University of California San Francisco
Helen Diller Family Comprehensive Cancer Center
Dexter Hadley, MD, PhD

Dexter Hadley, MD, PhD

Assistant Professor, Department of Pediatrics, UCSF

Cancer Center Program Memberships


Research Summary

Dr. Hadley's expertise is in translating big data into precision medicine and digital health. His background is in genomics and computational biology and he has training in clinical pathology. His research generates, annotates, and ultimately reasons over large multi-modal data stores to identify novel biomarkers and potential therapeutics for disease. His early work resulted in a successful precision medicine clinical trial for ADHD ( Identifier: NCT02286817) for a first-in-class, non-stimulant neuromodulator to be targeted across the neuropsychiatric disease spectrum. More recently, his laboratory was funded by the NIH Big Data to Knowledge initiative to develop the online portal to crowd-source annotations of open genomics big data that allows users to discover the functional genes and biological pathways that are defective in disease. In addition to his genomics work, he develops state-of-the-art data driven models of clinical intelligence that drive clinical applications to more precisely screen, diagnose, and manage disease. Towards this end, he has been repeatedly recognized by UCSF with various awards including the inaugural UCSF Marcus Award for Precision Medicine to develop a digital learning health system to use smartphones to screen for skin cancer as well as a pilot award in precision imaging to better screen mammograms for invasive breast cancer. In general, the end point of his work is rapid proofs of concept clinical trials in humans that translate into better patient outcomes and reduced morbidity and mortality across the spectrum of disease.


New College of Florida, Sarasota, FL, B.S., 05/1999, Natural Science
University of Pennsylvania, Philadelphia, PA, M.S.E., 05/2003, Systems Engineering
University of Pennsylvania, Philadelphia, PA, Ph.D., 10/2007, Genomics & Comp Bio
University of Pennsylvania, Philadelphia, PA, M.D., 05/2009, Medicine
Hospital of the University of Pennsylvania, PA, Internship, 06/2010, General Surgery
Stanford University, Stanford, CA, Residency, 06/2013, Clinical Pathology

Professional Experience

  • 07/10 – 06/12
    Lead Clinical Genomics Analyst, Center for Applied Genomics, Children's Hospital of Philadelphia, Philadelphia, PA
  • 09/13 – 03/15
    Research Associate, Division of Systems Medicine, Department of Pediatrics, Stanford University, Stanford, CA
  • 04/15 – present
    Assistant Professor, Department of Pediatrics, UCSF, San Francisco, CA

Honors & Awards

  • 2000
    Center of Excellence Fellowship
  • 2000
    NIH/NHLBI Fellowship
  • 2007
    AAAS Excellence in Science Scholar
  • 2003 – 2007
    NIH Computational Biology Training Grant
  • 2009
    Penn Biotech Group Entrepreneurial Competition Winner
  • 2011
    NIH LRP award for outstanding pediatric clinical research
  • 2015
    AMIA Design Challenge Competition Winner

Selected Publications

  1. Shaikh F, Franc B, Allen E, Sala E, Awan O, Hendrata K, Halabi S, Mohiuddin S, Malik S, Hadley D, Shrestha R. Translational Radiomics: Defining the Strategy Pipeline and Considerations for Application-Part 1: From Methodology to Clinical Implementation. J Am Coll Radiol. 2018 Mar; 15(3 Pt B):538-542.
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  2. Shaikh F, Franc B, Allen E, Sala E, Awan O, Hendrata K, Halabi S, Mohiuddin S, Malik S, Hadley D, Shrestha R. Translational Radiomics: Defining the Strategy Pipeline and Considerations for Application-Part 2: From Clinical Implementation to Enterprise. J Am Coll Radiol. 2018 Mar; 15(3 Pt B):543-549.
    View on PubMed
  3. Kido T, Sikora-Wohlfeld W, Kawashima M, Kikuchi S, Kamatani N, Patwardhan A, Chen R, Sirota M, Kodama K, Hadley D, Butte AJ. Are minor alleles more likely to be risk alleles? BMC Med Genomics. 2018 Jan 19; 11(1):3.
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  4. Rappoport N, Toung J, Hadley D, Wong RJ, Fujioka K, Reuter J, Abbott CW, Oh S, Hu D, Eng C, Huntsman S, Bodian DL, Niederhuber JE, Hong X, Zhang G, Sikora-Wohfeld W, Gignoux CR, Wang H, Oehlert J, Jelliffe-Pawlowski LL, Gould JB, Darmstadt GL, Wang X, Bustamante CD, Snyder MP, Ziv E, Patsopoulos NA, Muglia LJ, Burchard E, Shaw GM, O'Brodovich HM, Stevenson DK, Butte AJ, Sirota M. A genome-wide association study identifies only two ancestry specific variants associated with spontaneous preterm birth. Sci Rep. 2018 Jan 09; 8(1):226.
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  5. Chalkia D, Singh LN, Leipzig J, Lvova M, Derbeneva O, Lakatos A, Hadley D, Hakonarson H, Wallace DC. Association Between Mitochondrial DNA Haplogroup Variation and Autism Spectrum Disorders. JAMA Psychiatry. 2017 Nov 01; 74(11):1161-1168.
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  6. Himmelstein DS, Lizee A, Hessler C, Brueggeman L, Chen SL, Hadley D, Green A, Khankhanian P, Baranzini SE. Systematic integration of biomedical knowledge prioritizes drugs for repurposing. Elife. 2017 Sep 22; 6.
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  7. Hadley D, Pan J, El-Sayed O, Aljabban J, Aljabban I, Azad TD, Hadied MO, Raza S, Rayikanti BA, Chen B, Paik H, Aran D, Spatz J, Himmelstein D, Panahiazar M, Bhattacharya S, Sirota M, Musen MA, Butte AJ. Precision annotation of digital samples in NCBI's gene expression omnibus. Sci Data. 2017 09 19; 4:170125.
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  8. Bhattacharya A, Young A, Wong A, Stalling S, Wei M, Hadley D. Precision Diagnosis Of Melanoma And Other Skin Lesions From Digital Images. AMIA Jt Summits Transl Sci Proc. 2017; 2017:220-226.
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  9. Hoffman JD, Graff RE, Emami NC, Tai CG, Passarelli MN, Hu D, Huntsman S, Hadley D, Leong L, Majumdar A, Zaitlen N, Ziv E, Witte JS. Cis-eQTL-based trans-ethnic meta-analysis reveals novel genes associated with breast cancer risk. PLoS Genet. 2017 Mar; 13(3):e1006690.
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  10. Paik H, Chen B, Sirota M, Hadley D, Butte AJ. Integrating Clinical Phenotype and Gene Expression Data to Prioritize Novel Drug Uses. CPT Pharmacometrics Syst Pharmacol. 2016 Nov; 5(11):599-607.
    View on PubMed
  11. Hinney A, Kesselmeier M, Jall S, Volckmar AL, Föcker M, Antel J. Evidence for three genetic loci involved in both anorexia nervosa risk and variation of body mass index. Mol Psychiatry. 2017 02; 22(2):321-322.
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  12. Hinney A, Kesselmeier M, Jall S, Volckmar AL, Föcker M, Antel J. Evidence for three genetic loci involved in both anorexia nervosa risk and variation of body mass index. Mol Psychiatry. 2017 02; 22(2):192-201.
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  13. Desai A, Connolly JJ, March M, Hou C, Chiavacci R, Kim C, Lyon G, Hadley D, Hakonarson H. Systematic data-querying of large pediatric biorepository identifies novel Ehlers-Danlos Syndrome variant. BMC Musculoskelet Disord. 2016 Feb 16; 17:80.
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  14. Osama El-Sayed, Omar Hadied, Jihad Al-Jabban, Bilal Zaidi, Shuaib Raza, James Pan, Tej Azad, Imad Al-Jabban, Dexter Hadley. Meta-Analyses of Microarray Data Reveals Interferon Signaling Is Top Canonical Pathway in Human Immunodeficiency Virus (HIV). 2015; 2(suppl 1):1608.
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  15. Mohamad Omar Hadied, Osama El-Sayed, Bilal Zaidi, Jihad Al-Jabban, Shuaib Raza, Imad Al-Jabban, James Pan, Tej Azad, Dexter Hadley. Open Forum Infectious Diseases . Novel Meta-Analyses of Microarray Data First Step Toward Malaria Disease Signature Development. 2015; 2(suppl 1):1608.
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  16. Chen B, Sirota M, Fan-Minogue H, Hadley D, Butte AJ. Relating hepatocellular carcinoma tumor samples and cell lines using gene expression data in translational research. BMC Med Genomics. 2015; 8 Suppl 2:S5.
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  17. Fan-Minogue H, ... Hadley D., et al.. GenePool: A Cloud-Based Platform for Interactive Visualization and Integrative Analysis of Genomics and Clinical Data. 2015.
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  18. Hadley D, et al.. Human Computation of Big Data in Biomedicine: Making STAR annotations for large scale functional characterization of disease. 2015.
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  19. Hadley D, et al.. Search Tag Analyze Resource (STAR): An online platform to crowd-source genomic disease signatures from open digital samples. 2015.
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  20. Waggoner JJ, Sahadeo NS, Brown A, Mohamed-Hadley A, Hadley D, Carrington L, Carrington CV, Pinsky BA. Improved serotype-specific dengue virus detection in Trinidad and Tobago using a multiplex, real-time RT-PCR. Diagn Microbiol Infect Dis. 2015 Feb; 81(2):105-6.
    View on PubMed

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