3rd Industry Talk - Paul Watkins

submitted by: DBMIUCSD
Mr. Watkins will share his fly-on-the-wall experience of working in life science and genomics companies since 1981. He started with an early biotech company (Integrated Genetics before it was acquired by Genzyme) where he developed the first set of markers for DNA polymorphisms mapping to human chromosome 21 and led a group hunting for the cystic fibrosis gene. He currently heads business development, marketing and sales for BC Platforms Ltd., a Finnish bio-computation company that provides...

JAMIA Webinar - 2013

submitted by: Jamia

March 2013, JAMIA Webinar. Presenter: Griffin Weber,MD. CIO of Harvard Medical School

Feb-2013 JAMIA Webinar (UCSD, Division of Biomedical Informatics)

submitted by: Jamia

Clinical Decision Support for Genetically Guided Personalized Medicine: a Systematic Review

Building Public Trust in Uses of HIPAA De-Identified Date

submitted by: Jamia

The aim is to build public trust. Without privacy protection, people will aboid having their data shared. Their goal is to identify which concerns are "real" and begin discussion on how to resolve those concerns.

The Tranche data repository: Progress made and lessons learned from 24.4 TB of data, 1,612 users and 12,458 depositions.

submitted by: ucsd_idash
ABSTRACT High-throughput data production in proteomics and other post-genome disciplines has resulted in many data sharing, annotation, and dissemination challenges. Successful systems require as much thought and effort be put into the social aspects of engineering as the software side. Close relationships with data generators and users are crucial as is the recognition that development of a database to support a static field is quite different from research fields where the data types,...

Visualization and Analysis of Multiple Streams of Time-Coded Data

submitted by: ucsd_idash
ABSTRACT In many fields of observational research, it is increasingly common to collect many types of data about the activity of study participants, including things such as digital video, system logs, and sensor data. I will present ChronoViz, a tool I have developed for annotation, visualization, navigation, and analysis of multiple streams of time-coded data. Researchers using ChronoViz can navigate data in multiple ways, including through the use of interactive paper technology, and...

Network Enabled Research: Not just better or faster but fundamentally different

submitted by: ucsd_idash
ABSTRACT The web, like all network technologies before it from the mobile phone to writing itself, has the potential to enable a qualitative change in our capacity as people, organizations and societies. We are starting to see the first glimmerings of how our research capacity might change with projects like Galaxy Zoo and Polymath but these remain isolated examples. What will it take to exploit the network capacity that the web brings us to enable a step change in the efficiency and...

Patient Characteristics associated with Venous Thromboembolic Events: a Cohort Study Using Pooled Electronic Health Record Data

submitted by: Jamia
Abstract: Objective: To demonstrate the potential of de-identified clinical data from multiple healthcare systems using different electronic health records (EHR) to be efficiently used for very large retrospective cohort studies. Materials and methods: Data of 959,030 patients, pooled from multiple different healthcare systems with distinct EHR, were obtained. Data were standardized and normalized using common ontologies, searchable through a HIPAA-complaint, patient de-identified web...

Deriving rules and assertions from pharmacogenomics knowledge resources in support of patient drug metabolism efficacy...

submitted by: Jamia
Full title: Deriving rules and assertions from pharmacogenomics knowledge resources in support of patient drug metabolism efficacy predictions Abstract: Objective Pharmacogenomics evaluations of variability in drug metabolic processes may be useful for making individual drug response predictions. We present an approach to deriving ‘phenotype scores’ based on existing pharmacogenomics knowledge and a patient's genomics data. Pharmacogenomics plays an important role in the bioactivation...

AMIA Board White Paper on Biomedical Informatics Definition and Core Competencies

submitted by: Jamia
Abstract The AMIA biomedical informatics (BMI) core competencies have been designed to support and guide graduate education in BMI, the core scientific discipline underlying the breadth of the field's research, practice, and education. The core definition of BMI adopted by AMIA specifies that BMI is ‘the interdisciplinary field that studies and pursues the effective uses of biomedical data, information, and knowledge for scientific inquiry, problem solving and decision making, motivated...