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Daniel J. Weisenberger, PhD

TitleAssistant Professor of Research Biochemistry & Molecular Medicine
InstitutionUniversity of Southern California
DepartmentMedicine
AddressNRT 511D 1450 Biggy Street
Health Sciences Campus
Los Angeles CA 90089
Phone+1 323 442 7786
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    Collapse Research 
    Collapse Research Activities and Funding
    The USC-JHU Cancer Epigenome Characterization Center
    NIH/NCI U24CA143882Sep 29, 2009 - Dec 31, 2016
    Role: Co-Principal Investigator

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    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. Liu M, Zhang L, Li H, Hinoue T, Zhou W, Ohtani H, El-Khoueiry A, Daniels J, O'Connell C, Dorff TB, Lu Q, Weisenberger D, Liang G. Integrative Epigenetic Analysis Reveals Therapeutic Targets to the DNA Methyltransferase Inhibitor SGI-110 in Hepatocellular Carcinoma. Hepatology. 2018 May 18. PMID: 29774579.
      View in: PubMed
    2. Zhou W, Dinh HQ, Ramjan Z, Weisenberger D, Nicolet CM, Shen H, Laird PW, Berman BP. DNA methylation loss in late-replicating domains is linked to mitotic cell division. Nat Genet. 2018 Apr; 50(4):591-602. PMID: 29610480.
      View in: PubMed
    3. Campan M, Weisenberger D, Trinh B, Laird PW. MethyLight and Digital MethyLight. Methods Mol Biol. 2018; 1708:497-513. PMID: 29224160.
      View in: PubMed
    4. Martin KR, Zhou W, Bowman MJ, Shih J, Au KS, Dittenhafer-Reed KE, Sisson KA, Koeman J, Weisenberger D, Cottingham SL, DeRoos ST, Devinsky O, Winn ME, Cherniack AD, Shen H, Northrup H, Krueger DA, MacKeigan JP. The genomic landscape of tuberous sclerosis complex. Nat Commun. 2017 Jun 15; 8:15816. PMID: 28643795.
      View in: PubMed
    5. Azad NS, El-Khoueiry A, Yin J, Oberg AL, Flynn P, Adkins D, Sharma A, Weisenberger D, Brown T, Medvari P, Jones PA, Easwaran H, Kamel I, Bahary N, Kim G, Picus J, Pitot HC, Erlichman C, Donehower R, Shen H, Laird PW, Piekarz R, Baylin S, Ahuja N. Combination epigenetic therapy in metastatic colorectal cancer (mCRC) with subcutaneous 5-azacitidine and entinostat: a phase 2 consortium/stand up 2 cancer study. Oncotarget. 2017 May 23; 8(21):35326-35338. PMID: 28186961.
      View in: PubMed
    6. Khuc E, Bainer R, Wolf M, Clay SM, Weisenberger D, Kemmer J, Weaver VM, Hwang DG, Chan MF. Comprehensive characterization of DNA methylation changes in Fuchs endothelial corneal dystrophy. PLoS One. 2017; 12(4):e0175112. PMID: 28384203.
      View in: PubMed
    7. Liang G, Weisenberger D. DNA methylation aberrancies as a guide for surveillance and treatment of human cancers. Epigenetics. 2017 06 03; 12(6):416-432. PMID: 28358281.
      View in: PubMed
    8. Weisenberger D. A Clinically Distinct and 'Atypical' Subgroup of Head and Neck Cancers Positive for a CpG Island Methylator Phenotype. EBioMedicine. 2017 Mar; 17:22-23. PMID: 28284815.
      View in: PubMed
    9. Chopra S, Liu J, Alemozaffar M, Nichols PW, Aron M, Weisenberger D, Collings CK, Syan S, Hu B, Desai M, Aron M, Duddalwar V, Gill I, Liang G, Siegmund KD. Improving needle biopsy accuracy in small renal mass using tumor-specific DNA methylation markers. Oncotarget. 2017 Jan 17; 8(3):5439-5448. PMID: 27690297.
      View in: PubMed
    10. Mundbjerg K, Chopra S, Alemozaffar M, Duymich C, Lakshminarasimhan R, Nichols PW, Aron M, Siegmund KD, Ukimura O, Aron M, Stern M, Gill P, Carpten JD, Ørntoft TF, Sørensen KD, Weisenberger D, Jones PA, Duddalwar V, Gill I, Liang G. Identifying aggressive prostate cancer foci using a DNA methylation classifier. Genome Biol. 2017 01 12; 18(1):3. PMID: 28081708.
      View in: PubMed
    11. Connolly RM, Li H, Jankowitz RC, Zhang Z, Rudek MA, Jeter SC, Slater SA, Powers P, Wolff AC, Fetting JH, Brufsky A, Piekarz R, Ahuja N, Laird PW, Shen H, Weisenberger D, Cope L, Herman JG, Somlo G, Garcia AA, Jones PA, Baylin SB, Davidson NE, Zahnow CA, Stearns V. Combination Epigenetic Therapy in Advanced Breast Cancer with 5-Azacitidine and Entinostat: A Phase II National Cancer Institute/Stand Up to Cancer Study. Clin Cancer Res. 2017 Jun 01; 23(11):2691-2701. PMID: 27979916.
      View in: PubMed
    12. Li HT, Duymich CE, Weisenberger D, Liang G. Genetic and Epigenetic Alterations in Bladder Cancer. Int Neurourol J. 2016 Nov; 20(Suppl 2):S84-94. PMID: 27915480.
      View in: PubMed
    13. Hassler MR, Pulverer W, Lakshminarasimhan R, Redl E, Hacker J, Garland GD, Merkel O, Schiefer AI, Simonitsch-Klupp I, Kenner L, Weisenberger D, Weinhaeusel A, Turner SD, Egger G. Insights into the Pathogenesis of Anaplastic Large-Cell Lymphoma through Genome-wide DNA Methylation Profiling. Cell Rep. 2016 10 04; 17(2):596-608. PMID: 27705804.
      View in: PubMed
    14. Becket E, Chopra S, Duymich CE, Lin JJ, You JS, Pandiyan K, Nichols PW, Siegmund KD, Charlet J, Weisenberger D, Jones PA, Liang G. Identification of DNA Methylation-Independent Epigenetic Events Underlying Clear Cell Renal Cell Carcinoma. Cancer Res. 2016 04 01; 76(7):1954-64. PMID: 26759245; PMCID: PMC4873378 [Available on 04/01/17].
    15. Kim SE, Hinoue T, Kim MS, Sohn KJ, Cho RC, Weisenberger D, Laird PW, Kim YI. Effects of folylpolyglutamate synthase modulation on global and gene-specific DNA methylation and gene expression in human colon and breast cancer cells. J Nutr Biochem. 2016 Mar; 29:27-35. PMID: 26895662.
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    16. Ryland KE, Hawkins AG, Weisenberger D, Punj V, Borinstein SC, Laird PW, Martens JR, Lawlor ER. Promoter Methylation Analysis Reveals That KCNA5 Ion Channel Silencing Supports Ewing Sarcoma Cell Proliferation. Mol Cancer Res. 2016 Jan; 14(1):26-34. PMID: 26573141; PMCID: PMC4716008 [Available on 01/01/17].
    17. Comprehensive Molecular Characterization of Papillary Renal-Cell Carcinoma. N Engl J Med. 2016 Jan 14; 374(2):135-45. PMID: 26536169; PMCID: PMC4775252.
    18. Levine AJ, Phipps AI, Baron JA, Buchanan DD, Ahnen DJ, Cohen SA, Lindor NM, Newcomb PA, Rosty C, Haile RW, Laird PW, Weisenberger D. Clinicopathologic Risk Factor Distributions for MLH1 Promoter Region Methylation in CIMP-Positive Tumors. Cancer Epidemiol Biomarkers Prev. 2016 Jan; 25(1):68-75. PMID: 26512054; PMCID: PMC4713308 [Available on 01/01/17].
    19. Graham RP, Vierkant RA, Tillmans LS, Wang AH, Laird PW, Weisenberger D, Lynch CF, French AJ, Slager SL, Raissian Y, Garcia JJ, Kerr SE, Lee HE, Thibodeau SN, Cerhan JR, Limburg PJ, Smyrk TC. Tumor Budding in Colorectal Carcinoma: Confirmation of Prognostic Significance and Histologic Cutoff in a Population-based Cohort. Am J Surg Pathol. 2015 Oct; 39(10):1340-6. PMID: 26200097; PMCID: PMC4567920 [Available on 10/01/16].
    20. Comprehensive, Integrative Genomic Analysis of Diffuse Lower-Grade Gliomas. N Engl J Med. 2015 Jun 25; 372(26):2481-98. PMID: 26061751.
      View in: PubMed
    21. Weisenberger D, Levine AJ, Long TI, Buchanan DD, Walters R, Clendenning M, Rosty C, Joshi AD, Stern MC, LeMarchand L, Lindor NM, Daftary D, Gallinger S, Selander T, Bapat B, Newcomb PA, Campbell PT, Casey G, Ahnen DJ, Baron JA, Haile RW, Hopper JL, Young JP, Laird PW, Siegmund KD. Association of the colorectal CpG island methylator phenotype with molecular features, risk factors, and family history. Cancer Epidemiol Biomarkers Prev. 2015 Mar; 24(3):512-519. PMID: 25587051; PMCID: PMC4355081.
    22. Kim SE, Hinoue T, Kim MS, Sohn KJ, Cho RC, Cole PD, Weisenberger D, Laird PW, Kim YI. ?-Glutamyl hydrolase modulation significantly influences global and gene-specific DNA methylation and gene expression in human colon and breast cancer cells. Genes Nutr. 2015 Jan; 10(1):444. PMID: 25502219; PMCID: PMC4265218.
    23. Phipps AI, Limburg PJ, Baron JA, Burnett-Hartman AN, Weisenberger D, Laird PW, Sinicrope FA, Rosty C, Buchanan DD, Potter JD, Newcomb PA. Association between molecular subtypes of colorectal cancer and patient survival. Gastroenterology. 2015 Jan; 148(1):77-87.e2. PMID: 25280443.
      View in: PubMed
    24. Ling C, Pease M, Shi L, Punj V, Shiroishi MS, Commins D, Weisenberger D, Wang K, Zada G. A pilot genome-scale profiling of DNA methylation in sporadic pituitary macroadenomas: association with tumor invasion and histopathological subtype. PLoS One. 2014; 9(4):e96178. PMID: 24781529; PMCID: PMC4004564.
    25. Weisenberger D. Characterizing DNA methylation alterations from The Cancer Genome Atlas. J Clin Invest. 2014 Jan; 124(1):17-23. PMID: 24382385; PMCID: PMC3871233.
    26. Chang X, Shi L, Gao F, Russin J, Zeng L, He S, Chen TC, Giannotta SL, Weisenberger D, Zada G, Wang K, Mack WJ. Genomic and transcriptome analysis revealing an oncogenic functional module in meningiomas. Neurosurg Focus. 2013 Dec; 35(6):E3. PMID: 24289128.
      View in: PubMed
    27. Wrangle J, Wang W, Koch A, Easwaran H, Mohammad HP, Vendetti F, Vancriekinge W, Demeyer T, Du Z, Parsana P, Rodgers K, Yen RW, Zahnow CA, Taube JM, Brahmer JR, Tykodi SS, Easton K, Carvajal RD, Jones PA, Laird PW, Weisenberger D, Tsai S, Juergens RA, Topalian SL, Rudin CM, Brock MV, Pardoll D, Baylin SB. Alterations of immune response of Non-Small Cell Lung Cancer with Azacytidine. Oncotarget. 2013 Nov; 4(11):2067-79. PMID: 24162015; PMCID: PMC3875770.
    28. Brennan CW, Verhaak RG, McKenna A, Campos B, Noushmehr H, Salama SR, Zheng S, Chakravarty D, Sanborn JZ, Berman SH, Beroukhim R, Bernard B, Wu CJ, Genovese G, Shmulevich I, Barnholtz-Sloan J, Zou L, Vegesna R, Shukla SA, Ciriello G, Yung WK, Zhang W, Sougnez C, Mikkelsen T, Aldape K, Bigner DD, Van Meir EG, Prados M, Sloan A, Black KL, Eschbacher J, Finocchiaro G, Friedman W, Andrews DW, Guha A, Iacocca M, O'Neill BP, Foltz G, Myers J, Weisenberger D, Penny R, Kucherlapati R, Perou CM, Hayes DN, Gibbs R, Marra M, Mills GB, Lander E, Spellman P, Wilson R, Sander C, Weinstein J, Meyerson M, Gabriel S, Laird PW, Haussler D, Getz G, Chin L. The somatic genomic landscape of glioblastoma. Cell. 2013 Oct 10; 155(2):462-77. PMID: 24120142; PMCID: PMC3910500.
    29. Choi IS, Yu K, Kim J, De Guzman E, Weisenberger D, Oghamian S, Kim HJ, Lee KH, Carroll C, Trinh BN, Kim M, Houshdaran S, Laird PW, Jones PA, Warburton D, Liang G, Koh CJ. Alterations in deoxyribonucleic acid (DNA) methylation patterns of Calca, Timp3, Mmp2, and Igf2r are associated with chronic cystitis in a cyclophosphamide-induced mouse model. Urology. 2013 Jul; 82(1):253.e9-15. PMID: 23806407; PMCID: PMC3697025.
    30. Samadder NJ, Vierkant RA, Tillmans LS, Wang AH, Weisenberger D, Laird PW, Lynch CF, Anderson KE, French AJ, Haile RW, Potter JD, Slager SL, Smyrk TC, Thibodeau SN, Cerhan JR, Limburg PJ. Associations between colorectal cancer molecular markers and pathways with clinicopathologic features in older women. Gastroenterology. 2013 Aug; 145(2):348-56.e1-2. PMID: 23665275.
      View in: PubMed
    31. Triche TJ, Weisenberger D, Van Den Berg D, Laird PW, Siegmund KD. Low-level processing of Illumina Infinium DNA Methylation BeadArrays. Nucleic Acids Res. 2013 Apr; 41(7):e90. PMID: 23476028; PMCID: PMC3627582.
    32. Gertych A, Oh JH, Wawrowsky KA, Weisenberger D, Tajbakhsh J. 3-D DNA methylation phenotypes correlate with cytotoxicity levels in prostate and liver cancer cell models. BMC Pharmacol Toxicol. 2013 Feb 11; 14:11. PMID: 23394161; PMCID: PMC3598242.
    33. Loo LW, Tiirikainen M, Cheng I, Lum-Jones A, Seifried A, Church JM, Gryfe R, Weisenberger D, Lindor NM, Gallinger S, Haile RW, Duggan DJ, Thibodeau SN, Casey G, Le Marchand L. Integrated analysis of genome-wide copy number alterations and gene expression in microsatellite stable, CpG island methylator phenotype-negative colon cancer. Genes Chromosomes Cancer. 2013 May; 52(5):450-66. PMID: 23341073; PMCID: PMC4019504.
    34. Gao F, Shi L, Russin J, Zeng L, Chang X, He S, Chen TC, Giannotta SL, Weisenberger D, Zada G, Mack WJ, Wang K. DNA methylation in the malignant transformation of meningiomas. PLoS One. 2013; 8(1):e54114. PMID: 23349797; PMCID: PMC3551961.
    35. Lange CP, Campan M, Hinoue T, Schmitz RF, van der Meulen-de Jong AE, Slingerland H, Kok PJ, van Dijk CM, Weisenberger D, Shen H, Tollenaar RA, Laird PW. Genome-scale discovery of DNA-methylation biomarkers for blood-based detection of colorectal cancer. PLoS One. 2012; 7(11):e50266. PMID: 23209692; PMCID: PMC3508917.
    36. Loo LW, Cheng I, Tiirikainen M, Lum-Jones A, Seifried A, Dunklee LM, Church JM, Gryfe R, Weisenberger D, Haile RW, Gallinger S, Duggan DJ, Thibodeau SN, Casey G, Le Marchand L. cis-Expression QTL analysis of established colorectal cancer risk variants in colon tumors and adjacent normal tissue. PLoS One. 2012; 7(2):e30477. PMID: 22363440; PMCID: PMC3281844.
    37. Razzak AA, Oxentenko AS, Vierkant RA, Tillmans LS, Wang AH, Weisenberger D, Laird PW, Lynch CF, Anderson KE, French AJ, Haile RW, Harnack LJ, Potter JD, Slager SL, Smyrk TC, Thibodeau SN, Cerhan JR, Limburg PJ. Associations between intake of folate and related micronutrients with molecularly defined colorectal cancer risks in the Iowa Women's Health Study. Nutr Cancer. 2012; 64(7):899-910. PMID: 23061900; PMCID: PMC3584680.
    38. Levine AJ, Win AK, Buchanan DD, Jenkins MA, Baron JA, Young JP, Long TI, Weisenberger D, Laird PW, McCall RL, Duggan DJ, Haile RW. Cancer risks for the relatives of colorectal cancer cases with a methylated MLH1 promoter region: data from the Colorectal Cancer Family Registry. Cancer Prev Res (Phila). 2012 Feb; 5(2):328-35. PMID: 22144422; PMCID: PMC3273599.
    39. Screening ethnically diverse human embryonic stem cells identifies a chromosome 20 minimal amplicon conferring growth advantage. Nat Biotechnol. 2011 Nov 27; 29(12):1132-44. PMID: 22119741; PMCID: PMC3454460.
    40. Berman BP, Weisenberger D, Aman JF, Hinoue T, Ramjan Z, Liu Y, Noushmehr H, Lange CP, van Dijk CM, Tollenaar RA, Van Den Berg D, Laird PW. Regions of focal DNA hypermethylation and long-range hypomethylation in colorectal cancer coincide with nuclear lamina-associated domains. Nat Genet. 2011 Nov 27; 44(1):40-6. PMID: 22120008; PMCID: PMC4309644.
    41. Limsui D, Vierkant RA, Tillmans LS, Wang AH, Weisenberger D, Laird PW, Lynch CF, Anderson KE, French AJ, Haile RW, Harnack LJ, Potter JD, Slager SL, Smyrk TC, Thibodeau SN, Cerhan JR, Limburg PJ. Postmenopausal hormone therapy and colorectal cancer risk by molecularly defined subtypes among older women. Gut. 2012 Sep; 61(9):1299-305. PMID: 22027477; PMCID: PMC3584677.
    42. Wang X, Kang GH, Campan M, Weisenberger D, Long TI, Cozen W, Bernstein L, Wu AH, Siegmund KD, Shibata D, Laird PW. Epigenetic subgroups of esophageal and gastric adenocarcinoma with differential GATA5 DNA methylation associated with clinical and lifestyle factors. PLoS One. 2011; 6(10):e25985. PMID: 22028801; PMCID: PMC3197593.
    43. Razzak AA, Oxentenko AS, Vierkant RA, Tillmans LS, Wang AH, Weisenberger D, Laird PW, Lynch CF, Anderson KE, French AJ, Haile RW, Harnack LJ, Slager SL, Smyrk TC, Thibodeau SN, Cerhan JR, Limburg PJ. Alcohol intake and colorectal cancer risk by molecularly defined subtypes in a prospective study of older women. Cancer Prev Res (Phila). 2011 Dec; 4(12):2035-43. PMID: 21900595; PMCID: PMC3584678.
    44. Rakovski C, Weisenberger D, Marjoram P, Laird PW, Siegmund KD. Modeling measurement error in tumor characterization studies. BMC Bioinformatics. 2011 Jul 13; 12:284. PMID: 21752297; PMCID: PMC3213130.
    45. Hinoue T, Weisenberger D, Lange CP, Shen H, Byun HM, Van Den Berg D, Malik S, Pan F, Noushmehr H, van Dijk CM, Tollenaar RA, Laird PW. Genome-scale analysis of aberrant DNA methylation in colorectal cancer. Genome Res. 2012 Feb; 22(2):271-82. PMID: 21659424; PMCID: PMC3266034.
    46. Rumilla K, Schowalter KV, Lindor NM, Thomas BC, Mensink KA, Gallinger S, Holter S, Newcomb PA, Potter JD, Jenkins MA, Hopper JL, Long TI, Weisenberger D, Haile RW, Casey G, Laird PW, Le Marchand L, Thibodeau SN. Frequency of deletions of EPCAM (TACSTD1) in MSH2-associated Lynch syndrome cases. J Mol Diagn. 2011 Jan; 13(1):93-9. PMID: 21227399; PMCID: PMC3069927.
    47. Wolff EM, Chihara Y, Pan F, Weisenberger D, Siegmund KD, Sugano K, Kawashima K, Laird PW, Jones PA, Liang G. Unique DNA methylation patterns distinguish noninvasive and invasive urothelial cancers and establish an epigenetic field defect in premalignant tissue. Cancer Res. 2010 Oct 15; 70(20):8169-78. PMID: 20841482; PMCID: PMC2955801.
    48. Limsui D, Vierkant RA, Tillmans LS, Wang AH, Weisenberger D, Laird PW, Lynch CF, Anderson KE, French AJ, Haile RW, Harnack LJ, Potter JD, Slager SL, Smyrk TC, Thibodeau SN, Cerhan JR, Limburg PJ. Cigarette smoking and colorectal cancer risk by molecularly defined subtypes. J Natl Cancer Inst. 2010 Jul 21; 102(14):1012-22. PMID: 20587792; PMCID: PMC2915616.
    49. Noushmehr H, Weisenberger D, Diefes K, Phillips HS, Pujara K, Berman BP, Pan F, Pelloski CE, Sulman EP, Bhat KP, Verhaak RG, Hoadley KA, Hayes DN, Perou CM, Schmidt HK, Ding L, Wilson RK, Van Den Berg D, Shen H, Bengtsson H, Neuvial P, Cope LM, Buckley J, Herman JG, Baylin SB, Laird PW, Aldape K. Identification of a CpG island methylator phenotype that defines a distinct subgroup of glioma. Cancer Cell. 2010 May 18; 17(5):510-22. PMID: 20399149; PMCID: PMC2872684.
    50. Teschendorff AE, Menon U, Gentry-Maharaj A, Ramus SJ, Weisenberger D, Shen H, Campan M, Noushmehr H, Bell CG, Maxwell AP, Savage DA, Mueller-Holzner E, Marth C, Kocjan G, Gayther SA, Jones A, Beck S, Wagner W, Laird PW, Jacobs IJ, Widschwendter M. Age-dependent DNA methylation of genes that are suppressed in stem cells is a hallmark of cancer. Genome Res. 2010 Apr; 20(4):440-6. PMID: 20219944; PMCID: PMC2847747.
    51. Hinoue T, Weisenberger D, Pan F, Campan M, Kim M, Young J, Whitehall VL, Leggett BA, Laird PW. Analysis of the association between CIMP and BRAF in colorectal cancer by DNA methylation profiling. PLoS One. 2009 Dec 21; 4(12):e8357. PMID: 20027224; PMCID: PMC2791229.
    52. Byun HM, Siegmund KD, Pan F, Weisenberger D, Kanel G, Laird PW, Yang AS. Epigenetic profiling of somatic tissues from human autopsy specimens identifies tissue- and individual-specific DNA methylation patterns. Hum Mol Genet. 2009 Dec 15; 18(24):4808-17. PMID: 19776032; PMCID: PMC4481584.
    53. Boks MP, Derks EM, Weisenberger D, Strengman E, Janson E, Sommer IE, Kahn RS, Ophoff RA. The relationship of DNA methylation with age, gender and genotype in twins and healthy controls. PLoS One. 2009 Aug 26; 4(8):e6767. PMID: 19774229; PMCID: PMC2747671.
    54. Sohn KJ, Jang H, Campan M, Weisenberger D, Dickhout J, Wang YC, Cho RC, Yates Z, Lucock M, Chiang EP, Austin RC, Choi SW, Laird PW, Kim YI. The methylenetetrahydrofolate reductase C677T mutation induces cell-specific changes in genomic DNA methylation and uracil misincorporation: a possible molecular basis for the site-specific cancer risk modification. Int J Cancer. 2009 May 01; 124(9):1999-2005. PMID: 19123462; PMCID: PMC2692263.
    55. Berman BP, Weisenberger D, Laird PW. Locking in on the human methylome. Nat Biotechnol. 2009 Apr; 27(4):341-2. PMID: 19352369.
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    56. Campan M, Weisenberger D, Trinh B, Laird PW. MethyLight. Methods Mol Biol. 2009; 507:325-37. PMID: 18987824.
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    57. Poynter JN, Siegmund KD, Weisenberger D, Long TI, Thibodeau SN, Lindor N, Young J, Jenkins MA, Hopper JL, Baron JA, Buchanan D, Casey G, Levine AJ, Le Marchand L, Gallinger S, Bapat B, Potter JD, Newcomb PA, Haile RW, Laird PW. Molecular characterization of MSI-H colorectal cancer by MLHI promoter methylation, immunohistochemistry, and mismatch repair germline mutation screening. Cancer Epidemiol Biomarkers Prev. 2008 Nov; 17(11):3208-15. PMID: 18990764; PMCID: PMC2628332.
    58. Weisenberger D, Trinh BN, Campan M, Sharma S, Long TI, Ananthnarayan S, Liang G, Esteva FJ, Hortobagyi GN, McCormick F, Jones PA, Laird PW. DNA methylation analysis by digital bisulfite genomic sequencing and digital MethyLight. Nucleic Acids Res. 2008 Aug; 36(14):4689-98. PMID: 18628296; PMCID: PMC2504308.
    59. Anglim PP, Galler JS, Koss MN, Hagen JA, Turla S, Campan M, Weisenberger D, Laird PW, Siegmund KD, Laird-Offringa IA. Identification of a panel of sensitive and specific DNA methylation markers for squamous cell lung cancer. Mol Cancer. 2008 Jul 10; 7:62. PMID: 18616821; PMCID: PMC2483990.
    60. Kang GH, Lee S, Cho NY, Gandamihardja T, Long TI, Weisenberger D, Campan M, Laird PW. DNA methylation profiles of gastric carcinoma characterized by quantitative DNA methylation analysis. Lab Invest. 2008 Feb; 88(2):161-70. PMID: 18158559.
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    61. Siegmund KD, Connor CM, Campan M, Long TI, Weisenberger D, Biniszkiewicz D, Jaenisch R, Laird PW, Akbarian S. DNA methylation in the human cerebral cortex is dynamically regulated throughout the life span and involves differentiated neurons. PLoS One. 2007 Sep 19; 2(9):e895. PMID: 17878930; PMCID: PMC1964879.
    62. Widschwendter M, Fiegl H, Egle D, Mueller-Holzner E, Spizzo G, Marth C, Weisenberger D, Campan M, Young J, Jacobs I, Laird PW. Epigenetic stem cell signature in cancer. Nat Genet. 2007 Feb; 39(2):157-8. PMID: 17200673.
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    63. Weisenberger D, Siegmund KD, Campan M, Young J, Long TI, Faasse MA, Kang GH, Widschwendter M, Weener D, Buchanan D, Koh H, Simms L, Barker M, Leggett B, Levine J, Kim M, French AJ, Thibodeau SN, Jass J, Haile R, Laird PW. CpG island methylator phenotype underlies sporadic microsatellite instability and is tightly associated with BRAF mutation in colorectal cancer. Nat Genet. 2006 Jul; 38(7):787-93. PMID: 16804544.
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    64. Ogino S, Kawasaki T, Brahmandam M, Cantor M, Kirkner GJ, Spiegelman D, Makrigiorgos GM, Weisenberger D, Laird PW, Loda M, Fuchs CS. Precision and performance characteristics of bisulfite conversion and real-time PCR (MethyLight) for quantitative DNA methylation analysis. J Mol Diagn. 2006 May; 8(2):209-17. PMID: 16645207; PMCID: PMC1867588.
    65. Weisenberger D, Campan M, Long TI, Kim M, Woods C, Fiala E, Ehrlich M, Laird PW. Analysis of repetitive element DNA methylation by MethyLight. Nucleic Acids Res. 2005; 33(21):6823-36. PMID: 16326863; PMCID: PMC1301596.
    66. Fatemi M, Pao MM, Jeong S, Gal-Yam EN, Egger G, Weisenberger D, Jones PA. Footprinting of mammalian promoters: use of a CpG DNA methyltransferase revealing nucleosome positions at a single molecule level. Nucleic Acids Res. 2005 Nov 27; 33(20):e176. PMID: 16314307; PMCID: PMC1292996.
    67. Friedrich MG, Chandrasoma S, Siegmund KD, Weisenberger D, Cheng JC, Toma MI, Huland H, Jones PA, Liang G. Prognostic relevance of methylation markers in patients with non-muscle invasive bladder carcinoma. Eur J Cancer. 2005 Nov; 41(17):2769-78. PMID: 16242928.
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    68. Woodson K, Weisenberger D, Campan M, Laird PW, Tangrea J, Johnson LL, Schatzkin A, Lanza E. Gene-specific methylation and subsequent risk of colorectal adenomas among participants of the polyp prevention trial. Cancer Epidemiol Biomarkers Prev. 2005 May; 14(5):1219-23. PMID: 15894675.
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    69. Friedrich MG, Weisenberger D, Cheng JC, Chandrasoma S, Siegmund KD, Gonzalgo ML, Toma MI, Huland H, Yoo C, Tsai YC, Nichols PW, Bochner BH, Jones PA, Liang G. Detection of methylated apoptosis-associated genes in urine sediments of bladder cancer patients. Clin Cancer Res. 2004 Nov 15; 10(22):7457-65. PMID: 15569975.
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    70. Cheng JC, Yoo CB, Weisenberger D, Chuang J, Wozniak C, Liang G, Marquez VE, Greer S, Orntoft TF, Thykjaer T, Jones PA. Preferential response of cancer cells to zebularine. Cancer Cell. 2004 Aug; 6(2):151-8. PMID: 15324698.
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    71. Liang G, Lin JC, Wei V, Yoo C, Cheng JC, Nguyen CT, Weisenberger D, Egger G, Takai D, Gonzales FA, Jones PA. Distinct localization of histone H3 acetylation and H3-K4 methylation to the transcription start sites in the human genome. Proc Natl Acad Sci U S A. 2004 May 11; 101(19):7357-62. PMID: 15123803; PMCID: PMC409923.
    72. Cheng JC, Weisenberger D, Gonzales FA, Liang G, Xu GL, Hu YG, Marquez VE, Jones PA. Continuous zebularine treatment effectively sustains demethylation in human bladder cancer cells. Mol Cell Biol. 2004 Feb; 24(3):1270-8. PMID: 14729971; PMCID: PMC321446.
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