Sustaining the Digital Research Enterprise through Visual Analytics (October 18, 2011)

Transcription

1 Sustaining the Digital Research Enterprise through Visual Analytics Raphael D. Isokpehi, PhD Associate Professor, Department of Biology Pilot Project Investigator, RCMI Center for Environmental Health Director, Center for Bioinformatics & Computational Biology Principal Investigator, Visual Analytics in Biology Curriculum Network College of Science, Engineering & Technology Jackson State University, Jackson Mississippi Sustaining the Digital Research Enterprise Summit Organized by Group on Research Advancement and Development (GRAND) Association of American Medical Colleges Venue: National Institute of Health Fisher Lane Conference Center Date: Bethesda, October 18, 2011

2 Biomedical and Translation Research at Jackson State University Mississippi s Urban University High-Research University RCMI Institution Public University Host of RTRN Data Technology Coordinating Center Hub for the Visual Analytics in Biology Curriculum Network RCMI Translational Research Network

3 Features of RCMI-funded Center Core Laboratories Pilot Project Investigators Thematic Research Area BIG DATA ON HEALTH DISPARITIES RTRN Health Disparities Underserved Communities PhD-granting Institutions Data Technology Coordinating Center at JSU Includes Members of Association of American Medical Colleges Translational Research Clusters: Cancer and Immunological Disease; HIV/AIDS and Infectious Diseases; Cardiovascular and Related Diseases; Informatics Obesity and Metabolic Diseases; Neurological Diseases and Mental Health and Community Principal Investigator: Keith Norris, MD

4 Jackson State University Library and Information Resources Libraries serve as a Crucial Catalyst for Sustaining Digital Research Enterprise

5 VISUAL ANALYTICS FOR MAKING SENSE OF BIG DATA Visualizations are absolutely critical to our ability to process complex data and to build better intuitions as to what is happening around us. Fox P and Hendler J. (2011) Changing the Equation on Scientific Data Visualization. Science 331: Visual Analytics is the science of analytical reasoning facilitated by interactive visual interfaces More Information at

6 SAMPLE OF BIOMEDICAL VISUAL ANALYTICS PUBLICATIONS IN PUBMED

7 VISUAL ANALYTICS FOR MAKING SENSE OF BIG GENOMIC DATA FROM CARDIOVASCULAR HEALTH CLINICAL TRIALS Publications available in PubMed ( 1. When possible PubMed records are linked to Genomic (e.g. Gene, SNPs) data Investigated in Heart Studies. 2. How can this wealth of genomic data be useful in understanding predisposition and progression of cardiovascular disease?

8 RESOURCE FOR ENRICHED BIOLOGICAL INFORMATION ON GENES AT NATIONAL CENTER FOR INTEGRATIVE BIOMEDICAL INFORMATICS Example: Gap Junction Proteins Gap junction channels provide the basis for intercellular communication and play an important physiological role in the cardiovascular system for maintenance of the normal cardiac rhythm, regulation of vascular tone, endothelial function and myoendothelial interaction as well as for metabolic interchange between the cells [PubMed Identifier : ]. Enriched Biological Information on GJA1 Stored in ConceptGen (

9 MAKING SENSE OF ENRICHED BIOLOGICAL INFORMATION ON GAP JUNCTION PROTEINS FROM CONCEPTGEN (FOCUS ON MEDICAL SUBJECT HEADING) Heart-Related Enriched Biological Information Data available for storage, sharing and interaction at: In the vascular wall, endothelial cells are connected to other endothelial cells (EC) and vascular smooth muscle cells to other vascular smooth muscle cells (VSMC) by homocellular gap junctions. Endothelial cells can also form heterocellular gap junctions with vascular smooth muscle cells.

10 Transforming Undergraduate Biology Education through Visual Analytics Core Competencies for Biologists 1. APPLY THE PROCESS OF SCIENCE 2. USE QUANTITATIVE REASONING 3. USE MODELING AND SIMULATION 4. TAP INTO THE INTERDISCIPLINARY NATURE OF SCIENCE 5. COMMUNICATE AND COLLABORATE WITH OTHER DISCIPLINES 6. UNDERSTAND THE RELATIONSHIP BETWEEN SCIENCE AND SOCIETY Vision and Change in Undergraduate Biology Education What is the New Biology? SOURCE: Committee on a New Biology for the 21st Century.

11 Summary Emerging Big Data on Health Disparities RCMI Translational Research Network Connecting Cardiovascular Health Clinical Trials Literature to Genomic Information Demonstration of Visual Analytics of Results from Digital Research Resource (ConceptGen) at National Center for Integrative Biomedical Informatics ( Example on Gap Junction Channels with role in cardiac biology Transforming Undergraduate Biology Education Core Competencies in Biology Visual Analytics for Mastering Core Concepts in Biology

12 Funding RCMI-Center for Environmental Health (5G12RR013459) National Center for Integrative Biomedical Informatics (U54DA021519) Mississippi IDeA Network of Biomedical Excellence (P20RR016476) Arkansas IDeA Network of Biomedical Excellence (2P20RR016460) Visual Analytics in Biology Curriculum Network (NSF-DBI )