Abstract

The Genomics and Bioinformatics Core will provide resources and technical and bioinformatics support for the application of massively parallel sequencing-based technologies to the understanding of regulated gene expression in macrophages, T cells, B cells and endothelial cells. The Genomics and Bioinformatics Core will thereby enable the acquisition and sophisticated analysis of data generated by ChlP-Seq, RNA-Seq, GRO-Seq and Ribo-Seq experiments. These methods provide extremely powerful approaches to addressing key mechanistic and pathophysiologic questions by each ofthe four projects ofthe PPG.

Public Health Relevance

The ability to globally evaluate gene expression and transcription factor location using massively parallel DNA sequencing approaches provides a relatively unbiased approach to determining functional roles of these factors and upstream signaling pathways in regulation of cellular phenotypes. This information is likely to provide new insights into how specific programs of gene expression in macrophages, T cells, B cells and endothelial cells are altered in atherosclerosis.

  Funding Agency

Agency
National Institute of Health (NIH)
Institute
National Heart, Lung, and Blood Institute (NHLBI)
Type
Research Program Projects (P01)
Project #
2P01HL088093-06A1
Application #
8703255
Study Section
Heart, Lung, and Blood Program Project Review Committee (HLBP)
Project Start
Project End
Budget Start
2014-05-01
Budget End
2015-04-30
Support Year
6
Fiscal Year
2014
Total Cost
Indirect Cost

  Institution

Name
University of California San Diego
Department
Type
DUNS #
City
La Jolla
State
CA
Country
United States
Zip Code
92093

  Publications

Que, Xuchu; Hung, Ming-Yow; Yeang, Calvin et al. (2018) Oxidized phospholipids are proinflammatory and proatherogenic in hypercholesterolaemic mice. Nature 558:301-306
Senders, Max L; Que, Xuchu; Cho, Young Seok et al. (2018) PET/MR Imaging of Malondialdehyde-Acetaldehyde Epitopes With a Human Antibody Detects Clinically Relevant Atherothrombosis. J Am Coll Cardiol 71:321-335
Fan, Weiwei; He, Nanhai; Lin, Chun Shi et al. (2018) ERR? Promotes Angiogenesis, Mitochondrial Biogenesis, and Oxidative Remodeling in PGC1?/?-Deficient Muscle. Cell Rep 22:2521-2529
Shalom-Barak, Tali; Liersemann, Jaclyn; Memari, Babak et al. (2018) Ligand-Dependent Corepressor (LCoR) Is a Rexinoid-Inhibited Peroxisome Proliferator-Activated Receptor ?-Retinoid X Receptor ? Coactivator. Mol Cell Biol 38:
Winkels, Holger; Ehinger, Erik; Ghosheh, Yanal et al. (2018) Atherosclerosis in the single-cell era. Curr Opin Lipidol 29:389-396
Prohaska, Thomas A; Que, Xuchu; Diehl, Cody J et al. (2018) Massively Parallel Sequencing of Peritoneal and Splenic B Cell Repertoires Highlights Unique Properties of B-1 Cell Antibodies. J Immunol 200:1702-1717
Kobiyama, Kouji; Vassallo, Melanie; Mitzi, Jessica et al. (2018) A clinically applicable adjuvant for an atherosclerosis vaccine in mice. Eur J Immunol 48:1580-1587
Liu, Chao; Kim, Young Sook; Kim, Jungsu et al. (2018) Modeling hypercholesterolemia and vascular lipid accumulation in LDL receptor mutant zebrafish. J Lipid Res 59:391-399
Hoeksema, Marten A; Glass, Christopher K (2018) Nature and nurture of tissue-specific macrophage phenotypes. Atherosclerosis :
Winkels, Holger; Ehinger, Erik; Vassallo, Melanie et al. (2018) Atlas of the Immune Cell Repertoire in Mouse Atherosclerosis Defined by Single-Cell RNA-Sequencing and Mass Cytometry. Circ Res 122:1675-1688

Showing the most recent 10 out of 172 publications