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Hannah Carter

Title(s)Associate Professor, Medicine
SchoolVc-health Sciences-schools
Address9500 Gilman Drive #0688
La Jolla CA 92093
Phone8/8-22--4706
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    Collapse Biography 
    Collapse Education and Training
    University of Louisville, KentuckyMEng12/2004Electrical and Computer Engineering
    Johns Hopkins University, MarylandPhD02/2012Biomedical Engineering
    Collapse Awards and Honors
    Canadian Institute for Advanced Research (CIFAR)2017Azrieli Global Scholar
    Johns Hopkins University2015Johns Hopkins University Alumni Outstanding Recent Graduate Award
    NIH2013NIH Director's Early Independence Award
    Siebel Scholars Foundation2012Siebel Scholar

    Collapse Overview 
    Collapse Overview
    Dr. Hannah Carter’s research focuses on computationally modeling how DNA mutations in tumor genomes impact intracellular biological processes and cellular behaviors, and how these cellular level changes cause cancer.

    In 2013, Dr. Carter received a prestigious NIH Early Independence Award for her project, Network Approaches to Identify Cancer Drivers from High-Dimensional Tumor Data - Read UC San Diego Clinical and Translational Research Institute News Story

    Collapse Research 
    Collapse Research Activities and Funding
    (PQ3) Disruption of immune surveillance by aneuploidy and aberrant MHCII expression
    NIH/NCI R01CA220009Aug 17, 2017 - Jul 31, 2022
    Role: Co-Principal Investigator
    Network approaches to identify cancer drivers from high-dimensional tumor data
    NIH DP5OD017937Sep 24, 2013 - Aug 31, 2018
    Role: Principal Investigator

    Collapse ORNG Applications 
    Collapse Featured Publications
    Collapse Websites

    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. to make corrections and additions.
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    Altmetrics Details PMC Citations indicate the number of times the publication was cited by articles in PubMed Central, and the Altmetric score represents citations in news articles and social media. (Note that publications are often cited in additional ways that are not shown here.) Fields are based on how the National Library of Medicine (NLM) classifies the publication's journal and might not represent the specific topic of the publication. Translation tags are based on the publication type and the MeSH terms NLM assigns to the publication. Some publications (especially newer ones and publications not in PubMed) might not yet be assigned Field or Translation tags.) Click a Field or Translation tag to filter the publications.
    1. Mutation hotspots may not be drug targets. Science. 2019 06 28; 364(6447):1228-1229. Carter H. PMID: 31249043.
      View in: PubMed   Mentions:    Fields:    Translation:Humans
    2. MHC-I Genotype Restricts the Oncogenic Mutational Landscape. Cell. 2017. Rachel Marty Saghar Kaabinejadian David Rossell Michael J. Slifker Joris van de Haar Hatice Billur Engin Nicola de Prisco Trey Ideker William H. Hildebrand Joan Font-Burgada Hannah Carter..
    3. Epigenetic aging signatures in mice livers are slowed by dwarfism, calorie restriction and rapamycin treatment. Genome Biol. 2017 03 28; 18(1):57. Wang T, Tsui B, Kreisberg JF, Robertson NA, Gross AM, Yu MK, Carter H, Brown-Borg HM, Adams PD, Ideker T. PMID: 28351423.
      View in: PubMed   Mentions: 28     Fields:    Translation:HumansAnimalsCells
    4. Interaction Landscape of Inherited Polymorphisms with Somatic Events in Cancer. Cancer Discov. 2017 04; 7(4):410-423. Carter H, Marty R, Hofree M, Gross AM, Jensen J, Fisch KM, Wu X, DeBoever C, Van Nostrand EL, Song Y, Wheeler E, Kreisberg JF, Lippman SM, Yeo GW, Gutkind JS, Ideker T. PMID: 28188128.
      View in: PubMed   Mentions: 24     Fields:    Translation:HumansCells
    5. Immune DNA signature of T-cell infiltration in breast tumor exomes. Sci Rep. 2016 07 25; 6:30064. Levy E, Marty R, Gárate Calderón V, Woo B, Dow M, Armisen R, Carter H, Harismendy O. PMID: 27452728.
      View in: PubMed   Mentions: 6     Fields:    Translation:HumansCells
    6. Challenges in identifying cancer genes by analysis of exome sequencing data. Nat Commun. 2016 07 15; 7:12096. Hofree M, Carter H, Kreisberg JF, Bandyopadhyay S, Mischel PS, Friend S, Ideker T. PMID: 27417679.
      View in: PubMed   Mentions: 9     Fields:    Translation:Humans
    7. VarI-SIG 2015: methods for personalized medicine - the role of variant interpretation in research and diagnostics. BMC Genomics. 2016 06 23; 17 Suppl 2:425. Bromberg Y, Capriotti E, Carter H. PMID: 27357578.
      View in: PubMed   Mentions: 1     Fields:    Translation:HumansCells
    8. Structure-Based Analysis Reveals Cancer Missense Mutations Target Protein Interaction Interfaces. PLoS One. 2016; 11(4):e0152929. Engin HB, Kreisberg JF, Carter H. PMID: 27043210.
      View in: PubMed   Mentions: 17     Fields:    Translation:HumansCells
    9. Hybrid Periportal Hepatocytes Regenerate the Injured Liver without Giving Rise to Cancer. Cell. 2015 Aug 13; 162(4):766-79. Font-Burgada J, Shalapour S, Ramaswamy S, Hsueh B, Rossell D, Umemura A, Taniguchi K, Nakagawa H, Valasek MA, Ye L, Kopp JL, Sander M, Carter H, Deisseroth K, Verma IM, Karin M. PMID: 26276631.
      View in: PubMed   Mentions: 89     Fields:    Translation:AnimalsCells
    10. Identifying mutation specific cancer pathways using a structurally resolved protein interaction network. Pac Symp Biocomput. 2015; 84-95. Engin HB, Hofree M, Carter H. PMID: 25592571.
      View in: PubMed   Mentions: 3     Fields:    Translation:Humans
    11. A probabilistic model to predict clinical phenotypic traits from genome sequencing. PLoS Comput Biol. 2014 Sep; 10(9):e1003825. Chen YC, Douville C, Wang C, Niknafs N, Yeo G, Beleva-Guthrie V, Carter H, Stenson PD, Cooper DN, Li B, Mooney S, Karchin R. PMID: 25188385.
      View in: PubMed   Mentions: 3     Fields:    Translation:Humans
    12. Multi-tiered genomic analysis of head and neck cancer ties TP53 mutation to 3p loss. Nat Genet. 2014 Sep; 46(9):939-43. Gross AM, Orosco RK, Shen JP, Egloff AM, Carter H, Hofree M, Choueiri M, Coffey CS, Lippman SM, Hayes DN, Cohen EE, Grandis JR, Nguyen QT, Ideker T. PMID: 25086664.
      View in: PubMed   Mentions: 46     Fields:    Translation:HumansCells
    13. Predicting the functional consequences of somatic missense mutations found in tumors. Methods Mol Biol. 2014; 1101:135-59. Carter H, Karchin R. PMID: 24233781.
      View in: PubMed   Mentions: 5     Fields:    Translation:Humans
    14. Genotype to phenotype via network analysis. Curr Opin Genet Dev. 2013 Dec; 23(6):611-21. Carter H, Hofree M, Ideker T. PMID: 24238873.
      View in: PubMed   Mentions: 32     Fields:    Translation:Humans
    15. Network-based stratification of tumor mutations. Nat Methods. 2013 Nov; 10(11):1108-15. Hofree M, Shen JP, Carter H, Gross A, Ideker T. PMID: 24037242.
      View in: PubMed   Mentions: 232     Fields:    Translation:Humans
    16. Computational approaches to identify functional genetic variants in cancer genomes. Nat Methods. 2013 Aug; 10(8):723-9. Gonzalez-Perez A, Mustonen V, Reva B, Ritchie GR, Creixell P, Karchin R, Vazquez M, Fink JL, Kassahn KS, Pearson JV, Bader GD, Boutros PC, Muthuswamy L, Ouellette BF, Reimand J, Linding R, Shibata T, Valencia A, Butler A, Dronov S, Flicek P, Shannon NB, Carter H, Ding L, Sander C, Stuart JM, Stein LD, Lopez-Bigas N. PMID: 23900255.
      View in: PubMed   Mentions: 70     Fields:    Translation:Humans
    17. Whole-genome sequencing identifies a recurrent functional synonymous mutation in melanoma. Proc Natl Acad Sci U S A. 2013 Aug 13; 110(33):13481-6. Gartner JJ, Parker SC, Prickett TD, Dutton-Regester K, Stitzel ML, Lin JC, Davis S, Simhadri VL, Jha S, Katagiri N, Gotea V, Teer JK, Wei X, Morken MA, Bhanot UK, Chen G, Elnitski LL, Davies MA, Gershenwald JE, Carter H, Karchin R, Robinson W, Robinson S, Rosenberg SA, Collins FS, Parmigiani G, Komar AA, Kimchi-Sarfaty C, Hayward NK, Margulies EH, Samuels Y. PMID: 23901115.
      View in: PubMed   Mentions: 62     Fields:    Translation:HumansCells
    18. Identifying Mendelian disease genes with the variant effect scoring tool. BMC Genomics. 2013; 14 Suppl 3:S3. Carter H, Douville C, Stenson PD, Cooper DN, Karchin R. PMID: 23819870.
      View in: PubMed   Mentions: 79     Fields:    Translation:Humans
    19. A hybrid likelihood model for sequence-based disease association studies. PLoS Genet. 2013; 9(1):e1003224. Chen YC, Carter H, Parla J, Kramer M, Goes FS, Pirooznia M, Zandi PP, McCombie WR, Potash JB, Karchin R. PMID: 23358228.
      View in: PubMed   Mentions: 11     Fields:    Translation:HumansCells
    20. CRAVAT: cancer-related analysis of variants toolkit. Bioinformatics. 2013 Mar 01; 29(5):647-8. Douville C, Carter H, Kim R, Niknafs N, Diekhans M, Stenson PD, Cooper DN, Ryan M, Karchin R. PMID: 23325621.
      View in: PubMed   Mentions: 45     Fields:    Translation:Humans
    21. Whole-exome sequencing combined with functional genomics reveals novel candidate driver cancer genes in endometrial cancer. Genome Res. 2012 Nov; 22(11):2120-9. Liang H, Cheung LW, Li J, Ju Z, Yu S, Stemke-Hale K, Dogruluk T, Lu Y, Liu X, Gu C, Guo W, Scherer SE, Carter H, Westin SN, Dyer MD, Verhaak RG, Zhang F, Karchin R, Liu CG, Lu KH, Broaddus RR, Scott KL, Hennessy BT, Mills GB. PMID: 23028188.
      View in: PubMed   Mentions: 95     Fields:    Translation:HumansCells
    22. Somatic mutations in the Notch, NF-KB, PIK3CA, and Hedgehog pathways in human breast cancers. Genes Chromosomes Cancer. 2012 May; 51(5):480-9. Jiao X, Wood LD, Lindman M, Jones S, Buckhaults P, Polyak K, Sukumar S, Carter H, Kim D, Karchin R, Sjöblom T. PMID: 22302350.
      View in: PubMed   Mentions: 26     Fields:    Translation:HumansCells
    23. Whole-exome sequencing of neoplastic cysts of the pancreas reveals recurrent mutations in components of ubiquitin-dependent pathways. Proc Natl Acad Sci U S A. 2011 Dec 27; 108(52):21188-93. Wu J, Jiao Y, Dal Molin M, Maitra A, de Wilde RF, Wood LD, Eshleman JR, Goggins MG, Wolfgang CL, Canto MI, Schulick RD, Edil BH, Choti MA, Adsay V, Klimstra DS, Offerhaus GJ, Klein AP, Kopelovich L, Carter H, Karchin R, Allen PJ, Schmidt CM, Naito Y, Diaz LA, Kinzler KW, Papadopoulos N, Hruban RH, Vogelstein B. PMID: 22158988.
      View in: PubMed   Mentions: 166     Fields:    Translation:HumansCells
    24. Integrated genomic analyses of ovarian carcinoma. Nature. 2011 Jun 29; 474(7353):609-15. PMID: 21720365.
      View in: PubMed   Mentions: 2234     Fields:    Translation:HumansCells
    25. Sequence analysis of 515 kinase genes in chronic lymphocytic leukemia. Leukemia. 2011 Dec; 25(12):1908-10. Zhang X, Reis M, Khoriaty R, Li Y, Ouillette P, Samayoa J, Carter H, Karchin R, Li M, Diaz LA, Velculescu VE, Papadopoulos N, Kinzler KW, Vogelstein B, Malek SN. PMID: 21701494.
      View in: PubMed   Mentions: 10     Fields:    Translation:Humans
    26. CHASM and SNVBox: toolkit for detecting biologically important single nucleotide mutations in cancer. Bioinformatics. 2011 Aug 01; 27(15):2147-8. Wong WC, Kim D, Carter H, Diekhans M, Ryan MC, Karchin R. PMID: 21685053.
      View in: PubMed   Mentions: 28     Fields:    Translation:HumansCells
    27. The genetic landscape of the childhood cancer medulloblastoma. Science. 2011 Jan 28; 331(6016):435-9. Parsons DW, Li M, Zhang X, Jones S, Leary RJ, Lin JC, Boca SM, Carter H, Samayoa J, Bettegowda C, Gallia GL, Jallo GI, Binder ZA, Nikolsky Y, Hartigan J, Smith DR, Gerhard DS, Fults DW, VandenBerg S, Berger MS, Marie SK, Shinjo SM, Clara C, Phillips PC, Minturn JE, Biegel JA, Judkins AR, Resnick AC, Storm PB, Curran T, He Y, Rasheed BA, Friedman HS, Keir ST, McLendon R, Northcott PA, Taylor MD, Burger PC, Riggins GJ, Karchin R, Parmigiani G, Bigner DD, Yan H, Papadopoulos N, Vogelstein B, Kinzler KW, Velculescu VE. PMID: 21163964.
      View in: PubMed   Mentions: 340     Fields:    Translation:HumansCells
    28. Accumulation of driver and passenger mutations during tumor progression. Proc Natl Acad Sci U S A. 2010 Oct 26; 107(43):18545-50. Bozic I, Antal T, Ohtsuki H, Carter H, Kim D, Chen S, Karchin R, Kinzler KW, Vogelstein B, Nowak MA. PMID: 20876136.
      View in: PubMed   Mentions: 257     Fields:    Translation:Humans
    29. Prioritization of driver mutations in pancreatic cancer using cancer-specific high-throughput annotation of somatic mutations (CHASM). Cancer Biol Ther. 2010 Sep 15; 10(6):582-7. Carter H, Samayoa J, Hruban RH, Karchin R. PMID: 20581473.
      View in: PubMed   Mentions: 43     Fields:    Translation:Humans
    30. Cancer-specific high-throughput annotation of somatic mutations: computational prediction of driver missense mutations. Cancer Res. 2009 Aug 15; 69(16):6660-7. Carter H, Chen S, Isik L, Tyekucheva S, Velculescu VE, Kinzler KW, Vogelstein B, Karchin R. PMID: 19654296.
      View in: PubMed   Mentions: 182     Fields:    Translation:Humans
    31. MODBASE, a database of annotated comparative protein structure models and associated resources. Nucleic Acids Res. 2009 Jan; 37(Database issue):D347-54. Pieper U, Eswar N, Webb BM, Eramian D, Kelly L, Barkan DT, Carter H, Mankoo P, Karchin R, Marti-Renom MA, Davis FP, Sali A. PMID: 18948282.
      View in: PubMed   Mentions: 70     Fields:    Translation:HumansCells
    32. Core signaling pathways in human pancreatic cancers revealed by global genomic analyses. Science. 2008 Sep 26; 321(5897):1801-6. Jones S, Zhang X, Parsons DW, Lin JC, Leary RJ, Angenendt P, Mankoo P, Carter H, Kamiyama H, Jimeno A, Hong SM, Fu B, Lin MT, Calhoun ES, Kamiyama M, Walter K, Nikolskaya T, Nikolsky Y, Hartigan J, Smith DR, Hidalgo M, Leach SD, Klein AP, Jaffee EM, Goggins M, Maitra A, Iacobuzio-Donahue C, Eshleman JR, Kern SE, Hruban RH, Karchin R, Papadopoulos N, Parmigiani G, Vogelstein B, Velculescu VE, Kinzler KW. PMID: 18772397.
      View in: PubMed   Mentions: 1489     Fields:    Translation:HumansCells
    33. An integrated genomic analysis of human glioblastoma multiforme. Science. 2008 Sep 26; 321(5897):1807-12. Parsons DW, Jones S, Zhang X, Lin JC, Leary RJ, Angenendt P, Mankoo P, Carter H, Siu IM, Gallia GL, Olivi A, McLendon R, Rasheed BA, Keir S, Nikolskaya T, Nikolsky Y, Busam DA, Tekleab H, Diaz LA, Hartigan J, Smith DR, Strausberg RL, Marie SK, Shinjo SM, Yan H, Riggins GJ, Bigner DD, Karchin R, Papadopoulos N, Parmigiani G, Vogelstein B, Velculescu VE, Kinzler KW. PMID: 18772396.
      View in: PubMed   Mentions: 1995     Fields:    Translation:HumansCells
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