Mariana Brait, Ph.D., M.Sc.

Technology Expertise Keywords

Molecular Biology, Genetics, Genomics, Epigenetics

Selected Publications

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1: Kagohara LT, Schussel JL, Subbannayya T, Sahasrabuddhe N, Lebron C, Brait M, Maldonado L, Valle BL, Pirini F, Jahuira M, Lopez J, Letelier P, Brebi-Mieville P, Ili C, Pandey A, Chatterjee A, Sidransky D, Guerrero-Preston R. Global and gene-specific DNA methylation pattern discriminates cholecystitis from gallbladder cancer patients in Chile. Future Oncol. 2014 Jul 28:0. [Epub ahead of print] PubMed PMID: 25066711.

 

2: Maldonado L*, Brait M*, Michailidi C, Munari E, Driscoll T, Schultz L, Bivalacqua T, Schoenberg M, Sidransky D, Netto GJ, Hoque MO. An epigenetic marker panel for recurrence risk prediction of low grade papillary urothelial cell carcinoma (LGPUCC) and its potential use for surveillance after transurethral resection using urine. Oncotarget. 2014 Jul 30;5(14):5218-33. PubMed PMID: 24980822. *equally contributed first author

 

3: Hayashi M, Bernert H, Kagohara LT, Maldonado L, Brait M, Schoenberg M, Bivalacqua T, Netto GJ, Koch W, Sidransky D, Hoque MO. Epigenetic inactivation of VGF associated with Urothelial Cell Carcinoma and its potential as a non-invasive biomarker using urine. Oncotarget. 2014 May 30;5(10):3350-61. PubMed PMID:24830820; PubMed Central PMCID: PMC4102814.

 

4: Izumchenko E, Chang X, Michailidi C, Kagohara L, Ravi R, Paz K, Brait M, Hoque M, Ling S, Bedi A, Sidransky D. The TGFβ-miR200-MIG6 pathway orchestrates the EMT-associated kinase switch that induces resistance to EGFR inhibitors. Cancer Res. 2014 Jul 15;74(14):3995-4005. doi: 10.1158/0008-5472.CAN-14-0110. Epub 2014 May 15. PubMed PMID: 24830724; PubMed Central PMCID: PMC4122100.

 

5: Michailidi C, Soudry E, Brait M, Maldonado L, Jaffe A, Ili-Gangas C, Brebi-Mieville P, Perez J, Kim MS, Zhong X, Yang Q, Valle B, Meltzer SJ, Torbenson M, Esteller M, Sidransky D, Guerrero-Preston R. Genome-wide and gene-specific epigenomic platforms for hepatocellular carcinoma biomarker development trials. Gastroenterol Res Pract. 2014;2014:597164. doi:10.1155/2014/597164. Epub 2014 Apr 17. PubMed PMID: 24829571; PubMed Central PMCID: PMC4009191.

 

6: Maldonado L*, Brait M*, Loyo M, Sullenberger L, Wang K, Peskoe SB, Rosenbaum E, Howard R, Toubaji A, Albadine R, Netto GJ, Hoque MO, Platz EA, Sidransky D. GSTP1 Promoter Methylation Is Associated with Recurrence in Early Stage Prostate Cancer. J Urol. 2014 Apr 21. pii: S0022-5347(14)03413-2. doi:10.1016/j.juro.2014.04.082. [Epub ahead of print] PubMed PMID: 24769028. *equally contributed first author

 

7: Li R, Ochs MF, Ahn SM, Hennessey P, Tan M, Soudry E, Gaykalova DA, Uemura M, Brait M, Shao C, Westra W, Bishop J, Fertig EJ, Califano JA. Expression microarray analysis reveals alternative splicing of LAMA3 and DST genes in head and neck squamous cell carcinoma. PLoS One. 2014 Mar 27;9(3):e91263. doi:10.1371/journal.pone.0091263. eCollection 2014. PubMed PMID: 24675808; PubMed Central PMCID: PMC3967989.

 

8: Brebi P, Maldonado L, Noordhuis MG, Ili C, Leal P, Garcia P, Brait M, Ribas J, Michailidi C, Perez J, Soudry E, Tapia O, Guzman P, Muñoz S, Van Neste L, Van Criekinge W, Irizarry R, Sidransky D, Roa JC, Guerrero-Preston R. Genome-wide methylation profiling reveals Zinc finger protein 516 (ZNF516) and FK-506-binding protein 6 (FKBP6) promoters frequently methylated in cervical neoplasia, associated with HPV status and ethnicity in a Chilean population. Epigenetics. 2014 Feb 1;9(2):308-17. doi: 10.4161/epi.27120. Epub 2013 Nov 15. PubMed PMID:24241165; PubMed Central PMCID: PMC3962541.

 

9: Brait M, Maldonado L, Noordhuis MG, Begum S, Loyo M, Poeta ML, Barbosa A, Fazio VM, Angioli R, Rabitti C, Marchionni L, de Graeff P, van der Zee AG, Wisman GB, Sidransky D, Hoque MO. Association of promoter methylation of VGF and PGP9.5 with ovarian cancer progression. PLoS One. 2013 Sep 27;8(9):e70878. doi:10.1371/journal.pone.0070878. eCollection 2013. Erratum in: PLoS One. 2013;8(10).doi:10.1371/annotation/5d2e13d4-cb4e-44b1-a836-dff9b4144b5b. Noordhuis, Maartje [corrected to Noordhuis, Maartje G]. PLoS One. 2013;8(10).doi:10.1371/annotation/ccd51e37-fdf3-466e-b79f-2c390df9ab28. PubMed PMID:24086249; PubMed Central PMCID: PMC3785492.

 

10: Schussel J, Zhou XC, Zhang Z, Pattani K, Bermudez F, Jean-Charles G, McCaffrey T, Padhya T, Phelan J, Spivakovsky S, Brait M, Li R, Bowne HY, Goldberg JD, Rolnitzky L, Robbins M, Kerr AR, Sirois D, Califano JA. EDNRB and DCC salivary rinse hypermethylation has a similar performance as expert clinical examination in discrimination of oral cancer/dysplasia versus benign lesions. Clin Cancer Res. 2013 Jun 15;19(12):3268-75. doi: 10.1158/1078-0432.CCR-12-3496. Epub 2013 May 1. PubMed PMID: 23637120; PubMed Central PMCID: PMC3687013.

 

11: Brait M, Munari E, LeBron C, Noordhuis MG, Begum S, Michailidi C, Gonzalez-Roibon N, Maldonado L, Sen T, Guerrero-Preston R, Cope L, Parrella P, Fazio VM, Ha PK, Netto GJ, Sidransky D, Hoque MO. Genome-wide methylation profiling and the PI3K-AKT pathway analysis associated with smoking in urothelial cell carcinoma. Cell Cycle. 2013 Apr 1;12(7):1058-70. doi: 10.4161/cc.24050. Epub 2013 Feb 22. PubMed PMID: 23435205; PubMed Central PMCID: PMC3646862.

 

12: Brait M, Ling S, Nagpal JK, Chang X, Park HL, Lee J, Okamura J, Yamashita K, Sidransky D, Kim MS. Cysteine dioxygenase 1 is a tumor suppressor gene silenced by promoter methylation in multiple human cancers. PLoS One. 2012;7(9):e44951. doi: 10.1371/journal.pone.0044951. Epub 2012 Sep 27. PubMed PMID: 23028699; PubMed Central PMCID: PMC3459978.

 

13: Dasgupta S, Jang JS, Shao C, Mukhopadhyay ND, Sokhi UK, Das SK, Brait M, Talbot C, Yung RC, Begum S, Westra WH, Hoque MO, Yang P, Yi JE, Lam S, Gazdar AF, Fisher PB, Jen J, Sidransky D. SH3GL2 is frequently deleted in non-small cell lung cancer and downregulates tumor growth by modulating EGFR signaling. J Mol Med (Berl). 2013 Mar;91(3):381-93. doi: 10.1007/s00109-012-0955-3. Epub 2012 Sep 12. PubMed PMID: 22968441; PubMed Central PMCID: PMC3691869.

 

14: Brait M, Loyo M, Rosenbaum E, Ostrow KL, Markova A, Papagerakis S, Zahurak M, Goodman SM, Zeiger M, Sidransky D, Umbricht CB, Hoque MO. Correlation between BRAF mutation and promoter methylation of TIMP3, RARβ2 and RASSF1A in thyroid cancer. Epigenetics. 2012 Jul;7(7):710-9. doi: 10.4161/epi.20524. Epub 2012 Jul 1. PubMed PMID: 22694820; PubMed Central PMCID: PMC3414391.

 

15: Loyo M, Schussel J, Colantuoni E, Califano J, Brait M, Kang S, Koch WM, Sidransky D, Westra WH, Taube JM. Detection of Merkel cell virus and correlation with histologic presence of Merkel cell carcinoma in sentinel lymph nodes. Br J Cancer. 2012 Mar 27;106(7):1314-9. doi: 10.1038/bjc.2012.73. Epub 2012 Mar 13. PubMed PMID: 22415238; PubMed Central PMCID: PMC3314790.

 

16: Okamura J, Huang Y, Moon D, Brait M, Chang X, Kim MS. Downregulation of insulin-like growth factor-binding protein 7 in cisplatin-resistant non-small cell lung cancer. Cancer Biol Ther. 2012 Feb 1;13(3):148-55. doi:10.4161/cbt.13.3.18695. Epub 2012 Feb 1. PubMed PMID: 22277373; PubMed Central PMCID: PMC3336071.

 

17: Rosenbaum E, Begum S, Brait M, Zahurak M, Maldonado L, Mangold LA, Eisenberger MA, Epstein JI, Partin AW, Sidransky D, Hoque MO. AIM1 promoter hypermethylation as a predictor of decreased risk of recurrence following radical prostatectomy. Prostate. 2012 Jul 1;72(10):1133-9. doi: 10.1002/pros.22461. Epub 2011 Nov 29. PubMed PMID: 22127895; PubMed Central PMCID: PMC3360823.

 

18: Brait M, Maldonado L, Begum S, Loyo M, Wehle D, Tavora FF, Looijenga LH, Kowalski J, Zhang Z, Rosenbaum E, Halachmi S, Netto GJ, Hoque MO. DNA methylation profiles delineate epigenetic heterogeneity in seminoma and non-seminoma. Br J Cancer. 2012 Jan 17;106(2):414-23. doi: 10.1038/bjc.2011.468. Epub 2011 Nov 8. PubMed PMID: 22068818; PubMed Central PMCID: PMC3261686.

 

19: Carvalho AL, Henrique R, Jeronimo C, Nayak CS, Reddy AN, Hoque MO, Chang S, Brait M, Jiang WW, Kim MM, Claybourne Q, Goldenberg D, Khan Z, Khan T, Westra WH, Sidransky D, Koch W, Califano JA. Detection of promoter hypermethylation in salivary rinses as a biomarker for head and neck squamous cell carcinoma surveillance. Clin Cancer Res. 2011 Jul 15;17(14):4782-9. doi:10.1158/1078-0432.CCR-11-0324. Epub 2011 May 31. PubMed PMID: 21628494; PubMedCentral PMCID: PMC3215270.

 

20: Begum S, Brait M, Dasgupta S, Ostrow KL, Zahurak M, Carvalho AL, Califano JA, Goodman SN, Westra WH, Hoque MO, Sidransky D. An epigenetic marker panel for detection of lung cancer using cell-free serum DNA. Clin Cancer Res. 2011 Jul 1;17(13):4494-503. doi: 10.1158/1078-0432.CCR-10-3436. Epub 2011 May 24. PubMed PMID: 21610147; PubMed Central PMCID: PMC3131425.

 

21: Brait M, Sidransky D. Cancer epigenetics: above and beyond. Toxicol Mech Methods. 2011 May;21(4):275-88. doi: 10.3109/15376516.2011.562671. Review. PubMed PMID: 21495866; PubMed Central PMCID: PMC3309610.

 

22: LeBron C, Pal P, Brait M, Dasgupta S, Guerrero-Preston R, Looijenga LH, Kowalski J, Netto G, Hoque MO. Genome-wide analysis of genetic alterations in testicular primary seminoma using high resolution single nucleotide polymorphism arrays. Genomics. 2011 Jun;97(6):341-9. doi: 10.1016/j.ygeno.2011.02.011. Epub 2011 Mar 2. PubMed PMID: 21376111.

 

23: Sen T, Sen N, Brait M, Begum S, Chatterjee A, Hoque MO, Ratovitski E, Sidransky D. DeltaNp63alpha confers tumor cell resistance to cisplatin through the AKT1 transcriptional regulation. Cancer Res. 2011 Feb 1;71(3):1167-76. doi:10.1158/0008-5472.CAN-10-1481. Epub 2011 Jan 25. PubMed PMID: 21266360; PubMed Central PMCID: PMC3076926.

 

24: Hoque MO, Brait M, Rosenbaum E, Poeta ML, Pal P, Begum S, Dasgupta S, Carvalho AL, Ahrendt SA, Westra WH, Sidransky D. Genetic and epigenetic analysis of erbB signaling pathway genes in lung cancer. J Thorac Oncol. 2010 Dec;5(12):1887-93. doi: 10.1097/JTO.0b013e3181f77a53. Erratum in: J Thorac Oncol. 2011 Feb;6(2):409. PubMed PMID: 21102258; PubMed Central PMCID: PMC3057519.

 

25: Kogan-Sakin I, Tabach Y, Buganim Y, Molchadsky A, Solomon H, Madar S, Kamer I, Stambolsky P, Shelly A, Goldfinger N, Valsesia-Wittmann S, Puisieux A, Zundelevich A, Gal-Yam EN, Avivi C, Barshack I, Brait M, Sidransky D, Domany E, Rotter V. Mutant p53(R175H) upregulates Twist1 expression and promotes epithelial-mesenchymal transition in immortalized prostate cells. Cell Death Differ. 2011 Feb;18(2):271-81. doi: 10.1038/cdd.2010.94. Epub 2010 Aug 6. PubMed PMID: 20689556; PubMed Central PMCID: PMC3131887.

 

26: Ostrow KL, Hoque MO, Loyo M, Brait M, Greenberg A, Siegfried JM, Grandis JR, Gaither Davis A, Bigbee WL, Rom W, Sidransky D. Molecular analysis of plasma DNA for the early detection of lung cancer by quantitative methylation-specific PCR. Clin Cancer Res. 2010 Jul 1;16(13):3463-72. doi: 10.1158/1078-0432.CCR-09-3304. Epub 2010 Jun 30. PubMed PMID: 20592015; PubMed Central PMCID: PMC2899894.

 

27: Loyo M, Brait M, Kim MS, Ostrow KL, Jie CC, Chuang AY, Califano JA, Liégeois NJ, Begum S, Westra WH, Hoque MO, Tao Q, Sidransky D. A survey of methylated candidate tumor suppressor genes in nasopharyngeal carcinoma. Int J Cancer. 2011 Mar 15;128(6):1393-403. doi: 10.1002/ijc.25443. PubMed PMID: 20473931; PubMed Central PMCID: PMC2955155.

 

28: Buganim Y, Solomon H, Rais Y, Kistner D, Nachmany I, Brait M, Madar S, Goldstein I, Kalo E, Adam N, Gordin M, Rivlin N, Kogan I, Brosh R, Sefadia-Elad G, Goldfinger N, Sidransky D, Kloog Y, Rotter V. p53 Regulates the Ras circuit to inhibit the expression of a cancer-related gene signature by various molecular pathways. Cancer Res. 2010 Mar 15;70(6):2274-84. doi:10.1158/0008-5472.CAN-09-2661. Epub 2010 Mar 2. PubMed PMID: 20197462.

 

29: Demokan S, Chang X, Chuang A, Mydlarz WK, Kaur J, Huang P, Khan Z, Khan T, Ostrow KL, Brait M, Hoque MO, Liegeois NJ, Sidransky D, Koch W, Califano JA. KIF1A and EDNRB are differentially methylated in primary HNSCC and salivary rinses. Int J Cancer. 2010 Nov 15;127(10):2351-9. doi: 10.1002/ijc.25248. PubMed PMID: 20162572; PubMed Central PMCID: PMC2946472.

 

30: Brait M, Ford JG, Papaiahgari S, Garza MA, Lee JI, Loyo M, Maldonado L, Begum S, McCaffrey L, Howerton M, Sidransky D, Emerson MR, Ahmed S, Williams CD, Hoque MO. Association between lifestyle factors and CpG island methylation in a cancer-free population. Cancer Epidemiol Biomarkers Prev. 2009 Nov;18(11):2984-91. doi: 10.1158/1055-9965.EPI-08-1245. Epub 2009 Oct 27. PubMed PMID: 19861513; PubMed Central PMCID: PMC2878974.

 

31: Hoque MO, Prencipe M, Poeta ML, Barbano R, Valori VM, Copetti M, Gallo AP, Brait M, Maiello E, Apicella A, Rossiello R, Zito F, Stefania T, Paradiso A, Carella M, Dallapiccola B, Murgo R, Carosi I, Bisceglia M, Fazio VM, Sidransky D, Parrella P. Changes in CpG islands promoter methylation patterns during ductal breast carcinoma progression. Cancer Epidemiol Biomarkers Prev. 2009 Oct;18(10):2694-700. doi: 10.1158/1055-9965.EPI-08-0821. Epub 2009 Sep 29. PubMed PMID: 19789364.

 

32: Loyo M, Guerrero-Preston R, Brait M, Hoque MO, Chuang A, Kim MS, Sharma R, Liégeois NJ, Koch WM, Califano JA, Westra WH, Sidransky D. Quantitative detection of Merkel cell virus in human tissues and possible mode of transmission. Int J Cancer. 2010 Jun 15;126(12):2991-6. doi: 10.1002/ijc.24737. PubMed PMID:19588496; PubMed Central PMCID: PMC2856748.

 

33: Brait M, Begum S, Carvalho AL, Dasgupta S, Vettore AL, Czerniak B, Caballero OL, Westra WH, Sidransky D, Hoque MO. Aberrant promoter methylation of multiple genes during pathogenesis of bladder cancer. Cancer Epidemiol Biomarkers Prev. 2008 Oct;17(10):2786-94. doi: 10.1158/1055-9965.EPI-08-0192. PubMed PMID:18843024; PubMed Central PMCID: PMC2778751.

 

34: Terra AP, Murta EF, Maluf PJ, Caballero OL, Brait M, Adad SJ. Aberrant promoter methylation can be useful as a marker of recurrent disease in patients with cervical intraepithelial neoplasia grade III. Tumori. 2007 Nov-Dec;93(6):572-9. PubMed PMID: 18338492.

 

35: Carvalho AL, Jeronimo C, Kim MM, Henrique R, Zhang Z, Hoque MO, Chang S, Brait M, Nayak CS, Jiang WW, Claybourne Q, Tokumaru Y, Lee J, Goldenberg D, Garrett-Mayer E, Goodman S, Moon CS, Koch W, Westra WH, Sidransky D, Califano JA. Evaluation of promoter hypermethylation detection in body fluids as a screening/diagnosis tool for head and neck squamous cell carcinoma. Clin Cancer Res. 2008 Jan 1;14(1):97-107. doi: 10.1158/1078-0432.CCR-07-0722. PubMed PMID:18172258.

 

36: Hoque MO, Begum S, Brait M, Jeronimo C, Zahurak M, Ostrow KL, Rosenbaum E, Trock B, Westra WH, Schoenberg M, Goodman SN, Sidransky D. Tissue inhibitor of metalloproteinases-3 promoter methylation is an independent prognostic factor for bladder cancer. J Urol. 2008 Feb;179(2):743-7. Epub 2007 Dec 20. PubMed PMID:18082200; PubMed Central PMCID: PMC2674621.

 

37: Carvalho AL, Chuang A, Jiang WW, Lee J, Begum S, Poeta L, Zhao M, Jerónimo C, Henrique R, Nayak CS, Park HL, Brait MR, Liu C, Zhou S, Koch W, Fazio VM, Ratovitski E, Trink B, Westra W, Sidransky D, Moon CS, Califano JA. Deleted in colorectal cancer is a putative conditional tumor-suppressor gene inactivated by promoter hypermethylation in head and neck squamous cell carcinoma. Cancer Res. 2006 Oct 1;66(19):9401-7. PubMed PMID: 17018594.

 

38: Begnami MD, Montagnini AL, Vettore AL, Nonogaki S, Brait M, Simoes-Sato AY, Seixas AQ, Soares FA. Differential expression of apoptosis related proteins and nitric oxide synthases in Epstein Barr associated gastric carcinomas. World J Gastroenterol. 2006 Aug 21;12(31):4959-65. PubMed PMID: 16937490; PubMed Central PMCID: PMC4087397.

 

39: Vidal DO, Paixão VA, Brait M, Souto EX, Caballero OL, Lopes LF, Vettore AL. Aberrant methylation in pediatric myelodysplastic syndrome. Leuk Res. 2007 Feb;31(2):175-81. Epub 2006 Aug 4. PubMed PMID: 16890288.

 

40: Hu S, Ewertz M, Tufano RP, Brait M, Carvalho AL, Liu D, Tufaro AP, Basaria S, Cooper DS, Sidransky D, Ladenson PW, Xing M. Detection of serum deoxyribonucleic acid methylation markers: a novel diagnostic tool for thyroid cancer. J Clin Endocrinol Metab. 2006 Jan;91(1):98-104. Epub 2005 Nov 1. PubMed PMID: 16263813.

 

41: Ribas C, Colleoni GW, Felix RS, Regis Silva MR, Caballero OL, Brait M, Bordin JO. p16 gene methylation lacks correlation with angiogenesis and prognosis in multiple myeloma. Cancer Lett. 2005 May 26;222(2):247-54. Epub 2004 Nov 11. PubMed PMID: 15863274.