A major goal in diabetes research is to understand how alterafions in the epigenome and subsequent responses in gene expression impact disease phenotype and treatment regimens. The Epigenefic and Genomics Core (EGC) will provide access to microarray platforms, massively parallel sequencing instrumentafion and computafional infrastructure to advance the diabetes and metabolism research goals of DRC investigators. The EGC will provide the following services: 1. Expression microarray technology;Affymetrix, Agilent, Codelink, NimbleGen, and lllumina platforms will be provided for microarray-based mRNA expression profiling. Affymetrix, Life Technologies and Exiqon platforms will be provide for miRNA profiling. 2. Technical support will be provided for high-throughput sequencing assays on lllumina HiSeq 2000 platforms, including RNA sequencing (RNAseq), microRNA sequencing (mlRNAseq), global run-on sequencing (GRO-Seq), ribosome profiling and deep sequencing (Ribo-Seq), chromafin immunoprecipitafion linked to massively parallel sequencing (ChlP-Seq) and MethylC-sequencing. 3. Bioinformatics support will be provided for assistance with experimental design, choice of technological platform, data analysis and data quality control. Implementafion of new data management and analysis pipelines will facilitate effective data mining. 4. Training of students, postdoctoral fellows, invesfigators and technical staff in the application of highthroughput sequencing methodologies and data analysis 5. High-performance computing resources, systems administrators, and data storage/backup systems will enable users to efficiently access and analyze their data. A major emphasis in the configurafion of the ECG will be implementafion of new Core services to reduce barriers to entry to new investigators. This will be achieved by providing direct Core support at three of the crifical steps required to take advantage of sequencing-based technologies;1) Preparafion of sequencing libraries, 2) provision of computafional resources, and 3) assistance with data analysis through both training and provision of informatics services.

Agency
National Institute of Health (NIH)
Institute
National Institute of Diabetes and Digestive and Kidney Diseases (NIDDK)
Type
Center Core Grants (P30)
Project #
2P30DK063491-11
Application #
8443927
Study Section
Special Emphasis Panel (ZDK1-GRB-S (O2))
Project Start
Project End
Budget Start
2013-05-01
Budget End
2014-04-30
Support Year
11
Fiscal Year
2013
Total Cost
$264,422
Indirect Cost
$87,502
Name
University of California San Diego
Department
Type
DUNS #
804355790
City
La Jolla
State
CA
Country
United States
Zip Code
92093
Keaton, Jacob M; Hellwege, Jacklyn N; Ng, Maggie C Y et al. (2016) GENOME-WIDE INTERACTION WITH SELECTED TYPE 2 DIABETES LOCI REVEALS NOVEL LOCI FOR TYPE 2 DIABETES IN AFRICAN AMERICANS. Pac Symp Biocomput 22:242-253
Below, Jennifer E; Parra, Esteban J; Gamazon, Eric R et al. (2016) Meta-analysis of lipid-traits in Hispanics identifies novel loci, population-specific effects, and tissue-specific enrichment of eQTLs. Sci Rep 6:19429
Chung, Heekyung; Chou, Winjet; Sears, Dorothy D et al. (2016) Time-restricted feeding improves insulin resistance and hepatic steatosis in a mouse model of postmenopausal obesity. Metabolism 65:1743-1754
Wang, Shuai; Zhao, Jing Hua; An, Ping et al. (2016) General Framework for Meta-Analysis of Haplotype Association Tests. Genet Epidemiol 40:244-52
Golden, Diana; Kolmakova, Antonina; Sura, Sunitha et al. (2016) Lymphocyte activation gene 3 and coronary artery disease. JCI Insight 1:e88628
Gholkar, Ankur A; Senese, Silvia; Lo, Yu-Chen et al. (2016) The X-Linked-Intellectual-Disability-Associated Ubiquitin Ligase Mid2 Interacts with Astrin and Regulates Astrin Levels to Promote Cell Division. Cell Rep 14:180-8
Larson, Nicholas B; Decker, Paul A; Wassel, Christina L et al. (2016) Blood group antigen loci demonstrate multivariate genetic associations with circulating cellular adhesion protein levels in the Multi-Ethnic Study of Atherosclerosis. Hum Genet 135:415-23
Tian, Xiao Yu; Ganeshan, Kirthana; Hong, Cynthia et al. (2016) Thermoneutral Housing Accelerates Metabolic Inflammation to Potentiate Atherosclerosis but Not Insulin Resistance. Cell Metab 23:165-78
(2016) A principal component meta-analysis on multiple anthropometric traits identifies novel loci for body shape. Nat Commun 7:13357
Sajuthi, Satria P; Sharma, Neeraj K; Chou, Jeff W et al. (2016) Mapping adipose and muscle tissue expression quantitative trait loci in African Americans to identify genes for type 2 diabetes and obesity. Hum Genet 135:869-80

Showing the most recent 10 out of 706 publications