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Dexter Hadley, MD, PhD

TitleAssistant Professor
SchoolUCSF School of Medicine
DepartmentPediatrics
Address550 16th Street
San Francisco CA 94158
EmailDexter.Hadley@ucsf.edu
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    Collapse Biography 
    Collapse Education and Training
    Stanford UniversityResidency2012Clinical Pathology
    Hospital of the University of PennsylvaniaInternship2010General Surgery
    University of PennsylvaniaM.D.2009School of Medicine
    University of PennsylvaniaPh.D.2007Genomics & Computational Biology
    University of PennsylvaniaM.S.E.2003Systems Engineering
    New College of FL (Honors)B.A.1999Natural Science
    Collapse Awards and Honors
    UCSF2017 - 2018Pilot Award in Precision Imaging of Cancer and Therapy
    UCSF2016 - 2018Inaugural Marcus Award for Precision Medicine Innovation
    NIH/NCI2016 - 2018Big Data 2 Knowledge (BD2K) Crowdsourcing Award
    UCSF2015 - 2016RAP Award for Digital Health
    UCSF2015 - 2015Faculty Enrichment Fund
    AMIA2015 - 2015AMIA Design Challenge Competition Winner
    NIH2011 - 2013LRP award in pediatrics
    Penn2009 - 2009Penn Biotech Group Entrepreneurial Competition Winner
    NIH/Penn2003 - 2007Computational Biology Training Grant
    Penn2000 - 2000Center of Excellence Fellowship
    NIH/NHLBI2000 - 2000Medical Student Fellowship

    Collapse Overview 
    Collapse Overview
    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 (ClinicalTrials.gov 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 stargeo.org 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.


    Collapse Research 
    Collapse Research Activities and Funding
    Crowd-sourcing A STAR Functional Genomic Characterization of Cancer with Open Big Data
    NIH UH2CA203792Apr 1, 2016 - Mar 31, 2018
    Role: Principal Investigator

    Collapse ORNG Applications 
    Collapse Websites
    Collapse In The News
    Collapse Featured Presentations
    Collapse Featured Videos

    Collapse Bibliographic 
    Collapse Publications
    Publications listed below are automatically derived from MEDLINE/PubMed and other sources, which might result in incorrect or missing publications. Researchers can login to make corrections and additions, or contact us for help.
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    1. 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 14. PMID: 27860440.
      View in: PubMed
    2. Hinney A, Kesselmeier M, Jall S, Volckmar AL, Föcker M, Antel J, Heid IM, Winkler TW, Grant SF, Guo Y, Bergen AW, Kaye W, Berrettini W, Hakonarson H, Herpertz-Dahlmann B, de Zwaan M, Herzog W, Ehrlich S, Zipfel S, Egberts KM, Adan R, Brandys M, van Elburg A, Boraska Perica V, Franklin CS, Tschöp MH, Zeggini E, Bulik CM, Collier D, Scherag A, Müller TD, Hebebrand J. Evidence for three genetic loci involved in both anorexia nervosa risk and variation of body mass index. Mol Psychiatry. 2017 Feb; 22(2):192-201. PMID: 27184124.
      View in: PubMed
    3. 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; 17(1):80. PMID: 26879370.
      View in: PubMed
    4. 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.
    5. 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.
    6. 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. PMID: 26043652; PMCID: PMC4460709.
    7. Hadley D, et al. Human Computation of Big Data in Biomedicine: Making STAR annotations for large scale functional characterization of disease. 2015.
    8. Hadley D, et al. Search Tag Analyze Resource (STAR): An online platform to crowd-source genomic disease signatures from open digital samples. 2015.
    9. Fan-Minogue H, ... Hadley D., et al. GenePool: A Cloud-Based Platform for Interactive Visualization and Integrative Analysis of Genomics and Clinical Data. 2015.
    10. 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. PMID: 25533614; PMCID: PMC4297500 [Available on 02/01/16].
    11. Hadley D, Wu ZL, Kao C, Kini A, Mohamed-Hadley A, Thomas K, Vazquez L, Qiu H, Mentch F, Pellegrino R, Kim C, Connolly J, Glessner J, Hakonarson H. The impact of the metabotropic glutamate receptor and other gene family interaction networks on autism. Nat Commun. 2014; 5:4074. PMID: 24927284; PMCID: PMC4059929.
    12. Cousminer DL, Stergiakouli E, Berry DJ, Ang W, Groen-Blokhuis MM, Körner A, Siitonen N, Ntalla I, Marinelli M, Perry JR, Kettunen J, Jansen R, Surakka I, Timpson NJ, Ring S, Mcmahon G, Power C, Wang C, Kähönen M, Viikari J, Lehtimäki T, Middeldorp CM, Hulshoff Pol HE, Neef M, Weise S, Pahkala K, Niinikoski H, Zeggini E, Panoutsopoulou K, Bustamante M, Penninx BW, Murabito J, Torrent M, Dedoussis GV, Kiess W, Boomsma DI, Pennell CE, Raitakari OT, Hyppönen E, Davey Smith G, Ripatti S, McCarthy MI, Widén E. Genome-wide association study of sexual maturation in males and females highlights a role for body mass and menarche loci in male puberty. Hum Mol Genet. 2014 Aug 15; 23(16):4452-64. PMID: 24770850; PMCID: PMC4168307.
    13. Matsunami N, Hensel CH, Baird L, Stevens J, Otterud B, Leppert T, Varvil T, Hadley D, Glessner JT, Pellegrino R, Kim C, Thomas K, Wang F, Otieno FG, Ho K, Christensen GB, Li D, Prekeris R, Lambert CG, Hakonarson H, Leppert MF. Identification of rare DNA sequence variants in high-risk autism families and their prevalence in a large case/control population. Mol Autism. 2014; 5(1):5. PMID: 24467814; PMCID: PMC4098669.
    14. Sleiman P, Wang D, Glessner J, Hadley D, Gur RE, Cohen N, Li Q, Hakonarson H. GWAS meta analysis identifies TSNARE1 as a novel Schizophrenia / Bipolar susceptibility locus. Sci Rep. 2013; 3:3075. PMID: 24166486; PMCID: PMC3810676.
    15. Cousminer DL, Berry DJ, Timpson NJ, Ang W, Thiering E, Byrne EM, Taal HR, Huikari V, Bradfield JP, Kerkhof M, Groen-Blokhuis MM, Kreiner-Møller E, Marinelli M, Holst C, Leinonen JT, Perry JR, Surakka I, Pietiläinen O, Kettunen J, Anttila V, Kaakinen M, Sovio U, Pouta A, Das S, Lagou V, Power C, Prokopenko I, Evans DM, Kemp JP, St Pourcain B, Ring S, Palotie A, Kajantie E, Osmond C, Lehtimäki T, Viikari JS, Kähönen M, Warrington NM, Lye SJ, Palmer LJ, Tiesler CM, Flexeder C, Montgomery GW, Medland SE, Hofman A, Hakonarson H, Guxens M, Bartels M, Salomaa V, Murabito JM, Kaprio J, Sørensen TI, Ballester F, Bisgaard H, Boomsma DI, Koppelman GH, Grant SF, Jaddoe VW, Martin NG, Heinrich J, Pennell CE, Raitakari OT, Eriksson JG, Smith GD, Hyppönen E, Järvelin MR, McCarthy MI, Ripatti S, Widén E. Genome-wide association and longitudinal analyses reveal genetic loci linking pubertal height growth, pubertal timing and childhood adiposity. Hum Mol Genet. 2013 Jul 1; 22(13):2735-47. PMID: 23449627; PMCID: PMC3674797.
    16. Matsunami N, Hadley D, Hensel CH, Christensen GB, Kim C, Frackelton E, Thomas K, da Silva RP, Stevens J, Baird L, Otterud B, Ho K, Varvil T, Leppert T, Lambert CG, Leppert M, Hakonarson H. Identification of rare recurrent copy number variants in high-risk autism families and their prevalence in a large ASD population. PLoS One. 2013; 8(1):e52239. PMID: 23341896; PMCID: PMC3544904.
    17. Sanna-Cherchi S, Kiryluk K, Burgess KE, Bodria M, Sampson MG, Hadley D, Nees SN, Verbitsky M, Perry BJ, Sterken R, Lozanovski VJ, Materna-Kiryluk A, Barlassina C, Kini A, Corbani V, Carrea A, Somenzi D, Murtas C, Ristoska-Bojkovska N, Izzi C, Bianco B, Zaniew M, Flogelova H, Weng PL, Kacak N, Giberti S, Gigante M, Arapovic A, Drnasin K, Caridi G, Curioni S, Allegri F, Ammenti A, Ferretti S, Goj V, Bernardo L, Jobanputra V, Chung WK, Lifton RP, Sanders S, State M, Clark LN, Saraga M, Padmanabhan S, Dominiczak AF, Foroud T, Gesualdo L, Gucev Z, Allegri L, Latos-Bielenska A, Cusi D, Scolari F, Tasic V, Hakonarson H, Ghiggeri GM, Gharavi AG. Copy-number disorders are a common cause of congenital kidney malformations. Am J Hum Genet. 2012 Dec 7; 91(6):987-97. PMID: 23159250; PMCID: PMC3516596.
    18. Bradfield JP, Taal HR, Timpson NJ, Scherag A, Lecoeur C, Warrington NM, Hypponen E, Holst C, Valcarcel B, Thiering E, Salem RM, Schumacher FR, Cousminer DL, Sleiman PM, Zhao J, Berkowitz RI, Vimaleswaran KS, Jarick I, Pennell CE, Evans DM, St Pourcain B, Berry DJ, Mook-Kanamori DO, Hofman A, Rivadeneira F, Uitterlinden AG, van Duijn CM, van der Valk RJ, de Jongste JC, Postma DS, Boomsma DI, Gauderman WJ, Hassanein MT, Lindgren CM, Mägi R, Boreham CA, Neville CE, Moreno LA, Elliott P, Pouta A, Hartikainen AL, Li M, Raitakari O, Lehtimäki T, Eriksson JG, Palotie A, Dallongeville J, Das S, Deloukas P, McMahon G, Ring SM, Kemp JP, Buxton JL, Blakemore AI, Bustamante M, Guxens M, Hirschhorn JN, Gillman MW, Kreiner-Møller E, Bisgaard H, Gilliland FD, Heinrich J, Wheeler E, Barroso I, O'Rahilly S, Meirhaeghe A, Sørensen TI, Power C, Palmer LJ, Hinney A, Widen E, Farooqi IS, McCarthy MI, Froguel P, Meyre D, Hebebrand J, Jarvelin MR, Jaddoe VW, Smith GD, Hakonarson H, Grant SF. A genome-wide association meta-analysis identifies new childhood obesity loci. Nat Genet. 2012 May; 44(5):526-31. PMID: 22484627; PMCID: PMC3370100.
    19. Taal HR, St Pourcain B, Thiering E, Das S, Mook-Kanamori DO, Warrington NM, Kaakinen M, Kreiner-Møller E, Bradfield JP, Freathy RM, Geller F, Guxens M, Cousminer DL, Kerkhof M, Timpson NJ, Ikram MA, Beilin LJ, Bønnelykke K, Buxton JL, Charoen P, Chawes BL, Eriksson J, Evans DM, Hofman A, Kemp JP, Kim CE, Klopp N, Lahti J, Lye SJ, McMahon G, Mentch FD, Müller-Nurasyid M, O'Reilly PF, Prokopenko I, Rivadeneira F, Steegers EA, Sunyer J, Tiesler C, Yaghootkar H, Breteler MM, Decarli C, Breteler MM, Debette S, Fornage M, Gudnason V, Launer LJ, van der Lugt A, Mosley TH, Seshadri S, Smith AV, Vernooij MW, Blakemore AI, Chiavacci RM, Feenstra B, Fernandez-Banet J, Grant SF, Hartikainen AL, van der Heijden AJ, Iñiguez C, Lathrop M, McArdle WL, Mølgaard A, Newnham JP, Palmer LJ, Palotie A, Pouta A, Ring SM, Sovio U, Standl M, Uitterlinden AG, Wichmann HE, Vissing NH, DeCarli C, van Duijn CM, McCarthy MI, Koppelman GH, Estivill X, Hattersley AT, Melbye M, Bisgaard H, Pennell CE, Widen E, Hakonarson H, Smith GD, Heinrich J, Jarvelin MR, Jaddoe VW. Common variants at 12q15 and 12q24 are associated with infant head circumference. Nat Genet. 2012 May; 44(5):532-8. PMID: 22504419; PMCID: PMC3773913.
    20. Ikram MA, Fornage M, Smith AV, Seshadri S, Schmidt R, Debette S, Vrooman HA, Sigurdsson S, Ropele S, Taal HR, Mook-Kanamori DO, Coker LH, Longstreth WT, Niessen WJ, DeStefano AL, Beiser A, Zijdenbos AP, Struchalin M, Jack CR, Rivadeneira F, Uitterlinden AG, Knopman DS, Hartikainen AL, Pennell CE, Thiering E, Steegers EA, Hakonarson H, Heinrich J, Palmer LJ, Jarvelin MR, McCarthy MI, Grant SF, St Pourcain B, Timpson NJ, Smith GD, Sovio U, Nalls MA, Au R, Hofman A, Gudnason H, van der Lugt A, Harris TB, Meeks WM, Vernooij MW, van Buchem MA, Catellier D, Jaddoe VW, Gudnason V, Windham BG, Wolf PA, van Duijn CM, Mosley TH, Schmidt H, Launer LJ, Breteler MM, DeCarli C. Common variants at 6q22 and 17q21 are associated with intracranial volume. Nat Genet. 2012 May; 44(5):539-44. PMID: 22504418; PMCID: PMC3618290.
    21. Orlin A, Hadley D, Chang W, Ho AC, Brown G, Kaiser RS, Regillo CD, Godshalk AN, Lier A, Kaderli B, Stambolian D. Association between high-risk disease loci and response to anti-vascular endothelial growth factor treatment for wet age-related macular degeneration. Retina. 2012 Jan; 32(1):4-9. PMID: 21878851.
      View in: PubMed
    22. Elia J, Glessner JT, Wang K, Takahashi N, Shtir CJ, Hadley D, Sleiman PM, Zhang H, Kim CE, Robison R, Lyon GJ, Flory JH, Bradfield JP, Imielinski M, Hou C, Frackelton EC, Chiavacci RM, Sakurai T, Rabin C, Middleton FA, Thomas KA, Garris M, Mentch F, Freitag CM, Steinhausen HC, Todorov AA, Reif A, Rothenberger A, Franke B, Mick EO, Roeyers H, Buitelaar J, Lesch KP, Banaschewski T, Ebstein RP, Mulas F, Oades RD, Sergeant J, Sonuga-Barke E, Renner TJ, Romanos M, Romanos J, Warnke A, Walitza S, Meyer J, Pálmason H, Seitz C, Loo SK, Smalley SL, Biederman J, Kent L, Asherson P, Anney RJ, Gaynor JW, Shaw P, Devoto M, White PS, Grant SF, Buxbaum JD, Rapoport JL, Williams NM, Nelson SF, Faraone SV, Hakonarson H. Genome-wide copy number variation study associates metabotropic glutamate receptor gene networks with attention deficit hyperactivity disorder. Nat Genet. 2012 Jan; 44(1):78-84. PMID: 22138692; PMCID: PMC4310555.
    23. Chen W, Stambolian D, Edwards AO, Branham KE, Othman M, Jakobsdottir J, Tosakulwong N, Pericak-Vance MA, Campochiaro PA, Klein ML, Tan PL, Conley YP, Kanda A, Kopplin L, Li Y, Augustaitis KJ, Karoukis AJ, Scott WK, Agarwal A, Kovach JL, Schwartz SG, Postel EA, Brooks M, Baratz KH, Brown WL, Brucker AJ, Orlin A, Brown G, Ho A, Regillo C, Donoso L, Tian L, Kaderli B, Hadley D, Hagstrom SA, Peachey NS, Klein R, Klein BE, Gotoh N, Yamashiro K, Ferris Iii F, Fagerness JA, Reynolds R, Farrer LA, Kim IK, Miller JW, Cortón M, Carracedo A, Sanchez-Salorio M, Pugh EW, Doheny KF, Brion M, Deangelis MM, Weeks DE, Zack DJ, Chew EY, Heckenlively JR, Yoshimura N, Iyengar SK, Francis PJ, Katsanis N, Seddon JM, Haines JL, Gorin MB, Abecasis GR, Swaroop A. Genetic variants near TIMP3 and high-density lipoprotein-associated loci influence susceptibility to age-related macular degeneration. Proc Natl Acad Sci U S A. 2010 Apr 20; 107(16):7401-6. PMID: 20385819; PMCID: PMC2867722.
    24. Hadley D, Orlin A, Brown G, Brucker AJ, Ho AC, Regillo CD, Donoso LA, Tian L, Kaderli B, Stambolian D. Analysis of six genetic risk factors highly associated with AMD in the region surrounding ARMS2 and HTRA1 on chromosome 10, region q26. Invest Ophthalmol Vis Sci. 2010 Apr; 51(4):2191-6. PMID: 19933195.
      View in: PubMed
    25. Bucan M, Abrahams BS, Wang K, Glessner JT, Herman EI, Sonnenblick LI, Alvarez Retuerto AI, Imielinski M, Hadley D, Bradfield JP, Kim C, Gidaya NB, Lindquist I, Hutman T, Sigman M, Kustanovich V, Lajonchere CM, Singleton A, Kim J, Wassink TH, McMahon WM, Owley T, Sweeney JA, Coon H, Nurnberger JI, Li M, Cantor RM, Minshew NJ, Sutcliffe JS, Cook EH, Dawson G, Buxbaum JD, Grant SF, Schellenberg GD, Geschwind DH, Hakonarson H. Genome-wide analyses of exonic copy number variants in a family-based study point to novel autism susceptibility genes. PLoS Genet. 2009 Jun; 5(6):e1000536. PMID: 19557195; PMCID: PMC2695001.
    26. Wang K, Li M, Hadley D, Liu R, Glessner J, Grant SF, Hakonarson H, Bucan M. PennCNV: an integrated hidden Markov model designed for high-resolution copy number variation detection in whole-genome SNP genotyping data. Genome Res. 2007 Nov; 17(11):1665-74. PMID: 17921354; PMCID: PMC2045149.
    27. Hadley D, Murphy T, Valladares O, Hannenhalli S, Ungar L, Kim J, Bucan M. Patterns of sequence conservation in presynaptic neural genes. Genome Biol. 2006; 7(11):R105. PMID: 17096848; PMCID: PMC1794582.
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