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Adam De Smith, PhD

TitleAssistant Researcher
SchoolUCSF School of Medicine
DepartmentEpidemiology & Biostatistics
Address1450 Third St
San Francisco CA 94158
Phone415-502-1972
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    Collapse Biography 
    Collapse Education and Training
    University of BristolBSc2005School of Biological Sciences
    Imperial College LondonMSc in Human Molecular Genetics2006Department of Genomics of Common Disease
    Imperial College LondonPhD2010Department of Genomics of Common Disease
    University of California San FranciscoPostdoctoral2014Department of Epidemiology & Biostatistics

    Collapse Research 
    Collapse Research Activities and Funding
    APOBEC mutagenesis: a causal link between infections and childhood ALL?
    Leukemia & Lymphoma Society New Idea AwardOct 1, 2016 - Oct 1, 2017
    Role: Principal Investigator
    Investigating the role of genetic and epigenetic variation in risk of childhood acute lymphoblastic leukemia in Down syndrome
    Alex's Lemonade Stand Foundation 'A' AwardJan 15, 2015 - Jan 14, 2018
    Role: Principal Investigator
    Targeted Investigation of Driver Mutations in High Hyperdiploid Childhood Acute Lymphoblastic Leukemia
    UCSF Cancer Center HDFCCC 500 Cancer Gene Panel Pilot awardNov 7, 2014 - May 31, 2015
    Role: Principal Investigator

    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. Zhang C, de Smith AJ, Smirnov IV, Wiencke JK, Wiemels JL, Witte JS, Walsh KM. Non-additive and epistatic effects of HLA polymorphisms contributing to risk of adult glioma. J Neurooncol. 2017 Jul 18. PMID: 28721485.
      View in: PubMed
    2. de Smith AJ, Kaur M, Gonseth S, Endicott AA, Selvin S, Zhang L, Roy R, Shao X, Hansen HM, Kang AY, Walsh KM, Dahl GV, McKean-Cowdin R, Metayer C, Wiemels JL. Correlates of prenatal and early-life tobacco smoke exposure and frequency of common gene deletions in childhood acute lymphoblastic leukemia. Cancer Res. 2017 Feb 15. PMID: 28202519.
      View in: PubMed
    3. Francis SS, Wallace AD, Wendt GA, Li L, Liu F, Riley LW, Kogan S, Walsh KM, de Smith AJ, Dahl GV, Ma X, Delwart E, Metayer C, Wiemels JL. In utero cytomegalovirus infection and development of childhood acute lymphoblastic leukemia. Blood. 2016 Dec 15. PMID: 27979823.
      View in: PubMed
    4. Kaur M, de Smith AJ, Selvin S, Zhang L, Cunningham M, Kang MW, Hansen HM, Cooper RM, McKean-Cowdin R, Wiemels JL, Metayer C. Tobacco Smoke and Ras Mutations Among Latino and Non-Latino Children with Acute Lymphoblastic Leukemia. Arch Med Res. 2016 Nov; 47(8):677-683. PMID: 28476195.
      View in: PubMed
    5. de Smith AJ, Ojha J, Francis SS, Sanders E, Endicott AA, Hansen HM, Smirnov I, Termuhlen AM, Walsh KM, Metayer C, Wiemels JL, et al. Clonal and microclonal mutational heterogeneity in high hyperdiploid acute lymphoblastic leukemia. Oncotarget. 2016 Sep 24. PMID: 27683039.
      View in: PubMed
    6. Gonseth S, de Smith AJ, Roy R, Zhou M, Lee ST, Shao X, Ohja J, Wrensch MR, Walsh KM, Metayer C, Wiemels JL, et al. Genetic contribution to variation in DNA methylation at maternal smoking sensitive loci in exposed neonates. Epigenetics. 2016 Jul 12; 0. PMID: 27403598.
      View in: PubMed
    7. Ojha J, Codd V, Nelson CP, Samani NJ, Smirnov IV, Madsen NR, Hansen HM, de Smith AJ, Bracci PM, Wiencke JK, Wrensch MR, Wiemels JL, Walsh KM. Genetic Variation Associated with Longer Telomere Length Increases Risk of Chronic Lymphocytic Leukemia. Cancer Epidemiol Biomarkers Prev. 2016 Jul; 25(7):1043-9. PMID: 27197291.
      View in: PubMed
    8. Walsh KM, Whitehead TP, de Smith AJ, Smirnov IV, Park M, Endicott AA, Francis SS, Codd V, Samani NJ, Metayer C, Wiemels JL. Common genetic variants associated with telomere length confer risk for neuroblastoma and other childhood cancers. Carcinogenesis. 2016 Jun; 37(6):576-82. PMID: 27207662.
      View in: PubMed
    9. Gonseth S, Roy R, Houseman EA, De Smith A, Zhou M, Lee ST, Nusslé S, Singer AW, Wrensch MR, Metayer C, Wiemels JL. Periconceptional folate consumption is associated with neonatal DNA methylation modifications in neural crest regulatory and cancer development genes. Epigenetics. 2015 Dec 2; 10(12):1166-76. PMID: 26646725.
      View in: PubMed
    10. Ruffmann C, Calboli FC, Bravi I, Gveric D, Curry LK, de Smith A, Pavlou S, Buxton JL, Blakemore AI, Takousis P, Molloy S, Piccini P, Dexter DT, Roncaroli F, Gentleman SM, Middleton LT. Cortical Lewy bodies and Aß burden are associated with prevalence and timing of dementia in Lewy body diseases. Neuropathol Appl Neurobiol. 2016 Aug; 42(5):436-50. PMID: 26527105.
      View in: PubMed
    11. de Smith AJ, Walsh KM, Hansen HM, Endicott AA, Wiencke JK, Metayer C, Wiemels JL. Somatic Mutation Allelic Ratio Test Using ddPCR (SMART-ddPCR): An Accurate Method for Assessment of Preferential Allelic Imbalance in Tumor DNA. PLoS One. 2015; 10(11):e0143343. PMID: 26575185; PMCID: PMC4648491.
    12. Walsh KM, de Smith AJ, Hansen HM, Smirnov IV, Gonseth S, Endicott AA, Xiao J, Rice T, Fu CH, McCoy LS, Lachance DH, Eckel-Passow JE, Wiencke JK, Jenkins RB, Wrensch MR, Ma X, Metayer C, Wiemels JL. A Heritable Missense Polymorphism in CDKN2A Confers Strong Risk of Childhood Acute Lymphoblastic Leukemia and Is Preferentially Selected during Clonal Evolution. Cancer Res. 2015 Nov 15; 75(22):4884-94. PMID: 26527286; PMCID: PMC4651745 [Available on 11/15/16].
    13. Wiemels JL, de Smith AJ, Xiao J, Lee ST, Muench MO, Fomin ME, Zhou M, Hansen HM, Termuhlen A, Metayer C, Walsh KM. A functional polymorphism in the CEBPE gene promoter influences acute lymphoblastic leukemia risk through interaction with the hematopoietic transcription factor Ikaros. Leukemia. 2016 May; 30(5):1194-7. PMID: 26437776.
      View in: PubMed
    14. Noseda M, Harada M, McSweeney S, Leja T, Belian E, Stuckey DJ, Abreu Paiva MS, Habib J, Macaulay I, de Smith AJ, Al-Beidh F, Sampson R, Lumbers RT, Rao P, Harding SE, Blakemore AI, Eirik Jacobsen S, Barahona M, Schneider MD. PDGFRa demarcates the cardiogenic clonogenic Sca1+ stem/progenitor cell in adult murine myocardium. Nat Commun. 2015; 6:6930. PMID: 25980517; PMCID: PMC4479024.
    15. Lee ST, Muench MO, Fomin ME, Xiao J, Zhou M, de Smith A, Martín-Subero JI, Heath S, Houseman EA, Roy R, Wrensch M, Wiencke J, Metayer C, Wiemels JL. Epigenetic remodeling in B-cell acute lymphoblastic leukemia occurs in two tracks and employs embryonic stem cell-like signatures. Nucleic Acids Res. 2015 Mar 11; 43(5):2590-602. PMID: 25690899; PMCID: PMC4357708.
    16. Walsh KM, de Smith AJ, Welch TC, Smirnov I, Cunningham MJ, Ma X, Chokkalingam AP, Dahl GV, Roberts W, Barcellos LF, Buffler PA, Metayer C, Wiemels JL. Genomic ancestry and somatic alterations correlate with age at diagnosis in Hispanic children with B-cell acute lymphoblastic leukemia. Am J Hematol. 2014 Jul; 89(7):721-5. PMID: 24753091; PMCID: PMC4069235.
    17. Xiao J, Lee ST, Xiao Y, Ma X, Houseman EA, Hsu LI, Roy R, Wrensch M, de Smith AJ, Chokkalingam A, Buffler P, Wiencke JK, Wiemels JL. PTPRG inhibition by DNA methylation and cooperation with RAS gene activation in childhood acute lymphoblastic leukemia. Int J Cancer. 2014 Sep 1; 135(5):1101-9. PMID: 24496747.
      View in: PubMed
    18. de Smith AJ, Walsh KM, Ladner MB, Zhang S, Xiao C, Cohen F, Moore TB, Chokkalingam AP, Metayer C, Buffler PA, Trachtenberg EA, Wiemels JL. The role of KIR genes and their cognate HLA class I ligands in childhood acute lymphoblastic leukemia. Blood. 2014 Apr 17; 123(16):2497-503. PMID: 24518758; PMCID: PMC3990912.
    19. Martins-Taylor K, Hsiao JS, Chen PF, Glatt-Deeley H, De Smith AJ, Blakemore AI, Lalande M, Chamberlain SJ. Imprinted expression of UBE3A in non-neuronal cells from a Prader-Willi syndrome patient with an atypical deletion. Hum Mol Genet. 2014 May 1; 23(9):2364-73. PMID: 24363065; PMCID: PMC3976333.
    20. Walsh KM, de Smith AJ, Chokkalingam AP, Metayer C, Roberts W, Barcellos LF, Wiemels JL, Buffler PA. GATA3 risk alleles are associated with ancestral components in Hispanic children with ALL. Blood. 2013 Nov 7; 122(19):3385-7. PMID: 24203929; PMCID: PMC3821727.
    21. Walsh KM, de Smith AJ, Chokkalingam AP, Metayer C, Dahl GV, Hsu LI, Barcellos LF, Wiemels JL, Buffler PA. Novel childhood ALL susceptibility locus BMI1-PIP4K2A is specifically associated with the hyperdiploid subtype. Blood. 2013 Jun 6; 121(23):4808-9. PMID: 23744494; PMCID: PMC3674678.
    22. Walsh KM, Chokkalingam AP, Hsu LI, Metayer C, de Smith AJ, Jacobs DI, Dahl GV, Loh ML, Smirnov IV, Bartley K, Ma X, Wiencke JK, Barcellos LF, Wiemels JL, Buffler PA. Associations between genome-wide Native American ancestry, known risk alleles and B-cell ALL risk in Hispanic children. Leukemia. 2013 Dec; 27(12):2416-9. PMID: 23615557; PMCID: PMC3864612.
    23. Walters RG, Coin LJ, Ruokonen A, de Smith AJ, El-Sayed Moustafa JS, Jacquemont S, Elliott P, Esko T, Hartikainen AL, Laitinen J, Männik K, Martinet D, Meyre D, Nauck M, Schurmann C, Sladek R, Thorleifsson G, Thorsteinsdóttir U, Valsesia A, Waeber G, Zufferey F, Balkau B, Pattou F, Metspalu A, Völzke H, Vollenweider P, Stefansson K, Järvelin MR, Beckmann JS, Froguel P, Blakemore AI. Rare genomic structural variants in complex disease: lessons from the replication of associations with obesity. PLoS One. 2013; 8(3):e58048. PMID: 23554873; PMCID: PMC3595275.
    24. Lee ST, Xiao Y, Muench MO, Xiao J, Fomin ME, Wiencke JK, Zheng S, Dou X, de Smith A, Chokkalingam A, Buffler P, Ma X, Wiemels JL. A global DNA methylation and gene expression analysis of early human B-cell development reveals a demethylation signature and transcription factor network. Nucleic Acids Res. 2012 Dec; 40(22):11339-51. PMID: 23074194; PMCID: PMC3526268.
    25. El-Sayed Moustafa JS, Eleftherohorinou H, de Smith AJ, Andersson-Assarsson JC, Alves AC, Hadjigeorgiou E, Walters RG, Asher JE, Bottolo L, Buxton JL, Sladek R, Meyre D, Dina C, Visvikis-Siest S, Jacobson P, Sjöström L, Carlsson LM, Walley A, Falchi M, Froguel P, Blakemore AI, Coin LJ. Novel association approach for variable number tandem repeats (VNTRs) identifies DOCK5 as a susceptibility gene for severe obesity. Hum Mol Genet. 2012 Aug 15; 21(16):3727-38. PMID: 22595969; PMCID: PMC3406755.
    26. Li Y, Zheng H, Luo R, Wu H, Zhu H, Li R, Cao H, Wu B, Huang S, Shao H, Ma H, Zhang F, Feng S, Zhang W, Du H, Tian G, Li J, Zhang X, Li S, Bolund L, Kristiansen K, de Smith AJ, Blakemore AI, Coin LJ, Yang H, Wang J, Wang J. Structural variation in two human genomes mapped at single-nucleotide resolution by whole genome de novo assembly. Nat Biotechnol. 2011 Aug; 29(8):723-30. PMID: 21785424.
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    27. Trewick AL, Moustafa JS, de Smith AJ, Froguel P, Greve G, Njølstad PR, Coin LJ, Blakemore AI. Accurate single-nucleotide polymorphism allele assignment in trisomic or duplicated regions by using a single base-extension assay with MALDI-TOF mass spectrometry. Clin Chem. 2011 Aug; 57(8):1188-95. PMID: 21677093.
      View in: PubMed
    28. de Smith AJ, van Haelst MM, Ellis RJ, Holder SE, Payne SJ, Hashim SK, Froguel P, Blakemore AI. Chromosome 19p13.3 deletion in a patient with macrocephaly, obesity, mental retardation, and behavior problems. Am J Med Genet A. 2011 May; 155A(5):1192-5. PMID: 21465662.
      View in: PubMed
    29. Fernando MM, de Smith AJ, Coin L, Morris DL, Froguel P, Mangion J, Blakemore AI, Graham RR, Behrens TW, Vyse TJ. Investigation of the HIN200 locus in UK SLE families identifies novel copy number variants. Ann Hum Genet. 2011 May; 75(3):383-97. PMID: 21401563.
      View in: PubMed
    30. de Smith AJ, Trewick AL, Blakemore AI. Implications of copy number variation in people with chromosomal abnormalities: potential for greater variation in copy number state may contribute to variability of phenotype. Hugo J. 2010 Dec; 4(1-4):1-9. PMID: 22132061; PMCID: PMC3051043.
    31. Coin LJ, Asher JE, Walters RG, Moustafa JS, de Smith AJ, Sladek R, Balding DJ, Froguel P, Blakemore AI. cnvHap: an integrative population and haplotype-based multiplatform model of SNPs and CNVs. Nat Methods. 2010 Jul; 7(7):541-6. PMID: 20512141.
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    32. Walters RG, Jacquemont S, Valsesia A, de Smith AJ, Martinet D, Andersson J, Falchi M, Chen F, Andrieux J, Lobbens S, Delobel B, Stutzmann F, El-Sayed Moustafa JS, Chèvre JC, Lecoeur C, Vatin V, Bouquillon S, Buxton JL, Boute O, Holder-Espinasse M, Cuisset JM, Lemaitre MP, Ambresin AE, Brioschi A, Gaillard M, Giusti V, Fellmann F, Ferrarini A, Hadjikhani N, Campion D, Guilmatre A, Goldenberg A, Calmels N, Mandel JL, Le Caignec C, David A, Isidor B, Cordier MP, Dupuis-Girod S, Labalme A, Sanlaville D, Béri-Dexheimer M, Jonveaux P, Leheup B, Ounap K, Bochukova EG, Henning E, Keogh J, Ellis RJ, Macdermot KD, van Haelst MM, Vincent-Delorme C, Plessis G, Touraine R, Philippe A, Malan V, Mathieu-Dramard M, Chiesa J, Blaumeiser B, Kooy RF, Caiazzo R, Pigeyre M, Balkau B, Sladek R, Bergmann S, Mooser V, Waterworth D, Reymond A, Vollenweider P, Waeber G, Kurg A, Palta P, Esko T, Metspalu A, Nelis M, Elliott P, Hartikainen AL, McCarthy MI, Peltonen L, Carlsson L, Jacobson P, Sjöström L, Huang N, Hurles ME, O'Rahilly S, Farooqi IS, Männik K, Jarvelin MR, Pattou F, Meyre D, Walley AJ, Coin LJ, Blakemore AI, Froguel P, Beckmann JS. A new highly penetrant form of obesity due to deletions on chromosome 16p11.2. Nature. 2010 Feb 4; 463(7281):671-5. PMID: 20130649; PMCID: PMC2880448.
    33. de Smith AJ, Purmann C, Walters RG, Ellis RJ, Holder SE, Van Haelst MM, Brady AF, Fairbrother UL, Dattani M, Keogh JM, Henning E, Yeo GS, O'Rahilly S, Froguel P, Farooqi IS, Blakemore AI. A deletion of the HBII-85 class of small nucleolar RNAs (snoRNAs) is associated with hyperphagia, obesity and hypogonadism. Hum Mol Genet. 2009 Sep 1; 18(17):3257-65. PMID: 19498035; PMCID: PMC2722987.
    34. de Smith AJ, Walters RG, Froguel P, Blakemore AI. Human genes involved in copy number variation: mechanisms of origin, functional effects and implications for disease. Cytogenet Genome Res. 2008; 123(1-4):17-26. PMID: 19287135; PMCID: PMC2920180.
    35. de Smith AJ, Walters RG, Coin LJ, Steinfeld I, Yakhini Z, Sladek R, Froguel P, Blakemore AI. Small deletion variants have stable breakpoints commonly associated with alu elements. PLoS One. 2008; 3(8):e3104. PMID: 18769679; PMCID: PMC2518860.
    36. de Smith AJ, Tsalenko A, Sampas N, Scheffer A, Yamada NA, Tsang P, Ben-Dor A, Yakhini Z, Ellis RJ, Bruhn L, Laderman S, Froguel P, Blakemore AI. Array CGH analysis of copy number variation identifies 1284 new genes variant in healthy white males: implications for association studies of complex diseases. Hum Mol Genet. 2007 Dec 1; 16(23):2783-94. PMID: 17666407.
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    37. Fanciulli M, Norsworthy PJ, Petretto E, Dong R, Harper L, Kamesh L, Heward JM, Gough SC, de Smith A, Blakemore AI, Froguel P, Owen CJ, Pearce SH, Teixeira L, Guillevin L, Graham DS, Pusey CD, Cook HT, Vyse TJ, Aitman TJ. FCGR3B copy number variation is associated with susceptibility to systemic, but not organ-specific, autoimmunity. Nat Genet. 2007 Jun; 39(6):721-3. PMID: 17529978; PMCID: PMC2742197.
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