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Joshua Millstein, PhD
Assistant Professor of Research Preventive Medicine
Preventive Medicine
SSB 202N 2001 N. Soto Street Health Sciences Campus Los Angeles
+1 323 442 1450


Dr. Millstein first developed an interest in the analytic challenges arising from high throughput molecular data during his graduate studies at USC. As part of his dissertation he pioneered a two-stage analysis approach for identifying genes involved in epistasis in the context of case-control data. After a brief stint exploring the Gulf of Alaska and the Berring Sea as a Mathematical Statistician for the National Marine Fisheries Service (NMFS/NOAA), he joined Eric Schadt’s group at Rosetta Inpharmatics. There he became interested in integrative genomics studies, developing and applying methods for studies that included both genome-wide DNA and gene expression data. In 2009, Rosetta was dismantled by its owner, Merck & Co. Inc., which prompted Millstein to join the then new non-profit company, Sage Bionetworks, co-founded by Schadt and Stephen Friend, the previous Senior Vice President of Oncology at Merck. Millstein then migrated back to Los Angeles from Seattle in July 2011 to join his alma mater and continue his pursuit of the ‘missing heritability’.


Gene Expression Profiling in Blood Provides Reproducible Molecular Insights into Asthma Control. Am J Respir Crit Care Med. 2017 Jan 15; 195(2):179-188. View in: PubMed

Prenatal Air Pollution Exposures, DNA Methyl Transferase Genotypes, and Associations with Newborn LINE1 and Alu Methylation and Childhood Blood Pressure and Carotid Intima-Media Thickness in the Children's Health Study. Environ Health Perspect. 2016 Dec; 124(12):1905-1912. View in: PubMed

cit: hypothesis testing software for mediation analysis in genomic applications. Bioinformatics. 2016 Aug 01; 32(15):2364-5. View in: PubMed

NPPB is a novel candidate biomarker expressed by cancer-associated fibroblasts in epithelial ovarian cancer. Int J Cancer. 2015 Mar 15; 136(6):1390-401. View in: PubMed

Alteration of select gene expression patterns in individuals infected with HIV-1. J Med Virol. 2014 Apr; 86(4):678-86. View in: PubMed

Computationally efficient permutation-based confidence interval estimation for tail-area FDR. Front Genet. 2013; 4:179. View in: PubMed

Screening-testing approaches for gene-gene and gene-environment interactions using independent statistics. Front Genet. 2013; 4:306. View in: PubMed

Mapping the genetic architecture of gene expression in human liver. PLoS Biol. 2008 May 06; 6(5):e107. View in: PubMed

Health effects of the 2003 Southern California wildfires on children. Am J Respir Crit Care Med. 2006 Dec 01; 174(11):1221-8. View in: PubMed

A testing framework for identifying susceptibility genes in the presence of epistasis. Am J Hum Genet. 2006 Jan; 78(1):15-27. View in: PubMed

Identifying susceptibility genes by using joint tests of association and linkage and accounting for epistasis. BMC Genet. 2005 Dec 30; 6 Suppl 1:S147. View in: PubMed

Testing association and linkage using affected-sib-parent study designs. Genet Epidemiol. 2005 Nov; 29(3):225-33. View in: PubMed

Birth outcomes and prenatal exposure to ozone, carbon monoxide, and particulate matter: results from the Children's Health Study. Environ Health Perspect. 2005 Nov; 113(11):1638-44. View in: PubMed

Effects of ambient air pollutants on asthma medication use and wheezing among fourth-grade school children from 12 Southern California communities enrolled in The Children's Health Study. Arch Environ Health. 2004 Oct; 59(10):505-14. View in: PubMed

Comparison of age-length and growth-increment general growth models of the Schnute type in the Pacific Blue Mussel, Mytilus trossulus Gould. J Exp Mar Bio Ecol. 2001 Jul 30; 262(2):155-176. View in: PubMed

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