The NIDDK Information Network (dkNET) - A Community Research Resource, Information, and Data Discovery Portal

Date

Thu Sep 8th 10:00am to 11:00am PDT

Presenter

Jeff Grethe
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Abstract

The NIDDK Information Network (dkNET; http://dknet.org) is a open community resource for basic and clinical investigators in metabolic, digestive and kidney disease.  dkNET’s portal facilitates access to a collection of diverse research resources (i.e. the multitude of data, software tools, materials, services, projects and organizations available to researchers in the public domain) that advance the mission of the National Institute of Diabetes and Digestive and Kidney Diseases (NIDDK). Most of these resources are web-accessible databases or web portals, each developed, designed and maintained by numerous different projects, organizations and individuals. While many of the large government funded databases, maintained by agencies such as NIH’s National Center for Biotechnology Information and the European Bioinformatics Institute, are well known to researchers, many more that have been developed by and for the biomedical research community are unknown or underutilized. dkNET functions as a Resource, Information, and Data Discovery Index (i.e. a “search engine for research information”), searching across millions of records contained in hundreds of biomedical databases developed and maintained by independent projects around the world. dkNET makes it easy to find research resources relevant to your work, through a concept based search interface across multiple databases created for the NIDDK community, e.g. Nuclear Receptor Signaling Atlas, GenitoUrinary Molecular Anatomy Project, Diabetic Complications Consortium, to name a few, as well as general biomedical resources. Through the data ingest process used in dkNET, additional data sources can easily be incorporated, allowing it to scale with the growth of digital data and the needs of the dkNET community. In addition to search across information sources, dkNET provides the ability to search across a Resource Registry, a curated catalog of thousands of research resources, and the Literature, a searchable index across literature via PubMed and full text articles from the Open Access literature. Building on dkNET’s core infrastructure, We have also worked to implement standards, most recently by brokering deals with major publishers to improve research reproducibility by providing data curation and research resource identification standards (RRID Initiative;http://scicrunch.org/resources) within their publication pipelines. As a community aggregator, dkNET can interoperate with bioCADDIE as important resources in the overall data ecosystem.

Bios

Dr. Grethe is currently a co-investigator for the Neuroscience Information Framework (NIF) and Principal Investigator for the NIDDK Information Network(dkNET) in the Center for Research in Biological Systems (CRBS) at the University of California, San Diego. NIF is an open source information framework enabling neuroscientists around the world to access a rich virtual environment identifying and providing access to neuroscience-relevant data and resources, to advance scientific inquiry leading to new discoveries and treatments of human neurological disorders. Following a B.S. in Applied Mathematics from the University of California, Irvine, I received a doctorate in neurosciences with a focus on neuroinformatics and computational modeling from the University of Southern California. After a post-doc in non-invasive human imaging (PET, MRI, fMRI) at Emory University, I joined the fMRI Data Center (fMRIDC) at Dartmouth College. At the fMRIDC, I was one of the core members responsible for bringing the Data Center online, the first publicly accessible repository of peer-reviewed fMRI studies. Throughout my career, I have been involved in enabling collaborative research, data sharing and discovery through the application of advanced informatics approaches. 

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