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Items: 1 to 50 of 53

1.

DNA methylation patterns in bladder tumors of African-American patients point to distinct alterations in xenobiotic metabolism.

Vantaku V, Amara CS, Piyarathna DWB, Donepudi SR, Ambati CR, Putluri V, Tang W, Rajapakshe K, Estecio MR, Terris MK, Castro PD, Ittmann MM, Williams SB, Lerner SP, Sreekumar A, Bollag R, Coarfa C, Kornberg MD, Lotan Y, Ambs S, Putluri N.

Carcinogenesis. 2019 Jul 8. pii: bgz128. doi: 10.1093/carcin/bgz128. [Epub ahead of print]

PMID:
31284295
2.

DNMT3L facilitates DNA methylation partly by maintaining DNMT3A stability in mouse embryonic stem cells.

Veland N, Lu Y, Hardikar S, Gaddis S, Zeng Y, Liu B, Estecio MR, Takata Y, Lin K, Tomida MW, Shen J, Saha D, Gowher H, Zhao H, Chen T.

Nucleic Acids Res. 2019 Jan 10;47(1):152-167. doi: 10.1093/nar/gky947.

3.

Cancer-associated rs6983267 SNP and its accompanying long noncoding RNA CCAT2 induce myeloid malignancies via unique SNP-specific RNA mutations.

Shah MY, Ferracin M, Pileczki V, Chen B, Redis R, Fabris L, Zhang X, Ivan C, Shimizu M, Rodriguez-Aguayo C, Dragomir M, Van Roosbroeck K, Almeida MI, Ciccone M, Nedelcu D, Cortez MA, Manshouri T, Calin S, Muftuoglu M, Banerjee PP, Badiwi MH, Parker-Thornburg J, Multani A, Welsh JW, Estecio MR, Ling H, Tomuleasa C, Dima D, Yang H, Alvarez H, You MJ, Radovich M, Shpall E, Fabbri M, Rezvani K, Girnita L, Berindan-Neagoe I, Maitra A, Verstovsek S, Fodde R, Bueso-Ramos C, Gagea M, Manero GG, Calin GA.

Genome Res. 2018 Apr;28(4):432-447. doi: 10.1101/gr.225128.117. Epub 2018 Mar 22.

4.

Energy Balance Modulation Impacts Epigenetic Reprogramming, ERα and ERβ Expression, and Mammary Tumor Development in MMTV-neu Transgenic Mice.

Rossi EL, Dunlap SM, Bowers LW, Khatib SA, Doerstling SS, Smith LA, Ford NA, Holley D, Brown PH, Estecio MR, Kusewitt DF, deGraffenried LA, Bultman SJ, Hursting SD.

Cancer Res. 2017 May 1;77(9):2500-2511. doi: 10.1158/0008-5472.CAN-16-2795. Epub 2017 Apr 3.

5.

In Vivo Functional Platform Targeting Patient-Derived Xenografts Identifies WDR5-Myc Association as a Critical Determinant of Pancreatic Cancer.

Carugo A, Genovese G, Seth S, Nezi L, Rose JL, Bossi D, Cicalese A, Shah PK, Viale A, Pettazzoni PF, Akdemir KC, Bristow CA, Robinson FS, Tepper J, Sanchez N, Gupta S, Estecio MR, Giuliani V, Dellino GI, Riva L, Yao W, Di Francesco ME, Green T, D'Alesio C, Corti D, Kang Y, Jones P, Wang H, Fleming JB, Maitra A, Pelicci PG, Chin L, DePinho RA, Lanfrancone L, Heffernan TP, Draetta GF.

Cell Rep. 2016 Jun 28;16(1):133-147. doi: 10.1016/j.celrep.2016.05.063. Epub 2016 Jun 16.

6.

Differentially methylated genes and androgen receptor re-expression in small cell prostate carcinomas.

Kleb B, Estécio MR, Zhang J, Tzelepi V, Chung W, Jelinek J, Navone NM, Tahir S, Marquez VE, Issa JP, Maity S, Aparicio A.

Epigenetics. 2016 Mar 3;11(3):184-93. doi: 10.1080/15592294.2016.1146851. Epub 2016 Feb 18.

7.

Obesity-Associated Alterations in Inflammation, Epigenetics, and Mammary Tumor Growth Persist in Formerly Obese Mice.

Rossi EL, de Angel RE, Bowers LW, Khatib SA, Smith LA, Van Buren E, Bhardwaj P, Giri D, Estecio MR, Troester MA, Hair BY, Kirk EL, Gong T, Shen J, Dannenberg AJ, Hursting SD.

Cancer Prev Res (Phila). 2016 May;9(5):339-48. doi: 10.1158/1940-6207.CAPR-15-0348. Epub 2016 Feb 11.

8.

Epigenetic synergy between decitabine and platinum derivatives.

Qin T, Si J, Raynal NJ, Wang X, Gharibyan V, Ahmed S, Hu X, Jin C, Lu Y, Shu J, Estecio MR, Jelinek J, Issa JJ.

Clin Epigenetics. 2015 Sep 11;7:97. doi: 10.1186/s13148-015-0131-z. eCollection 2015.

9.

BM-SNP: A Bayesian Model for SNP Calling Using High Throughput Sequencing Data.

Xu Y, Zheng X, Yuan Y, Estecio MR, Issa JP, Qiu P, Ji Y, Liang S.

IEEE/ACM Trans Comput Biol Bioinform. 2014 Nov-Dec;11(6):1038-44. doi: 10.1109/TCBB.2014.2321407.

PMID:
26357041
10.

Defects of Lipid Synthesis Are Linked to the Age-Dependent Demyelination Caused by Lamin B1 Overexpression.

Rolyan H, Tyurina YY, Hernandez M, Amoscato AA, Sparvero LJ, Nmezi BC, Lu Y, Estécio MR, Lin K, Chen J, He RR, Gong P, Rigatti LH, Dupree J, Bayır H, Kagan VE, Casaccia P, Padiath QS.

J Neurosci. 2015 Aug 26;35(34):12002-17. doi: 10.1523/JNEUROSCI.1668-15.2015.

11.

A Molecular Portrait of High-Grade Ductal Carcinoma In Situ.

Abba MC, Gong T, Lu Y, Lee J, Zhong Y, Lacunza E, Butti M, Takata Y, Gaddis S, Shen J, Estecio MR, Sahin AA, Aldaz CM.

Cancer Res. 2015 Sep 15;75(18):3980-90. doi: 10.1158/0008-5472.CAN-15-0506. Epub 2015 Aug 6.

12.

Regulation of AURKC expression by CpG island methylation in human cancer cells.

Fujii S, Srivastava V, Hegde A, Kondo Y, Shen L, Hoshino K, Gonzalez Y, Wang J, Sasai K, Ma X, Katayama H, Estecio MR, Hamilton SR, Wistuba I, Issa JP, Sen S.

Tumour Biol. 2015 Sep;36(10):8147-58. doi: 10.1007/s13277-015-3553-5. Epub 2015 May 20.

PMID:
25990457
13.

TET2 Mutations Affect Non-CpG Island DNA Methylation at Enhancers and Transcription Factor-Binding Sites in Chronic Myelomonocytic Leukemia.

Yamazaki J, Jelinek J, Lu Y, Cesaroni M, Madzo J, Neumann F, He R, Taby R, Vasanthakumar A, Macrae T, Ostler KR, Kantarjian HM, Liang S, Estecio MR, Godley LA, Issa JP.

Cancer Res. 2015 Jul 15;75(14):2833-43. doi: 10.1158/0008-5472.CAN-14-0739. Epub 2015 May 13.

14.

Epigenetic mechanisms of induced pluripotency.

Gładych M, Andrzejewska A, Oleksiewicz U, Estécio MR.

Contemp Oncol (Pozn). 2015;19(1A):A30-8. doi: 10.5114/wo.2014.47135. Review.

15.

RUNX3 promoter hypermethylation is frequent in leukaemia cell lines and associated with acute myeloid leukaemia inv(16) subtype.

Estécio MR, Maddipoti S, Bueso-Ramos C, DiNardo CD, Yang H, Wei Y, Kondo K, Fang Z, Stevenson W, Chang KS, Pierce SA, Bohannan Z, Borthakur G, Kantarjian H, Garcia-Manero G.

Br J Haematol. 2015 May;169(3):344-51. doi: 10.1111/bjh.13299. Epub 2015 Jan 22.

16.

TET1 is a maintenance DNA demethylase that prevents methylation spreading in differentiated cells.

Jin C, Lu Y, Jelinek J, Liang S, Estecio MR, Barton MC, Issa JP.

Nucleic Acids Res. 2014 Jun;42(11):6956-71. doi: 10.1093/nar/gku372. Epub 2014 May 29.

17.

Age-related epigenetic drift in the pathogenesis of MDS and AML.

Maegawa S, Gough SM, Watanabe-Okochi N, Lu Y, Zhang N, Castoro RJ, Estecio MR, Jelinek J, Liang S, Kitamura T, Aplan PD, Issa JP.

Genome Res. 2014 Apr;24(4):580-91. doi: 10.1101/gr.157529.113. Epub 2014 Jan 10.

18.

Fusobacterium in colonic flora and molecular features of colorectal carcinoma.

Tahara T, Yamamoto E, Suzuki H, Maruyama R, Chung W, Garriga J, Jelinek J, Yamano HO, Sugai T, An B, Shureiqi I, Toyota M, Kondo Y, Estécio MR, Issa JP.

Cancer Res. 2014 Mar 1;74(5):1311-8. doi: 10.1158/0008-5472.CAN-13-1865. Epub 2014 Jan 2.

19.

Architecture of epigenetic reprogramming following Twist1-mediated epithelial-mesenchymal transition.

Malouf GG, Taube JH, Lu Y, Roysarkar T, Panjarian S, Estecio MR, Jelinek J, Yamazaki J, Raynal NJ, Long H, Tahara T, Tinnirello A, Ramachandran P, Zhang XY, Liang S, Mani SA, Issa JP.

Genome Biol. 2013 Dec 24;14(12):R144. doi: 10.1186/gb-2013-14-12-r144.

20.

Expression of PD-L1, PD-L2, PD-1 and CTLA4 in myelodysplastic syndromes is enhanced by treatment with hypomethylating agents.

Yang H, Bueso-Ramos C, DiNardo C, Estecio MR, Davanlou M, Geng QR, Fang Z, Nguyen M, Pierce S, Wei Y, Parmar S, Cortes J, Kantarjian H, Garcia-Manero G.

Leukemia. 2014 Jun;28(6):1280-8. doi: 10.1038/leu.2013.355. Epub 2013 Nov 25.

21.

Colorectal carcinomas with CpG island methylator phenotype 1 frequently contain mutations in chromatin regulators.

Tahara T, Yamamoto E, Madireddi P, Suzuki H, Maruyama R, Chung W, Garriga J, Jelinek J, Yamano HO, Sugai T, Kondo Y, Toyota M, Issa JP, Estécio MR.

Gastroenterology. 2014 Feb;146(2):530-38.e5. doi: 10.1053/j.gastro.2013.10.060. Epub 2013 Nov 6.

22.

Examination of whole blood DNA methylation as a potential risk marker for gastric cancer.

Tahara T, Maegawa S, Chung W, Garriga J, Jelinek J, Estécio MR, Shibata T, Hirata I, Arisawa T, Issa JP.

Cancer Prev Res (Phila). 2013 Oct;6(10):1093-100. doi: 10.1158/1940-6207.CAPR-13-0034. Epub 2013 Aug 13.

23.

CCAT2, a novel noncoding RNA mapping to 8q24, underlies metastatic progression and chromosomal instability in colon cancer.

Ling H, Spizzo R, Atlasi Y, Nicoloso M, Shimizu M, Redis RS, Nishida N, Gafà R, Song J, Guo Z, Ivan C, Barbarotto E, De Vries I, Zhang X, Ferracin M, Churchman M, van Galen JF, Beverloo BH, Shariati M, Haderk F, Estecio MR, Garcia-Manero G, Patijn GA, Gotley DC, Bhardwaj V, Shureiqi I, Sen S, Multani AS, Welsh J, Yamamoto K, Taniguchi I, Song MA, Gallinger S, Casey G, Thibodeau SN, Le Marchand L, Tiirikainen M, Mani SA, Zhang W, Davuluri RV, Mimori K, Mori M, Sieuwerts AM, Martens JW, Tomlinson I, Negrini M, Berindan-Neagoe I, Foekens JA, Hamilton SR, Lanza G, Kopetz S, Fodde R, Calin GA.

Genome Res. 2013 Sep;23(9):1446-61. doi: 10.1101/gr.152942.112. Epub 2013 Jun 24.

24.

The epigenome of AML stem and progenitor cells.

Yamazaki J, Estecio MR, Lu Y, Long H, Malouf GG, Graber D, Huo Y, Ramagli L, Liang S, Kornblau SM, Jelinek J, Issa JP.

Epigenetics. 2013 Jan;8(1):92-104. doi: 10.4161/epi.23243. Epub 2012 Dec 18.

25.

A Bayesian Model for SNP Discovery Based on Next-Generation Sequencing Data.

Xu Y, Zheng X, Yuan Y, Estecio MR, Issa JP, Ji Y, Liang S.

IEEE Int Workshop Genomic Signal Process Stat. 2012 Dec;2012:42-45.

26.

Conserved DNA methylation patterns in healthy blood cells and extensive changes in leukemia measured by a new quantitative technique.

Jelinek J, Liang S, Lu Y, He R, Ramagli LS, Shpall EJ, Estecio MR, Issa JP.

Epigenetics. 2012 Dec 1;7(12):1368-78. doi: 10.4161/epi.22552. Epub 2012 Oct 17.

27.

SINE retrotransposons cause epigenetic reprogramming of adjacent gene promoters.

Estécio MR, Gallegos J, Dekmezian M, Lu Y, Liang S, Issa JP.

Mol Cancer Res. 2012 Oct;10(10):1332-42. doi: 10.1158/1541-7786.MCR-12-0351. Epub 2012 Sep 4.

28.

Repetitive elements and enforced transcriptional repression co-operate to enhance DNA methylation spreading into a promoter CpG-island.

Zhang Y, Shu J, Si J, Shen L, Estecio MR, Issa JP.

Nucleic Acids Res. 2012 Aug;40(15):7257-68. Epub 2012 May 17.

29.

Effects of TET2 mutations on DNA methylation in chronic myelomonocytic leukemia.

Yamazaki J, Taby R, Vasanthakumar A, Macrae T, Ostler KR, Shen L, Kantarjian HM, Estecio MR, Jelinek J, Godley LA, Issa JP.

Epigenetics. 2012 Feb;7(2):201-7. doi: 10.4161/epi.7.2.19015.

30.

DNA methylation does not stably lock gene expression but instead serves as a molecular mark for gene silencing memory.

Raynal NJ, Si J, Taby RF, Gharibyan V, Ahmed S, Jelinek J, Estécio MR, Issa JP.

Cancer Res. 2012 Mar 1;72(5):1170-81. doi: 10.1158/0008-5472.CAN-11-3248. Epub 2012 Jan 4.

31.

DNA methylation profiles of primary colorectal carcinoma and matched liver metastasis.

Konishi K, Watanabe Y, Shen L, Guo Y, Castoro RJ, Kondo K, Chung W, Ahmed S, Jelinek J, Boumber YA, Estecio MR, Maegawa S, Kondo Y, Itoh F, Imawari M, Hamilton SR, Issa JP.

PLoS One. 2011;6(11):e27889. doi: 10.1371/journal.pone.0027889. Epub 2011 Nov 21.

32.

Frequent alteration of MLL3 frameshift mutations in microsatellite deficient colorectal cancer.

Watanabe Y, Castoro RJ, Kim HS, North B, Oikawa R, Hiraishi T, Ahmed SS, Chung W, Cho MY, Toyota M, Itoh F, Estecio MR, Shen L, Jelinek J, Issa JP.

PLoS One. 2011;6(8):e23320. doi: 10.1371/journal.pone.0023320. Epub 2011 Aug 11.

33.

Aberrant DNA methylation is associated with disease progression, resistance to imatinib and shortened survival in chronic myelogenous leukemia.

Jelinek J, Gharibyan V, Estecio MR, Kondo K, He R, Chung W, Lu Y, Zhang N, Liang S, Kantarjian HM, Cortes JE, Issa JP.

PLoS One. 2011;6(7):e22110. doi: 10.1371/journal.pone.0022110. Epub 2011 Jul 8.

34.

Dissecting DNA hypermethylation in cancer.

Estécio MR, Issa JP.

FEBS Lett. 2011 Jul 7;585(13):2078-86. doi: 10.1016/j.febslet.2010.12.001. Epub 2010 Dec 10. Review.

35.

Genome architecture marked by retrotransposons modulates predisposition to DNA methylation in cancer.

Estécio MR, Gallegos J, Vallot C, Castoro RJ, Chung W, Maegawa S, Oki Y, Kondo Y, Jelinek J, Shen L, Hartung H, Aplan PD, Czerniak BA, Liang S, Issa JP.

Genome Res. 2010 Oct;20(10):1369-82. doi: 10.1101/gr.107318.110. Epub 2010 Aug 17.

36.

Tackling the methylome: recent methodological advances in genome-wide methylation profiling.

Estécio MR, Issa JP.

Genome Med. 2009 Nov 16;1(11):106. doi: 10.1186/gm106.

37.

CpG island methylation profiling in human melanoma cell lines.

Tellez CS, Shen L, Estécio MR, Jelinek J, Gershenwald JE, Issa JP.

Melanoma Res. 2009 Jun;19(3):146-55.

PMID:
19441164
38.

Sensitive and specific detection of early gastric cancer with DNA methylation analysis of gastric washes.

Watanabe Y, Kim HS, Castoro RJ, Chung W, Estecio MR, Kondo K, Guo Y, Ahmed SS, Toyota M, Itoh F, Suk KT, Cho MY, Shen L, Jelinek J, Issa JP.

Gastroenterology. 2009 Jun;136(7):2149-58. doi: 10.1053/j.gastro.2009.02.085. Epub 2009 Apr 16.

39.

An Sp1/Sp3 binding polymorphism confers methylation protection.

Boumber YA, Kondo Y, Chen X, Shen L, Guo Y, Tellez C, Estécio MR, Ahmed S, Issa JP.

PLoS Genet. 2008 Aug 22;4(8):e1000162. doi: 10.1371/journal.pgen.1000162.

40.

Aberrant CpG island methylation in acute myeloid leukemia is accentuated at relapse.

Kroeger H, Jelinek J, Estécio MR, He R, Kondo K, Chung W, Zhang L, Shen L, Kantarjian HM, Bueso-Ramos CE, Issa JP.

Blood. 2008 Aug 15;112(4):1366-73. doi: 10.1182/blood-2007-11-126227. Epub 2008 Jun 3.

41.

Methylated CpG Island Amplification and Microarray (MCAM) for High-Throughput Analysis of DNA Methylation.

Estécio MR, Yan PS, Huang TH, Issa JP.

CSH Protoc. 2008 Mar 1;2008:pdb.prot4974. doi: 10.1101/pdb.prot4974.

PMID:
21356790
42.

High-throughput methylation profiling by MCA coupled to CpG island microarray.

Estécio MR, Yan PS, Ibrahim AE, Tellez CS, Shen L, Huang TH, Issa JP.

Genome Res. 2007 Oct;17(10):1529-36. Epub 2007 Sep 4.

43.

Hypomethylation of LINE-1 and Alu in well-differentiated neuroendocrine tumors (pancreatic endocrine tumors and carcinoid tumors).

Choi IS, Estecio MR, Nagano Y, Kim DH, White JA, Yao JC, Issa JP, Rashid A.

Mod Pathol. 2007 Jul;20(7):802-10. Epub 2007 May 4.

44.

LINE-1 hypomethylation in cancer is highly variable and inversely correlated with microsatellite instability.

Estécio MR, Gharibyan V, Shen L, Ibrahim AE, Doshi K, He R, Jelinek J, Yang AS, Yan PS, Huang TH, Tajara EH, Issa JP.

PLoS One. 2007 May 2;2(5):e399.

45.

LHX6 is a sensitive methylation marker in head and neck carcinomas.

Estécio MR, Youssef EM, Rahal P, Fukuyama EE, Góis-Filho JF, Maniglia JV, Goloni-Bertollo EM, Issa JP, Tajara EH.

Oncogene. 2006 Aug 17;25(36):5018-26. Epub 2006 May 29.

PMID:
16732332
46.

DNA methylation changes after 5-aza-2'-deoxycytidine therapy in patients with leukemia.

Yang AS, Doshi KD, Choi SW, Mason JB, Mannari RK, Gharybian V, Luna R, Rashid A, Shen L, Estecio MR, Kantarjian HM, Garcia-Manero G, Issa JP.

Cancer Res. 2006 May 15;66(10):5495-503.

47.

Large-scale transcriptome analyses reveal new genetic marker candidates of head, neck, and thyroid cancer.

Reis EM, Ojopi EP, Alberto FL, Rahal P, Tsukumo F, Mancini UM, Guimarães GS, Thompson GM, Camacho C, Miracca E, Carvalho AL, Machado AA, Paquola AC, Cerutti JM, da Silva AM, Pereira GG, Valentini SR, Nagai MA, Kowalski LP, Verjovski-Almeida S, Tajara EH, Dias-Neto E, Bengtson MH, Canevari RA, Carazzolle MF, Colin C, Costa FF, Costa MC, Estécio MR, Esteves LI, Federico MH, Guimarães PE, Hackel C, Kimura ET, Leoni SG, Maciel RM, Maistro S, Mangone FR, Massirer KB, Matsuo SE, Nobrega FG, Nóbrega MP, Nunes DN, Nunes F, Pandolfi JR, Pardini MI, Pasini FS, Peres T, Rainho CA, dos Reis PP, Rodrigus-Lisoni FC, Rogatto SR, dos Santos A, dos Santos PC, Sogayar MC, Zanelli CF; Head and Neck Annotation Consortium.

Cancer Res. 2005 Mar 1;65(5):1693-9.

48.

A simple method for estimating global DNA methylation using bisulfite PCR of repetitive DNA elements.

Yang AS, Estécio MR, Doshi K, Kondo Y, Tajara EH, Issa JP.

Nucleic Acids Res. 2004 Feb 18;32(3):e38.

49.

Methylation and regulation of expression of different retinoic acid receptor beta isoforms in human colon cancer.

Youssef EM, Estecio MR, Issa JP.

Cancer Biol Ther. 2004 Jan;3(1):82-6. Epub 2004 Jan 9.

PMID:
14726683
50.

Comment on "Chromosomal instability and tumors promoted by DNA hypomethylation" and "Induction of tumors in nice by genomic hypomethylation".

Yang AS, Estecio MR, Garcia-Manero G, Kantarjian HM, Issa JP.

Science. 2003 Nov 14;302(5648):1153; author reply 1153. No abstract available.

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