DANIEL C. BERRIOS
University of California
UARC/NASA Ames Research Center
Mailstop 269-2, Moffett Field, CA 94035
(650) 604-0470
berrios@email.arc.nasa.gov
EDUCATION AND POSTGRADUATE TRAINING
8/95 –9/01
Stanford University, Medical Information Sciences Program
Program in Biomedical Informatics, Ph.D.
7/99-6/01
VA Palo Alto Healthcare System
VA Informatics Training Fellowship
7/92 - 6/95
University of California, San Francisco, Department of Laboratory Medicine
Residency in Clinical Pathology (Chief Resident: 7/93 - 6/94)
10/89 - 6/92
University of California, San Francisco, Department of Epidemiology &
Biostatistics
Fellowship in AIDS Prevention Studies
Research Methods Workshop (EB 180.04)
8/89 - 5/90
University of California, Berkeley, School of Public Health
Masters, Public Heath: Epidemiology/Biostatistics, May 1990
9/85 - 5/90
University of California, San Francisco, School of Medicine
MD, May 1990
9/81 - 5/85
Brown University
BA Biochemistry and Mathematics (dual major), May 1985
PROFESSIONAL CREDENTIALS
Diplomate, National Board of Medical Examiners, CA Medical License #G 0788145
HONORS AND AWARDS
NASA & USRA/RIACS
NASA Group Honor Award – InvestigationOrganizer (2003)
Space Act Award (group) – SemanticOrganizer (2003)
TGIR Associate Administrator’s Award – InvestigationOrganizer (2003)
RIACS Performance Award (2003)
University of California, San Francisco (UCSF)
Honors by Departments of Epidemiology and International Health, Radiology,
Pediatrics, Radiation Oncology; Commendation by Department of Psychiatry; Dean's
Summer Research Fellowship (1985), National Medical Fellowship, Springer
Scholarship
DANIEL C. BERRIOS
Brown University
magna cum laude, Howell Premium (Mathematics), Merck Award (Chemistry),
Anna Kavin Spear Scholarship
PATENTS
“System and Method for Indexing Electronic Text” U.S. Patent No. 6,535,873.
“Improvement in System and Method for Indexing Electronic Text,” Patent
Pending.
APPOINTMENTS
•
Project Scientist: University of California, Santa Cruz,
University Affiliated Research Center, NASA Ames Research Center. 3/04 – present
•
Staff Scientist: Research Institute for Advanced Computer Science, NASA Ames
Research Center. 5/02 – 2/04
•
Postdoctoral Scholar: Medical Informatics, Stanford University. 9/95 - 9/01
•
Fellow: Medical Informatics, VA Palo Alto Healthcare System. 7/99 - 6/01
•
Fellow: AIDS Prevention Studies, University of California, San Francisco. 10/89 6/92
RECENT PROJECTS
•
Project Member: ScienceDesk/SemanticOrganizer: NASA. 5/02 - present
•
Technical Director: ELBook: The Electronic Textbook Project, Stanford Medical
Informatics, Stanford University. 9/01 – 5/02
PUBLICATIONS
Papers and Abstracts
•
Carvalho RM, Berrios DC, Wolfe S, Williams, J. Ontology Development and
Evolution in the Accident Investigation Domain, IEEE Aerospace Conference, Big Sky,
MT, March 5-9, 2005.
•
Keller RM, Berrios DC, Carvalho RE, Hall DR, Rich SJ, Sturken IB, Swanson KJ, Wolfe
SR. SemanticOrganizer: A customizable semantic repository for distributed NASA
project teams, 3rd International Semantic Web Conference (ISWC 2004), Hiroshima,
Japan, November 9-13, 2004. Best Paper, Industrial track.
•
Keller RM, Berrios DC, Carvalho RE, Hall DR, Rich SJ, Sturken IB, Swanson KJ, Wolfe
SR. SemanticOrganizer: A customizable semantic repository for distributed NASA
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DANIEL C. BERRIOS
project teams, 3rd International Semantic Web Conference (ISWC 2004), Hiroshima,
Japan, November 9-13, 2004. Best Paper, Industrial track.
•
Berrios DC, Keller RM. Developing a web-based user interface for semantic
information retrieval, presented at Workshop on Semantic Web Technologies for
Searching and Retrieving Scientific Data, 2nd International Semantic Web Conference,
Sanibel Island, FL, October 20-23, 2003.
•
Berrios DC, Cucina RJ, Fagan LM. Methods for semi-automated indexing for high
precision information retrieval. J Am Med Inform Assoc. 2002 Nov-Dec;9(6):637-52.
•
Cucina RJ, Shah MK, Berrios DC, Fagan LM. Empirical formulation of a generic query
set for clinical information retrieval systems. Medinfo. 2001;10(Pt 1):181-5.
•
Berrios DC. Automated indexing for full-text information retrieval. Proc AMIA Symp
2000. 71-5.
•
Berrios DC, Kehler A, Fagan LM. Knowledge requirements for automated inference of
medical textbook markup. Proc AMIA Symp 1999;:676-80.
•
Dugan JM, Berrios DC, Liu X, Kim DK, Kaizer H, Fagan LM: Automation and
integration of components for generalized semantic markup of electronic medical
texts. Proc AMIA Symp 1999;:736-40.
•
Kim DK, Fagan LM, Jones KT, Berrios DC, Yu VL: MYCIN II: Design and
Implementation of a Therapy Reference with Complex Content-Based Indexing. Proc
AMIA Symp 1998, 175-9.
•
Berrios DC, Kehler A, Kim DK, Yu VL, Fagan LM: Automated Text Markup for
Information Retrieval from an Electronic Textbook of Infectious Disease. Proc AMIA
Symp 1998;:975.
•
Berrios DC, Sujansky W: Automated Generation of a Hierarchical Laboratory Test
Ontology Based on LOINC™ for Use in an Electronic Medical Record System. AMIA
Spring Congress Final Program and Abstract Book, San Jose, CA, 1997 , p. 60.
•
Berrios DC, Avins A, Haynes-Sanstad K, et al.: Screening for HIV antibody in urine.
Arch Path Lab Med. Arch Pathol Lab Med 1995; 119:139-41.
•
Wachter RM, Luce JM, Safrin S, Berrios DC, Charlebois E, Scitovsky AA: Cost and
outcome of intensive care for patients with AIDS, pneumocystis carinii pneumonia,
and severe respiratory failure. JAMA 1995; 273:230-5.
•
Berrios DC, Dreyer J, Newman T, Nicoll CD: Design of a Hypertext Clinical
Laboratory Testing Database and Implementation of a World Wide Web Test
Information Service. ASCP/CAP Fall Meeting Abstract Book, New Orleans, LA, 1995.
•
Berrios DC, Hearst N, Coates TJ, et al.: Human Immunodeficiency Virus antibody
testing among those at risk for HIV infection: The National AIDS Behavior Survey.
JAMA 1993 Oct; 270:1576-1580.
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DANIEL C. BERRIOS
•
Berrios DC, Hearst N, Coates TJ, et al.: HIV Antibody testing among those at risk for
HIV infection: The National AIDS Behavior Survey (NABS) (Abstract #PoC 4600). VIII
International Conference on AIDS/III STD World Congress, Amsterdam, The
Netherlands, 1992.
•
Stall R, Berrios DC, Binson D, et al.: Older at-risk people are less likely to be HIV
tested than younger at-risk people: The National AIDS Behavior Survey (NABS)
(Abstract #PuC 8222). VIII International Conference on AIDS/III STD World
Congress, Amsterdam, The Netherlands, 1992.
•
Berrios DC, Avins A, Haynes-Sanstad K, Eversley R, et al.: Screening for HIV
antibody in urine (Abstract #PoC 4494). VIII International Conference on AIDS/III
STD World Congress, Amsterdam, The Netherlands, 1992.
•
Berrios DC, Hearst N, Perkins LL, et al.: HIV antibody testing in young, urban adults:
The Population AIDS Risk Study. Arch Int Med 1992 Feb; 152:397-402.
•
Berrios DC, Grady D: Domestic violence–Risk factors and outcomes. West J Med 1991
Aug; 155:133-135.
•
Brown JJ, Starnes V, Stinson E, Higgins CB, Berrios D, Yeager M: Human cardiac
transplant patients evaluated by MRI. 36th Annual Meeting, Association of University
Radiologists, New Orleans, 1988.
•
Nicoll D, McPhee SJ, Chou TM, Detmer WM: Pocket Guide to Diagnostic Tests, 2nd
Edition. Appleton & Lange, Stamford, CT, 1997. (Contributing Author)
Books
INVITED PRESENTATIONS AND LECTURES
08/04
10/03
11/00
1/99
11/99
1/98
5/97
1/97
9/95
“ScienceOrganizer: Organizational Memory for Interplanetary Collaborative Scientific
Investigations,” 7th International Mars Society Convention, Chicago, IL.
“Developing a Web-based User Interface for Semantic Information Retrieval,”
Workshop on Semantic Web Technologies for Searching and Retrieving Scientific
Data,
2nd International Semantic Web Conference (ISWC 2003) , Sanibel Island, FL.
“Automated Indexing for Full Text Information Retrieval,” AMIA Annual
Symposium, Los Angeles, CA
MIS 211, "Artificial Neural Networks in Medicine" Stanford Medical Informatics
"Automated Text Markup for Information Retrieval from an Electronic Textbook of
Infectious Disease," AMIA Annual Symposium, Orlando, FL
"Artificial Neural Networks in Medicine," Medical Information Sciences 211, Stanford
Medical Informatics
“Automated Generation of a Hierarchical Laboratory Test Ontology Based on
LOINC™ for Use in an Electronic Medical Record System,” AMIA Spring Conference,
San Jose, CA
"Artificial Neural Networks in Medicine," Medical Information Sciences 211, Stanford
Medical Informatics
"Design of a Hypertext Clinical Laboratory Testing Database and Implementation of a
World Wide Web Test Information Service," ASCP/CAP Fall Meeting, New Orleans,
LA
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DANIEL C. BERRIOS
5/95
4/95
5/92
8/91
8/91
5/91
2/91
12/90
"Communications and Networks," Department of Laboratory Medicine, UCSF
"The World-Wide Web," Department of Laboratory Medicine, San Francisco General
Hospital
"Domestic Violence," Grand Rounds, Dept. of Laboratory Medicine, UCSF
"The National AIDS Behavioral Study (NABS): Who gets tested for HIV antibody and
who doesn't?" American Psychological Association, San Francisco CA
"The prevalence of HIV antibody testing in the United States: PARS and NABS,"
AIDS Health Project Trainers' Conference, San Francisco CA
"Removing disincentives to HIV antibody testing." AIDS Update Conference, San
Francisco CA
"HIV antibody testing among young, urban adults: the Population AIDS Risk Study
(PARS)," NIMH Research Training Meeting, Bethesda, MD
"HIV antibody testing among young, urban adults: the Population AIDS Risk Study
(PARS)," DGIM/IHPS/CAPS Research Conference, San Francisco CA
UNIVERSITY SERVICE
7/93-6/94
10/90 - 6/92
9/86 - 6/87
Grand Rounds and Resident Education Committees, UCSF Dept. of Laboratory
Medicine
Curriculum Committee, UCSF Department of Epidemiology and Biostatistics
Financial Aid Advisory Committee, UCSF School of Medicine
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DANIEL C. BERRIOS
TEACHING EXPERIENCE
8/01
6,8/00
6,8/99
1/97-3/97
6/96-8/96
5/95
4/95-6/95
4/94-6/94
3/95
1/95
1/94
4/93-6/93
1/93
4/92-6/92
3/5/92
2-3/92
9/91 - 12/91
8/91 - 10/91
6/84 - 8/84
Lecturer, Medical Informatics Short Course, Stanford Medical Informatics
Lecturer, Medical Informatics Short Course, Stanford Medical Informatics
Lecturer, Medical Informatics Short Course, Stanford Medical Informatics
Teaching Assistant, MIS 211, "Medical Decision Making," Stanford Medical
Informatics
Teaching Assistant, Medical Informatics Short Course, Stanford Medical Informatics
Instructor, Laboratory Medicine 160.03, "Medical Decision Making"
Instructor, Epidemiology & Biostatistics (EB 101), School of Medicine, UCSF.
Instructor, Epidemiology & Biostatistics (EB 101), School of Medicine, UCSF.
Instructor, Pathology 103, Hematology
Instructor, Pathology 102, "Clinical Diagnosis of Acute Pancreatitis"
Instructor, Pathology 102, “Testing for Viral Hepatitis”, “Clinical Decision-Making”,
School of Medicine, UCSF.
Instructor, Epidemiology & Biostatistics (EB 101), School of Medicine, UCSF.
Instructor, Pathology 102, “Clinical Decision-Making,” School of Medicine, UCSF.
Instructor, Epidemiology & Biostatistics (EB 101), School of Medicine, UCSF.
Instructor, Second Regional Symposium on the Design and Methods of Clinical Trials,
UCSF.
Faculty, Technology Information Exchange, CAPS.
Instructor, Introduction to Clinical Medicine (MED 132A), School of Medicine, UCSF.
Instructor, Research Methods Workshop (EB 180.04), Dept. of Epidemiology &
Biostatistics, UCSF.
Faculty Intern, Finite Mathematics (Probability and Statistics), Advanced Studies
Program, St. Paul's School, Concord NH.
PROFESSIONAL SOCIETY MEMBERSHIPS
1995-present
1994-2000
1993-2000
1990-1993
1990-1993
1985-present
1985-present
1985-present
American Medical Informatics Association, member
Association of Clinical Laboratory Physicians and Scientists, associate member
College of American Pathologists, Junior member
International AIDS Society
Northern California AIDS Epidemiology Consortium
American Medical Association
California Medical Association
Sigma Psi Research Honor Society
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