Ryan Hernandez, PhD

Department of Bioengineering and Therapeutic Sciences
+1 415 514-9813
Research Overview: 

Hernandez Lab research focuses on three main areas:

  1. Basic population genomics: we seek to use current patterns of human genetic variation from whole genome sequencing to understand the evolutionary history of human populations.
  2. Disease susceptibility in complex populations: We strive to leverage evolutionary signals in patterns of genetic variation to uncover the meaningful associations with phenotypic variation.
  3. Host-pathogen interactions: We develop tools to leverage patterns of genetic diversity within populations and divergence across phylogenies to learn more about the genetic targets of host-pathogen interactions.
Primary Thematic Area: 
Human Genetics
Secondary Thematic Area: 
Research Summary: 
We study patterns of human genetic variation using large-scale data and the tools of population genomics.
Mentorship Development: 

3/10/20    Promoting Student Mental Health:A Presentation and Discussion (Staff and Faculty)    
4/23/20    Effective Strategies for IDPs    
4/30/20    Mental Health in a Pandemic: Q&A for Faculty    
2/18/21    Three Truths and Three Tries: Facing and Overcoming Critical Social Justice Challenges at the Micro, Mezzo, and Macro Levels    
2/19/21    DEI Champions Training


Assessing the contribution of rare variants to complex trait heritability from whole-genome sequence data.

Nature genetics

Wainschtein P, Jain D, Zheng Z, TOPMed Anthropometry Working Group, NHLBI Trans-Omics for Precision Medicine (TOPMed) Consortium, Cupples LA, Shadyab AH, McKnight B, Shoemaker BM, Mitchell BD, Psaty BM, Kooperberg C, Liu CT, Albert CM, Roden D, Chasman DI, Darbar D, Lloyd-Jones DM, Arnett DK, Regan EA, Boerwinkle E, Rotter JI, O'Connell JR, Yanek LR, de Andrade M, Allison MA, McDonald MN, Chung MK, Fornage M, Chami N, Smith NL, Ellinor PT, Vasan RS, Mathias RA, Loos RJF, Rich SS, Lubitz SA, Heckbert SR, Redline S, Guo X, Chen Y-I, Laurie CA, Hernandez RD, McGarvey ST, Goddard ME, Laurie CC, North KE, Lange LA, Weir BS, Yengo L, Yang J, Visscher PM

Population sequencing data reveal a compendium of mutational processes in the human germ line.

Science (New York, N.Y.)

Seplyarskiy VB, Soldatov RA, Koch E, McGinty RJ, Goldmann JM, Hernandez RD, Barnes K, Correa A, Burchard EG, Ellinor PT, McGarvey ST, Mitchell BD, Vasan RS, Redline S, Silverman E, Weiss ST, Arnett DK, Blangero J, Boerwinkle E, He J, Montgomery C, Rao DC, Rotter JI, Taylor KD, Brody JA, Chen YI, de Las Fuentes L, Hwu CM, Rich SS, Manichaikul AW, Mychaleckyj JC, Palmer ND, Smith JA, Kardia SLR, Peyser PA, Bielak LF, O'Connor TD, Emery LS, NHLBI Trans-Omics for Precision Medicine (TOPMed) Consortium , TOPMed Population Genetics Working Group , Gilissen C, Wong WSW, Kharchenko PV, Sunyaev S

Recent shifts in the genomic ancestry of Mexican Americans may alter the genetic architecture of biomedical traits.


Spear ML, Diaz-Papkovich A, Ziv E, Yracheta JM, Gravel S, Torgerson DG, Hernandez RD

A Cutibacterium acnes antibiotic modulates human skin microbiota composition in hair follicles.

Science translational medicine

Claesen J, Spagnolo JB, Ramos SF, Kurita KL, Byrd AL, Aksenov AA, Melnik AV, Wong WR, Wang S, Hernandez RD, Donia MS, Dorrestein PC, Kong HH, Segre JA, Linington RG, Fischbach MA, Lemon KP