&Mol Biol
(Biophysics)
Anatomy & Informatics

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  Professional Experience
 
1995-1996
Visiting Assistant Professor, Medical Informatics Graduate Program, University of Michigan School of Information
 
1995-1998
Director, Biomedical Imaging Programs; ERIM International, Inc.
 
1995-1998
Assistant Professor, Department of Anatomy & Cell Biology (ACB), University of Michigan Medical School
 
1997-2002
Assistant Professor, School of Art & Design, University of Michigan Graduate Program in Medical & Biological Illustration
 
1998-2003
Assistant Professor and Founding Member, Center for Biologic Nanotechnology, University of Michigan Medical School Department of Internal Medicine
 
2000-2001
Academic Liaison for Health Sciences Research & Instructional Computing, University of Michigan Office of CIO
 
2000-2003
Visiting Assistant Professor. Univeristy of Michigan Electrical Engineering and Computer Science (EECS)
 
2000-2006
Director, Michigan Center for Biological Information (MCBI), University of Michigan Office of the Vice President for Research (OVPR)
 
2003-2005
Visiting Associate Professor, Electrical Engineering and Computer Science (EECS), University of Michigan College of Engineering
 
2003-2008
Associate Professor, Biomedical Informatics, Department of Psychiatry, University of Michigan Medical School
 
2005-2008
Associate Professor, Bioinformatics and Computational Biology, Bioinformatics Program, University of Michigan Medical School
 
2003-
Director, Biomedical Informatics Section and IT, University of Michigan Department of Psychiatry
 
2005-
Director, Section of Biomedical Informatics; Department of Psychiatry, University of Michigan Medical School
 
2005-
Associate Director, (University of Michigan) Center for Computational Medicine and Biolgy (CCMB)
 
2005-
Principal Investigator, NIH National Center for Integrative Biomedical Informatics, University of Michigan Medical School
 
2007-
Director, Biomedical Informatics Program (BIP), Michigan Institute for Clinical and Health Research (MICHR)
 
2008-
Professor, Biomedical Informatics, Departments of Psychiatry and Internal Medicine, University of Michigan Medical School
 
2008-
Professor, Bioinformatics and Computational Biology, Bioinformatics Program, University of Michigan Medical School
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  Fellowship/Honors
 
1992-1985
NIH Pre-doctoral Fellowship, Cellular and Molecular Biology Training Program, University of Michigan Medical School; Ann Arbor, MI.
 
1990-1991
NIH Postdoctoral Fellowship, Developmental Biology Training Program, University of Michigan Medical School; Ann Arbor, MI.
 
1991-1993
Postdoctoral Fellowship, Chemical and Hearing Senses Training Program, Kresge Hearing Research Institute, The University of Michigan Medical School; Ann Arbor, MI
 
2000-2003
Peace Fellowship, Federation of American Scientists (FAS)
 
2005
Conference Co-Chair, Intelligent Systems for Molecular Biology (ISMB); International Society for
Computation Biology (ISCB)
 
2007
IEEE Bioinformatics and Bioengineering Outstanding Achievement Award, 7th IEEE BIBE, Harvard Medical School, Cambridge, MA (Oct. 2007)
 
2008-
National Co-Chair, CTSA Informatics Operations Committee (with Bill Hersh)
 
2008
Outstanding Achievement Award in recognition of his Leadership and Outstanding Contributions to help Create the Field of Translational Bioinformatics. Worldcomp'08. Las Vegas, Nevada
(July 2008)
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  Professional Societies
 
1982-1990
Microscopy Society of America (MSA)
 
1994-
Optical Society of America (Ann Arbor Branch)
 
2003-
International Society for Computational Biology (ISCB)
 
2003-
American Medical Informatics Society (AMIA)
 
2004-
American Medical Informatics Association (AMIA)
 
2005-
International Society for Computational Biology (ISCB)
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  Selected Peer-Reviewed Publications (of over 55)
 
1.
Williams SP, Athey BD, Muglia LJ, Schappe RS, Gough AH, Langmore JP. Chromatin fibers are left-handed double helices with diameter and mass per unit length that depend on linker length. Biophys. J 1986; 49(1):233-248.
 
2.
Smith MF, Athey BD, Williams SP, Langmore JP. Radial density distribution of chromatin: evidence that chromatin fibers have solid centers. J Cell Biol. 1990;110(2):245-254.
 
3.
Athey BD, Smith MF, Rankert DA, Williams SP, Langmore JP. The diameters of frozen-hydrated chromatin fibers increase with DNA linker length: evidence in support of variable diameter models for chromatin. J. Cell Biol. 1990; 111(3):795-806.
 
4.
Wetzel AW, Ade A, Bookstein FL,Green W, Athey BD. Representation and performance issues in navigating visible human datasets. The 3rd National Library of Medicine (NLM) Conference on the Visible Human. 2000 (Electronic publication).
 
5.
Bookstein FL, Athey BD, Green WD, Wetzel AW. Navigating solid medical images by pencils of sectioning planes. Proceedings of SPIE 2000; 4121:117-127.
 
6.
Higgins G, Athey BD, Bassingthwaighte J, Burgess J, Champion H, Cleary K, Dev P, Duncan J, Hopmeier M, Jenkins D, Johnson C, Kelly H, Leitch R, Lorensen W, Metaxas D, Spitzer V, Vaidehi N, Vosburgh K, Winslow R. Modeling & Simulation in Medicine: Towards an integrated framework. Comput. Aided Surg. 2001 6(1):32-39.
 
7.
Hacker TJ, Athey BD. A methodology for account management in grid computing environments. Proceedings of the 2nd International Workshop on Grid Computing November 2001, Denver Colorado, Lecture Notes in Computer Science, 133-144. Springer Verlag Press.
 
8.
Lee I, Athey BD, Baker JR, Wetzel A, Meixner WM, Baker JR Jr. Structural Molecular Dynamic Studies on Therapeutically-Applied Polyamidoamine Dendrimers: The effects of pH and surface derivatization group. Macromolecules 2002; 35(11):4510-4520.
 
9.
Walker DS, Lee WY, Skov N, Berger C, Athey BD. Investigating User Requirements: Computer-based anatomy learning modules for multiple user testbeds. JAMIA 2002; 9(4):311-319.
 
10.
Thigpen B, Hacker TJ, McGinnis L, Athey BD. Distributed accounting on the grid. Proceedings of the 6th Joint Conference on Information Sciences 2002; pp 1147-1150.
 
11.
Hacker TJ, Noble B, Athey BD. The effects of systemic packet loss on aggregate TCP flows. Proceedings of the 2002 ACM/IEEE Conference on Supercomputing Nov. 2002; pp 1-15.
 
12.
Singh GB, Song H, Liu D, Wildman D, Goodman M, Bliton C, Kostov G, Athey BD. A non-homology method for sensitive information retrieval from biological databases. Proceedings of the 7th Joint Conference on Information Sciences 2003; pp 915-918.
 
13.
Lee I, Dombkowski AA, Athey BD. Guidelines for Incorporating non-perfectly matched oligonucleotides into target-specific hybridization probes for a DNA microarray. Nucleic Acids. Res. 2004;32(2):681-690.
 
14.
Boyd AD, DiFranco DJ, Athey BD, Challenges of HIPAA regulations in academic biomedical research. MEDINFO 2004;(CD):1535.
 
15.
Boyd AD, Wright ZC, Ade AS, Bookstein F, Ogden JC, Meixner W, Athey BD, Morris T. Challenges in presenting high dimensional data to aid in triage in the DARPA virtual soldier project. Studies in Health Technology and Informatics 2004; 111:68-74.
 
16.
Kim YJ, Boyd A, Athey BD, Patel JM, miBLAST: scalable evaluation of a batch of nucleotide sequence queries with BLAST. Nucleic Acids Research 2005; 33:4335-44.
 
17.
Dai M, Wang P, Boyd AD, Kostov G, Athey B, Jones EG, Bunney WE, Myers RM, Speed TP, Akil H, Watson SJ, Meng F. Evolving gene/transcript definitions significantly alter the interpretation of GeneChip data. Nucleic Acids Research 2005; 33(20):e175.
 
18.
Wang P, Dai M, Xuan W, McEachin RC, Jackson AU, Scott LJ, Athey B, Watson SJ, Meng F. SNP Function Portal: a web database for exploring the function implication of SNP alleles. Bioinformatics 2006; 22(14):e523-9.
 
19.
Xuan W, Dai M, Mirel B, Wilson J, Athey BD, Watson SJ, Meng F. An active visual search interface for Medline. Proceedings of the Computational Systems Bioinformatics Conference (CSB2007), pp. 359-369.
 
20.
Xuan W, Dai M, Mirel B, Wilson J, Athey B, Watson SJ, Meng F. Interactive Medline Search Engine Utilizing Biomedical Concepts and Data Integration. BioLink SIG 2007: Linking Literature, Information and Knowledge for Biology. ISMB 2007: Special Interest Group Meeting (SIGs) Program Materials. pp. 55-58.
 
21.
Boyd AD, Hosner C, Hunscher DA, Athey BD, Clauw DJ, Green LA. An 'Honest Broker' mechanism to maintain privacy for patient care and academic medical research. Presented at Secure E Health Conference, published online in International Journal of Medical Informatics 2007;
 
22.
Jayapandian M, Chapman A, Tarcea VG, Yu C, Elkiss A, Ianni A, Liu B, Nandi A, Santos C, Andrews P, Athey B, States D, Jagadish HV. Michigan Molecular Interactions (MiMI): putting the jigsaw puzzle together. Nucleic Acids Research 2007; 35:D566-D571.
 
23.
Lee I, Ajay SS, Chen H, Maruyama A, Wang N, McInnis MG, Athey BD. Discriminating single-base difference miRNA expressions using microarray Probe Design Guru (ProDeG). Nucleic Acids Research 2008, pp. 1-10, January 2008. PMID: 18208839.
 
24.
States D, Ade AS, Wright ZC, Bookvich AV, Athey B (2008) MiSearch Adaptive PubMed Search Tool. Bioinformatics (March 11, 2008) PMID: 18326507.
 
25.
Tarcea GV, Weymouth T, Ade A, Gao J, Mahavisno V, Wright Z, Chapman A, Jayapandian M, Ozgur A, Tian Y, Cavalcoli J, Mirel B, Patel J, Radev D, Athey B, States D, Jagadish HV (2008) Michigan Molecular Interactions (MiMI) r2: From Interacting Proteins to Pathways. (Submitted September 15, 2008) NAR- 01911-2008.
 
26.
Lee I, Majoros IJ, Williams CR, Athey BD, Baker Jr JR (2008) Interactive Design Strategy for a Multi- Functional PAMAM Dendrimer-Based Nano-Therapeutic Using Computational Models and Experimental Analysis. Computational and Theoretical Nanoscience 2008; 6:1-7.
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  Research Support
ONGOING

   

Role: PI
1 U54 DA021519-03A1 (Athey, Brian D.) 09/25/2005 - 07/31/2010
National Institute of Health
National Center for Integrative Biomedical Informatics (NCIBI)

Focus is biomedical informatics data integration and modeling, including advanced biomedical Information Retrieval (IR) to accelerate NIH-funded research in complex and chronic biomedical diseases. This is one of the seven NIH National Centers for Biomedical Computing (NCBC).

Role: Co-I, Director of the Biomedical Informatics Program (BIP)
1UL1 RR024986 (Clauw, Daniel) 09/17/2007 - 05/31/2012
NIH / NCRR
Michigan Institute for Clinical and Health Research (MICHR)

The University of Michigan Clinical and Translational Science Award (UM CTSA) focuses on supporting and facilitating clinical and translational "team science".

Role: Director of the Biomedical Informatics Program, Co-Investigator

Role: Co-I 1R01 DK079084-01(Burant, Charles PI) 08/01/2007 - 05/31/2011
National Institute of Health
“Using Systems Biology to Understand Islet Adaptation and Failure in Diabetes”

The goals of this application are to combine novel metabolomic analysis techniques with bioinformatics is to identify the way in which pancreatic islet adapt to differences in nutrient mix and supply.

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  Completed
   

Role: PI
U54 DA021519-02S1 08/01/2006 - 07/31/2008
NCIBI supplement

“Improved Gene Pathway Assertions Using NLP (Natural Language Processing) of Biomedical Literature and SAGA (Sequence Alignment by Genetic Algorithm)”.

Role: Co-I
BAA-RM-04-23 (Clauw, Daniel) 09/30/2004 - 12/01/2007 NCTX 6/30/08
National Institute of Health/NHLBI
Michigan Clinical Research Collaboratory: An Integrated Academic-Community Research Enterprise

The major goal of this contract is to develop an “Honest Broker” system which will allow for the interaction of several distinct domains of the translational research medical record.

GR-238 (Athey, Brian D.) 01/01/2001 - 12/31/2006
Michigan Economic Development Corporation (MEDC)
“The Michigan Center for Biological Information (MCBI)”

The major goal of this project is to provide statewide bioinformatics and computational biology capabilities to the Michigan Core Technology Alliance infrastructure partners and institutions. Now working in no-cost extension.

Role: PI
W81XWH-04-2-0012 DOD-Army, Athey, B.D. (PI) 09/01/2003 - 09/21/2006
Defense Advanced Research Projects Agency/DSO
“Core Development, Integration and Demonstration of the DARPA Virtual Soldier”

This multi-institutional project prototypes and integrates anatomical and physiology modeling, medical informatics and computer simulations to create the next generation “Digital Human” framework; with military applications. Role: PI, 12 subcontracting sites

GR-238 (Athey, Brian D.) 01/01/2001 - 08/31/2006
Michigan Economic Development Corporation (MEDC)
“The Michigan Center for Biological Information (MCBI)”

The major goal of this project is to provide statewide bioinformatics and computational biology capabilities to the Michigan Core Technology Alliance infrastructure partners and institutions.
Role: PI

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  Curriculum Vitae
 

Personal Data

    Brian David Athey
Web Sites:

https://portal.ncibi.org/portal
http://vhp.med.umich.edu/

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  Education
 
1971-1975
Diploma, University of Detroit High School; Detroit, MI High Honors
 
1976-1977
St. John's College; Annapolis, MD (Major: Classical Studies)
 
1980-1982
B.S.(Major: Biochemistry, Minors: Physics and Mathematics)
University of Michigan-Dearborn: Dearborn, MI
School Record: 128 Credits in 2 years
 
1982-1990
Ph.D. (Cellular and Molecular Biology--Biophysics Concentration)
Advisor: Professor John P. Langmore
Dissertation Title: “Chromatin Fibers are Left-handed Double Helicies”
University of Michigan; Ann Arbor, MI
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Predoctoral Training

 
1983-1985
National Institutes of Health Predoctoral Fellowship
Cellular and Molecular Biology (CMB) Training Program: Biophysics Concentration
Mentors: Professors John P. Langmore and Martha L. Ludwig
University of Michigan Medical School; Ann Arbor, MI
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  Postdoctoral Training
 
1990-1991
NIH Postdoctoral Fellowship
Developmental Biology Training Program
Mentors: Professors Bruce M, Carlson and Micheal J. Welsh
University of Michigan Medical School; Ann Arbor, MI
 
1991-1993
NIH Postdoctoral Fellowship
Chemical and Hearing Senses Training Program
Mentors: Professors Richard A. Altschuler and David J. Anderson
Kresge Hearing Research Institute (KHRI)
University of Michigan; Ann Arbor, MI
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  Senior Postdoctoral Training
 
1998
CNS Anatomy Course, St. Hugh's College, University of Oxford (UK)
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  Academic Appointments
 
1991-1993
Adjunct Lecturer, Department of Biology
University of Michigan
 
1995-1998
Assistant Professor, Department of Anatomy and Cell Biology (ACB)
University of Michigan Medical School
 
1997-2000
Assistant Professor, Graduate Program in Medical Illustration
University of Michigan School of Art and Design
 
1997-2003
Visiting Assistant Professor, Optical Engineering (with Professor Emmett Leith)
Electrical Engineering and Computer Science (EECS)
College of Engineering University of Michigan Medical School
 
1998-2003
Assistant Professor, Department of Cell and Developmental Biology
University of Michigan Medical School
 
1998-2003
Assistant Professor and Founding Member
Center for Biologic Nanotechnology
Department of Internal Medicine, Division of Allergy and Immunology
University of Michigan Medical School
 
2003-2008
Associate Professor, Biomedical Informatics
Department of Psychiatry and Comprehensive Depression Center
University of Michigan Medical School
 
2003-2008
Associate Professor,
Michigan Nanotechnology Institute for Medicine and Biological Sciences (MNiMBS)
Department of Internal Medicine, Division of Allergy and Immunology
University of Michigan Medical School
 
2003-2005
Visiting Associate Professor of Computer Science and Engineering (CSE Division)
Electrical Engineering and Computer Science (EECS)
College of Engineering University of Michigan
 
2003-2005
Visiting Associate Professor of Optical Engineering (with Professor Emmit Leith)
Electrical Engineering and Computer Science (EECS)
College of Engineering University of Michigan
 
2005-2008
Associate Professor, Bioinformatics and Computational Biology
Bioinformatics Graduate Program
Center for Computational Medicine and Biology (CCMB)
University of Michigan Medical School
 
2008-
Professor, Biomedical Informatics
Department of Psychiatry and Comprehensive Depression Center
Center for Computational Medicine and Biology (CCMB)
University of Michigan Medical School
 
2008-
Professor, Biophysics
Michigan Nanotechnology Institute for Medicine and Biological Sciences (MNiMBS)
Department of Internal Medicine, Division of Allergy and Immunology
University of Michigan Medical School
 
2008-
Professor, Bioinformatics and Computational Biology
Bioinformatics Graduate Program
Center for Computational Medicine and Biology (CCMB)
University of Michigan Medical School
 
2009-2011
Collegiate Professor and Chair (Designate), Center for Computational Medicine and Bioinformatics (CCMB)
 
2012
Collegiate Professor and Chair, Department of Computational Medicine and Bioinformatics (DCM&B)
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  Research Appointments
 
1994-1995
Research Investigator, Department of Anatomy and Cell Biology
University of Michigan Medical School
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  Administrative Appointments
 
2000-2001
Academic Liasison, Research and Instructional Computing for the Health Sciences; Office of the Chief Information Officer (CIO)
University of Michigan
 
2001
Interim Director, Michigan Center for Biological Information (MCBI)
Office of the Vice President for Research (OVPR)
University of Michigan
 
2001-2006
Director, Michigan Center for Biological Information (MCBI)
Office of the Vice President for Research (OVPR)
University of Michigan
(Absorbed into the UM Center for Computational Medicine and Biology, CCMB, in 2006)
 
2003-2006
Director, Biomedical Informatics Core
Department of Psychiatry and Comprehensive Depression Center
University of Michigan Medical School
 
2005-2009
Section Head, Bioinformatics and Laboratories
Department of Psychiatry
University of Michigan Medical School
 
2005-2009
Associate Director and Co-founder (with Gilbert S. Omenn)
UM Center for Computational Medicine and Bioinfomatics (CCMB)
University of Michigan Medical School
 
2006-2009
Director, of Information Technology (IT)
Department of Psychiatry
University of Michigan Medical School
 
2006-
Director, Biomedical Informatics Program
Michigan Institute for Clinical and Health Research (MICHR)
 
2009-2011
Chair Designate, Computational Medicine and Bioinformatics; Medical School
 
2009-2011
Director, Academic Informatics (Medical School)
 
2009-2013
Associate Director, Biomedical Informatics (NIH CTSA)
Michigan Institute for Clinical and Health Research (MICHR)
 
2012-2012
Professor and Chair, Department of Computational Medicine and Bioinformatics (DCM&B)
 
2012-2012
Michael A. Savageau Collegiate Professor and Chair, Department of Computational Medicine and Bioinformatics (DCM&B)
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  Industrial Positions
 

1995-1997

Director, Biological Programs (DARPA Contractor)
ERIM International, Inc,; Ann Arbor, MI

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  Not-For-Profit Positions  
 
1995-1997
Director, Biological Programs (DARPA Contractor)
ERIM International, Inc,; Ann Arbor, MI
 
2005-2011
Co-Founder, Scientist and Engineers for America (SEA); Chairman of thr Board, 2009-2011
 
2012
Co-CEO, tranSMART Foundation (with Michael Braxenthaler, Pistoia Alliance)
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  Consulting Positions
 
1988
Virogen Laboratories, Inc.; Ann Arbor, MI
Automated, Molecular Biology-based Viral Detection Systems
 
1993-1995
Convex Computer Corporation; Richardson, TX
Medical Image Processing, Storage and Retrieval
 
1995
I-MED Link, Inc.; Bethesda, MD
Internationally Distributed Telemedical School Networking
 
1995-1996
Hoffman-La Roche, LTD.; Toronto, Canada
Medical Image Processing
 
1996
Meridian Instruments, Inc.; Okemos, MI
Laser Scanning Confocal Microscopy
 
1997
LaBat-Anderson Consulting, Inc.; McLean, VA
Secondary Reviewer for Medical Free-Electron Laser Grants Program Office of Naval Research(ONR)
 
1997-1999
Potomac Institute for Policy Studies(PIPS); Arlington, VA
Technology Consultant for DARPA Unconventional Pathogen Counter-measures (UPC) Program
 
1999-2000
Innervision Imaging, Inc.; Farmington Hills, MI
Microscopic Laparoscopy
 
2000
Telemed, Inc.; Annapolis, MD
High Performance Medical Modeling and Simulation for Surgical Trauma Applications
 
2000
Ethereal Technologies, Inc.; Ann Arbor, MI
3-D Display Technology
 
2001-2003
Altarum Institute; Ann Arbor, MI
Novel Medical and Life Sciences Applications
 
2002
U.S. Army Medical Research and Material Command
(USAMRMC); Ft. Detrick, MD
CBNR Responsiveness Training Network Architecture
 
2004
University of Hawaii; Honolulu, HI
Bioterrorism and Computer Modeling
 
2004-2006
University Clinical, Education and Research Associates (UCERA)
Biophotonics and Biosensors
University of Hawaii; Honolulu, HI
 
2008
NIH Office of Portfolio Analysis and Strategic Initiatives (OPASI)
Office of the Director of the National Institutes of Health (NIH);
Bethesda, MD. Special Adivisor to the Director.
 
2008-2009
NIH Division of Program Coordination, Planning, and Stretegic Initiatives
(DPCPSI). Special Advisor to the Director.
 
2009-2011
NIH Center for Information Techology (CIT) and Office of the CIO (OCIO).
Special Advisor to NIH CIO. Contract: LTS Corporation, A Sentrillian Company.
 
2010
Member, Scientific Advisory Board (SAB), Biovest International (Tampa, FL)
 
2011
Chair, Scientific and Technical Advisory Board (S&TAB), Appistry Incorporated, St. Louis, MO.  (Cloud Computing)
 
2011
Chair, Technical Advisory Board, 1Mind4Research, Cambridge, MA
 
2012
Vice Chair, Scientific Advisory Board, AssureRx Health, Inc. (Mason, OH)
 
2013
Chair, External Advisory Committee, Hunter College Gene Center (New York City, NY)
  ^back to top  
  Scientific Activities
 
2003
Reviewer/Panel Member, NIH Neuroinformatics Study Section ZRG1 SSS-E (55),
Center for Scientific Review, National Institutes of Health (NIH)
 
2003-
Reviewer/Panel Member, NIH Human Brain Project Study Section
Scientific Review, National Institutes of Health (NIH)
 
2003-
Reviewer/Panel Member, NIH Neuroinformatics Study Section,
Center for Scientific Review, National Institutes of Health (NIH)
 
2003-
Reviewer/Panel Member, NIH Biomedical Computing Review Panel,
Center for Scientific Review, National Institutes of Health (NIH)
 
2003-
Reviewer/Panel Member, Integration of Middleware Review Panel, National Science Foundation
 
2002-
Reviewer/Panel Member, NIH Computational Biology Study Section,
Center for Scientific Review, National Institutes of Health (NIH)
 
2002
Reviewer/Panel Member, Washington Advisory Group (WAG) LLC,
Missouri Life Science Research Capacity Contracts (MLSRCC) Program
 
2001
Reviewer/Panel Member, Bioinformatics Study Section, ITR Small Grant Awards,
National Science Foundation (NSF)
 
2000
Reviewer/Panel Member, Bioengineering Research Partnership Grants,
Special Study Section, National Eye Institute(NEI)/ National Institutes of Health (NIH)
 
2000
Reviewer, Army Research Office (ARO)
 
1995-1999
Ad Hoc Reviewer: Office of Naval Research (ONR), Defense Advanced Research Projects Agency (DARPA)
  ^back to top  
  Grant/Contract Support

  Current  
 
9/08-6/09
3UL1RR024153-03S1 (Becich, Michael)
Michigan Institute for Clinical & Health Research
Administrative Supplement for CTSA Consortium Project
“CTSA Inventory Resource Web Presence (CIRWP)

The objective of this project is to create a web-accessible and queriable inventory of research resources of the CTSA informatics consortium. This inventory resource will serve as a demonstration prototype that enables tool and data sharing within the CTSA, and will promote synergies between various components of the CTSA consortium.

Role: Co-I $75,000 Total Costs

 
11/08-7/09
U54 DA021519-02S2 (NCIBI supplement)
“Building Bridges with the University of Wisconsin-Milwaukee”

To create a special “building bridges” postdoctoral fellowship training opportunity with the University of Wisconsin-Milwaukee to extend the capability of NCIBI to augment the molecular interactions database with information obtained from biomedical images, legends, figures and tables.

Role: PI $86,372 Total Costs

 
9/08-7/09
3 U54 DA021519 04S2 (Athey, Brian D)
“NCIBI Building Bridges: BioIMAGE – Intelligent seMantic Analysis of
Biomedical Images”

Develop a representation to map experiments to knowledge, and to associate
experiments and knowledge to images.  Develop a computational framework or
automatically mapping between experiments to knowledge, and for associating
the mapping to images.
                       
Role: PI $99,997 Total Costs

 
8/08-7/09
3 U54 DA021519 04S1 (Athey, Brian D)
“Support and Development of Biosite Maps for NCBCs”

Coordinate development efforts across all NCBCs for the development and deployment of Biositemaps.  Focus on alignment of ontology to various tool types and application development space user-computer interface components including
visualization and the development of FAQ and user help guides.

Role: PI $50,000 Total Costs

 
7/05-6/10
T32 GM070449 (Athey, Brian D)
“Training Program in Bioinformatics”

This is a multidisciplinary graduate training program in bioinformatics and computational molecular biology drawing faculty participation on a campus-wide basis.  Computational bioscience has emerged as a new multidisciplinary field contributing to all aspects of biology and medicine; there is an urgent need for scientists skilled in bioinformatics and computational biology, in order to be able
to participate this emerging and vibrant field.

Role: PI $1,225,579 Total Costs

 
9/05-7/10
1 U54 DA021519-03A1 (Athey, Brian D.)                                   
National Institute of Health
“National Center for Integrative Biomedical Informatics (NCIBI)”

Focus is biomedical informatics data integration and modeling, including advanced biomedical Information Retrieval (IR) to accelerate NIH-funded research in complex and chronic biomedical diseases. This is one of the seven NIH National Centers for Biomedical Computing (NCBC). 

Role:
PI $18.7M Total Costs with additional $1.5M cost-share.

 
8/07-5/11
1 R01 DK079084-01 (Burant, Charles)                                                  
National Institute of Health
“Using Systems Biology to Understand Islet Adaptation and Failure in Diabetes”

The goals of this project are to combine novel metabolomic analysis techniques with bioinformatics to identify the way in which pancreatic islets adapt to differences in nutrient mix and supply.

Role: Co-I $2.64M Total Costs

 
9/07-5/12
UL1 RR024986-01 (Pienta, Kenneth)                        
NIH / NCRR
“Michigan Institute for Clinical and Health Research (MICHR)”

The University of Michigan Clinical and Translational Science Award (UM CTSA) focuses on supporting and facilitating clinical and translational "team science."

Role: Co-I, Director of the Biomedical Informatics Program (BIP) $71.1M Total Costs

 
10/13-9/14
N017635 (Athey, Brian) “Promoting Scientific Progress through Biomedical Research, Biomedical Informatics and the Development of Ontological and Biomedical Informatics
Tools that enable Collaborative Biomedical Research”

Project 1: Platform Development of 3D Microscopic Imaging Technologies, Analytical Pipelines, and Data and Information Reporting Services to Study Tumor Cell Heterogeneity at the Single Cell Level and Tissue levels in collaboration with the James Buchanan Brady Urological Institute at Johns Hopkins Medicine.
Project 2: Implementing tranSMART Platform to Integrate 3D Microscope Information, ‘Omics Databases, and Biorepositories, and participant databases across the James Buchanan Brady Urological Institute at Johns Hopkins Medicine. This system will be configured to receive and transmit information into and out of the JHU Epic System

Role: PI                       $597,499 Total Costs

 
7/11-7/16
T32 GM0704490552 (Athey, Brian D)
“Training Program in Bioinformatics” This is a multidisciplinary graduate training program in bioinformatics and computational molecular biology drawing faculty participation on a campus-wide basis.  Computational bioscience has emerged as a new multidisciplinary field contributing to all aspects of biology and medicine; there is an urgent need for scientists skilled in bioinformatics and computational biology, in order to be able to participate this emerging and vibrant field.

Role: PI                       $883,760 Total Costs
 
6/12-5/17
UL1 RR024986-01 (Shanley, Thomas)                     
NIH / NCATS
“Michigan Institute for Clinical and Health Research (MICHR)” The University of Michigan Clinical and Translational Science Award (UM
CTSA) focuses on supporting and facilitating clinical and translational "Team Science."

Role: Co-I, Director of the Biomedical Informatics Core (BIC)
$48,788,667 Total Costs
 
9/12-9/17
U24 DK097153 (Burant, Charles)                             
“Michigan Regional Comprehensive Metabolomics Research Core” NIH NIDDK

This is a project to expand the metabolomics capabilities at the University of Michigan to become a national metabolomics resource.

Role: Co-I and Director $2,093,801 Total Costs Y1  

  Accepted  
    A11 R01 AI08106201-A1(He, Oliver)
NIH R01
“Ontology-based Information Network to Support Vaccine Research”

Role: Co-I $1,889,225 Total Cost
  Pending  
    (Merajver, Sofia D.)
“Physical Sciences of Integrated Cancer Systems (PhysOnc Center)”

Cooperative mechanism to establish a Center as part of a national network to study the physics of cancer, including signaling integration, cellular motion, and angiogenesis.

Role: Co-I $28,162,111 Total Cost

 
9/12
BIGDATA: Small: DA: Data-Driven Mining of tranSMART Using CoolMap.
We propose to develop a flexible visual data mining solution for tranSMART to facilitate the discovery of unexpected patterns and relationships. It will be based on the CoolMap prototype, a novel dynamic heatmap we developed for exploring the relationship between data sets with complex structures (e.g., ontology or network) among data elements.

Role: Co-PI (Athey, B) $754,373

 
12/12
NSF Industry/University Cooperative Research Center of Biomedical Information Systems for Translational Healthcare Applications
Significant national changes in health care policy are leading to the adoption of electronic health information systems and more precise data-driven requirements for advancing and evaluating the impact of health information on patient care. The BISTHA center will establish a research pathway to bridge the gap between information technology and biosoftware.

Role: PI (Athey,B)      Subcontract $11,500

 
1/13
BCC-SBE: Building Communities for Research with Administrative Data
National Science Foundation (NSF)

Role: Co-PI (Alter, PI) $34,337

 
1/14
(Gibson, Debbie PI)
Patient-Centered Outcomes Research Institute (PCORI) The Patient Centered Outcomes Research Institute (PCORI) issued a funding opportunity to establish clinical data research networks, each of which is charged to aggregate a diverse patient population of a minimum of 2 health systems, 1 million patients and their health data for the purposes of research. Once formed a network of clinical data research networks are charged to serve as a national resource for the conduct of comparative effectiveness research.

Role: Co-I and Informatics lead (Athey, B) $187,200 Total Costs Y1 (Co-I effort only)
  Recent  
 
1998-1999
“University of Michigan Next Generation Internet Implementation to Serve Visible Human Datasets: Phase I.” NIH-National Library of Medicine Contract.

Athey BD
, PI; 15% effort; $66K Direct Costs.
     
 
1999-2002
“Nanomolecular Therapeutics for Cancer.” National Cancer Institute Contract. J.R. Baker, Jr., PI;

Athey BD
, Co-I; 20% effort; Task 3 - Imaging Component, $720K Direct Costs.
     
 
2002-2004
“Novel Technologies for Noninvasive Detection, Diagnosis of Cancer.” National Cancer Institute–National Institutes of Health. Imaging subproject.

Athey BD, Co-I; 20% effort. $339K Direct Costs.
     
 
1999-2003
“University of Michigan Next Generation Internet (NGI) Implementation to Serve Visible Human Datasets: Phase II”. NIH-National Library of Medicine (NLM) Contract #N01-LM-0-3511.

Athey BD
, PI; 50% effort. $4.95M Direct Costs.
     
 
2002-2004
“MEDC 270—Development of a Comprehensive Simulation-based Computer Software System Environment for Designing DNA-based Microarrays.” Michigan Economic Development Corporation;

Athey BD, PI; 0% effort; $52K Direct Costs.
     
 
2003-2006
BAA 02-03 Addendum 4. The Virtual Soldier. “Core Development Integration and Demonstration of the DARPA Virtual Soldier.” Defense Advanced Research Projects Agency. Cooperative Agreement Contract W81XH-04-0012.

Athey BD, PI; 50% effort. Phase I. 20 months. $9.96M Direct Costs.
     
 
2004-2007
N01-LM-3-3512 (Dev, Parvati) National Institutes of Health - NLM Advanced Network Infrastructure for Distributed Learning and Collaborative Research (HAVnet). The major goal is establishing an Internet-based collaboration medical education teaching capability as part of the NLM SII program: subcontractor to Stanford University.

Athey, BD
, PI; subcontract. $121K Total Costs.
     
 
2004-2007
BAA-RM-04-23 (Clauw, Daniel) National Institutes of Health - NHLBI Michigan Clinical Research Collaboratory (MCRC): An Integrated Academic-Community Research Enterprise. The major goal of this contract is to develop an “Honest Broker” system which will allow for the interaction of several distinct domains of the translational research medical record.

Athey, BD, Co-I; $3.05M Total Costs. No-cost extension through Dec. 2007.
     
 
2001-2008
GR-238 (Athey, Brian D.) Michigan Economic Development Corporation (MEDC) “The Michigan Center for Biological Information (MCBI)” The major goal of this project is to provide statewide bioinformatics and computational biology capabilities to the Michigan Core Technology Alliance infrastructure partners and institutions.

Athey, BD, PI; $10.3M Total Costs. No-cost extension through Aug. 2008.
     
 
2006-2008
U54 DA021519-02S1 (NCIBI supplement)
"Improved Gene Pathway Assertions Using NLP (Natural Language Processing) of Biomedical Literature and SAGA (Sequence Alignment by Genetic Algorithm)" .

Athey, BD
, PI; $99.4K Total Costs.
     
 
2004-2009
2 R01 AI 37141 (Baker, James R. Jr.)
National Institutes of Health-NIAID
“Apoptosis in Thyroiditis”
The major goal of this effort is to provide bioinformatics support for Dr. Baker’s project.

Athey, BD, Co-I; $1.7M Total Costs.
 
9/07-5/12
UL1 RR024986-01 (Pienta, Kenneth J.)                    
NIH / NCRR
“Michigan Institute for Clinical and Health Research (MICHR)”

The University of Michigan Clinical and Translational Science Award (UM
CTSA) focuses on supporting and facilitating clinical and translational "team
science."

Role: Co-I, Director of the Biomedical Informatics Program (BIP)
$71.1M Total Costs

 
2008-2009
3UL1RR024153-03S1 (Becich, Michael)
Michigan Institute for Clinical & Health Research
Administrative Supplement for CTSA Consortium Project
“CTSA Inventory Resource Web Presence (CIRWP)”
The objective of this project is to create a web-accessible and queriable inventory of research resources of the CTSA informatics consortium. This inventory resource will serve as a demonstration prototype that enables tool and data sharing within the CTSA, and will promote synergies between various components of the CTSA consortium.

Athey, BD, Co-I; $75,000 Total Costs.

 
2008-2009
U54 DA021519-02S2 (NCIBI supplement)
“Building Bridges with the University of Wisconsin-Milwaukee”
To create a special “building bridges” postdoctoral fellowship training opportunity with the University of Wisconsin-Milwaukee to extend the capability of NCIBI to augment the molecular interactions database with information obtained from biomedical images, legends, figures and tables.

Athey, BD, PI; $86,372 Total Costs.
 
2008-2009
3 U54 DA021519 04S2 (Athey, Brian D)
“NCIBI Building Bridges: BioIMAGE – Intelligent seMantic Analysis of Biomedical Images”
Develop a representation to map experiments to knowledge, and to associate
experiments and knowledge to images.  Develop a computational framework or
automatically mapping between experiments to knowledge, and for associating
the mapping to images.

Athey, BD, PI; $99,997 Total Costs.
 
2008-2009
3 U54 DA021519 04S1 (Athey, Brian D)
“Support and Development of Biositemaps for NCBCs”Coordinate development efforts across all NCBCs for the development and deployment of Biositemaps.  Focus on alignment of ontology to various tool types and application development space user-computer interface components including visualization and the development of FAQ and user help guides.

Athey, BD, PI;$50,000 Total Costs.
 
2005-2010
1 U54 DA021519-03A1 (Athey, Brian D.)                            
National Institute of Health “National Center for Integrative Biomedical Informatics (NCIBI)” Focus is biomedical informatics data integration and modeling, including advanced biomedical Information Retrieval (IR) to accelerate NIH-funded research in complex and chronic biomedical diseases.  This is one of the seven NIH National Centers for Biomedical Computing (NCBC).
 
Athey, BD, PI; $18.7M Total Costs with additional $1.5M cost-share.
 
2005-2011
T32 GM0704490552 (Athey, Brian D)
“Training Program in Bioinformatics” This is a multidisciplinary graduate training program in bioinformatics and computational molecular biology drawing faculty participation on a campus-wide basis.  Computational bioscience has emerged as a new multidisciplinary field contributing to all aspects of biology and medicine; there is an urgent need for scientists skilled in bioinformatics and computational biology, in order to be able to participate this emerging and vibrant field. Athey, BD, PI; $1,225,579 Total Costs
 
2007-2011
2007-2011       1 R01 DK079084-01 (Burant, Charles)                                               
National Institute of Health “Using Systems Biology to Understand Islet Adaptation and Failure in Diabetes” The goals of this project are to combine novel metabolomic analysis techniques with bioinformatics to identify the way in which pancreatic islets adapt to differences in nutrient mix and supply.

Athey, BD, Co-I; $2.64M Total Costs
 
2010-2012
3 U54 DA021519-05S2 (Athey, Brian D)
“National Center for Integrative Biomedical Informatics (NCIBI)” Bridge funding for NCIBI to provide finalization of the Biomedical Computation Research and to enhance the Training, Outreach and Dissemination of NCIBI Tools and Resources.

Athey BD, PI. $2,776,008 Total Costs
 
2011-2012
“CTSA-SHRINE National Demonstration Project”
The Harvard Catalyst (CTSA) Informatics Program has developed and implemented a web-based query system that permits the return of data from participating hospitals for patients meeting selected inclusion and exclusion criteria for diagnoses, demographics, medications and laboratory values. This system has been designed to sit on top of the widely-adopted i2b2 platform that extracts and analyzes electronic health records data for research purposes and as such may provide an efficient means of conducting population based research where large numbers of characterized patients are desired. The University of Michigan currently has SHRINE version 1.0 is currently in production, is freely available, and will be used in this proposed demonstration project. UM i2b2.

Douglas McFadden, PI; Athey BD, Co-I. Role: UM PI Total Cost $15,384
  Past  
 
1992-1994
"Further Development of the Laser Scanning Confocal Microscopy/
Digital Microscopy and Scientific Visualization Facility."

University of Michigan Office of Vice President for Research(OVPR).

Co-Is; B.D. Athey & D.J. Andersen, 0% effort; $90K direct costs.
     
 
1993-1995
"Cellular Pathophysiology of Acute Renal Failure."
NIH-RO1. J.M. Weinberg, PI; B.D. Athey,

Co-I, 5% effort.
     
 
1993-1994
"An Image Based Repository of Bio-Medical Imagery."
NIH/NLM HPCC Demonstration Project. NIH-RO1. W.B. Panako,

PI;
B.D. Athey,
Co-I; 20% effort; $200K direct costs (2 of 3 years: PI moved).
     
 
1994-1995
"Development of Data Processing Methodology for the Visible Human/Embryo Projects I: Fourier Encoding of Contours."
Advanced Research Projects Agency(ARPA).

PI; B.D. Athey, 20% effort; $25K total costs.
     
 
1994
"Feasibility Study of Sorbinil-Treated Sural Nerve Biopsies."

PI; B.M. Carlson,
Co-I; B.D. Athey, 10% effort; 150K total costs.
     
 
1994-1995
"The Integration of Kodak Photo CD Technology into a Modern
Biomedical Digital Imaging Environment."

B.D. Athey, M. Pao, and Co-Is; 0% effort; $25K total costs.
     
 
1994-1995
"Scaleable System for Nerve Biopsy Analysis."
Hoffman-LaRoche, LTD (Toronto, Ont., Canada)

PI; B.M. Carlson,
Co-I; B.D. Athey, 20% effort; 2.3M total costs.
     
 
1994-1996
"Center for Neural Communication Technology." NIH-P41.

PI; D.J. Anderson,
Co-I; B.D. Athey, 5% effort; Project 3. $95K total costs.
     
 
1994-1996
"Development and Demonstration of a Networked Telepathology
3-D Imaging, Databasing and Communication System: Phase I."
Advanced Research Projects Agency(ARPA).

PI; B.D. Athey, 25% effort; $636K total costs.
     
 
1995-1998
"AASERT Graduate Fellowship in Advanced Biomedical Imaging."
Defense Advanced Research Projects Agency(DARPA).

0% effort; $114K total costs.
     
 
1997
"Feasibility Assessment of Tissue Engineering, Regeneration and
Fabrication Technology for Defense Purposes."
The Potomac Institute for Policy Studies(PIPS).

PI; B.D. Athey, 40% effort; $75K total costs.
     
 
1998
"Prospect: The Prostate Cancer Decision Support Architecture."
Internal Graduate Student Award from University of Michigan NIH
Prostate SPORE Grant.

PI; K.J. Pienta,
Co-I; B.D. Athey, 0% effort; $5K total costs.
 
1998-1999
“University of Michigan Next Generation Internet Implementation to Serve Visible Human Datasets: Phase I.” NIH-National Library of Medicine Contract.

Athey BD,
 PI; 15% effort; $66K Direct Costs.
 
1999-2002
“Nanomolecular Therapeutics for Cancer.” National Cancer Institute Contract.

J.R. Baker, Jr., PI; Athey BD,  Co-I; 20% effort;  Task 3 - Imaging Component, $720K Direct Costs.
 
1999-2003
“University of Michigan Next Generation Internet (NGI) Implementation to Serve Visible Human Datasets: Phase II”. NIH-National Library of Medicine (NLM) Contract #N01-LM-0-3511.

Athey BD, PI; 50% effort. $4.95M Direct Costs.

  ^back to top  
  Military Service
    None
  ^back to top  
  Honors and Awards
 
1983-1985
National Institutes of Health Predoctoral Fellowship
Cellular and Molecular Biology (CMB) Training Program: Biophysics Concentration
Mentors: Professors John P. Langmore and Martha L. Ludwig
University of Michigan Medical School; Ann Arbor, MI
 
1990-1991
National Institutes of Health Postdoctoral Fellowship
Developmental Biology Training Program
Mentors: Professors Bruce M. Carlson and Michael J. Welsh
University of Michigan Medical School; Ann Arbor, MI
 
1991-1993
National Institutes of Health Postdoctoral Fellowship
Chemical and Hearing Senses Training Program
Kresge Hearing Research Institute
Mentors: Professors Richard A. Altshuler and David J. Anderson
University of Michigan; Ann Arbor, MI
 
2000-2004
Peace Fellowship
Mentor: Henry C. Kelly
Federation of American Scientists (FAS.org); Washington, D.C.
Award for extensive work with DARPA in 1990’s relating to Counter Biological Warfare and Terrorism.
 
2005
Conference Co-Chair (with David J. States); Intelligent Systems for Molecular Biology (ISMB) 13th Annual Meeting of the International Society for Computational Biology (ISCB)
Detroit, MI.
 
2007
Outstanding Achievement Award for Excellence in Bioinformatics and BioEngineering Research. IEEE 7th International Conference on Bioinformatics and BioEngineering.
Boston, MA. October 14, 2007.
http://www.cs.gsu.edu/BIBE07/photoposter.php
 
2008
National Co-chair, CTSA Informatics Operations Committee (with Bill Hersh).
 
2008-
National Co-chair, CTSA Informatics Key Function and Operations Sub Committee (with Dan Masys).
 
2008
Outstanding Achievement Award. Worldcomp’08. Las Vegas, Nevada. July 14, 2008.  http://www.world-academy-of-science.org/worldcomp08/ws/keynotes/keynote_athey
 
2009
Keynote Speaker/Moderator of panel discussion. Biomedical Science and Engineering Center (BSEC). Oak Ridge, TN. March 18-19, 2009.
 
2009
Distinguished Service Award.  Conference Keynote Speaker. Worldcomp ’09.
Las Vegas, Nevada. July 13, 2009.
 
2010
Certificate of Appreciation. Co-Chair of the Informatics. Clinical & Translational Science Award (CTSA) and National Center for Research Resources (NCRR). October 14, 2010.
 
2011
Plenary Keynote Lecture. “Issues Surrounding Enterprise Data Infrastructure and Governance Systems to Support Research at the University of Michigan—A View from the Health System”.  NSF-funded “Data Lifecycle Management” Workshop.  Princeton, NJ. July 19, 2011.
 
2011
Plenary Keynote Lecture.   Research IT Priorities in the Age of “Big Data”. American Association of Medical Colleges (AAMC) – National Library of Medicine Research IT Summit.
 
2012
Conference Co-Chair (with James Cavalcoli); Great Lakes Bioinformatics Conference 2012. May 15-17, 2012.
 
2012
Keynote Address, EU IMI eTRIKS Kickoff Meeting: “tranSMART”, London, England. November 2012.
 
2012
Platform Presentation, CTSA  Informatics Key Function Committee
 
2013
Keynote Presentation. Pharmacogenomics and Clinical Decision Support: How Genomic Medicine will Change the Game in Health IT. 2013 iHT2 Health IT Summit. Fort Lauderdale, FL. June 13, 2013.
 
2013
Keynote Presentation. What is the status quo of the tranSMART landscape. tranSMART developer and user Meeting. Amsterdam. June 17, 2013.
 
2013
Keynote Presentation. Grand Challenges in Cyberinfrastructure & Interdisciplinary Research. 2013 NSF CyberBridges Workshop. Arlington, VA. July 16, 2013.
  ^back to top  
  Memberships in Professional Societies
 
1982-1990
Microscopy Society of America (MSA).
 
1994-
Optical Society of America (Ann Arbor, MI branch)
 
1996-
Friends of the National Library of Medicine (NLM)
 
1997-2003
American Association of Anatomist (AAA)
 
2000-2004
The Society for Computer Simulation International (SCS)
 
2004-
American Medical Informatics Association (AMIA)
 
2005-
International Society for Computational Biology (ISCB)
 
2009-
American College of Medical Informatics (ACMI-nominated as Fellow)
 
2010-
Society for Clinical and Translational Science (SCTS)
 
2014-
BioSocial Methods Collaborative
  ^back to top  
  Editorial Advisory Board
 
2005-
Biomedical Computation Review. Quarterly journal supported by the National Institutes of Health through the NIH Roadmap for Medical Research, Grant U54 GM072970.
 
2008-
Consulting Editor, International Journal of Functional Informatics and Personalized Medicine
 
2008-
Consulting Editor, International Journal of Computational Biology and Drug Design
 
2013-
Editorial Board, Nature Publishing Group Scientific Data
  ^back to top  
  Peer Reviewed Services
 
1995-1999
Ad hoc Reviewer: Office of Naval Research, Defense Advanced Research Projects Agency (DARPA)
 
2000
Reviewer, Army Research Office (ARO)
 
2000
Reviewer/Panel Member, Bioengineering Research Partnership Grants, Special Study Section, National Eye Institute/National Institutes of Health
 
2001
Reviewer/Panel Member, Bioinformatics Study Section, ITR Small Grant Awards, National Science Foundation
 
2002
Reviewer/Panel Member, Washington Advisory Group (WAG) LLC, Missouri Life Science Research Capacity Contracts Program
 
2002-2004
Reviewer/Panel Member, NIH Computational Biology Study Section ZRG1 SSS-H (01), Center for Scientific Review, National Institutes of Health
 
2003-2005
Reviewer/Panel Member, NIH Neuroinformatics Study Section ZRG1 SSS-E (55), Center for Scientific Review, National Institutes of Health
 
2003-2005
Reviewer/Panel Member, NIH Human Brain Project Study Section Center for Scientific Review, National Institutes of Health
 
2003-2005
Reviewer/Panel Member, Integration of Middleware, NSF-NMIA Panel Review, National Science Foundation
 
2003-2006
Reviewer/Panel Member, NIH Biomedical Computing (BISTI) Review Panel, Center for Scientific Review, National Institutes of Health
 
2005-2006
Ad hoc Reviewer, Army Research Office (ARO)
 
2007
Reviewer/Panel Member, special emphasis panel to review RFA DE-07-009. National Institute of Dental & Craniofacial Research
 
2007
Reviewer, Pilot Award, Michigan Institute for Clinical and Health Research (MICHR)
 
2007
Reviewer, Bioinformatics/Computational Workshop on Petascale Applications in Biology, IEEE 7th International Symposium on Bioinformatics & Bioengineering (BIBE 2007)
 
2008
Reviewer, Clinical and Translational Science Awards (CTSA) Panel/Scientific Review Group 2008/05 ZRR1 CR-3
 
2008
Reviewer, Experimental Program to Stimulate Competitive Research (EPSCoR) and Institutional Development Awards (IDeA) Programs in South Carolina
 
2008-
Member, External Advisory Board, Irving Institute for Clinical and Translational Research Columbia University
 
2009
Reviewer, National Institute of General Medical Sciences, National Institutes of Health Large Scale Collaborative Project. Special emphasis panel 01 ZGM1 PPBC-9 (GL)
 
2009
External Reviewer, The Bioinformatics Component of the institutional CTSA, Rockefeller University.
 
2009
Judge, Homer Warner Paper, AMIA 2009
 
2010-
External Reviewer, The Bioinformatics Component of the Institutional CTSA, Rockefeller University
 
2010
External Reviewer, National Institute of Health (NIH) Director’s New Innovator Awards
 
2010
Reviewer, Computation Institute (CI), Argonne National Laboratory (ANL) and
the University of Chicago (UC). University of Chicago
 
2014
Reviewer, National Institutes on Drug Abuse (NIDA). National Institutes of Health
  ^back to top  
  Teaching Activities
  Course Master  
 
2005-2006
Bioinformatics 526: “Introduction to Bioinformatics and Computational Biology.” Rigorous introductory graduate course on fundamental concepts; 4 credit hours (including laboratory). University of Michigan Bioinformatics Graduate Program.
 
2007-
Bioinformatics 527: “Introduction to Bioinformatics and Computational Biology.” Reworked curriculum of BI 526 for BI concentrators and quantitatively-focused graduate students; 4 credit hours (including laboratory). University of Michigan Bioinformatics Graduate Program.
  Course Instructor  
 
1990-1993
Biology 516 and 416: “Biophysical Chemistry.” University of Michigan Department of Biology. Course directed toward first year graduate students and undergraduate seniors.
 
1998
Medical Informatics 608: “Medical Informatics: Theory and Practice.” University of Michigan School of Information (designed and taught jointly with A.J. Warner).
 
1997-1998
Biomedical Illustration 622: “Biomedical Graphical Computing for Artists.” University of Michigan School of Art and Design (assisted by A. Ade, GSI)
 
2007-
Mathematics 547: “Sequence Analysis”; D.M. Burns, Course master; Athey BD, instructor giving 6-8 lectures on chromatin structure and mechanics.
 
2007-
Bioinformatics 525: “Introduction to Bioinformatics.”
Section 006; “Bioinformatics on the Web.”
Section 008; “Bioinformatics and Systems Biology.”
 
2008
Bioinformatics 555: “Introduction to Clinical Informatics”.
  Graduate Short-Course  
 
1991
Anatomy and Cell Biology 850: “A Short-Course in Confocal Microscopy.” A week-long graduate-level introduction to confocal microscopy and related computer image analysis and display techniques.
  Graduate Lectures  
 
1991-1993
Anatomy and Cell Biology 530: “Cell Biology.” Invited lectures on “The Structure of Chromatin” and “The Cell Nucleus.”
 
1992-1994
Engineering 503: “Scientific Visualization.” Invited lecturer on “Visualizing Data Obtained from Microscopes.” College of Engineering graduate-level course.
 
1993-1995
Anatomy and Cell Biology 580: “Morphological Methods of Microscopy.” Invited lecturer on “Basic Confocal Imaging: Theory and Practice.” Directed towards second-year health sciences graduate students.
 
2007-
Translational Research 508: “Introduction to Biomedical Informatics;” “Introduction to Systems Biology”.
 
2012-2012
Internal Medicine 606: “Clinical and Translational Research: Preparing for the Future.”
 
2012
Intro to Health Informatics: “Research domain of Informatics”
  Grand Rounds  
 
1996
“Biomedical Diagnostic Imaging.” University of Michigan Comprehensive Cancer Center Grand Rounds, University of Michigan Hospital.
 
2006
“Biomedical Informatics in the 21st Century and its Potential to Transform Medical Research and Practice.” University of Michigan Medical School, Department of Psychiatry Grand Rounds. (Oct. 18, 2006).
  Departmental Seminars  
 
1991
“Three-dimensional Visualization of Cells and Tissues Using the Confocal Microscope.” Department of Anatomy and Cell Biology.
 
1992
“Confocal Microscopy.” Department of Surgery.
 
1992
“The Light Microscopic Study of Tissues.” Nephrology Division, Department of Internal Medicine.
 
1995
“Medical Informatics, Telemedicine, and the Need for Medical Information Specialists—Opportunities and Challenges.” University of Michigan School of Information.
 
1996
“The Evolution of Microscopy as an Information Science.” University of Michigan School of Information.
 
1998
“Microscopic Holography, Holospaces, and Range Imaging: Recent Results and Future Biological Applications.” University of Michigan Department of Anatomy and Cell Biology.
 
2005
“The DARPA Virtual Soldier Project: Concept and Demonstration.” Bioinformatics Graduate Seminar (April, 2005).
 
2006
“The National Center for Integrative Biomedical Informatics (NCIBI).” Bioinformatics Graduate Program Seminar (Sept. 13, 2006).
 
2007
“Computational and Informatics Approaches to Understanding Physiological and Anatomical Changes During Acute Ballistic Trauma.” Research Discussion. Department of Anesthesiology, University of Michigan (May 16, 2007).
 
2009
“The Relationship Between Informatics and Biomedical Research and Education: Current and Future Perspectives.” Center for Computational Medicine and Bioinformatics Seminar Series, University of Michigan (September 30, 2009).
 
2012
“Introduction to Bioinformatics and Computational Biology and its Applications”.   Health Informatics Leadership Seminar Series, University of Michigan (October 3, 2012).
 
2012
“Informatics Leadership” Health Informatics Leadership Seminar Series, University of Michigan (October 10, 2012).
 
2012
“UMHS IT Plan and Timing.” IT A3 Strategy Series, University of Michigan (November 26, 2012).
 
2013
“Pharmacogenomics in the Age of Quantitative and Systems Pharmacology and the Electronic Health Record.” Pharmacology Seminar Series, University of Michigan (April 17, 2013).
 
2013
“The tranSMART Platform and the tranSMART Foundation: Global Cyberinfrastructure for Integrative Informatics Analysis.” DCM&B Seminar Series, University of Michigan (September 11, 2013).
 
2013
“How Bioinformatics is Transforming Biomedical Research and Practice.” Introduction to Health Informatics, University of Michigan (September 11, 2013).
  Medical School/Hospital
Administration
 
 
2001
“Innovative Technologies for Academic Health Centers.” Given twice to: The Health System Executive Committee and the UMHS Information Technology Strategic Advisory Committee (IT-SAC).
 
2001
“Life Sciences and Bioinformatics Activities in Michigan: Overview and Strategic Considerations.” Invited Presentation to the University of Michigan Health System CIO Executive Committee.
 
2003
Michigan Center for Biological Information (MCBI) self-study report given to: 1) The University of Michigan Medical School Administration (Dean and Associate Dean for Research) and the UM VP of Research; and 2) an invited external review committee of bioinformatics experts.
 
High School Student Mentoring
 
 
1998-1999
K.K. Pandya (Greenhills School; Ann Arbor, MI)
 
2001-2003
B. Root (Pioneer High School; Ann Arbor, MI)
 
2001-2002
D. Welsh (Huron High School; Ann Arbor, MI)
  Undergraduate Student Mentoring  
 
1991-1993
A. Chien (Department of Physics; with J.M. Weinberg)
 
1998-1999
J. Dixon (Gallaudet University Fellow)
 
Undergraduate & Graduate
Student Group Mentoring
 
 
2001-2003
Faculty Leader: University of Michigan Student Chapter, Pugwash International (with support from the University of Michigan Life Sciences Society and Values Program).
 
Masters Student Mentoring
 
 
1993-1994
A.B. Mackersie (M.S., EECS; with D.J. Anderson)
 
1994-1995
P. Ray (MLS, School of Information and Library Studies; with M. Pao and A.J. Warner)
 
1994-1995
P.V. Ketty (M.S., EECS; with D.J. Anderson)
 
1995-1996
J.S. Glick (M.F.A., Medical Illustration; with J.L. Lillie)
 
1995-1996
J. Song (MSI, School of Information; Miranda L. Pao Medical Informatics Student Fellowship; with A.J. Warner)
 
1995-1996
J. Williams (MSI, School of Information; Digital Information Associate Fellow; with A.J. Warner)
 
1995-1996
G. Hsu (M.S., Physiology)
 
1995-1997
H. Fogel (M.S., Biological Sciences)
 
1996
M.A. Nolte (MSI, School of Information; with A.J. Warner)
 
1996
P. McClay (MSI, School of Information; with A.J. Warner)
 
1996-1999
A.S. Ade (M.S., Biological Sciences)
 
2001-2003
G. Durka-Pelok (M.S., Information Sciences; with T. Weymouth)
 
2006-
S. R. Pulagiri (Bioinformatics; with D.M. Burns)
  Doctoral Student Mentoring  
 
1991-1993
D.-Y. Shieu (Ph.D., EECS; D. J. Anderson, Chair; Athey, BD, cognate member)
 
1998-2000
B.S. Hoover (Ph.D., EECS; E.N. Leith, Chair; Athey, BD, cognate member)
 
1998-2003
K.D. Mills (Ph.D., EECS; E.N. Leith, Chair; Athey, BD, Co-Chair and cognate member)
 
1999-2004
D. Wagner (Ph.D., EECS; F. Jahanian, Chair; Athey, BD, cognate member)
 
2000-2003
N. Sowapotowak (Ph.D., EECS; J. Fessler, Chair; Athey, BD, cognate member)
 
2001-2003
A. Zimmerman (Ph.D., School of Information; M. Hedstrom, Chair; Athey, BD, cognate member)
 
2001-2004
T.J. Hacker (Ph.D., EECS; B. Noble, Co-chair; Athey, BD, Co-Chair)
 
2003-2006
W. Chein (Ph.D., EECS; T. Norris, Chair; Athey, BD, cognate member; E.N. Leith, Chair, deceased)
 
2003-2005
J. Han (Ph.D. Pre-Candidate, EECS; F. Jahanian, Chair; Athey, BD, cognate member)
 
2003-2008
S. Subramanian (Ph.D. Candidate, Bioinformatics; Athey, BD, Chair)
 
2003-2008
Y.J. Kim (Ph.D. Candidate, EECS; J. Patel, Chair, Athey, BD, Co-Chair)
 
2005-2008
C. Santos (Ph.D. Candidate, Bioinformatics; Athey, BD, Co-Chair with D.J. States)
 
2005-2008
Y. Tian (Ph.D., Candidate, Computer Science and Engineering; Athey, BD, Co-Chair with J. Patel)
 
2006-2012
S. Sarntivijai (Ph.D. Pre-Candidate, Bioinformatics; Athey, BD, Co-Chair with D.J. States)
 
2008-2014
G. Su (Ph.D., Candidate, Bioinformatics; Athey, BD, Co-Chair with Fan Meng)
 
2009-2011
A. Shah (Ph.D.,Candidate, Bioinformatics; Athey BD, Co-Chair with Peter Wolfe)
 
2011-
A. Allyn-Feuer (Ph.D. Pre-Candidate; BD Athey, Chair)
  Postdoctoral Scholar Mentoring  
 
1991
Dr. G. Avinash (Ph.D., Bioengineering, University of Michigan; with A.L. Nuttal)
 
1993-1994
Dr. C. Viguie (Ph.D. Nutrition, University of California, Berkeley; with B.M. Carlson)
 
1994-1995
Dr. G.D. Guttmann (Ph.D., Biophysics; University of California–Berkeley)
 
1999-2002
Dr. I. Lee (Ph.D., Biophysics, Korean National University; with J.R. Baker, Jr.)
 
2002-2005
Dr. A.D. Boyd (M.D., University of Texas Southwestern)
 
2003-2004
Dr. A.A. Dombkowski (Ph.D., University of Michigan)
  Fellow and House Officer Mentoring  
 
2005-2007
Dr. J. Norman (M.D., Ph.D., Stanford University); Biomedical Informatics
 
2005
Dr. D. Hanauer (M.D., Harvard Medical School); Biomedical Informatics
  Visiting Faculty Collaborators
(On Sabbatical or Visiting Professors)
 
 
1993
G.J. Brakenhoff, Ph.D. (Professor, University of Amsterdam)
 
1996
C.E. Schutt, Ph.D. (Professor, Department of Chemistry, Princeton University)
 
1997
A.J. Warner, Ph.D. (Associate Professor; University of Michigan, School of Information)
 
2002
B. Orr, Ph.D. (Professor, Department of Physics, University of Michigan)
 
2002
D.R. Hilbelink, Ph.D. (Professor, Department of Anatomy, University of South Florida)
 
2004
K.V. Mardia, Ph.D. (Senior Research Professor, University of Leeds)
  ^back to top  
  Visiting Professorships, Seminars, and Extramural Invited Presentations
 
1.
“Envisioning Information,” Institute Faculty, visiting professorship and invited participant in the Prairie Festival, The Land Institute. Salina, KS. May 1992.
 
2.
“A Systems Approach to Visualizing Confocal Microscopy Data in Three Dimensions,” extramural departmental seminar. Department of Biomedical Engineering, University of California–San Diego. March 1993.
 
3.
“An Efficient Surface Rendering Technique Using Fourier Descriptors to Visualize Three-Dimensional Biomedical Image Data Sets,” Invited extramural presentation, IEEE 36th Midwest Symposium. August 1993.
 
4.
“Visualizing 3-D Biological Structure Using the Confocal Microscope,” invited extramural presentation, Optical Society of America, Michigan Chapter. Ann Arbor, MI. 1994.
 
5.
“Confocal Microscopy of Tissues and Cells of Clinical Interest,” extramural departmental seminar, Department of Biology, Oakland University, Rochester, MI. 1994.
 
6.
“A Networked Computer System to Visualize Reconstructed Embryos in Three Dimensions,” invited extramural presentation, NICHD Workshop on Computer-Assisted Embryo Imaging. National Institutes of Health. May 1994.
 
7.
“A Modern Imaging Collaboratory for Anatomy,” invited extramural presentation and plenary speaker, FASEB meeting, Atlanta, GA. May 1995.
 
8.
“Medicine and Terabits,” invited extramural presentation and guest faculty, University of Michigan College of Engineering/State of Michigan Joint Conference (with Wistra Institute/Republic of Germany) on Ultra Highspeed Optical Networks. October 1996.
 
9.
“Using the Visible Human as an Image Database Locator,” invited extramural presentation, National Library of Medicine First Annual Conference on the Visible Human, October, 1996.
 
10.
“Tissue Imaging,” invited extramural presentation, Defense Science Research Council, November, 1996.
 
11.
“Semi-Automated Electron Microscopy Service for Pathology,” guest faculty and member/plenary lecturer, First Annual Conference on Anatomic Pathology Informatics, Imaging, and the Internet. Visiting Professorship and conference co-founder (now in 10th year). University of Pittsburgh Medical Center. November 1996.
 
12.
“GIS and Medicine: New Frontiers.” A half-day workshop organized by Athey BD and given to the University of Michigan research community. Funded by the University of Michigan Office of the Vice-President for Research and the Rackham School of Graduate Studies. March 1997. Organizer and visiting Professorship.
 
13.
“Multi- and Hyper-spectral Geo-sensing Capabilities Transferred to the Microscope and Mesoscope,” invited extramural presentation and guest faculty, First International Conference of Multispectral Microscopy, Warner-Lambert, Parke-Davis Research Division. June 1997.
 
14.
“Visualizing the Patten Embryological Collection,” invited extramural presentation, National Institute of Child Health and Development. October 1997.
 
15.
“Modeling of Biological Systems (MOBS),” visiting professorship and invited participant, course planning session. Woods Hole Marine Biological Laboratory. R. Silver, Course Director, supported by the Burroughs Welcome Foundation. January and March 1998.
 
16.
“The Visible Human Female WWW Browser and the Next Generation Internet (NGI),” invited extramural presentation, 2nd Visible Human Conference, Bethesda, MD. October 1998.
 
17.
“A Virtual Reality System for Human Gross Anatomy Instruction,” invited extramural presentation, Medicine Meets Virtual Reality 7; San Francisco, CA. January 1999.
 
18.
“NGI Delivery of Visible Human Data in Support of Anatomy Training,” invited extramural presentation, Pittsburgh Supercomputing Center Speaker Series, Carnegie Mellon University, Pittsburgh, PA. April 1999.
 
19.
“Nanoscale Platforms for Therapeutic Delivery,” invited extramural presentation. Defense Sciences Research Council. September 1999.
 
20.
“High Performance Landmark Driven Navigation of the Visible Human,” invited extramural presentation, AIPR, Cosmos Club, Washington, D.C. October 1999.
 
21.
“Visualization and Manipulation of Visible Human Datasets Using the Next Generation Internet (Internet2),” invited extramural presentation, Metropolitan Washington Computer Assisted Surgery Society. March 2000.
 
22.
“Postmodern Anatomy and its Enabling Technologies,” member of the conference organizing committee and invited extramural presenter, First Annual Digital Human Workshop, National Library of Medicine. 2000.
 
23.
“Visible Human Project Distributed Visualization,” only NIH selected, invited extramural presentation (with T.J. Hacker), NGI/NREN Workshop V, Gigabit Networking: The End-to-End View. NASA Ames Research Center, Moffett Field, CA. This conference was organized by the White House Presidential Information Technology Advisory Committee (PITAC), and the NASA National Research and Education Network (NREN). August 14-16, 2000.
 
24.
“Towards a Visible Human National Educational Collaboratory,” invited extramural presentation, The Third Visible Human Project Conference, NLM, Bethesda, MD. Oct 6th, 2000
 
25.
“Directed Nano-Dendrimeric Modeling and Simulation.” invited extramural presentations, given 3 times: 1) National Cancer Institute Unconventional Innovations Program (UIP) PI Meeting; 2) The Midwest Clinical Society (Chicago, IL), and 3) the BioMEMS and Biomedical Nanotechnology 2000 Conference, Columbus, OH; October 2000.
 
26.
“21st Century Pathology Informatics and Integration into the Emerging Hospital Information System,” keynote address, invited extramural presentation, American College of Pathology, San Diego, CA. October 2000.
 
27.
“Account Allocations on the Grid,” invited extramural presentation, First Global Grid Forum & European Data-grid Conference, Account Models Research Group. Amsterdam, Netherlands. March 4-9, 2001.
 
28.
“Michigan’s Emerging Position in the Global Information Infrastructure for the Life Sciences,” Invited extramural presentation. Van Andel Research Institute. March 2001.
 
29.
“How to Move from Static to Something Moving End-to-End or The How? And Why? Of Infrastructure,” Invited extramural presentation, Internet2 National Meeting, Washington, D.C. April 2001.
 
30.
“Michigan-Based Imaging Capabilities to Respond to Terrorist Threats,” invited extramural presentation – Government. Private briefing given to Senator Carl Levin, Ranking Member: Senate Armed Services Committee. November 2001.
 
31.
“Grid Computing Solutions for the Physical and Life Sciences,” Invited extramural presentation, SC2001 Sun HPC Consortium, Denver, CO. November 11, 2001.
 
32.
“A Methodology for Account Management in Grid Computing Environments,” Invited extramural presentation, SC2001 Grid 2001 Workshop, Denver, CO. November 12, 2001.
 
33.
“Application Responsibilities in End-to-End Network Performance,” invited extramural presentation, SC2001 Internet2 End-to-End Performance Workshop, Denver, CO. November 15, 2001.
 
34.
“Maximizing End-to-End Network Performance,” invited extramural presentation, High Energy/Nuclear Physics Internet2 Working Group, Ann Arbor, MI. October 5, 2001.
 
35.
“Deploying Scalable Information Infrastructure (SII) End-to-End: The Role of Middleware and Standards,” Invited extramural presentation, International Conference on Virtual Worlds and Simulation, San Antonio, TX. January 27-31, 2002.
 
36.
“Deploying Scalable Information Infrastructure (SII) End-to-End: The Role of Middleware and Standards,” invited extramural presentation made to the Surgeon Generals of all the U.S Military Services – Government, U.S. Department of Defense ASBREM off-year TARA review. Baltimore, MD. February 13-14, 2002.
 
37.
“The End-to-End Performance Effects of Parallel TCP Sockets on a Lossy Wide-Area Network,” invited extramural presentation, IEEE-CS/ACM International Parallel and Distributed Processing Symposium (IPDPS), April 2002.
 
38.
“Simplification and Diversity: An Ecosystem Mimic to the Rapid, Robust Scalable Information Infrastructure (SII) Deployment of CBNR Trauma Environments,” invited briefing for White House input – Government, special seminar to Dr. Robert Foster, Director of Biosystems, DDR&E, Undersecretary of Defense for S&T. April 2002.
 
39.
“How to Avoid Spaghetti While Scaling Just-in-Time Training Capabilities,” visiting professorship, NASA/MITAC Conference on Just-in-Time Training in Medicine. Virginia Commonwealth University. May 13, 2002.
 
40.
“The Michigan Center for Biological Information (MCBI).” Invited extramural presentation, Michigan Life Sciences Corridor Biotechnology Symposium, Lansing, MI. May 14, 2002.
 
41.
“Bioinformatics and IT Infrastructure for the Life Sciences,” visiting professorship and speaker, CIMIT and the Harvard/MIT HST Program, Boston, MA. July 16, 2002.
 
42.
“Experiences Using Web100 for Visible Human Testbeds,” invited extramural presentation, Web100 Evaluator’s Workshop, Boulder, CO. Aug. 1, 2002
 
43.
“UM BioGrid Update,” invited extramural presentation and onference organizer, given at Michigan Center for Biological Information (MCBI), to state-wide audience. Sept. 17, 2002.
 
44.
“The Visible Human Today,” plenary speaker, invited extramural presentation, iGrid 2002 Conference. Amsterdam, Netherlands. September 26, 2002.
 
45.
“Bioinformatics and Bioimaging IT Infrastructure: What is the MCBI and the CTA?” seminar, the1st Annual Conference of Pathology Bioinformatics, University of Michigan. November 13, 2002.
 
46.
“Future Needs for Bioinformatics, Computational Biology, Bioengineering, and Biomedical Imaging Requiring Next Generation Supercomputing,” invited extramural presentation – Government, DARPA High Productivity Computing Systems (HPCS) Workshop, Arlington, VA. January 17, 2003.
 
47.
“Future Needs for Bioinformatics, Computational Biology, Bioengineering, and Biomedical Imaging Requiring Next Generation BioGrids,” visiting professorship, SURA Biogrid Workshop Research Triangle Park, NC. January 29, 2003.
 
48.
“Future Needs for Bioinformatics, Computational Biology, and Health Sciences Informatics Requiring Next Generation BioGrids,” invited extramural presentation – Government, Tripler Army Medical Center (TAMC), Honolulu, HI. February 27, 2003.
 
49.
“Optimizing H.P. Computing Grid Resources for the Bioterrorism Application,” invited extramural presentation – Government, U.S. Army DoD Pacific Command. Bioterrorism Retreat, Maui High Performance Computing Center (MHPCC). Maui, HI. March 1, 2003.
 
50.
“Lessons Learned: 12 Years of the Visible Human at the University of Michigan,” invited extramural presentation, Plenary panel talk, FASEB. April 18, 2003.
 
51.
“MCBI’s Plans: Biological Data Integration,” conference organizer, invited extramural presentation, Michigan Center for Biological Information (MCBI) Retreat, Lansing, MI. August 20, 2003.
 
52.
“Next Generation Internet (NGI) Implementation to Serve Visible Human Datasets Phase II: Development of Test Beds,” invited extramural presentation, NLM/NGI Visible Human Reverse Site Visit, Bethesda, MD. August 26, 2003.
 
53.
“Life Sciences Informatics Grids: Myth, Reality and Promise,” visiting professorship, Scientific Computing Workshop - WSU: Plenary Lecture, Detroit, MI. September 19, 2003.
 
54.
“Modeling and Simulation to Enhance Bioterrorism Preparedness,” invited extramural presentation – Government, BioTerrorism Summit, Honolulu, HI. October 20, 2003.
 
55.
“Funding opportunities for Bioinformatics US Army OntoExpress,” invited extramural presentation – Government, USAMRMC Bioinformatics Workshop, Fort Detrick, MD. November 4, 2003.
 
56.
“SEWG: Human Aided Information Processing Systems for Data Exploration, Analysis and Decision Making,” invited extramural presentation - Government, DARPA Systems Engineering Working Group, Palo Alto, CA. March 3, 2004.
 
57.
“Information Technology Security as Intertwined with Privacy and Confidentiality in Biomedical Research,” Invited extramural presentation, 12th annual University of Miami Conference, Clinical Ethics: Debates, Decisions, Solutions. Miami, FL. April 16, 2004.
 
58.
“The DARPA Virtual Soldier Program: Presentation to members of the Michigan Congressional Delegation,” invited extramural presentation - Government, July 14, 2004.
 
59.
“Challenges of HIPAA Regulations in Academic Biomedical Research,” invited extramural presentation. MedInfo 2004. Sept. 7-11, 2004.
 
60.
“Clinical Research Information Fabric: A Federated Clinical Research Infrastructure Approach,” invited extramural presentation. A.D. Boyd, D.A. Junscher, K.A. Smith, A.C. Bliton, J.C. Ogden, D.A. Williams, Athey BD, J.F. Greden, and D.C. Clauw. Inventory and Evaluation of Clinical Research Networks (IECRN) Conference. Rockville, MD. May 31, 2004.
 
61.
“Walden: A Scalable Solution for Grid Account Management,” Kirschner BA, Hacker TJ, Adamson WA, and Athey BD, invited extramural presentation at the 5th International Workshop on Grid Computing (GRID 2004). Pittsburgh, PA. November 8, 2004.
 
62.
“The Virtual Soldier Project,” invited extramural presentation, keynote address plenary lecture, Medicine Meets Virtual Realty (MMVR). January 27, 2005.
 
63.
“The Challenges of Big 'Science' and the Limits of the Individual,” visiting professorship, IUPS Physiome Project, http://nbcr.net/physiome/schedule.htm San Diego, CA. March 30, 2005.
 
64.
“The DARPA Virtual Soldier Project and Human Systems Biology.” visiting professorship, Computational Physiology: From Genome to Physiome. San Diego, CA. March 30, 2005.
 
65.
“Biophotonics and Biosensors: Applications to Medicine - Lessons from Michigan,” visiting professorship and keynote address, Emerging Technology Seminar. University of Hawaii-Manoa, Honolulu, HI. April 14, 2005.
 
66.
Opening and Closing Addresses. 13th International Society of Molecular Biology Annual Meeting. Conference Co-organizer, invited extramural presentation. June 25-29, 2005.
 
67.
“The DARPA Virtual Soldier Program. A Multiscale Experiment, Modeling, Simulation R&D Program,” invited extramural presentation - Government. US Army Research Office (ARO) Workshop - 'Multiscale Phenomenon: Experiment, Theory, and Modeling.' Closed strategy meeting. Army Research Office Headquarters. Research Triangle Park, Durham, NC. July 17, 2005.
 
68.
“The Challenges of Big Science and the Limits of the Individual: Case Studies of the NLM Visible Human and the DARPA Virtual Soldier Projects,” invited extramural presentation, American Medical Informatics Association (AMIA). Washington, D.C. October 23, 2005.
 
69.
“The Virtual Patient, the Digital Human, and Integrative Biomedical Informatics,” invited extramural presentation, Medicine Meets Virtual Reality (MMVR-14). Long Beach, CA. January 26, 2006.
 
70.
"An 'Honest Broker' Mechanism to maintain Privacy for Patient Care and Academic Medical Research," Boyd AD, Hosner C, Hunscher DA, Athey BD, Clauw DJ, Green LA. Presentation to Health Care Information Security Working Group, International Medical Informatics Association, Dijon, France. April 28, 2006.
 
71.
“A Multiscale Experimental, Modeling and Simulation R&D Program,” invited extramural presentation, Society for Medical Innovation and Technology (SMIT), Asilomar, CA. May 11, 2006.
 
72.
“Multiscale Modeling, Systems Biology, and the Digital Human Project - Statistical Perspectives,” visiting professorship, Plenary Keynote Lecture. Leeds 25th Annual Statistical Research Workshop (LASR), University of Leeds, Leeds United Kingdom. July 4, 2006.
 
73.
“Two Biomedical Research Paradigms and Emerging Issues,” invited extramural presentation, Science Commons Symposium at the National Academy of Sciences (NAS). Oct. 3, 2006.
 
74.
“The Emergence of Human Systems Biology and its Origins in the Visible Human Project,” visiting professorship. Plenary Keynote Lecture, Keck Center 16th Annual Research Conference, Texas Medical Center, Houston, TX. October 13, 2006.
 
75.
“From the 20th Century to 'Flatland': Computational Medicine and Biology in the 21st Century,” invited extramural presentation to IBM Research and Life Sciences Executive Leadership, Wadsworth Labs, White Plains, NY. October 24, 2006.
 
76.
“Diabetes Research Opportunities in Collaboration with the NIH National Center for Biomedical Informatics (NCIBI),” invited extramural presentation, NIDDK Diabetes Research and Training Center Directors Annual Meeting. November 1, 2006.
 
77.
“The Clinical Translational Sciences Award (CTSA) and Informatics,” invited extramural presentation, American Medical Informatics Association (AMIA) 2006. Brian Athey and Joel Saltz, Panel Co-Chairs. November 13, 2006.
 
78.
“The Future of the NLM Visible Human,” invited participant, Planning Meeting: Visible Human Project: Scope and Scale for the Future. Bethesda, MD. Jan. 16, 2007.
 
79.
“From the 20th Century to 'Flatland' - Fissures in the Biomedical Knowledge Landscape: Challenges, Opportunities, and Responsibilities,” invited extramural presentation, Designing Cyberinfrastructure for Collaboration and Innovation. Emerging Frameworks and Strategies for Enabling and Controlling Knowledge. National Academy of Engineering, Washington, D.C. Jan 29-30, 2007.
 
80.
“Towards Personalized Medicine in Surgery: Anatomical Variation, Multiscale Data, and Bringing Together Practice, Education, and Training,” invited extramural presentation, and Panel: Interactive Real-Time Surgical Education on the Web: Exploring the New Paradigm in the Age of Google. Medicine Meets Virtual Reality. Long Beach, CA. Feb. 15, 2007.
 
81.
“Biomedical Informatics in the 21st Century and its Potential to Transform Biomedical Research and Practice,” invited extramural presentation, Scientific Computing Institute (SCI), University of Utah. May, 2007.
 
82.
“The NIH National Center for Biomedical Informatics - Overview and Collaborative Opportunities,” Invited extramural Platform presentation, INDY 2007 Midwest Regional Bioinformatics Conference. Indianapolis, IN. May 31, 2007.
 
83.
“Integrating Biomedical Informatics: Overview and Collaborative Opportunities with the NIH National Center for Integrative Biomedical Informatics (NCIBI),” NBCR Summer Institute, Cyberinfrastructure & Multiscale Modeling, visiting professorship, UCSD. LaJolla, CA. July 30, 2007.
 
84.
“The NIH National Center for Biomedical Informatics (NCIBI)--Integrating Biomedical Informatics: Overview and Collaborative Opportunities.” IMSCCS 2007: Cyberinfrastructure-enabled Computational Science. Keynote Address. University of Iowa, Iowa City, IA. August 8, 2007.
 
85.
“Federating and Growing High Performance Computing and Data Environments to Support Research at the University of Michigan Medical School.” Harvard Biomedical HPC Leadership Summit 2007. Invited plenary presentation. October 1, 2007.
 
86.
“The NIH National Center for Biomedical Informatics (NCIBI)--Integrating Biomedical Informatics: Overview and Collaborative Opportunities.” IEEE 7th International Symposium on BioInformatics and BioEngineering (BIBE). Keynote Address. October 14, 2007.
 
87.
“Interoperable Informatics Systems in Cancer Center Collaborative Networks.” American Association of Cancer Institutes Annual Meeting. Invited plenary presentation. October 29, 2007.
 
88.
“Introduction to a Systems View of Biology, Toolbox for Systems Biology American Society of Nephology.” Invited plenary presentation. San Francisco, CA. November 3, 2007.
 
89.
“Digital Biomedical Research Driving IT Transformation at the University of Michigan Medical School and Health System – Preventative Medicine for Security Leaks.” Clinical Research Forum IT Roundtable. Invited plenary presentation. Washington, DC. November 5, 2007.
 
90.
“Collaborate to Compete —An Introduction to the NIH National Center for Integrative Biomedical Informatics (NCIBI).” NIDA Genetics Consortium Meeting. Invited presentation. Rockville, MD. November 27, 2007.
 
91.
“Application and Architectural Challenges in Basic, Clinical, and Translational Research (Panel).” caGrid Roadmap Workshop. Invited presentation. Columbus, OH. February 20, 2008.
 
92.
“Integrative Biomedical Informatics’—What Has Been Done and What is Left to Do?” Electrical Engineering and Computer Science Department Colloquium Seminar at Case Western Reserve University. Invited presentation. March 4, 2008.
 
93.
“The NIH National Center for Integrative Biomedical Informatics (NCIBI).” Co-chair of the National Biomedical Computing Centers (NCBC’s) plenary panel. San Francisco, CA. March 10, 2008.
 
94.
Athey, BD, Becich M, Ellisman M, Saltz J (2008) S03-Panel: Towards a Set of Unified NIH Computational, Data, and Community Infrastructures to Support Translational Bioinformatics. AMIA 2008 Summit on Translational Bioinformatics Conference. San Francisco, CA. March 10-12, 2008.
 
95.
“The Emerging Field of Translational Bioinformatics – A National Perspective.” Worldcomp ’08. Keynote Address. Las Vegas, Nevada. July 14, 2008.
 
96.
“Working Group Report #3 Data Mining and Analytics.” AMIA Invitational Conference reporter. Reston, VA. September 15, 2008.
 
97.
“The Emerging Field of Translational Bioinformatics – A National Perspective.” Second Annual Midwest Symposium on Computational Biology & Bioinformatics. Member of the advisory committee. Urbana-Champaign, IL. October 4, 2008.
 
98.
"The Emerging Field of Translational Bioinformatics-A National Perspective." Indiana University School of Informatics Colloquia. Indianapolis, Indiana. October 10, 2008.
 
99.
"Integrative Biomedical Informatics as a Means to Accelerate Clinical and Translational Research." US Critical Illness and Injury Trials Group. Invited presentation. Bethesda, MD. November 19, 2008.
 
100.
“The Emergence of Translational Bioinformatics – A National Perspective”. Bioinformatics and Systems Biology. Invited presentation. Boston, MA. December 11, 2008.
 
101.
“Translational Bioinformatics in Support of Real and Virtual Patients”. The 17th Annual MMVR Conference NextMed: Design for/the Well Being. Invited presentation. Long Beach, California. January 20, 2009.
 
102.
“The Emerging Field of Translational Bioinformatics-Lessons from the CTSA”. Georgetown University Biomedical Informatics Group. Invited presentation. Washington, DC. January 28, 2009.
 
103.
“Key Function Committee Overview”. NCRR Advisory Council. Invited presentation.
Bethesda, Maryland. February 12, 2009.
 
104.
“Keeping up with Bioinformatics and Computational Biology-Where have we been?
Where are we going?” First Annual ORNL Biomedical Science and Engineering Conference.
Keynote Address.  Oak Ridge, Tennessee. March 14, 2009.
 
105.
“Keeping up with Bioinformatics and Computational Biology as applied to Biomedicine—
Where has it been?  Where is it going?” Bioinformatics Symposium. Keynote Address.
Columbia, South Carolina. April 14, 2009.
 
106.
“Data Explosion and Complexity in Bioinformatics (aka Cellular Systems Biology).”
SBE&S Conference. US National Academy of Sciences (NAS). Keynote Address.
Washington, DC. April 22, 2009.
 
107.
“Data Explosion and Complexity in Bioinformatics (aka Cellular Systems Biology).”
Worldcomp ’09. Keynote Address
Las Vegas, Nevada. July 13, 2009.
  108. “Integrative Biomedical Informatics at the Beginning of the 21st Century"
Duke University, NSF Workshop on HPC Center Sustainability.
February 23, 2010
  109. "The Relationship Between Informatics and Biomedical Research & Education: Current and Future Perspectives." Center for Computational Medicine and Bioinformatics Seminar Series.
Invited presentation.
Ann Arbor, MI. September 30, 2009.
  110. "NCIBI-An NIH NCBC Resource to Enhance Basic and Translational Research." The Annual P41 Directors Meeting. Invited presentation.
Bethesda, MD. October 13, 2009.
  111. "Bioinformatics in the Age of Translational Medicine." Graduate Seminar for the Utah
Department of Biomedical Informatics. Invited presentation.
Salt Lake City, UT. December 10, 2009.
  112. “Interdisciplinary Research” UROP Seminar Series. Invited presentation. Ann Arbor, MI.
February 17, 2010.
  113. “Integrative Biomedical Informatics at the Beginning of the 21st Century.” University of
North Carolina CTSA. Invited presentation. Durham, North Carolina. February 22, 2010.
  114. “Integrative Biomedical Informatics at the Beginning of the 21st Century.” Duke
University. Invited presentation. North Carolina. February 23, 2010.
  115. “Networks of Researchers” AMIA 2010. Session chair. San Francisco, CA. March 10,
2010.
  116. “Late Breaking Presentations.” AMIA 2010. Sesson chair/moderator. San Francisco, CA.
March 12, 2010.
  117. “Bioinformatics in the Age of Translational Medicine.” ACRT-SCTS Meeting. Invited Presentation. Washington, DC. April 7, 2010.
  118. “New Approaches in Information Technology to Support Translational Research.” ACRT-SCTS Meeting. Session chair. Washington, DC. April 7, 2010.
  119. “CTSA Biomedical Informatics as a means to leverage local and national resources and
capabilities to improve clinical research and translational effectiveness.” Annual UC Davis CTSC Retreat. Keynote speaker. Sacramento, CA. June 29, 2010.
  120. “CTSA Biomedical Informatics as a Means to Leverage Local and National Resources to
Improve Clinical Research and Translational Effectiveness.” Cytoscape Meeting. Invited
presentation. Ann Arbor, MI. July 19, 2010.
  121. “Collexis and VIVO Paving the Collexis Pathway to the National Research Network.”  The
First Annual VIVO National Conference. Invited presentation. Queens, NY. August 13, 2010.
  122. “UM Clinical Research Epic Interface Discussion.” Epic Research Meeting. Invited
presentation. Ann Arbor, MI. October 12, 2010.
  123. “Informatics.” Michigan Institute for Clinical and Health Research and University of
Michigan Comprehensive Cancer Center Collaborations Meeting. Invited presentation. Ann Arbor, MI. October 14, 2010.
  124. “Translational Biomedical Informatics 2010: Infrastructure and Scaling.” Third Annual
Personalized Health Care National Conference. Invited presentation. Columbus, OH.
October 14, 2010.
  125. “Informatics, Information Technology, and Collaboration: Impact and Future Vision?”
MICHR External Advisory Board Meeting. Invited presentation. Ann Arbor, MI. October
15, 2010.
  126. “Virtual Physiological Human (VPH).” ARGOS Meeting. Invited presentation.
Washington, DC. November 12, 2010.
  127. “Establishing Data Infrastructures for ‘Omics and other Systems Biology Technologies.”
Panel Chair. The Promise, Pitfalls, and Policy Implications of Whole Genome
Sequencing. Society for Clinical and Translational Research. Washington, DC. April 29, 2011.
  128. ‘Big Data’ Integration and Collaborative Analysis, 2011.” 6th Annual NCIBI Annual
Research Meeting, 3rd Annual RCMI/NCIBI Ann Arbor Meeting. Keynote address.
Ann Arbor, MI. June 28-29, 2011.
  129. “Issues Surrounding Enterprise Data Infrastructure and Governance Systems to Support
Research at the University of Michigan—A View from the Health System.”  Data
Lifecycle Management Workshop.  Keynote address.  Princeton, NJ. July 19, 2011.
  130. “One Mind for Research Presentation.” Unleashing the Power of Health Information
Technology for Wounded Warriors: Liberating Data for Research Symposium.
Washington, DC. November 14, 2011.
  131. “Informatics and IT to Enable Personalized Medicine and Healthcare: What is Really
Needed?” Cyberinfrastructure Days. Ann Arbor, MI. December 1, 2011.
  132. “1Mind4Research PTSD – TBI Research Platform: Moving the Needle” or “Building a
Platform to ‘Stay off the Grid’.” Keynote address. LaJolla, CA. January 10, 2012.
  133. “Bioinformatics, Clinical, and Health Informatics and the CTSA: Creating new science and sustainable partnerships with Academic and IT Units.” ICTS Special Symposium. Iowa City, Iowa. January 25, 2012.
  134. “Big Data, Big Opportunities: It’s time to Roll up our sleeves and get to work!” Big Data
Management Conference. Keynote address. Milwaukee, Wisconsin. March 1, 2012.
  135. “SaaS-Based Translational Research: The Path to Reality for “Research in the Cloud.”
AMIA 2012 Joint Summits on Translational Science. Panelist. San Francisco, CA.
March 19, 2012.
  136. “tranSMART: an Open Source Analytical and Data Sharing Informatics Platform Enabling
Translational Research.” AMIA 2012 Joint Summits on Translational Science. Panelist. San Francisco, CA. March 20, 2012.
  137. “Translational Bioinformatics 2012: Priorities and Challenges ahead.” Federal Drug
Administration. Invited presentation. Bethesda, MD. March 26, 2012.
  138. “Informatics for Integrating Biology and Bedside.” Informatics: Driving Discovery,
Improving Health (IDD 2012). Invited presentation. Cleveland, OH. April 6, 2012.
  139. “Integrating Genomics and ‘Omics Data Representation into the EHR “Driving Principles
into Practice.” IT Roundtable. Invited presentation. Washington, DC. April 17, 2012.
  140. “Why can’t we build disease models together?” 2012 Sage Bionetworks Commons
Congress. Panelist. San Francisco, CA. April 20, 2012.
  141. “Introducing tranSMART: An Open Source and Community-Driven Data Sharing and
Analytics Platform for Translational Research.” International Conference on Intelligent
Biology and Medicine. Keynote address. Nashville, TN. April 23, 2012.
  142. “The UMHS as a Learning System” UM Learning Health System Workshop. Panelist
Ann Arbor, MI. May 22, 2012.
  143. “TBI-PTS Knowledge Integration Program.” One Mind for Research Conference. Panelist.
Los Angeles, CA. May 24, 2012.
  144. “Collaboration and Crowdsourcing to Accelerate Translational Medicine.” BioArbor.
Presentor. Ann Arbor, MI. June 7, 2012.
  145. “Innovation and the HER at Michigan-A case study”. Visiting Professor. Boston, MA.
September 10, 2012.
  146. “The National Library of Medicine’s Visible Human Project” 48th HPC User Forum
Meeting. Invited presentation. Dearborn, MI. September 19, 2012.
  147. “tranSMART Update October 18, 2012” OSEHRA Open Source EHR Summit & Workshop. Invited presentation. Prince Georges County, MD. October 18, 2012.
  148. “Interoperable Apps in the Biomedical Space”. Joint Pistoia Alliance TM Forum “Life Science R&D-App Strategy” Workshop. Invited presentation. Morristown, NJ. October 26, 2012.
  149. “tranSMART Update November 2, 2012”. eTRICKS Track #4 Kickoff Meeting, IMI   European Union. London, UK.
  150. “Building the SMART Platforms Ecosystems: Toward an Apps-based Health Information Economy.”  Invited presentation. Chicago, IL. November 5, 2012.
  151. “Rethinking the “Honest Broker” in the Changing Face of Security and Privacy.”
AMIA 2012 Annual Symposium. Panelist. Chicago, IL. November 6, 2012.
  152. “tranSMART: An Open Source Data Sharing and Analytics Platform for Clinical and
Translational Research.” 2012 CTSA Annual Informatics Meeting. Panelist. Chicago, IL.
November 7, 2012.
  153. “tranSMART: An Emerging Global Open Source Community for Data Sharing and
Informatics Analysis.” Systems Biology Seminar. Invited presentation. Boston, MA.
November 15, 2012.
  154. “Rapid Launch of the tranSMART Foundation.” Partnering for Cures. Invited presentation. New York City. November 29, 2012.
  155. “Big Data Lifecycle Management in Biomedical Research in Academic and Pharmaceutical Settings: Current State and Future Trends”.  NIST Joint Cloud-Bigdata Workshop. Panelist. Gaithersburg, MD. January 16, 2013.
  156. “The tranSMART Foundation Community Kickoff.” tranSMART Meeting. Invited
presentation. Ann Arbor, MI. February 12, 2013.
  157. “tranSMART Update: Challenges, Opportunities, and the Collaborative Roadmap to
Enhance Stakeholder Data Sharing and Analytics.” Systems Pharmacology for the
Prediction of Tyrosine Kinase Inhibitor non-QT Cardiotoxicity Workshop. Invited
presentation. Bethesda, MD. February 28, 2013.
  158. “tranSMART Workshop Building a Global Translational Research Analytics and Data
Sharing Platform.” Bio-IT World. Invited presentation. Boston, Mass. April 9, 2013.
  159. “Data-sharing and bioinformatics platforms to encourage efficiency and progress in the PGx field”.  3rd Annual World PGx Summit. Invited presentation. San Francisco, CA. May 2, 2013.
  160. “What is the status quo of the tranSMART landscape?” Mental Health Services, Genomic
Medicine and Patient Care, Thomson Reuters. Invited presentation. OSEHRA WebEx. June 18, 2013.
  161. “Grand Challenges in Cyberinfrastructure & Interdisciplinary Research.” 2013 NSF
CyberBridges Workshop. Invited presentation. Arlington, VA. July 16, 2013.
  162. “The tranSMART Translation Bioinformatics Platform.” Consortium for Oral Health
Research and Informatics. Invited presentation. July 26, 2013.
  163. “The tranSMART Platform and the tranSMART Foundation: Global Cyberinfrastructure for Integrative Informatics Analysis.” Brown University. Invited presentation. Providence, RI. September 25, 2013.
  164. “Technological Applications in Research: Big Data: How Might the NNDC Put it
Together?”  The National Network of Depression Centers 2013 Annual Conference.
University of Michigan. Invited presentation. Ann Arbor, MI. October 8, 2013.
  165. “Genomics and Personalized Medicine: What CIOs and IT Professionals Must Know.”
UMHS Infrastructure and System Operation Meeting. University of Michigan. Invited
presentation. Ann Arbor, MI. October 11, 2013.
  166. “tranSMART Community Meeting.” tranSMART Community Meeting. Invited
presentation. Chilly-Mazarin, France. November 5, 2013.
  167. “tranSMART Foundation Membership Program: Building the tranSMART Community.”
tranSMART Community Meeting. Invited presentation. Paris, France. November 6, 2013.
  168. “tranSMART Overview University of Michigan-Johns Hopkins University-Collaboration. Sanofi tranSMART Meeting. Invited presentation. Paris, France. November 6, 2013.”
  169. “Personalized Medicine Advances in Neuropsychiatric Disorders.” PMWC 2014 Silicon
Valley. Invited presentation. Mountain View, CA. January 27, 2014.
  ^back to top  
 
Committee and Administrative Service

 
International
 
 
2000-2002
Biological Weapons Working Group, Federation of American Scientists (FAS). Active participant on the FAS Biological Weapons and Toxin Convention (BWTC) Treaty Negotiation Team - an NGO representative to the Geneva Convention.
 
2005
Conference Co-Chair (with David J. States); Intelligent Systems for Molecular Biology (ISMB) 13th Annual Meeting of the International Society for Computational Biology (ISCB); Detroit, MI.
 
2007
Member, Steering Committee – IEEE 7th International Symposium on Bioinformatics and Bioengineering (BIBE 2007).
 
2010
Co-Chair, ARGOS Virtual Physiologic Human (VPH).  Brussels, Belgium.
 
2011-
Biomedical Informatics Director, U-M/Peking Union Health Sciences Center (PUHSC) Joint Institute.
 
2012-
Member, eTRICKS Track 4 Advisory Committee, London, UK.
 
National
 
 
1988
Special advisory panel to the National Institute for Dental Research to formulate a plan for an Internet-based head and neck anatomy atlas. Invited member. Organized by the American Association of Anatomists (AAA).
 
2000
Discipline Co-leader - Health Sciences Editorial Board for Multimedia Educational Resources for Learning and Online Teaching (MERLOT.org)
 
2002
University of Michigan Representative, Coalition for Academic Scientific Computing (CASC); Washington, D.C.
 
2006
Integrated Research Team (IRT), U.S. Army Medical Research and Materiel Command (USAMRMC) and Telemedicine and Advanced Technology Research Command (TATRC). Invited participant and speaker.
 
2006
Panel member, Computing Research Association (CRA)-NIH Computing Research Challenges in Biomedicine Workshop, National Institute for General Medical Science (NIGMS), June 15-16, 2006. The object of this workshop was to develop a list of action items that will have impact within the NIH and computing communities.
 
2007
PubMed Plus: New Directions in Publishing and Data Mining. Society for Neuroscience Leadership Conference. Working Group 1 – “Capturing Experimental Design Metadata in ways that Facilitate Data Mining.” June 18-19, 2007.
 
2008
Co-chair and member, NIH Clinical and Translational Science Awards (CTSA) Informatics Operations Committee. Informatics Key Function Committee (IKFC). (elected 2-year term)
 
2008-
Member, External Advisory Board, Irving Institute for Clinical and Translational Research, Columbia University.
 
2008-
Co-chair, CTSA Informatics Key Function and Operations Sub Committee (with Dan Masys).
 
2009-
Member, External Advisory Board, Center for Clinical and Translational Science Rockefeller University
 
2009-
Advisor, HoIP translation track, The 2009 World Congress in Computer Science Computer Engineering and Applied Computing.
 
2009-
Member, Institute of Medicine (IOM), Panel on Grid Computing and Health Informatiion Sharing.
 
2010-
Member, Institute of Medicine (IOM) Electronic Health Record Collaborative Panel.
 
2010-
Member, External Advisory Board, Albert Einstein School of Medicine CTSA,Yeshiva University, Bronx, NY.
 
2010-
Member, External Advisory Board, Addiction Genetics Integration Support Center, Washington University School of Medicine department of Psychiatry.
 
2010-
Member, External Advisory Board, Marshfield Clinic, Marshfield, Wisconsin.
 
2011-
Member, Board of Scientific Advisors, National Cancer Informatics Program (NCIP), the National Cancer Institute, Bethesda, Maryland. Permanent subcommittee of the National Cancer Advisory Board (NCAB).
 
2011-
Member, 2020 AMIA Symposium Scientific Program Committee Foundations Track.
 
2011-
Chair, Technical Advisory Board of One Mind for Research, Washington, DC.
 
2012-
Member, Advisory Board of the Open Source electronic Health Record Agent (OSEHRA) Genomics Group.
 
2012-2012
Board Member, Doctoral Dissertation Defense, Van Andel Institute Graduate School (VAIGS).
 
2012
Member, External Advisory Committee (EAC), Center for Study of Gene Structure and Function.  Hunter College, New York.
 
2013
Member, External Reviewer for Masters and PhD Program, Biomedical Informatics Program. Emory University, Atlanta, GA.
 
2013
Member, Ad Hoc Evaluation Committee, Department of Pediatrics and Seniors Appointment Committee. Harvard Medical School, Boston, MA.
 
2013
US Academic Lead and co-CEO, tranSMART Foundation. Ann Arbor, MI.
 
University of Michigan
 
 
1997-1999
Media Union Virtual Reality Committee
 
2000-2001
Member, the University of Michigan Presidential Information Revolution Commission (PIRC). Infrastructure Subcommittee Co-Chair, Research Subcommittee.
 
2000
University of Michigan/IBM Life Sciences Liaison
 
2001-2005
Michigan GRID for Research Infrastructure and Development (M-GRID) Co-founder with H.A. Neal and W.R. Martin, and Executive Committee member.
 
2005
UM Presidential Advisory Group (PAG). Invited speaker and participant. October, 2005.
 
2005-
Member, Center for Computational Medicine and Biology (CCMB) Executive Committee.
 
2005-
Chair, NIH National Center for Integrative Biomedical Informatics (NCIBI) Executive Committee.
 
2006-
Member, MSCRIBE Advisory Council.
 
2006-2007
Co-Chair (with Sharon Glozter), University of Michigan Committee on Research Cyberinfrastructure, sponsored jointly by the Office of the VP Research (OVPR) and Office of the Vice Provost for Academic Information.
 
2007-
Member, UM Steering Committee, Institute for Complex Adaptive Matter (ICAM).
 
2009-
Member, Information Technology Executive Committee (ITEC), University of Michigan Hospital and Health System.
 
2009-
Member, ORCI Executive Advisory Committee, Office of Research Cyber- infrastructure, Office of Vice President of Research (OVPR).
 
2010-
Member, University of Michigan Information & Infrastructure Assurance (IIA) Council, University of Michigan.
 
2010-
Member, IT Unit Steering Committee, Information Technology Services (ITS).
 
2011-
Member, Registries and Cohorts Program (RCP) Steering Committee, University of Michigan.
 
University of Michigan Medical School/Health System
 
 
1992
Fellowship Selection Committee, Chemical and Hearing Senses Training Grant, Kresge Hearing Research Institute (KHRI).
 
1997-1999
Medical School Faculty Information Technology Committee (FITC).
 
1998-1999
Diagnostic Imaging Advisory Committee (DIAC), MCIT.
 
2000-2002
Information Technology Advisory Committee (IT-FAC).
 
2004-
Biomedical Informatics Design Team Member. Lead Designer reporting to Senior Associate Dean for Research and Graduate Studies and UM Associate VP Research. Led to creation of Center for Computational Medicine and Biology (CCMB) with Co-founder Gil Omenn.
 
2004-
Member, UM Depression Center Steering Committee.
 
2005-
Member, UM Depression Center Clinical Informatics Research Group.
 
2005-
Non-voting alternate member, Operating Committee for the Endowment for the Basic Sciences (EBS).
 
2005-
Member, Curriculum Committee Group, Bioinformatics Graduate Program, Center for Computational Medicine and Biology (CCMB).
 
2006-
Member, UMHS Information Technology Strategic Advisory Committee (IT-SAC).
 
2006-
Founder and Leader (with Gil Omenn), Health Informatics Research Organization (HIRO) coordinating group for clinical informatics research activities at UM.
 
2007-2008
Co-Chair (with Glenn Hiller), UMMS Coordinating Research Information Technology (CRIT) Committee.
 
2007-
Member, Michigan Institute for Clinical and Health Research (MICHR) Operating Committee.
 
2009-
Member, Information Technology Executive Committee (ITEC), University of Michigan Hospital and Health System.
 
2010-
Co-Chair, Epic Clinical Research Interface Team (ECRIT with Deborah Gipson).
 
2011-
Member, Clinical Analytics Database (CAD).
 
2011-

Member, Registries and Cohorts Program (RCP) Steering Committee, University of Michigan.

 
2011-
Chair, UMHS IT Strategy and Tactics (ITS&T) Working Group. IT and Data Governance.
 
2012-
Member, Research Board of Directors, U-M Medical School.
 
2012-
Co-Leader, FastForward Personalized Medicine Initiative.
 
2013-
Member, Internal Advisory Panel, Michigan Integrative Musculoskeletal Health Center
     
 
Department-University of Michigan
 
 
1995-2001
Cell Biology Lab (CBL) and Microscopy and Image Analysis Laboratory (MIAL) Oversight Committee.
 
1999
Anatomy Teaching Laboratory Committee.
 
2005-
Psychiatry Department Senior Leadership Council (PSLC).
 
2006-
Chair, Department of Psychiatry IT Committee.
 
2007-2011
Chair, CCMB Curriculum Committee.
 
2010
Chair, CCMB Executive Committee.
 
2012
Chair, DCM&B Faculty Committee.
 
2012
Chair, DCM&B Executive Committee.
 
2012
Chair, DCM&B Operations and Oversight Committee.
 
^back to top
 
  Patents
 
1998
Patent Disclosure, USPTO: "Dynamic Brace to Relieve Carpal Tunnel Syndrome."
 
2008
Disclosure to UM tech transfer for patent application, “Genes and their interactions related to bipolar disorder diagnosis and treatment.” (contributors: I. Lee, H. Chen, M. McInnis)
 
2008
Patent Disclosure, USPTO: “BioSearch 2D, a novel analysis tool for Biomedical Literature and portfolios” (contributors: D. States, C. Santos and A. Ade).
 
2013
“System for Selection of Pharmacoepigenomic Variants to Optimize Psychotropic
Drug Choice”, AssureRx Health, Inc.
 
^back to top
 
 
Bibliography

 
Peer-reviewed Journals and Publications
 
 
1.
Williams SP, Athey BD, Muglia LJ, Schappe RS, Gough AH, Langmore JP (1986) Chromatin fibers are left-handed double helices with diameter and mass per unit length that depend on linker length. Biophysical Journal 49(1):233-248.
 
2.
Smith MF, Athey BD, Williams SP, Langmore JP (1990) Radial density distribution of chromatin: evidence that chromatin fibers have solid cores. Journal of Cell Biology 110:245-254.
 
3.
Athey BD, Smith MF, Rankert DA, Williams SP, Langmore JP (1990) The diameters of frozen-hydrated chromatin fibers increase with DNA linker length: evidence in support of variable diameter models for chromatin. Journal of Cell Biology 111(3):795-806.
 
4.
Raphael Y, Athey BD, Wang Y, Hawkins JE Jr (1993) Structure of the reticular lamina and repair after noise injury. Rev Laryngol Otol Rhinol 1993;114(3):171-175.
 
5.
Grober JS, Bowen BL, Ebling H, Athey B, Thompson CB, Fox DA, Stoolman LM (1993) Monocyte-endothelial adhesion in chronic rheumatoid arthritis. In situ detection of selectin and integrin-dependent interactions. Journal of Clinical Investigations 91:2609-2619.
 
6.
Raphael YR, Athey BD, Wang Y, Hawkins JE (1993) Reticular lamina structure and repair after noise injury. (“Structure de la lame reticulee et reparations suite a un traumatisme acoustique.”) Revue de Laryngologie Otologie Rhinologie 114(3):171-175.
 
7.
Raphael Y, Athey BD, Wang Y, Lee MK, Altschuler RA (1994) F-actin, tubulin and spectrin in the organ of Corti: comparative distribution in different cell types and mammalian species. Hearing Research 76(1-2):173-187.
 
8.
Nurko S, Sogabe K, Davis JA, Roeser NF, Defrain M, Chien A, Hinshaw D, Athey B, Meixner W, Venkatachalam MA, Weinberg JM (1996) Contribution of actin cytoskeleton alterations to ATP depletion and calcium-induced proximal tubule cell injury. American Journal of Physiology:Renal Physiology 270:F39-F52.
 
9.
Brakenhoff GJ, Squier J, Norris T, Bliton AC, Wade MH, Athey B (1996). Real-time two-photon confocal microscopy using a femtosecond, amplified Ti:sapphire system. Journal of Microscopy 181:253-259.
 
10.
Clark HA, Barker SLR, Brasuel M, Miller MT, Monson E, Parus S, Shi Z.-Y, Song A, Thorsrud B, Kopelman R, Ade AS, Meixner WM, Athey BD, Hoyer M, Hill D, Lightle R, Philbert MA (1998) Subcellular Optochemical Nanobiosensors: Probes encapsulated by biologically localized embedding (PEBBLES). Sensors and Actuators B - Chemical, 1998, 51(1):12-16.
 
11.
Higgins G, Athey B, Bassingthwaighte J, Burgess J, Champion H, Cleary K, Dev P, Duncan J, Hopmeier M, Jenkins D, Johnson C, Kelly H, Leitch R, Lorensen W, Metaxas D, Spitzer V, Vaidehi N, Vosburgh K, Winslow R (2001) modeling & simulation in medicine: towards an integrated framework. Computer Aided Surgery 6(1):32-39.
 
12.
Mills KD, Deslaurier L, Dilworth DS, Grannell SM, Hoover BG, Athey BD, Leith EN (2001) Investigation of ultrafast time gating by spatial filtering. Applied Optics 40:2282-2289.
 
13.
Lee I, Athey BD, Wetzel AW, and Baker Jr JR (2001) Molecular Dynamics Studies on Folic Acid and Fluorescein-Derivatized PAMAM Dendrimers. Technical Proceedings of the 2001 International Conference on Modeling and Simulation of Microsystems 13-16.
 
14.
Hacker TJ, Athey BD (2001) A methodology for account management in grid computing environments. Lecture Notes in Computer Science, Vol. 2242:133-144. Springer Verlag Press.
 
15.
Mangrulkar R, Athey B, Brebner E, Moidu K, Pulido P, Woolliscroft J (2002) Telemedicine/telehealth: an international perspective. Telemedicine and medical/health education. Telemedicine Journal and e-Health, 2002 Spring 8(1):49-60.
 
16.
Hoover BG, Deslauriers L, Grannell SM, Ahmed RE, Dilworth DS, Athey BD, Leith EN (2002) Correlations among angular wave component amplitudes in elastic multiple-scattering random media. Physical Review E, Statistical, Nonlinear, and Soft Matter Physics 65(2):026614(1-8).
 
17.
Leith EN, Mills KD, Grannell S, Dilworth DS, Athey BD, Lopez J (2002) Analysis of time-gated imaging through scattering media by a Fourier optics approach. Journal of the Optical Society of America, 19(3):532-536.
 
18.
Lee I, Athey BD, Baker JR, Wetzel A, Meixner WM, Baker, Jr JR (2002) Structural molecular dynamic studies on therapeutically-applied polyamidoamine dendrimers: The effects of pH and surface derivatization group. Macromolecules 35(11):4510-4520.
 
19.
Walker D, Lee WY, Skov N, Berger C, Athey BD (2002) Investigating user requirements: computer-based anatomy learning modules for multiple user testbeds. Journal of the America Medical Informatics Association 9(4):311-319.
 
20.
Leith EN, Chien WC, Mills KD, Athey BD, Dilworth DS (2003) Optical sectioning by holographic coherence imaging: a generalized analysis. Optical Society of America 20(2): 380-387.
 
21.
Lee I, Dombkowski AA, Athey BD (2004) Guidelines for incorporating non-perfectly matched oligonucleotides into target-specific hybridization probes for a DNA microarray. Nucleic Acids Research 32(2):681-690.
 
22.
Leith EN, Chien WC, Mills KD, Athey BD, Dilworth DS, Beals JL (2004) Noise suppression and optical sectioning by non-phase-recording interferometry. Applied Optics 43(23):4512-4519.
 
23.
Boyd AD, Wright ZC, Ade AS, Bookstein F, Ogden JC, Meixner W, Athey BD, Morris T (2005) Challenges in presenting high dimensional data to aid in triage in the DARPA virtual soldier project. Studies in Health Technology and Informatics Vol. 111:68-74. 2005. MMVR 13. Eds: J.D. Westwood, et. al.
 
24.
Dai, M, Wang P, Boyd AD, Kostov G, Athey B, Jones EG, Bunney WE, Myers RM, Speed TP, Akil H, Watson SJ, Meng F (2005) Evolving gene/transcript definitions significantly alter the interpretation of GeneChip data. Nucleic Acids Research 33(20):e175, pp. 1-9.
 
25.
Kim YJ, Boyd A, Athey BD, Patel JM (2005) miBLAST: scalable evaluation of a batch of nucleotide sequence queries with BLAST. Nucleic Acids Research 33(13):4335-44.
 
26.
Wang P, Dai M, Xuan W, McEachin RC, Jackson AU, Scott LJ, Athey B, Watson SJ, Meng F (2006) SNP Function Portal: a web database for exploring the function implication of SNP alleles. Bioinformatics Jul 15; 22(14):e523-529. PMID: 16873516.
 
27.
Boyd AD, Hosner C, Hunscher DA, Athey BD, Clauw DJ, Green LA (2007) An 'Honest Broker' mechanism to maintain privacy for patient care and academic medical research. International Journal of Medical Informatics 76(5-6):407-411, May-June 2007.
 
28.
Jayapandian M, Chapman A, Tarcea VG, Yu C, Elkiss A, Ianni A, Liu B, Nandi A, Santos C, Andrews P, Athey BD, States D, Jagadish HV (2007) Michigan Molecular Interactions (MiMI): putting the jigsaw puzzle together. Nucleic Acids Research 2007, 35:D566-D571.
 
29.
Xuan W, Dai M, Mirel B, Wilson J, Athey B, Watson SJ, Meng F (2007) An active visual search interface for Medline. Comput Syst Bioinformatics Conf. 2007; 6:359-369. PMID: 17951838.
 
30.
Sarntivijai S, Ade AS, Athey BD, States DJ (2007) The Cell Line Ontology and its use in tagging cell line names in biomedical text. AMIA Annual Symposium Proc. 2007 October 11:1103.
PMID: 18694200.
 
31.
Yu C, Hanauer DA, Athey BD, Jagadish HV, States DJ (2007) Simplifying access to a Clinical Data Repository using schema summarization. AMIA Annual Symposium Proc. 2007 October 11:1163. PMID: 18694259.
 
32.
Xuan W, Dai M, Mirel B, Wilson J, Athey B, Watson SJ, Meng F (2007) Interactive Medline Search Engine Utilizing Biomedical Concepts and Data Integration. BioLink SIG 2007: Linking Literature, Information and Knowledge for Biology. In 15th Annual International Conference on Intelligent Systems for Molecular Biology: Special Interest Group Meeting (SIGs) Program Materials: 55-58.
 
33.
Yu B, Jakupovic E, Wilson J, Dai M, Xuan W, Mirel B, Athey B, Watson SJ, Meng F (2008) A Diagram Editor for Efficient Biomedical Knowledge Capture and Integration. Proceedings of AMIA 2008 Summit on Translational Bioinformatics.
 
34.
Lee I, Ajay SS, Chen H, Maruyama A, Wang N, McInnis MG, Athey BD (2008) Discriminating single-base difference miRNA expressions using microarray Probe Design Guru (ProDeG). Nucleic Acids Research 2008, pp. 1-10, January 2008. PMID: 18208839.
 
35.
States D, Ade AS, Wright ZC, Bookvich AV, Athey B (2008) MiSearch Adaptive PubMed Search Tool. Bioinformatics (March 11, 2008) PMID: 18326507.
 
36.
Dinov ID, Rubin D, Lorensen W, Dugan J, Ma J, Murphy S, Kirschner B, Bug W, Sherman M, Floratos A, Kennedy D, Jagadish HV, Schmidt J, Athey B, Califano A, Musen M, Altman R, Kikinis R, Kohan I, Delp S, Parker DS, Toga AW. (2008) iTools: a framework for classification, categorization and integration of computational biology resources. Plos ONE May 28;3(5):e2265. PMID: 18509477.
 
37.
Tarcea GV, Weymouth T, Ade A, Gao J, Mahavisno V, Wright Z, Chapman A, Jayapandian M, Ozgur A, Tian Y, Cavalcoli J, Mirel B, Patel J, Radev D, Athey B, States D, Jagadish HV (2008) Michigan molecular interactions r2: from interacting proteins to pathways. Nucleic Acids Research October 31. PMID: 18978014.
 
38.
Lee I, Majoros IJ, Williams CR, Athey BD, Baker Jr JR (2008) Interactive Design Strategy for a Multi-Functional PAMAM Dendrimer-Based Nano-Therapeutic Using Computational Models and Experimental Analysis. Computational and Theoretical Nanoscience 2008; 6:1-7.
 
39.
Smith KA, Athey BD, Chahal AP, Sahai P (2008) Delivering Informatics Capabilities to an AHC Research Community through Public/Private Partnerships (PPP). AMIA Annual Symposium Proc. November 6:1216-7. PMID: 18999086.
 
40.
Sarntivijai S, Ade AS, Athey BD, States DJ (2008) A bioinformatics analysis of the cell line nomenclature. Bioinformatics December 1;24(23):2760-6. Epub 2008 October 10.
PMID: 18849319.
 
41.
Lee I, Ajay SS, Yook JI, Kim HS, Hong SH, Im NH, Dhanasekaran SM, Chinnaiyan AM, and Athey BD (2009) New class of microRNA targets containing simultaneous 5’-UTR and 3’-UTR interaction sites. Genome Research July;87(7):964-70. PMID:19336450.
 
42.
Bernstam EV, Hersh WR, Johnson SB, Chute CG, Nguyen H, Sim I, Nahm M, Weiner M, Miller P, DiLaura RP, Overcash M, Lehmann HP, Eichmann D, Athey BD, Scheuermann RH, Anderson N, Starren JB, Harris PA, Smith JW, Barbour E, Silverstein JS, Krusch DA, Nagarajan R and Becich MJ (2009) Synergies and Distinctions between Computational Disciplines in Biomedical Research: Perspective from the Clinical and Translational Science Award Programs
Academic Medicine, July 84;7:1-7. PMID: 19550198.
 
 
 
43.
Yang MQ, Athey BD, Arabnia HR, Sung AH, Liu Q, Yang JY, Mao J, Deng Y (2009) High-throughput next-generation sequencing technologies foster new cutting-edge computing techniques in bioinformatics. BMC Genomics July 7:10 suppl 1:I1. PMID: 19594867.
 
44.
Xuan W, Dai M, Mirel B, Song J, Athey B, Watson SJ and Meng F (2009) “PubOnto: Open Biomedical Ontology-Based Medline Exploration” BMC Bioinformatics (In press).
 
45.
Xuan W, Dai M, Buckner J, Mirel B, Song J, Dong H, Athey B, Watson SJ, and Meng F (2009) Cross-Domain Neurobiology Data Integration and Exploration. Proceedings of the International Joint Conference on Bioinformatics, Systems Biology and Intelligent Computing (IJCBS’09),
(In press).
 
46.
Buckner J, Wilson J, Seligman M, Athey B, Watson S, Meng F (2009) The gputools package enables GPU computing in R. Bioinformatics. Oct 22. PMID: 19850754. PMCID: PMC2796814
 
47.
Sartor M, Mahavisno V, Keshamouni VG, Cavalcoli J, Wright Z, Karnovsky A, Kuick R, Jagadish HV, Mirel B, Weymouth T, Athey B, Omenn GS (2010) ConceptGen: a gene set enrichment and gene set relation mapping tool. Bioinformatics. Feb 15;26(4):456-63. PMID: 20007254. PMCID: PMC2852214
 
48.
Ajay SS, Athey BD, and Lee I (2010) Unified translation repression mechanism for microRNAs and upstream AUGs. BMC Genomics. March, 11:155. PMID: 20205738. PMCID: PMC2842251
 
49.
Gao J, Tarcea VG, Karnovsky A, Mirel BR, Weymouth TE, Beecher CW, Cavalcoli JD, Athey BD, Omenn GS, Burant CF, Jagadish HV (2010) Metscape: a Cytoscape plug-in for visualizing and interpreting metabolomic data in the context of human metabolic
 
50.
Tenenbaum JD, Whetzel PL, Anderson K, Borromeo CD, Dinov ID, Gabriel D, Kirschner B, Mirel B, Morris T, Noy N, Nyulas C, Rubenson D, Saxman PR, Singh H, Whelan N, Wright Z, Athey BD, Becich MJ, Ginsburg GS, Musen MA, Smith KA, Tarantal AF, Rubin DL, Lyster P (2010) The Biomedical Resource Ontology (BRO) to enable resource discovery in clinical and translational research. Biomed. Inform. October 16. PMID: 20955817. PMCID: PMC3050430
 
51.
Su G, Athey BD, Meng F (2010) GSearcher: agile attribute querying for biological networks. Bioinformatics. December 15;26(24):3138-9. PMID: 21088028. PMCID: PMC2995125
 
52.
Yang JY, Niemierko A, Bajcsy R, Xu D, Athey BD, Zhang A, Ersoy OK, Li GZ, Borodovsky M, Zhang JC, Arabnia HR, Deng Y, Dunker AK, Liu Y, Ghafoor A (2010) 2K09 and thereafter: the coming era of integrative bioinformatics, systems biology and intelligent computing for functional genomics and personalized medicine research. BMC Genomics. December 1;11 Suppl 3:I1. PMID: 21143775. PMCID: PMC2999338
 
53.
Xuan W, Dai M, Buckner J, Mirel B, Song J, Athey B, Watson SJ, Meng F (2010) Cross-domain neurobiology data integration and exploration. BMC Genomics. December 1;11 Suppl 3:S6. PMID: 21143788. PMCID: PMC2999351
 
54.
Su G, Burant CF, Beecher, CW, Athey BD, Meng F (2011) Integrated metabolome and transcriptome analysis of the NCI60 dataset. BMC Bioinformatics. February 12 Suppl 1:S36. PMID: 21342567. PMCID: PMC3044292
 
55.
Athey, BD., Cavalcoli, J., Jagadish HV, Omenn GS, Mirel B, Kretzler M, Burant C, Isopheki R, DeLisi C, the NCIBI faculty, trainees, and staff.  2011.  The NIH National Center for Integrative Biomedical Informatics (NCIBI).  J. Am. Med. Inform. Assoc.  2012 March 1;19(2):166-170. PMID:22101971. PMCID: PMC3277628
 
56.
Sartor MA, Ade A, Wright Z, States D, Omenn GS, Athey B, Karnovsky A. Metab2MeSH: Annotating Compounds with Medical Subject Headings (MeSH). Bioinformatics. 2012 Apr 6. PMID: 22492643. PMCID: PMC3348562
 
57.
Karnovsky A, Weymouth T, Hull T, Tarcea VG, Scardoni G, Laudanna C, Sartor MA, Stringer KA, Jagadish HV, Burant C, Athey B, Omenn GS. Metscape 2 bioinformatics tool for the analysis and visualization of metabolomics and gene expression data. Bioinformatics. 2012 Feb 1;28(3):373-80. Epub 2011 Nov 30. PMID: 22135418
 
58.
Zhichkin PE, Athey BD, Avigan MI, Abernethy DR. Needs for an Expanded Ontology-Based Classification of Adverse Drug Reactions (ADRs) and Related Mechanisms. Clinical Pharmacology & Therapeutics.2012 June;91(6);963-5. PMID: 22609907
 
59.
Bhavnani SK, Warden M, Zheng K, Hill M, Athey BD. Researchers’ Needs for Resource Discovery and Collaboration Tools: A Qualitative Investigation of Translational Scientists.  Journal of Medical Internet Research. 2012 June 5;14(3):e75. PMID:22668750. PMCID: PMC3415064
 
60.
Sarntivijai S, Xiang Z, Shedden KA, Markel H, Omenn GS, Athey BD, He Y. Ontology-based Combinatorial Comparative Analysis of Adverse Events Associated with Killed and Live Influenza Vaccines. PLOS One [In Press]. 2012:7(11):e49941. PMID:23209624.
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  Accepted Peer-reviewed Journals and Publications  
 
1.
Su Gang, Burant C, Beecher C, Athey B and Meng F. “Identification of SignificantMetabolic Fingerprints in NCI60 Dataset.” Submitted to Asian Pacific Bioinformatics Conference 2011.  Accepted. BMC Bioinformatics.
 
2.
Higgins GA, Wiley JW, Athey, BD. “Dysregulation of Glucocorticoid Receptor Expression in Stress-Related Disorders.” Accepted, Nature Reviews, Genetics.
 
3.
Boyd AD, Bookstein F, Ansorge EJ, Fudge M, Holcomb JB, D’Alecy L and Athey BD. “Physiological Indicators of survival of Penetrating Cardiac Wounds.” Accepted. Journal of Trauma.
 
4.
Sarntivijai S, Lin Y, Xiang Z, Meehan TF, Diehl AD, Vempati UD, Schurer SC, Pang C, Malone J, Parkinson H, Liu Y, Takatsuki T, Saijo K, Masuya H, Nakamura Y, Brush M, Haendel MA, Zheng, J, Stoechert CJ, Peters B, Mungall CJ, Carey TE, States D, Athey BD and He Y. “The Cell Line Ontology.” Accepted.  Journal of Biomedical Semantics.
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  Submitted Peer-reviewed Journals and Publications  
 
1.
Lee I, Ajay SS and Athey BD. “Extracting hypothesis from gene expression profiles
using miFilter.” Submitted at Nature Methods.
 
2.
He Y, Xiang Z, Courtot M, Ruttenberg A, Diehl AD, Peters B, Scheuermann RH,  
Brinkman RR, Mungall C, Whetzel T, Musen MA, Chen F, Todd T, Colby L, Rush H,
Gourdian GW, Mobley H, Athey BD, Omenn GS, Cowell L and Smith B. “VO: Vaccine
Ontology.” Submitted to Journal of Biomedicine and Biotechnology.
 
3.
Sarntivijai S, Zhang S, Jagannathan DG, Xiang, Zuoshuang, Burkhart K, Omenn, GS, He
Y, Athey BD and Abernethy DR. “OAE-Med DRA Mapping: An Expansion of the
Ontology of Adverse Events to Facilitate Systems Analysis of Adverse Drug Events, with
a Case Study of Tyrosine Knase Inhibitor-induced Cardiotoxicity.” Submitted to
 
4.
Higgins GA and Athey BD. “Putative pharmacoepigenomic variants that regulate
psychotropic gene expression based on annotation of chromatin state and neuroanatomical substrate.” Submitted to MolecularPsychiatry.
 
5.
Higgins GA, Wiley JS, and Athey BD. “The central glucocorticoid receptor interactome
and the stress response: Annotation of regulatory variants, chromatin networks and disease outcomes.” Submitted to
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  Peer-reviewed Electronic Publications  
 
1.
Athey BD, Warner AJ, Laby JC, Meixner WM, Chung J Williams (1996) Using the Visible Human as an Image Database Locator. The 1st National Library of Medicine (NLM) Visible Human Project Conference Proceedings. Eds: Banvard RA, and Ackerman, MJ. October 7-8, 1996. http://www.nlm.nih.gov/research/visible/vhp_conf/vhpconf.htmhttp://www.nlm.nih.gov/research/visible/vhp_conf/athey/index.htm
 
2.
Ade AS, Meixner WM, Athey BD (1998) The Visible Human Female WWW Browser and the Next Generation Internet (NGI). The 2nd National Library of Medicine (NLM) Visible Human Conference proceedings. Eds: R.A. Banvard and M.J. Ackerman. Bethesda, MD. Oct 1-2, 1998.
http://www.nlm.nih.gov/research/visible/vhpconf98/AUTHORS/ATHEY/ATHEY.HTM
 
3.
Ade AS, Bookstein FL, Athey BD (2000) “The University of Michigan Next Generation Internet Implementation to Serve Visible Human Datasets.” The 3rd National Library of Medicine (NLM) Conference on the Visible Human. Eds: R.A. Banvard and M.J. Ackerman. Bethesda, MD. Oct 5-6, 2000. http://www.nlm.nih.gov/research/visible/vhpconf2000/AUTHORS/ADE/ADE.HTM
 
4.
Wetzel AW, Ade AS, Bookstein FL, Green W, Athey BD (2000) Representation and Performance Issues in Navigating Visible Human Datasets. The 3rd National Library of Medicine (NLM) Conference on the Visible Human. Eds: R.A. Banvard and M.J. Ackerman. Bethesda, MD. Oct 5-6, 2000 http://www.nlm.nih.gov/research/visible/vhpconf2000/AUTHORS/WETZEL/WETZEL.PDF
 
5.
Hacker TJ, Athey BD, Sommerfield J (2002) Experiences Using Web100 for End-To-End Network Performance Tuning. Eds. R.A. Banvard and M.J. Ackerman. 4th Visible Human Conference, Oct. 17-19, 2002. Keystone, CO. http://www.uchsc.edu/sm/chs/events/vh_conf/pdfs/015.pdf
 
6.
Durka-Pelok G, Pomerantz S, Gadd C, Weymouth T, Gest T, Huang J, Nave D, Wetzel A, Lee WY, Athey BD (2002) Evaluation of a Volume Browser: PSC- VB. Eds. R.A. Banvard and M.J. Ackerman. 4th Visible Human Conference, Oct. 17-19, 2002. Keystone, CO. http://www.uchsc.edu/sm/chs/events/vh_conf/pdfs/018.pdf
 
7.
Wetzel AW, Pomerantz SM, Nave D, Kar A, Sommerfield J, Mathis M, Deerfield DW, Bookstein FL, Green WD, Ade A, Athey BD (2002) A Networked Environment for Interactively Viewing and Manipulating Visible Human Datasets. Eds. R.A. Banvard and M.J. Ackerman. 4th Visible Human Conference, Oct. 17-19, 2002. Keystone, CO. http://www.uchsc.edu/sm/chs/events/vh_conf/pdfs/021.pdf
 
8.
Nave D, Pomerantz SM, Wetzel AW, Durka-Pelok G, Gest T, Meixner W, Athey BD (2002) Semi-Automated reconstruction of Biological Surfaces from Few Contours in the Visible Female Dataset. Eds. R.A. Banvard and M.J. Ackerman. 4th Visible Human Conference, Oct. 17-19, 2002. Keystone, CO. http://www.uchsc.edu/sm/chs/events/vh_conf/pdfs/023.pdf
 
9.
Weymouth T, Durka-Pelok G, Gest T, Huang J, Pomerantz S, Wetzel A, Berger C, Athey BD (2002) Using a Knowledge Base: The University of Michigan Visible Human Project. Eds. R.A. Banvard and M.J. Ackerman. 4th Visible Human Conference, Oct. 17-19, 2002. Keystone, CO. http://www.uchsc.edu/sm/chs/events/vh_conf/pdfs/025.pdf
 
10.
Ade A, Athey BD (2002) Web-based Interactive Volume Rendering of the Visible Human Female. Eds. R.A. Banvard and M.J. Ackerman. 4th Visible Human Conference, Oct. 17-19, 2002. Keystone, CO. http://www.uchsc.edu/sm/chs/events/vh_conf/pdfs/031.pdf
 
11.
Durka-Pelok G, Gest T, Nieder G, Weymouth T, Huang J, Wetzel A, Pomerantz S, Nave D, Athey BD (2002) Creation of an educational visual module: integration of QTVR and the Visible Human Data Set. Eds. R.A. Banvard and M.J. Ackerman. 4th Visible Human Conference, Oct. 17-19, 2002. Keystone, CO. http://www.uchsc.edu/sm/chs/events/vh_conf/pdfs/036.pdf
 
12.
Walker D, Lee WY, Skov N, Berger C, Athey BD (2002) Investigating User Requirements: Design of Computer-based Anatomy Learning Modules for Multiple User Groups. Eds. R.A. Banvard and M.J. Ackerman. 4th Visible Human Conference, Oct. 17-19, 2002. Keystone, CO. http://www.uchsc.edu/sm/chs/events/vh_conf/pdfs/041.pdf
 
13.
Durka-Pelok G, Weymouth T, Gest T, Pomerantz S, Nave D, Wetzel A, Lee WY, Athey BD (2002) Bookmarking the Visible Human Dataset. Eds. R.A. Banvard and M.J. Ackerman. 4th Visible Human Conference, Oct. 17-19, 2002. Keystone, CO. http://www.uchsc.edu/sm/chs/events/vh_conf/pdfs/042.pdf
 
14.
Xuan W, Dai M, Athey B, Watson SJ, Meng F (2008) PubOnto: Open Biomedical Ontology- Based Medline Exploration. ISMB 2008 Bio-Ontologies SIG: Knowledge in Biology 37-40. http://www.bio-ontologies.org.uk/download/Bio-Ontologies2008.pdf
 
15.
Dinov ID, Rubin D, Lorensen W, Dugan J, Ma J, Murphy S, Kirschner B, Bug W, Sherman M, Floratos A, Kennedy D, Jagadish HV, Schmidt J, Athey B, Califano A, Musen M, Altman R, Kikinis R, Kohane I, Delp S, Parker DS, Toga AW. (2008) iTools: A Framework for Classification, Categorization and Integration of Computational Biology Resources. PLoS ONE 3(5): e2265. doi:10.1371/journal.pone.0002265 http://www.plosone.org/article/info%3Adoi%2F10.1371%2Fjournal.pone.0002265
 
16.
Sarntivijai S, Xiang Z, Meehan TF, Diehl AD, Vempati U, Schurer S, Pang C, Malone J,
Parkinson H, Athey BD, He Y. “Cell Line Ontology: Redesigning Cell Line Knowledgebase to Aid Integrative Translational Informatics.” International Conference on Biomedical Ontology (ICBO Conference), July 2011. Buffalo, NY. http://ftp.informatik.rwth-aachen.de/Publications/CEUR-WS/index.html
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  Peer-reviewed Conference Proceedings  
 
1.
Shieu DY, Athey BD, Anderson DJ (1993) An Efficient Surface Rendering Technique Utilizing Fourier Descriptors to Visualize three Dimensional Biomedical Image Data Sets. Circuits and Systems. 1993 Proceedings of the 36th Midwest Symposium. Aug 16-18 1993, Vol. 2: 1247-1250. ISBN: 0-7803-1760-2
 
2.
Bookstein FL, Athey BD, Green WD, Wetzel AW (2000) Navigating Solid Medical Images by Pencils of Sectioning Planes. Proceedings of SPIE 4121:117-127.
 
3.
Lee I, Athey BD, Wetzel AW, Baker Jr. JR (2001) Molecular Dynamics Studies on Folic Acid and Fluorescein-Derivatized PAMAM Dendrimers. Technical Proceedings of the 2001 International Conference on Computational Nanoscience and Nanotechnology. Nanotech 2001 Vol. 2:13-16.
 
4.
Leith EN, Mills KD, Deslaurier L, Grannell SM, Hoover BG, Dilworth DS, Chen HS, Shih MP, Lopez J, Athey BD (2001) Information Optics Concepts Applied to Image Formation in Highly Scattering Media. Optical Processing and Computing. Eds: Casasent, David P.; Caulfield, H. John; Dallas, William J.; and Harold H Szu. Proceedings of SPIE Vol. 4392(4):1-8.
 
5.
Leith EN, Mills KD, Dilworth, DS, Athey BD, Grannell SM (2001) Holographic Methods for Imaging into Volume Media. Wave Optics and VLSI Photonic Devices for Information Processing Eds: Pierre Ambs and Fred R. Beyette. Dec. 2001. Proceedings of SPIE 4435:1-6.
 
6.
Thigpen B, Hacker TJ, McGinnis L, Athey BD (2002) Distributed Accounting on the Grid. Proceedings of the 6th Joint Conference on Information Science (JCIS). Mar. 2002. Pp.1147-1150.
 
7.
Leith EN, Mills K, Chien WC, Athey BD, Dilworth D (2002) A Generalization of the Theory of Holographic Coherence Confocal Imaging. The Art and Science of Holography: A Tribute to Emmett Leith and Yuri Denisyuk. July 9, 2002. Proceedings of SPIE Vol. 4737:1-9.
 
8.
Hacker TJ, Noble B, and Athey BD (2002) The Effects of Systemic Packet Loss on Aggregate TCP Flows. Proceedings of Supercomputing 2002 IEEE/ACM SIGARCH, Nov. 2002.
 
9.
Hacker T, Athey BD, Noble B (2002) The End-to-end Performance Effects of Parallel TCP Sockets on a Lossy Wide-area Network. Parallel and Distributed Processing Symposium. 16th IEEE-CS/ACM International Proceedings. Apr. 2002, pp. 434-443. ISBN: 0-795-1573-8.
 
10.
Singh G, Song H, Liu D, Wildman D, Goodman M, Bliton C, Kostov G, Athey BD (2003) A Non-Homology Method for Sensitive Information Retrieval from Biological Databases. Proceedings of 7th Joint Conference on Information Sciences (JCIS), Mar. 2003. Pp. 915-918.
 
11.
Kirschner B, Hacker TJ, Adamson W, Athey BD (2004) Walden: A Scalable Solution for Grid Account Management. Fifth IEEE/ACM International Workshop on Grid Computing GRID ’04. Pp.102-109.
 
12.
Hacker TJ, Noble DB, Athey BD (2004) Improving Throughput and Maintaining Fairness Using Parallel TCP. INFOCOM 2004, Hong Kong. Twenty-third Annual Joint Conference of the IEEE Computer and Communications Societies 4:2480-2489.
 
13.
Hacker TJ, Noble BD, Athey BD (2005) Adaptive Data Block Scheduling for Parallel TCP Streams. Proceedings of the14th IEEE International Symposium on High Performance Distributed Computing (HPDC-14) ISBN 0780390377:265-275. Research Triangle Park, NC, July 24-27 2005.
 
14.
Xuan W, Dai M, Mirel B, Wilson J, Athey BD, Watson SJ, Meng F (2007) Pubviz: An Active Visual Search Interface for Medline. Proceedings of the Computational Systems Bioinformatics Conference (CSB2007). Pp. 359-369.
 
15.
Xuan W, Dai M, Mirel B, Wilson J, Athey B, Watson SJ, Meng F (2007) Interactive Medline Search Engine Utilizing Biomedical Concepts and Data Integration. BioLink SIG 2007: Linking Literature, Information and Knowledge for Biology. ISMB 2007: Special Interest Group Meeting (SIGs) Program Materials. Pp. 55-58.
 
16.
Xuan W, Dai M, Buckner J, Mirel B, Song J, Dong H, Athey B, Watson SJ, and Meng F (2009) Cross-Domain Neurobiology Data Integration and Exploration. Proceedings of the International Joint Conference on Bioinformatics, Systems Biology and Intelligent Computing (IJCBS’09).
 
17.
Athey BD, Braxenthaler M, Haas M, Guo Y (2013) tranSMART: An Open Source and Community-Driven Informatics and Data Sharing Platform for Clinical and Translational Research. AMIA Summits Tranl Sci Proc. Pp.6-8.
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  Book Chapters  
 
1.
Leith EN, Mills K, Chien WC, Athey BD, Dilworth D (2004) A Generalization of the Theory of Holographic Coherence Confocal Imaging. The Art and Science of Holography: A Tribute to Emmett Leith and Yuri Denisyuk. Ch. 3, 31-44. SPIE Press. ISBN 9780819450197 Jan. 22, 2004.
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  Technical Reports  
 
1.
Athey BD - PI. “Development and Demonstration of a Networked Telepathology 3-D Imaging, Databasing, and Communication System.” Annual Report: 1 Oct 94 - 30 Sept 1995. Oct 1995, pp. 1-36. National Technical Information Service (NTIS). www.ntis.gov
 
2.
Athey BD - PI. “University of Michigan Next Generation Internet (NGI) Implementation to Serve Visible Human Datasets: Phase II. 6 Technical Quarterly Reports, 2 Annual Reports, and 1 Final Report. 2000-2003. NIH-National Library of Medicine (NLM) Contract #N01-LM-0-3511. Posted on vhp.med.umich.edu
 
3.
Athey BD - PI. “Core Development Integration and Demonstration of the DARPA Virtual Soldier”. The University of Michigan Virtual Soldier Project (UMVSP) 6 Technical Quarterly Reports and 1 Final Report. 2003-2006. Cooperative Agreement Contract W81XH-04-0012. Posted on www.virtualsoldier.us
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  Other Media  
 
1.
“Interviews with the Principal Investigators of the Three New National Centers for Biomedical Computing. Biomedical Computation Review. Winter 2005/06. http://www.biomedicalcomputationreview.org/2/1/5.pdf
 
2.
Websites:
 
National Center for Integrative Biomedical Informatics (NCIBI): ncibi.org
 
University of Michigan Visible Human Project (UMVHP): vhp.med.umich.edu
 
DARPA Virtual Soldier Project: virtualsoldier.us
Center for Computational Medicine and Biology (CCMB): ccmb.med.umich.edu
 
SEA’s Tools Engage Scientists and Engineers in Elections and Public Policy: (co-founder, Member, Board of Directors) sefora.org/
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  Abstracts and Preliminary Communications  
 
1.
Athey BD, Langmore JP (1984) Simplified Transfer of Frozen-Hydrated Specimens into a Commercially Available Cooling Holder. Electron Microscopy Society of America, 42nd Annual Proceedings, 170-171. G.W. Bailey (Ed.),
 
2.
Athey BD, Williams SP, Langmore JP (1985) Chromatin Fibers are Left-Handed Helices with Mass per Unit Length Dependent on Linker Length. Journal of Cell Biology 101:2a. (First publication and description of the double helical crossed-linker model.)
 
3.
Williams SP, Athey BD, Langmore JP (1985) Chromatin Fiber Diameter is Proportional to Linker Length. Journal of Cell Biology 101:755a.
 
4.
Williams SP, Athey BD, Langmore JP (1985) The Crossed-Linker Double Helical Model for Chromatin. Journal of Biophysics. 49:224a.
 
5.
Athey BD, Williams SP, Langmore JP (1986) The Crossed-Linker Double Helical Model for Chromatin. Invited Paper, Regional Meeting of the ACS, Bowling Green, OH, June 1986.
 
6.
Langmore JP, Athey BD (1987) Removal of Inelastically Scattered Electrons Substantially Increases Phase Contrast on Frozen-Hydrated Molecules. Electron Microscopy Society of America, 42nd Annual Proceedings, 652-653. G.W. Bailey (Ed.).
 
7.
Athey BD, Langmore JP, Williams SP, Smith MF, Grant R, Chiu W (1987) Cryo-Electron Microscopy of Chromosome Fibers is Consistent with the Crossed-Linker Model for Chromatin Structure. Electron Microscopy Society of America, 45nd Annual Proceedings, 648-649. G.W. Bailey (Ed.).
 
8.
Athey BD, Stout AL, Smith MF, Langmore JP (1988) Quantitative Diameter Measurements of Chromatin and TMV Fibers in the Freeze-Dried State. Electron Microscopy Society of America, 46th Annual Proceedings, 170-171. G.W. Bailey (Ed.),
 
9.
Langmore JP, Smith MF, Rankert DA, Williams SP, Athey BD (1988) Cryo- Electron Microscopy of Chromosome Fibers. Journal of Cell Biology 107:313a.
 
10.
Kim D, Wu L, Su M, Athey BD, Kaufman PB (1992) pH Plays a Role in the Gravitropic Response of Leaf Shoot Pulvini of Oats. Proceedings of the International Conference Gravitropic Response Tucson, AZ. M. Tischler (Ed.).
 
11.
Raphael YR, Athey BD, Wang Y, Hawkins JE (1992) Reticular Lamina Structure and Repair after Noise Injury. Revue de Laryngologie Otologie Rhinologie. Veronique Lombard (Ed.). Presented, October 1992.
 
12.
Avinash G, Athey BD, Shieu D-Y, Meixner WM, Anderson DJ, Altschuler RA, Nuttal AL (1992) The Use of Computational Deblurring Techniques to Enhance the Resolution of Confocal Data Sets from Organ of Corti Surface Preparations. Sixteenth Midwinter Meeting of ARO: 117.
 
13.
Athey BD, Raphael YR, Meixner WM, Shieu D-Y, Wang Y, Anderson DJ, Altschuler RA (1993) Three-Dimensional Visualization of F-actin in the Lateral Wall of Outer Hair Cells Using Confocal Microscopy Sixteenth Midwinter Meeting ARO: 117.
 
14.
Viguie CA, Athey BD (1993) Three-Dimensional Visualization of Single Muscle Fibers: An Application of Laser Scanning Confocal Microscopy (LSCM). The Anatomical Record: Supplement 1, ABS 337.
 
15.
Athey BD, Shieu D-Y, Viguie CA, Anderson DJ (1994) Efficient Surface Rendering Technique Utilizing Fourier Descriptors to Visualize 3-D Biomedical Image Data Sets. IS&T/SPIE Electronic Imaging Science and Technology Conference, #2184-26.
 
16.
Brakenhoff GJ, Squire J, Norris T, Bliton C and Athey BD (1994) Realtime 2-Photon Confocal Microscopy Using a Femtosecond, Amplified Ti:Sapphire System. International Conferences on Confocal and Nearfield Microscopy: Munich, Germany.
 
17.
Squier J, Norris T, Bliton C, Brakenhoff GJ, Athey BD (1994) Realtime 2-Photon Confocal Microscopy Using a Femtosecond, Amplified Ti:Sapphire System. Ultrafast Phenomena IX, P. F. Barbara, W. H. Knox, G. A. Mourou and A. H. Zewail (Eds.), Springer-Verlag, NY, 136-138.
 
18.
Warner AJ, Athey BD, Pao ML, Panko WB, Holden J (1994) A Network-Based Image Repository for Biomedical Researchers. 18th Annual Symposium on Computer Applications in Medical Care (SCAMC).
 
19.
Fogel H, Athey BD, Meixner WM, Ade AS, Laby JS, Glick J (1997) Three-Dimensional Visualization of the Dorsal Vessel of Drosophila Melanogaster. First International Symposium on Molecular Control of Organogenesis, October 1996.
 
20.
Warner AJ, Athey BD, Chung J, Williams JP (1997) Experiential Learning in Specific Applications: The Applications Area Component at the University of Michigan. ALISE.
 
21.
Eichman JD, Kukowska-Latallo JF, Chen C, Meixner WM, Athey BD, Baker Jr. JR (1998) Effects of a Non-Ionic Surfactant on Polymer Mediated Transfection. AAPS National Meeting, San Francisco, CA. November 1998.
 
22.
Ade AS, Meixner WM, Athey BD (1999) A Virtual Reality System for Human Gross Anatomy Instruction. Medicine Meets Virtual Reality (MMVR) 7. San Francisco, January 20-23, 1999.
 
23.
Wetzel A, Athey BD (2000) Networked Delivery of Visible Human Datasets. NLR/Internet2 Tech Meeting.
 
24.
Lee I, Athey BD, Wetzel AW, Kar A, Eichman J, Meixner WM, Baker, Jr. JR (2000) Directed Nanomolecular Modeling and Simulation of Targeting, Sensing, and Therapeutic Functionalities has Enabled Rapid Demonstration and Prototyping. Principal Investigators Meeting, NCI Unconventional Innovations Program, June 28-29, 2000. Presenter: Athey BD.
 
25.
Bookstein FL, Athey BD, Green WDK, Wetzel (2000) Navigating Solid Medical Images by Pencils of Sectioning Planes. Mathematical Methods of Medical Imaging, SPIE Annual Meeting, San Diego, CA. August 2000.
 
26.
Athey BD (2000) Directed Nano-Dendrimeric Modeling and Simulation. BioMEMS and Biomedical Nanotechnology 2000 Conference, Columbus, OH. Oct. 2000.
 
27.
Lee I, Majoros I, Athey BD, Tomalia DA, Baker Jr JR (2000) Structural Characterization of an Amine-terminated Hybrid Dendrimer: Molecular Dynamics Studies. Eighth Foresight Conference on Molecular Nanotechnology. November 3-5, 2000.
 
28.
Athey BD (2001) How to Move from Static to Something Moving End-to-End or The How? And Why? Of Infrastructure. Western Multi-Conference Proceedings. The Society for Computer Simulation International. January 2001.
 
29.
Boyd AD, Landman JI, Kostov G, Athey BD (2003) Real World Implementation of mpiBLAST. Second Annual 2003 Great Lakes Bioinformatics Retreat. Aug. 20, 2003.
 
30.
Athey, BD, Jagadish HV, Bliton AC, Boyd AD, Kostov G., Ogden J, de Wet JR, Chapman, A, Jayapandian M, States D J (2003) Michigan Center for Biological Information Statewide Computational Biology Infrastructure. BISTIC Symposium 2003, Digital Biology: The Emerging Paradigm. Nov. 06, 2003.
 
31.
Boyd AD, Athey BD (2004) Information Technology Security as Intertwined with Privacy and Confidentiality in Biomedical Research. 12th Annual University of Miami Bioethics Conference/Florida Bioethics Network Spring Conference, Clinical Ethics: Debates, Decisions, Solutions. April 16, 2004.
 
32.
Boyd AD, Klinkman MD, Athey BD (2004) Multifaceted Clinical Decisions: a Clinical Decision Support System dilemma in the treatment of Depression in Primary Care. BECON/BISTIC 2004 Symposium, Biomedical Informatics for Clinical Decision Support: A Vision for the 21st Century. Jun 21, 2004.
 
33.
Kim YJ, Athey BD, Boyd AD, Patel JM (2004) miBLAST: Towards Scalable Evaluation of Batch Workloads with BLAST. Third Annual 2004 Great Lakes Bioinformatics Retreat. Aug. 17, 2004.
 
34.
Boyd AD, Hunscher DA, Smith KA, Bliton AC, Ogden JC, Williams DA, Athey BD, Greden JF, Clauw DC (2004) Clinical Research Information Fabric (CRIF): a federated approach to clinical research. Clinical Trials Working Group/Clinical Trials Expo at MEDINFO 2004.
 
35.
Boyd AD, Difranco DJ, Athey BD (2004) Challenges of HIPAA Regulations in Academic Biomedical Research.” MEDINFO 2004. Proceedings of the 11th World Congress in Medical Informatics, 2004. pg. 1535. First publication of the 'Honest Broker' concept.
 
36.
Lee I, Subramanian SA and Athey BD (2004) Functional siRNA characteristics based on structural analysis of RNA in assembly with RNA silencing suppressors. Arthur M. Sacker Colloquia of the National Academy of Sciences: The cell biology of RNAi.
 
37.
Boyd AD, Wright ZC, Ade AS, Bookstein F, Ogden JC, Meixner W, Athey BD (2005) Challenges of Presenting High Dimensional Data to aid in Triage in the Virtual Soldier Project. Studies in Health Technology and Informatics. MMVR - Medicine Meets Virtual Reality 13. 111, 2005.
 
38.
Subramanian SA, Lee I, Athey BD (2005) Microarray Probe Design with Minimal Cross-hybridization. International Society for Computational Biology: Intelligent Systems for Molecular Biology. June 25-29, 2005.
 
39.
Boyd AD, Hunscher DA, Kramer AJ, Hosner C, Saxman P, Athey BD, Greden JF, Clauw DC (2005) The ‘Honest Broker’ Method of Integrating Interdisciplinary Research Data. Proceedings of American Medical Informatics Association 2005. p. 902.
 
40.
Ajay S, Athey BD, Lee I (2006) MicroRNA microarray Probe Design. Keystone Symposia: RNAi and related Pathways. Jan. 2006.
 
41.
Weymouth T, Triplett T, Ade AS, Gao J, Kirshner B, DeWet JR, Jayapandian M, Chapman A, Tarcea VG, Yu C, Elkiss A, Ianni A, Liu B, Nandi A, Santos C, Andrews P, Omenn GS, Athey BD, States DJ, Jagadish HV (2007) Michigan Molecular Interactions Index (MiMi). US HUPO Conference. Seattle, WA. March 5th - 9th, 2007.
 
42.
Yu C, Hanauer DA, Athey BD, Jagadish HV, States DJ (2007) Simplifying Access to a Clinical Data Repository using Schema Summarization. American Medical Informatics Association, Fall Conference. 2007.
 
43.
Ajay S, Athey B, and Lee I. (2007) MicroRNA Research Portal. Keystone Symposia: MicroRNAs and siRNAs: Biological Functions and Mechanisms.
 
44.
Lee I, Chen H, McInnis M, and Athey BD (2007) MicroRNA filters for microarray data analysis in a bipolar disorder study. Silverman Conference.
 
45.
Lee I, Chen H, McInnis MG, and Athey BD (2008) Correlating miRNA and mRNA profiles in bipolar disorder. XVI World Congress on Psychiatric Genetic.
 
46.
He Yongqun, Cowell L, Diehl A, Mobley H, Peters B, Ruttenberg A, Scheuermann R, Xiang Z, Athey B, Omenn G, Smith B (2009) Development of the Community-based Vaccine Ontology (VO). ASM General Meeting. Philadelphia, Pennsylvania May 17-21, 2009.
 
47.
Cavalcoli J, Jagadish HV, Omenn GS, Mirel B, Smith K, Athey BD (2009) National Center
for Integrative Biomedical Informatics (NCIBI) Integrating Tools and Data in the Service of CTSA. IKFC All-Hands Meeting. Bethesda, Maryland. October 28-29, 2009.
 
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  Other Support
  Active  
   

2 R01 AI 37141 (Baker, James R. Jr.)                         05/01/04 - 04/30/09                   0.00 calendar
NIH / NIAID
Apoptosis in Thyroiditis

The major goal of this effort is to provide bioinformatics support for Dr. Baker’s project.
Role: Co-I

     
   

1 U54 DA021519-01A1 (Athey, Brian D.)                         09/25/05 - 08/31/10           4.20 calendar
NIH
National Center for Integrative Biomedical Informatics (NCIBI)

This is one of the seven NIH National Centers for Biomedical Computing (NCBC). Focus is biomedical informatics data integration and modeling, including advanced biomedical Information Retrieval (IR).
Role: PI

     
   

1 UL1 RR024986 (D. Clauw PI)                         9/17/07 – 5/31/12                          2.4 calendar mo
NIH / NCRR                                                                                                  
Michigan Institute for Clinical and Health Research (MICHR)                       

The University of Michigan Clinical and Translational Science Award (UM CTSA) focuses on supporting and facilitating clinical and translational "team science".
Role: Director of the Biomedical Informatics Program, Co-Investigator

     
   

1 R01 DK079084 (Burant, Charles PI)                        08/01/07-05/31/11               0.6 calendar mo
NIH                                                                       
Using Systems Biology to Understand Islet Adaptation and Failure in Diabetes

The goals of this application are to combine novel metabolomic analysis techniques with bioinformatics to identify the way in which pancreatic islet adapt to differences in nutrient mix and supply.
Role: Co-Investigator
  Pending  
 

5T32 GM070449-04 (Athey, Brian D PI)                        07/01/05-06/30/10            1.2 calendar mo
                                                                       
Training Program in Bioiformatics

The goal of the Bioinformatics Training Program is to train students in bioinformatics and computational molecular biology by exposing them to a wide range of research.
Role: PI

 
Overlap

 

 

None

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  Hobbies
   

Amateur Radio Operator (Ham radio)

Avid collector of Lionel Trains

Tennis