The Molecular Genomics Core provides high-throughput analysis of genetic and epigenetic variations to researchers and clinicians of the USC Norris. The Core has two well-developed and differentiated sites: Health Sciences Campus (HSC) and Children?s Hospital Los Angeles (CHLA). The HSC site works with research samples, while the CHLA site specializes in providing services in a CLIA-compliant environment. The facility is led by Dr. David Van Den Berg, who has served as Core Director since 1999, with the support of two Co- Directors: Dr. Timothy Triche, CHLA, since 1999, and Dr. Charles Nicolet, HSC, since 2011. The Core continues to provide Cancer Center members with high-throughput biospecimen processing, DNA profiling of genetic variation, epigenetic profiling of DNA methylation and chromatin conformation, and expression profiling. At the time of the last CCSG renewal, the Molecular Genomics Core received a merit rating of excellent to outstanding. During the project period, the Core has acquired additional hardware platforms (Nanostring nCounter, Taqman Low Density Arrays, Ion Torrent PGM and Protons, Fluidigm BioMark, 2 x Illumina MiSeq and 2 x Illumina NextSeq500) to supplement existing capabilities for analysis of genetic variation, epigenetic variation and gene expression. It served as the only data production site for methylation assays for The Cancer Genome Atlas (TCGA), one of only a few sites processing the HumanOncoArray beadchip the OncoChip Consortium, and one of the largest Illumina single nucleotide polymorphism (SNP) and DNA methylation array production sites in the US. The facility has also supported the NCI Children?s Oncology Group (COG) and NCI funded TARGET program, which is profiling childhood cancer akin to TCGA?s role in adult cancer. In FY 2013-2014, 101 Cancer Center members (48% of users), of which 80 were peer-reviewed funded (38% of users) from seven Research Programs used the Molecular Genomics Core to accomplish their research objectives. The Core will continue to utilize expertise in high-throughput platforms to provide cost-effective options from single base to genome-wide analysis. The Core will continue to identify new technologies and services that may be offered to advance USC Norris research and to evaluate existing services for costeffectiveness and value added.

Agency
National Institute of Health (NIH)
Institute
National Cancer Institute (NCI)
Type
Center Core Grants (P30)
Project #
3P30CA014089-45S7
Application #
10303169
Study Section
Subcommittee H - Clinical Groups (NCI)
Program Officer
He, Min
Project Start
1996-12-01
Project End
2021-11-30
Budget Start
2019-12-01
Budget End
2020-11-30
Support Year
45
Fiscal Year
2021
Total Cost
Indirect Cost
Name
University of Southern California
Department
Type
DUNS #
072933393
City
Los Angeles
State
CA
Country
United States
Zip Code
90089
Harris, Holly R; Babic, Ana; Webb, Penelope M et al. (2018) Polycystic Ovary Syndrome, Oligomenorrhea, and Risk of Ovarian Cancer Histotypes: Evidence from the Ovarian Cancer Association Consortium. Cancer Epidemiol Biomarkers Prev 27:174-182
Lee, Brian H; Stallcup, Michael R (2018) Different chromatin and DNA sequence characteristics define glucocorticoid receptor binding sites that are blocked or not blocked by coregulator Hic-5. PLoS One 13:e0196965
Matsusaka, S; Wu, A H; Cao, S et al. (2018) Prognostic impact of FOXF1 polymorphisms in gastric cancer patients. Pharmacogenomics J 18:262-269
Woodham, Andrew W; Cheloha, Ross W; Ling, Jingjing et al. (2018) Nanobody-Antigen Conjugates Elicit HPV-Specific Antitumor Immune Responses. Cancer Immunol Res 6:870-880
Veyseh, Maedah; Ricker, Charite; Espenschied, Carin et al. (2018) Secondary Germline Finding in Liquid Biopsy of a Deceased Patient; Case Report and Review of the Literature. Front Oncol 8:259
Vannini, Ivan; Fanini, Francesca; Fabbri, Muller (2018) Emerging roles of microRNAs in cancer. Curr Opin Genet Dev 48:128-133
Sunakawa, Yu; Yang, Dongyun; Cao, Shu et al. (2018) Immune-related Genes to Dominate Neutrophil-lymphocyte Ratio (NLR) Associated With Survival of Cetuximab Treatment in Metastatic Colorectal Cancer. Clin Colorectal Cancer 17:e741-e749
Bluthenthal, Ricky N; Chu, Daniel; Wenger, Lynn D et al. (2018) Differences in time to injection onset by drug in California: Implications for the emerging heroin epidemic. Drug Alcohol Depend 185:253-259
Lu, Yingchang; Beeghly-Fadiel, Alicia; Wu, Lang et al. (2018) A Transcriptome-Wide Association Study Among 97,898 Women to Identify Candidate Susceptibility Genes for Epithelial Ovarian Cancer Risk. Cancer Res 78:5419-5430
Skeate, Joseph G; Da Silva, Diane M; Chavez-Juan, Elena et al. (2018) Nano-Pulse Stimulation induces immunogenic cell death in human papillomavirus-transformed tumors and initiates an adaptive immune response. PLoS One 13:e0191311

Showing the most recent 10 out of 842 publications