Lucila Ohno-Machado, MD, MBA, PhD, Training core director, is a Professor of Medicine and founding chief of the Division of Biomedical Informatics at UCSD. She is associate dean for informatics and technology and has experience leading multidisciplinary projects at the intersections of biomedicine and quantitative sciences. Her research group focuses on biomedical pattern recognition from large data sets, statistical learning, and privacy technology. The group has also accepted a critical role at UCSD Medical Center, including development of tools for quality assessment and the implementation of a clinical data repository for research, and the leadership of the Data Access Task Force, which establishes the policies and mechanisms for researchers to access the UCSD data. Dr. Ohno-Machado is also director of the Biomedical Research Informatics for Global Health training program.
iDASH Team
iDASH Team
iDASH Director
iDASH Core Directors
Claudiu Farcas
Claudiu Farcas, PhD, Infrastructure core director, is an Assistant Project Scientist in the UCSD division of the California Institute for Telecommunications and Information Technology (Calit2). His major research interests are software engineering for embedded and large-scale distributed systems, virtual execution environments, portable real-time components, programming languages, networking, and Web technologies. He leads the architecture and development efforts of the cyber-infrastructure for delivering computational services related to data analysis, data integration, and privacy technologies.
Michele Day
Michele Day, PhD, Dissemination core director, is a Program Manager in the UCSD School of Medicine's Division of Biomedical Informatics. Starting her career with a background in bioinformatics, proteomics, cell biology, and biochemistry, she has broadened her research interests to include biomedical informatics, distributed computational analysis, and patient-centered research. She has many years of technical writing experience and also provides writing and editing consultation and assistance.
Vineet Bafna
Vineet Bafna, PhD, R&D core director, is a Professor in the UCSD Computer Science and Engineering department, where his primary interest is in bioinformatics. He has published on many aspects of this field, including genome rearrangements, multiple alignments, RNA structure, gene finding, DNA signals, mass spectrometric data analysis, and human population genetics. He will supervise and take part in the development of algorithms for efficient analysis of large biomedical data sets integrated from multiple sources, with particular emphasis on algorithms to manage and analyze data from massively parallel sequencing technologies.
iDASH Director
Lucila Ohno-Machado
Lucila Ohno-Machado, MD, MBA, PhD, Training core director, is a Professor of Medicine and founding chief of the Division of Biomedical Informatics at UCSD. She is associate dean for informatics and technology and has experience leading multidisciplinary projects at the intersections of biomedicine and quantitative sciences. Her research group focuses on biomedical pattern recognition from large data sets, statistical learning, and privacy technology. The group has also accepted a critical role at UCSD Medical Center, including development of tools for quality assessment and the implementation of a clinical data repository for research, and the leadership of the Data Access Task Force, which establishes the policies and mechanisms for researchers to access the UCSD data. Dr. Ohno-Machado is also director of the Biomedical Research Informatics for Global Health training program.
iDASH PIs
Frederic Resnic
Frederic Resnic, MD, MSc, is the Chairman of the Department of Cardiovascular Medicine at Lahey Clinic Medical Center. Dr. Resnic relocated to Lahey from the Division of Cardiovascular Medicine at Brigham and Women's Hospital where he oversaw all of the lab’s activity, including clinical care, faculty practice and education and clinical translational research.
Grace Kuo
Grace M. Kuo, PharmD, MPH, is an Associate Professor of Clinical Pharmacy and Associate Dean for Academic Clinical Affairs in the UCSD Skaggs School of Pharmacy and Pharmaceutical Sciences. She is the Director for the Pharmacogenomics Education Program (PharmGenEd) and San Diego Pharmacist Resource and Research Network (SDPharmNet). Her research focuses on medication safety, practice-based health services research, and chronic disease management.
Jane Burns
Jane Burns, MD, is Professor of Pediatrics in the UCSD School of Medicine and Chief of the department’s Division of Allergy, Immunology, and Rheumatology. In 2009 she received the Pioneer Award for Kawasaki Disease Research. Chosen for her outstanding commitment, compassion, and life-long career devoted to Kawasaki Disease research, awareness and treatment, Dr. Burns will be the lead investigator on iDASH’s Kawasaki genomics project.
Michael Matheny
Michael Matheny, MD, MS, MPH, is an Assistant Professor of Biostatistics, Medicine and Biomedical Informatics at Vanderbilt University. His research is focused on the detection of trends related to patient safety.
Brian Chapman
Brian E. Chapman, PhD, is an Associate Professor in the UCSD School of Medicine’s Division of Biomedical Informatics. His expertise is in medical imaging and has done research on medical image acquisition of, feature extraction from, and human interaction with medical images from a variety of modalities including MRI, CT, and mammography. His current research focuses on developing tools for the quantitative analysis of vascular images. He is leading the efforts to incorporate images and imaging tools into iDASH and is associate director for the San Diego Biomedical Informatics Education and Research training program.
Chisato Shimizu
Chisato Shimizu, PhD, is an Associate Project Scientist in the UCSD School of Medicine's Department of Pediatrics. With a background as a pediatrician in Japan, Dr. Shimizu joined Dr. Burns at the Kawasaki Disease Research Center and has worked on different aspects of Kawasaki Disease (KD) pathogenesis and genetics. She is investigator on iDASH's Kawasaki genomics project, sequencing microRNAs from KD samples.
George Varghese
George Varghese, PhD, is a Professor of Computer Science and Engineering in the UCSD Jacobs School of Engineering. He is a widely recognized researcher in the field of network algorithms who holds the prestigious title of Fellow of the Association for Computing Machinery. He uses his expertise in fast online algorithms to develop algorithms for pattern recognition in large multi-source data sets. He also contributes to the development of a networked source anonymization algorithm.
Hyeoneui Kim
Hyeoneui Kim, RN, MPH, PhD, is an Assistant Professor of Biomedical Informatics in the UCSD School of Medicine. Her research interests include standardized concept representation, the impact of information technology on quality of nursing care, and nursing decision-support systems. She coordinates the development of data models and mappings for data that are made accessible in iDASH.
Ingolf Krueger
Ingolf Krueger, PhD, is a Professor in the UCSD Computer Science and Engineering department and researcher in the UCSD division of the California Institute for Telecommunications and Information Technology (Calit2). His major research interests are service-oriented software & systems engineering for distributed, reactive systems, software architectures, description techniques, verification & validation, and development processes. The application domains to which he applies his research results span the entire range from networked embedded systems to Internet-wide business information architectures. He supervises the development of the cyber-infrastructure for delivering computational services related to data analysis, data integration, and privacy technologies.
Kamalika Chaudhuri
Kamalika Chaudhuri, PhD, is an Assistant Professor in the UCSD Computer Science and Engineering department. She is an expert on machine learning, with numerous publications, particularly on learning of Mixture Models, online learning and tracking, approximation algorithms, and privacy preserving machine learning. She is involved in developing tools and algorithms for preserving privacy while allowing access to large multi-source databases.
Karen Messer
Karen Messer, PhD, is a Professor of Family and Preventive Medicine at UCSD. She leads the Biostatistics and Bioinformatics Core at the Moores UCSD Cancer Center. She has developed techniques for regression recalibration and has collaborated extensively with biomedical and behavioral researchers in developing new methods for pattern recognition in cancer. She consults on statistical methods related to whole genome sequence analysis.
Nathaniel Heintzman
Nathaniel Heintzman, PhD, is an Assistant Professor in the UCSD School of Medicine's Division of Biomedical Informatics. He received his training in epigenomics with a strong emphasis on computational biology. A long-time diabetes advocate, he is combining his research experience in genomics and device technologies to explore quantitative aspects of glycemic control and means by which technology and other interventions can improve health outcomes in the diabetes community.
Robert El-Kareh
Robert El-Kareh, MD, MS, MPH, is an Assistant Professor in the UCSD School of Medicine's Division of Biomedical Informatics. His research interests include developing and implementing electronic systems to improve decision-making and patient safety at the point of care. He is working towards creating new decision-support systems aimed at improving the speed and accuracy of diagnosis. He teaches a course on introduction to clinical environments.
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Sergei Pond
Sergei Pond, PhD, is an Associate Professor in the UCSD School of Medicine. He has a doctoral degree in applied mathematics and has been developing open-source bioinformatics software for several years. He leads a research group in viral evolution in the Center for AIDS Research at UCSD. His phylogenetic tree software has been used by hundreds of investigators around the world, and his research involves the development of tools for subtracting microbial reads from massively parallel sequencing human samples.
Staal Vinterbo
Staal Vinterbo, PhD, is an Associate Professor in the UCSD School of Medicine's Division of Biomedical Informatics. He is an expert in privacy technology and machine learning. He has been working for over 10 years in the development of new algorithms to preserve privacy and objectively measure the risk of privacy breaches in disclosed data sets.
Wendy Chapman
Wendy W. Chapman, PhD, is an Associate Professor in the UCSD School of Medicine's Division of Biomedical Informatics. Her expertise is related to extracting information from narrative clinical reports. She is the chair of the American Medical Informatics Association Natural Language Processing Working Group and is involved in several multi-center efforts for enriching ontologies, developing standards for the clinical NLP community, and building infrastructure and resources for NLP development and collaboration.
Danielle Mowery
Danielle Mowery, MS, is a visiting PhD student from the University of Pittsburgh. Her research interests include natural language processing (information extraction and discourse modeling), data sharing, and de-identification. The focus of her dissertation work is automatic problem list generation for ambulatory care with use cases in dentistry and emergency medicine.
Maria Adela Grando
Maria Adela Grando, PhD, is a postdoctoral fellow in the UCSD School of Medicine's Division of Biomedical informatics. Her research interests include clinical decision support system, workflow-based enactment of medical guidelines, and ontology-based knowledge representation and reasoning. She is working in the development of web-based tools and ontology-based mechanisms to capture, share, interchange and reason on permissions given by subjects, when they sign and inform consent, to share their clinical data and bio-samples for future research.
Myoung Lah
Myoung Lah, BS, is a Masters student at UCSD. His research interest includes social network research. He is building a model of the UCSD student social graph using data from Facebook combined with academic records, and exploring how social networks and Facebook usage affect academic performance.
Shuang Wang
Shuang Wang, PhD, is a postdoctoral fellow in the UCSD School of Medicine's Division of Biomedical informatics. His research interests include privacy preserving data publishing and analysis, machine learning, high performance computing on GPU, distributed model learning and secure biometrics systems. He is working in the development of practical algorithms and systems for data analysis and biometrics authentication in a privacy preserving manner.
Xiaoqian Jiang
Xiaoqian Jiang, PhD, is a postdoctoral scientist in the UCSD School of Medicine’s Division of Biomedical Informatics. His expertise is in data privacy and machine learning. He has done research on imbalanced medical data analysis, predictive model calibration, and privacy-preserving data mining. His current research focuses on developing practical and scalable technologies for biomedical data analysis, anonymization, and sharing.
Guilherme Schafer
Guilherme Schafer, BS, is a Programmer Analyst in the UCSD School of Medicine’s Division of Biomedical Informatics. His background is in electronics engineering and he has extensive experience in setting up and managing computer systems. He is currently the system administrator for iDASH and the Division of Biomedical Informatics.
Jihoon Kim
Jihoon Kim, MS, is senior statistician for the Division of Biomedical Informatics. He has a master’s degree in statistics and has extensive experience in supporting investigators in various statistical matters, including design of experiments, sample size calculations, implementation of software to support statistical analyses, and reporting results in scientific publications. Furthermore, he has a master’s degree in bioinformatics, and has led the development of open-source software for integration of gene expression data from diverse platforms.
Kiltesh Patel
Kiltesh Patel, MS, is the chief architect for the Division of Biomedical Informatics at UCSD. He designs and oversees software development for the Clinical Data Warehouse, application program interfaces for the Clinical Trial Management System, clinical decision support tools for use within the Electronic Health Record system deployed in the Medical Center, and various enterprise database enhancements, including open-source gene expression database.
Paulina Paul
Paulina Paul, MS, is a Software Developer in the UCSD School of Medicine's Division of Biomedical Informatics.
Program Officer
Lead Science Officer
Science Officers
iDASH Director
Lucila Ohno-Machado
Lucila Ohno-Machado, MD, MBA, PhD, Training core director, is a Professor of Medicine and founding chief of the Division of Biomedical Informatics at UCSD. She is associate dean for informatics and technology and has experience leading multidisciplinary projects at the intersections of biomedicine and quantitative sciences. Her research group focuses on biomedical pattern recognition from large data sets, statistical learning, and privacy technology. The group has also accepted a critical role at UCSD Medical Center, including development of tools for quality assessment and the implementation of a clinical data repository for research, and the leadership of the Data Access Task Force, which establishes the policies and mechanisms for researchers to access the UCSD data. Dr. Ohno-Machado is also director of the Biomedical Research Informatics for Global Health training program.