- Open Access
DNA methylation in ductal carcinoma in situof the breast
Breast Cancer Research volume 15, Article number: 206 (2013)
Ductal carcinoma in situ (DCIS) is a non-obligate precursor lesion of invasive carcinoma of the breast. Current prognostic markers based on histopathological examination are unable to accurately predict which DCIS cases will progress to invasive carcinoma or recur after surgical excision. Epigenetic changes have been shown to be a significant driver of tumorigenesis, and DNA methylation of specific gene promoters provides predictive and prognostic markers in many types of cancer, including invasive breast cancer. In general, the spectrum of genes that are methylated in DCIS strongly resembles that seen in invasive ductal carcinoma. The identification of specific prognostic markers in DCIS remains elusive and awaits additional work investigating a large panel of methylatable genes by using sensitive and reproducible technologies. This review critically appraises the role of methylation in DCIS and its use as a biomarker.
Ductal carcinoma in situ (DCIS) is a malignant epithelial proliferation confined by myoepithelial cells and the basement membrane of breast ducts and is a non-obligate precursor to invasive carcinoma of the breast. The reported incidence of DCIS, once a rare diagnosis, has increased since the introduction of mammographic screening programs and has been reported to account for approximately 25% of new diagnoses of breast cancer .
The aim of DCIS treatment is to prevent progression to invasive carcinoma and subsequent potential for metastatic disease and death. DCIS is treated primarily by surgical excision, which can be in the form of breast-conserving surgery (lumpectomy) or mastectomy. Although mastectomy is considered to be curative, the recurrence rate in patients with DCIS treated with breast-conserving surgery alone has been reported to be greater than 25% over 10 years . As a result, patients treated with breast-conserving surgery may also receive radiotherapy and hormonal therapy. Although several large clinical trials have reported a significant reduction in recurrence rates with the addition of adjuvant treatments in patients treated with breast-conserving surgery for DCIS [2–8], such treatments are associated with significant financial cost and side effects . Since nearly 75% of DCIS cases do not recur after surgical excision , there is a group of low-risk DCIS patients who would not gain additional benefit from adjuvant treatment . Accurately identifying this group of patients is desirable, not only to avoid side effects of treatment but also to allow better allocation of limited health resources.
Current prognostic markers in DCIS
The currently known prognostic markers of DCIS were comprehensively reviewed recently by Wang and colleagues  and Lari and Kuerer . Known adverse prognostic factors include young age [2, 3], symptomatic detection , and multifocal disease [11, 13]. Histopathological features, such as large tumor size [11, 14], high nuclear grade [11, 13], the presence of comedo necrosis [11, 15], positive excision margin status [11, 16], negative hormone receptor status [11, 12], and HER-2 amplification [11, 14, 17–19], have also been associated with increased risk of recurrence. Immunohistochemical detection of a range of biomarkers, including COX2 [20, 21], Ki67 [20, 21], p16 [20–22], p53 [18, 23], p21 , and BNIP3  as individual markers or in combination, has been associated with disease recurrence risk. Gene expression profiling has also been reported to be useful in identifying tumors with increased risk of recurrence [25–27].
Unfortunately, traditional prognostic markers are not adequate to identify low-risk DCIS patients who may be spared adjuvant hormonal treatment, and currently there is a lack of strong level I or II evidence supporting the omission of adjuvant radiotherapy in selected low-risk cases . Thus, novel biomarkers are urgently required to improve individual risk-profiling and aid treatment selection. DNA methylation of a selected panel of genes represents another potential set of markers for outcome prediction that are less dependent on scrupulous handling of the biopsy after resection  and remain stable even in formalin-fixed, paraffin-embedded material.
Assessing DNA methylation
DNA methylation is the addition of a methyl group at the carbon 5 position of cytosine by the action of DNA methyltransferase enzymes. In mammalian cells, cytosine methylation occurs predominantly at CpG dinucleotides. Regions of high CpG dinucleotide density, known as CpG islands, frequently exist in the promoter region of human genes. Aberrant hypermethylation of these promoter CpG islands can result in functional silencing of genes by the recruitment of histone deacetylases, resulting in the formation of inactive chromatin. Alterations of DNA methylation patterns are near universal in cancer. In particular, inactivation of tumor suppressor genes by promoter hypermethylation can be a driver of tumorigenesis.
Commonly used methodologies for DNA methylation analysis have been comprehensively reviewed elsewhere [29–32] and are summarized in Table 1. As all methodologies have their advantages and limitations, interpretation of methylation results requires critical consideration of the methodology used. It should be noted that some commonly used methodologies are prone to artifacts, in particular methylation-specific polymerase chain reaction (MSP) approaches, which require stringent primer hybridization conditions to minimize false-positive amplification. Methods that depend on restriction enzyme digestion also may give rise to false positives if digestion is incomplete.
In general, non-quantitative methods of methylation analysis should be avoided as they detect only the presence or absence of methylation regardless of the extent of methylation and will score a sample as methylated even if only a small proportion of templates are methylated. Low-level methylation means that only a small proportion of the cells being analyzed (possibly not related to the tumor) are methylated and this may not result in detectable changes in gene transcription overall. Quantitative or semi-quantitative methodologies are required to differentiate low-level from high-level methylation. These include MethyLight and similar quantitative MSP technologies, DNA sequencing, and methylation-sensitive high-resolution melting (MS-HRM). It should also be noted that when methylation is heterogeneous (that is, the individual CpGs within a given region show variable methylation), even quantitative methodologies can give variable results .
The choice of the appropriate region to be analyzed is also a source of variation and can lead to major discrepancies in results between studies. In general, the best region to use for most studies is the one where DNA methylation is most closely correlated to the transcription of the gene, although this is rarely assessed.
DNA methylation in DCIS
Over the last decade, relatively few studies have specifically investigated DNA methylation in DCIS. Of these, most have taken a candidate gene approach, investigating genes known to be methylated or silenced in invasive breast cancers, breast cancer cell lines, or other cancer types [33–49]. From such studies, aberrant methylation has been reported in a large variety of genes, including every pathway involved in carcinogenesis. An additional table lists these genes and their reported methylation frequencies (Additional file 1). Widely divergent frequencies of methylation have been reported for some genes, reflecting not only differences in patient groups but also the use of different non-standardized methodologies .
As with many biomarker studies in DCIS, studies examining DNA methylation have generally included only a relatively small number of cases. For methylation, the issue is further compounded since optimally only the neoplastic element should be assessed and this requires macro-dissection or micro-dissection to isolate DCIS from the surrounding tissues so as to avoid contamination. The amount of DNA obtainable from DCIS lesions, which are commonly small in mass, is therefore often a limiting factor in the number of cases able to be included in studies. Furthermore, not all studies have used pure DCIS cases (cases of DCIS without associated invasive carcinoma) or have combined methylation results of DCIS occurring in the context of invasive ductal carcinoma (IDC) mixed with pure DCIS cases. Studying pure DCIS cases may be critical for several reasons. The in situ component of mixed DCIS-IDC has been reported to be genomically similar to the invasive component , whereas DCIS-IDC combined and pure DCIS have been reported to be genetically distinct . In addition, a lesion that morphologically resembles DCIS may be the spread of invasive carcinoma along a duct and therefore would be expected to have the same genetic and epigenetic alterations as invasive carcinoma.
Summary of main published studies
The published studies (Additional file 1) illustrate the complexity of assessing the overall picture of DNA methylation in DCIS. These studies have investigated different sets of genes, used different methodologies, and examined different regions of the promoter. Whereas most studies have assessed methylation as either present or absent, some have reported methylation levels as a continuous variable. These then employ various cutoffs to determine the frequency and correlation of aberrant methylation with clinicopathological parameters.
Earlier studies specifically addressing DNA methylation in DCIS, or methylation changes in the progression to invasive carcinoma, examined mostly a single gene [33–35, 38–42, 52] or at most a handful of genes [36, 37]. More recently, studies have investigated panels of selected genes [46–49, 53], and a small number of studies have incorporated global approaches for methylation analysis [54, 55].
Several studies have shown an increase in the number of methylated genes from normal breast tissue to benign lesions to in situ carcinoma [47, 49, 56]. However, for most genes, methylation has been reported to occur with similar frequency in DCIS as in IDC [47, 49]. This suggests that, in most cases, aberrant methylation occurs before the acquisition of an invasive phenotype and may not contribute to the development of invasion. Never the-less, a small number of genes such as APC, CACNA1A, CDH1, FOXC1, HOXA10, MGMT, SFPR1, TFAP2A, and TWIST1 have been reported to show differences in either frequency or density of methylation between DCIS and invasive carcinoma (Table 2). This raises the possibility of using quantitative methylation of a panel of such genes to predict disease progression.
For example, Fackler and colleagues  reported TWIST1 methylation, as detected by MSP, to occur more frequently in IDC (15/27, 56%) compared with grade 3 DCIS (7/18, 39%), grade 2 DCIS (3/12, 25%), and grade 1 DCIS (2/14, 14%), and the difference in methylation frequency between IDC and combined grade 1 and 2 DCIS was statistically significant (P = 0.01). Douglas and colleagues  found methylation of TFAP2α, as detected by nested MSP, to be much more frequent in IDC (12/16, 75%) compared with DCIS (3/19, 16%, P <0.001), although one would query whether such a sensitive methodology would yield biologically sensible results.
More recently, Hoque and colleagues  examined the methylation status of nine genes in pure DCIS lesions and mixed DCIS-IDC lesions by using quantitative methylation-specific polymerase chain reaction (qMSP) and chose the cutoff for aberrant methylation on the basis of receiver operating characteristic (ROC) curves. In mixed DCIS-IDC tumors, trends to higher frequencies of APC and CDH1 methylation were found in IDC compared with DCIS. APC methylation was found in 15 (38%) of 40 DCIS samples and in 24 (53%) of 45 IDC samples, and CDH1 methylation was present in 12 (31%) of 40 of DCIS samples and 21 (47%) of 45 of invasive samples.
Muggerud and colleagues  examined promoter methylation in pure DCIS lesions, mixed DCIS-IDC lesions, early-stage IDCs, and normal breast tissue in order to identify potential markers of DCIS progression. The analysis was done quantitatively by bisulfite pyrosequencing, and aberrant hypermethylation was defined as methylation levels two times above the standard deviation of the average of the normal controls. This study identified ABCB1, FOXC1, PPP2R2B, and PTEN as recurrently methylated genes in DCIS: all had been previously reported in IDC. Methylation of FOXC1 was observed to occur with greater frequency in invasive tumors (15/28, 53.6%) compared with pure DCIS (6/27, 22.2%).
An interesting finding of the above study  was reduced FOXC1 gene expression (as detected by quantitative reverse transcription-polymerase chain reaction, or qRT-PCR) relative to normal breast tissue not only when the tumor tissue was methylated but also in those tumors that were unmethylated. This echoes numerous other studies in which methylation of a given gene promoter is seen in a subset of tumors that are more generally silenced for that gene. Mechanisms other than methylation, especially histone modifications, are known to result in gene silencing, and it has been shown that gene silencing may precede DNA methylation and thus these tumors may show varying stages along the route from histone-based silencing to histone and methylation-based silencing .
Park and colleagues  investigated cases of pure DCIS, IDC, the non-malignant epithelial lesions atypical ductal hyperplasia and flat epithelial atypia, and normal breast tissue for methylation of 15 genes by MethyLight. This study reported several novel methylated genes in DCIS (DLEC1, GRIN2B, HOXA1, MT1G, SFRP4, and TMEFF2). Although methylated genes accumulating at each step of abnormality were identified, no differences in methylation frequencies between DCIS and IDC were found for most genes, with the exception of HOXA10, which was more frequently methylated in IDC (17/50, 34%) compared with DCIS (3/35, 9%) (P = 0.007).
Moelans and colleagues  investigated promoter methylation of 25 genes in mixed DCIS-IDC cases with methylation-specific multiplex-dependent probe amplification (MS-MLPA). No differences in the number of methylated genes between the DCIS and invasive components were observed. Verschuur-Maes and colleagues  also used MS-MLPA to analyze promoter methylation of a panel of 50 genes in 15 columnar cell lesions (a benign epithelial lesion) and co-existent DCIS (n = 12) and IDC (n = 14). Whereas the number of methylated genes differed between normal breast tissue and lesional tissue, no statistical difference in the number of methylated genes was found between columnar cell lesions, DCIS, and IDC. However, MGMT and CACNA1A individually were observed to be more frequently methylated in invasive cancer compared with DCIS (MGMT methylation: 8/14 invasive, 2/12 DCIS, P = 0.022; CACNA1A methylation: 6/14 invasive, 1/12 DCIS, P = 0.048). Controversially, both studies [48, 53] using MS-MLPA reported methylation of BRCA2 in a sizeable number of tumors, and this casts doubt on the specificity of this methodology.
In some studies, methylation levels of genes have been assessed by using quantitative real-time polymerase chain reaction (qPCR). These show that methylation levels are higher in IDC than DCIS. How much this reflects tumor heterogeneity and how much this represents methodological issues in assessing increased densities of methylation remain uncertain. Significantly higher SFRP1 methylation levels have been observed in IDC compared with DCIS . Similarly, Muggerud and colleagues  found significantly higher FOXC1 methylation levels in IDC (P = 0.007) and mixed tumors (P = 0.001) compared with pure DCIS. Higher methylation levels of MGMT (P = 0.019)  and CDH1 (P <0.04)  in IDC compared with DCIS have also been reported.
Whereas the above studies examined gene-specific DNA methylation at stages of breast cancer progression, Lee and colleagues  examined differences in DNA methylation in DCIS between American and Korean women. Quantitative multiplex methylation-specific polymerase chain reaction (QM-MSP) was used to assess methylation of a panel of 10 genes in DCIS lesions from 52 American and 48 Korean women and normal breast tissue. Although Korean women have a markedly lower incidence of DCIS, the patterns of methylation were similar in the two groups, indicating that similar mechanisms of pathogenesis underlie DCIS in the two populations.
Global methylation studies of DCIS
Recently, studies have taken a global methylation approach to investigating DNA methylation in DCIS. Tommasi and colleagues  identified 108 aberrantly methylated CpG islands by methylated CpG island recovery assay-assisted microarray analysis (MIRA) in early-stage breast cancer and six cases of undissected DCIS. Candidate genes were identified on the basis of these methylated CpG islands, and six novel aberrantly methylated genes in DCIS (TLX1, HOXB13, HNF1B, GFI1, NR2E1, and HLXB9) were verified by combined bisulfite restriction analysis (COBRA). However, though identified as novel, these were not validated in an independent cohort of DCIS to assess their significance or used to examine the issue of recurrence or progression.
Another recent study used a global methylation approach to identify methylated genes on a panel of low-grade invasive breast cancer and in situ cancer and then profiled selected novel genes against a small number of additional in situ and invasive breast cancers . The hypermethylated regions, identified by methyl-CpG immunoprecipitation and human CpG island arrays, were used to select candidate genes on the basis of the extent and frequency of methylation changes and the proximity of these changes to the gene promoters. Methylation of these selected genes was then analyzed by mass spectrometry on a validation set that included seven DCIS cases. Eleven genes (BCAN, HOXD1, KCTD8, KLF11, NXPH1, PCDH10, POU4F1, RYR2, SIM1, TAC1, and TCF7L1) were validated as being aberrantly methylated in DCIS and IDC compared with normal breast tissue. However, methylation levels of these 11 genes in DCIS were not statistically different compared with invasive tumors for any of the genes.
DNA methylation as a predictive and prognostic marker in DCIS
In invasive breast carcinoma, the methylation status of certain genes has been reported to be associated with survival [58–62], risk of metastatic disease [63–66], risk of disease recurrence [62, 64], and response to adjuvant treatment [60, 67, 68]. However, in DCIS, no direct link between aberrant methylation and risk of recurrence, risk of progression to invasive disease, or likelihood of response to adjuvant therapy has been reported.
However, previous reports indicate associations between certain methylated genes and known predictive factors such as hormone receptor status and HER2 amplification and adverse prognostic markers such as high nuclear grade, high proliferation index, TP53 mutations, and HER2 amplification [36, 44, 47–49] (Table 3). Although associations between methylated genes and currently known prognostic and predictive factors suggest that DNA methylation may have a role as a biomarker in DCIS, it has to be noted that these associations are the results of single studies that had relatively small numbers and that used different methylation analysis methodologies. Importantly, these studies were not designed to investigate the relationship of methylation with clinical outcome. Further well-powered studies on larger gene sets with detailed clinical data are required to establish the role of DNA methylation as a prognostic and predictive marker in DCIS.
There are inherent difficulties in conducting methylation studies in DCIS and this is due in large part to the nature of the disease itself. Pure DCIS cases are relatively rare compared with DCIS occurring in the context of invasive carcinoma, fresh tissue is almost never available, and usually only small amounts of formalin-fixed, paraffin-embedded tissue are available as a source of DNA. In addition, the use of robust methodologies for DNA methylation analysis is essential for the appropriate interpretation of methylation status.
Current knowledge of DNA methylation in DCIS is based largely on studies employing a candidate gene approach to methylation analysis. Global approaches, involving either high-throughput microarray-based assays such as the Infinium platform or one of a variety of approaches using the power of massive parallel sequencing (MPS), are now required.
The application of MPS platforms in genome-wide methylation analysis and their relative advantages and disadvantages have been comprehensively reviewed by several authors [69–73]. MPS has already been used for genome-wide methylation analysis of non-small cell lung cancer tissue , colon cancer tissue , prostate cancer cell lines and tissue , and breast cancer cell lines [77–79].
In addition to the identification of aberrant DNA methylation in the DCIS genome, the effect of methylation on gene expression and, importantly, clinical outcomes needs to be addressed. As DCIS is a heterogeneous disease with relatively few disease events occurring over decades, studies involving large numbers of pure DCIS cases with detailed clinical annotation and long-term follow-up are required to establish the validity of aberrant methylation as a predictive and prognostic biomarker in DCIS.
Identifying patients in whom DCIS will recur or progress to invasive carcinoma after surgical excision would allow appropriate allocation of limited health resources and avoid over-treatment of patients at low risk of further disease. DNA methylation has been found to be a predictive and prognostic marker in many forms of cancer. Although studies have shown that DNA methylation exists and may play a role in determining outcome in DCIS, we currently have an incomplete understanding of the role of DNA methylation in this disease. Studies specifically designed to investigate the relationship between DNA methylation and clinical outcome in DCIS are required to establish the validity of aberrant DNA methylation as a predictive and prognostic biomarker in DCIS.
ductal carcinoma in situ
infiltrating ductal carcinoma
massive parallel sequencing
methylation-specific multiplex ligation-dependent probe amplification
methylation-specific polymerase chain reaction.
Virnig BA, Tuttle TM, Shamliyan T, Kane RL: Ductal carcinoma in situ of the breast: a systematic review of incidence, treatment, and outcomes. J Natl Cancer Inst. 2010, 102: 170-178. 10.1093/jnci/djp482.
EORTC Breast Cancer Cooperative Group, EORTC Radiotherapy Group, Bijker N, Meijnen P, Peterse JL, Bogaerts J, Van Hoorebeeck I, Julien JP, Gennaro M, Rouanet P, Avril A, Fentiman IS, Bartelink H, Rutgers EJ: Breast-conserving treatment with or without radiotherapy in ductal carcinoma-in-situ: tenyear results of European Organisation for Research and Treatment of Cancer randomized phase III trial 10853--a study by the EORTC Breast Cancer Cooperative Group and EORTC Radiotherapy Group. J Clin Oncol. 2006, 24: 3381-3387. 10.1200/JCO.2006.06.1366.
Fisher B, Dignam J, Wolmark N, Wickerham DL, Fisher ER, Mamounas E, Smith R, Begovic M, Dimitrov NV, Margolese RG, Kardinal CG, Kavanah MT, Fehrenbacher L, Oishi RH: Tamoxifen in treatment of intraductal breast cancer: National Surgical Adjuvant Breast and Bowel Project B-24 randomised controlled trial. Lancet. 1999, 353: 1993-2000. 10.1016/S0140-6736(99)05036-9.
Houghton J, George WD, Cuzick J, Duggan C, Fentiman IS, Spittle M: Radiotherapy and tamoxifen in women with completely excised ductal carcinoma in situ of the breast in the UK, Australia, and New Zealand: randomised controlled trial. Lancet. 2003, 362: 95-102. 10.1016/S0140-6736(03)13859-7.
Omlin A, Amichetti M, Azria D, Cole BF, Fourneret P, Poortmans P, Naehrig D, Miller RC, Krengli M, Gutierrez Miguelez C, Morgan D, Goldberg H, Scandolaro L, Gastelblum P, Ozsahin M, Dohr D, Christie D, Oppitz U, Abacioglu U, Gruber G: Boost radiotherapy in young women with ductal carcinoma in situ: a multicentre, retrospective study of the Rare Cancer Network. Lancet Oncol. 2006, 7: 652-656. 10.1016/S1470-2045(06)70765-3.
Vogel VG, Costantino JP, Wickerham DL, McCaskill-Stevens W, Clarfeld RB, Grant MD, Wolmark N: Carcinoma in situ outcomes in National Surgical Adjuvant Breast and Bowel Project Breast Cancer Chemoprevention Trials. J Natl Cancer Inst Monogr. 2010, 2010: 181-186. 10.1093/jncimonographs/lgq041.
Cuzick J, Sestak I, Pinder SE, Ellis IO, Forsyth S, Bundred NJ, Forbes JF, Bishop H, Fentiman IS, George WD: Effect of tamoxifen and radiotherapy in women with locally excised ductal carcinoma in situ: long-term results from the UK/ANZ DCIS trial. Lancet Oncol. 2011, 12: 21-29. 10.1016/S1470-2045(10)70266-7.
Staley H, McCallum I, Bruce J: Postoperative tamoxifen for ductal carcinoma in situ. Cochrane Database Syst Rev. 2012, 10: CD007847-
Shapiro CL, Recht A: Side effects of adjuvant treatment of breast cancer. N Engl J Med. 2001, 344: 1997-2008. 10.1056/NEJM200106283442607.
Hughes LL, Wang M, Page DL, Gray R, Solin LJ, Davidson NE, Lowen MA, Ingle JN, Recht A, Wood WC: Local excision alone without irradiation for ductal carcinoma in situof the breast: a trial of the Eastern Cooperative Oncology Group. J Clin Oncol. 2009, 27: 5319-5324. 10.1200/JCO.2009.21.8560.
Wang SY, Shamliyan T, Virnig BA, Kane R: Tumor characteristics as predictors of local recurrence after treatment of ductal carcinoma in situ: a meta-analysis. Breast Cancer Res Treat. 2011, 127: 1-14. 10.1007/s10549-011-1387-4.
Lari SA, Kuerer HM: Biological markers in DCIS and risk of breast recurrence: a systematic review. J Cancer. 2011, 2: 232-261.
Rakovitch E, Nofech-Mozes S, Hanna W, Narod S, Thiruchelvam D, Saskin R, Spayne J, Taylor C, Paszat L: HER2/neu and Ki-67 expression predict noninvasive recurrence following breast-conserving therapy for ductal carcinoma in situ. Br J Cancer. 2012, 106: 1160-1165. 10.1038/bjc.2012.41.
Holmes P, Lloyd J, Chervoneva I, Pequinot E, Cornfield DB, Schwartz GF, Allen KG, Palazzo JP: Prognostic markers and long-term outcomes in ductal carcinoma in situ of the breast treated with excision alone. Cancer. 2011, 117: 3650-3657. 10.1002/cncr.25942.
Pinder SE, Duggan C, Ellis IO, Cuzick J, Forbes JF, Bishop H, Fentiman IS, George WD: A new pathological system for grading DCIS with improved prediction of local recurrence: results from the UKCCCR/ANZ DCIS trial. Br J Cancer. 2010, 103: 94-100. 10.1038/sj.bjc.6605718.
Dunne C, Burke JP, Morrow M, Kell MR: Effect of margin status on local recurrence after breast conservation and radiation therapy for ductal carcinoma in situ. J Clin Oncol. 2009, 27: 1615-1620. 10.1200/JCO.2008.17.5182.
Provenzano E, Hopper JL, Giles GG, Marr G, Venter DJ, Armes JE: Biological markers that predict clinical recurrence in ductal carcinoma in situ of the breast. Eur J Cancer. 2003, 39: 622-630. 10.1016/S0959-8049(02)00666-4.
de Roos MA, de Bock GH, de Vries J, van der Vegt B, Wesseling J: p53 overexpression is a predictor of local recurrence after treatment for both in situ and invasive ductal carcinoma of the breast. J Surg Res. 2007, 140: 109-114. 10.1016/j.jss.2006.10.045.
Nofech-Mozes S, Spayne J, Rakovitch E, Kahn HJ, Seth A, Pignol JP, Lickley L, Paszat L, Hanna W: Biological markers predictive of invasive recurrence in DCIS. Clin Med Oncol. 2008, 2: 7-18.
Gauthier ML, Berman HK, Miller C, Kozakeiwicz K, Chew K, Moore D, Rabban J, Chen YY, Kerlikowske K, Tlsty TD: Abrogated response to cellular stress identifies DCIS associated with subsequent tumor events and defines basal-like breast tumors. Cancer Cell. 2007, 12: 479-491. 10.1016/j.ccr.2007.10.017.
Kerlikowske K, Molinaro AM, Gauthier ML, Berman HK, Waldman F, Bennington J, Sanchez H, Jimenez C, Stewart K, Chew K, Ljung BM, Tlsty TD: Biomarker expression and risk of subsequent tumors after initial ductal carcinoma in situ diagnosis. J Natl Cancer Inst. 2010, 102: 627-637. 10.1093/jnci/djq101.
Witkiewicz AK, Rivadeneira DB, Ertel A, Kline J, Hyslop T, Schwartz GF, Fortina P, Knudsen ES: Association of RB/p16-pathway perturbations with DCIS recurrence: dependence on tumor versus tissue microenvironment. Am J Pathol. 2011, 179: 1171-1178. 10.1016/j.ajpath.2011.05.043.
Hieken TJ, Cheregi J, Farolan M, Kim J, Velasco JM: Predicting relapse in ductal carcinoma in situ patients: an analysis of biologic markers with long-term follow-up. Am J Surg. 2007, 194: 504-506. 10.1016/j.amjsurg.2007.07.002.
Tan EY, Campo L, Han C, Turley H, Pezzella F, Gatter KC, Harris AL, Fox SB: BNIP3 as a progression marker in primary human breast cancer; opposing functions in in situ versus invasive cancer. Clin Cancer Res. 2007, 13: 467-474. 10.1158/1078-0432.CCR-06-1466.
Ma XJ, Salunga R, Tuggle JT, Gaudet J, Enright E, McQuary P, Payette T, Pistone M, Stecker K, Zhang BM, Zhou YX, Varnholt H, Smith B, Gadd M, Chatfield E, Kessler J, Baer TM, Erlander MG, Sgroi DC: Gene expression profiles of human breast cancer progression. Proc Natl Acad Sci USA. 2003, 100: 5974-5979. 10.1073/pnas.0931261100.
Porter D, Lahti-Domenici J, Keshaviah A, Bae YK, Argani P, Marks J, Richardson A, Cooper A, Strausberg R, Riggins GJ, Schnitt S, Gabrielson E, Gelman R, Polyak K: Molecular markers in ductal carcinoma in situ of the breast. Mol Cancer Res. 2003, 1: 362-375.
Balleine RL, Webster LR, Davis S, Salisbury EL, Palazzo JP, Schwartz GF, Cornfield DB, Walker RL, Byth K, Clarke CL, Meltzer PS: Molecular grading of ductal carcinoma in situ of the breast. Clin Cancer Res. 2008, 14: 8244-8252. 10.1158/1078-0432.CCR-08-0939.
Lambert K, Patani N, Mokbel K: Ductal carcinoma in situ: recent advances and future prospects. Int J Surg Oncol. 2012, 2012: 347385-
Mikeska T, Bock C, Do H, Dobrovic A: DNA methylation biomarkers in cancer: progress towards clinical implementation. Expert Rev Mol Diagn. 2012, 12: 473-487. 10.1586/erm.12.45.
Mikeska T, Candiloro IL, Dobrovic A: The implications of heterogeneous DNA methylation for the accurate quantification of methylation. Epigenomics. 2010, 2: 561-573. 10.2217/epi.10.32.
Harrison A, Parle-McDermott A: DNA methylation: a timeline of methods and applications. Front Genet. 2011, 2: 74-
Kristensen LS, Hansen LL: PCR-based methods for detecting single-locus DNA methylation biomarkers in cancer diagnostics, prognostics, and response to treatment. Clin Chem. 2009, 55: 1471-1483. 10.1373/clinchem.2008.121962.
Evron E, Umbricht CB, Korz D, Raman V, Loeb DM, Niranjan B, Buluwela L, Weitzman SA, Marks J, Sukumar S: Loss of cyclin D2 expression in the majority of breast cancers is associated with promoter hypermethylation. Cancer Res. 2001, 61: 2782-2787.
Kang JH, Kim SJ, Noh DY, Park IA, Choe KJ, Yoo OJ, Kang HS: Methylation in the p53 promoter is a supplementary route to breast carcinogenesis: correlation between CpG methylation in the p53 promoter and the mutation of the p53 gene in the progression from ductal carcinoma in situ to invasive ductal carcinoma. Lab Invest. 2001, 81: 573-579. 10.1038/labinvest.3780266.
Umbricht CB, Evron E, Gabrielson E, Ferguson A, Marks J, Sukumar S: Hypermethylation of 14-3-3 sigma (stratifin) is an early event in breast cancer. Oncogene. 2001, 20: 3348-3353. 10.1038/sj.onc.1204438.
Lehmann U, Langer F, Feist H, Glockner S, Hasemeier B, Kreipe H: Quantitative assessment of promoter hypermethylation during breast cancer development. Am J Pathol. 2002, 160: 605-612. 10.1016/S0002-9440(10)64880-8.
Fackler MJ, McVeigh M, Evron E, Garrett E, Mehrotra J, Polyak K, Sukumar S, Argani P: DNA methylation of RASSF1A, HIN-1, RAR-beta, Cyclin D2 and Twist in in situ and invasive lobular breast carcinoma. Int J Cancer. 2003, 107: 970-975. 10.1002/ijc.11508.
Honorio S, Agathanggelou A, Schuermann M, Pankow W, Viacava P, Maher ER, Latif F: Detection of RASSF1A aberrant promoter hypermethylation in sputum from chronic smokers and ductal carcinoma in situ from breast cancer patients. Oncogene. 2003, 22: 147-150. 10.1038/sj.onc.1206057.
Yuan Y, Liu H, Sahin A, Dai JL: Reactivation of SYK expression by inhibition of DNA methylation suppresses breast cancer cell invasiveness. Int J Cancer. 2005, 113: 654-659. 10.1002/ijc.20628.
Douglas DB, Akiyama Y, Carraway H, Belinsky SA, Esteller M, Gabrielson E, Weitzman S, Williams T, Herman JG, Baylin SB: Hypermethylation of a small CpGuanine-rich region correlates with loss of activator protein-2alpha expression during progression of breast cancer. Cancer Res. 2004, 64: 1611-1620. 10.1158/0008-5472.CAN-0318-2.
Futscher BW, O'Meara MM, Kim CJ, Rennels MA, Lu D, Gruman LM, Seftor RE, Hendrix MJ, Domann FE: Aberrant methylation of the maspin promoter is an early event in human breast cancer. Neoplasia. 2004, 6: 380-389. 10.1593/neo.04115.
Lo PK, Mehrotra J, D'Costa A, Fackler MJ, Garrett-Mayer E, Argani P, Sukumar S: Epigenetic suppression of secreted frizzled related protein 1 (SFRP1) expression in human breast cancer. Cancer Biol Ther. 2006, 5: 281-286. 10.4161/cbt.5.3.2384.
Liu T, Niu Y, Feng Y, Niu R, Yu Y, Lv A, Yang Y: Methylation of CpG islands of p16(INK4a) and cyclinD1 overexpression associated with progression of intraductal proliferative lesions of the breast. Hum Pathol. 2008, 39: 1637-1646. 10.1016/j.humpath.2008.04.001.
Lee JS, Fackler MJ, Teo WW, Lee JH, Choi C, Park MH, Yoon JH, Zhang Z, Argani P, Sukumar S: Quantitative promoter hypermethylation profiles of ductal carcinoma in situ in North American and Korean women: potential applications for diagnosis. Cancer Biol Ther. 2008, 7: 1398-1406.
Subramaniam MM, Chan JY, Soong R, Ito K, Ito Y, Yeoh KG, Salto-Tellez M, Putti TC: RUNX3 inactivation by frequent promoter hypermethylation and protein mislocalization constitute an early event in breast cancer progression. Breast Cancer Res Treat. 2009, 113: 113-121. 10.1007/s10549-008-9917-4.
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, 18: 2694-2700. 10.1158/1055-9965.EPI-08-0821.
Muggerud AA, Rønneberg JA, Wärnberg F, Botling J, Busato F, Jovanovic J, Solvang H, Bukholm I, Børresen-Dale AL, Kristensen VN, Sørlie T, Tost J: Frequent aberrant DNA methylation of ABCB1, FOXC1, PPP2R2B and PTEN in ductal carcinoma in situ and early invasive breast cancer. Breast Cancer Res. 2010, 12: R3-10.1186/bcr2466.
Moelans CB, Verschuur-Maes AH, van Diest PJ: Frequent promoter hypermethylation of BRCA2, CDH13, MSH6, PAX5, PAX6 and WT1 in ductal carcinoma in situ and invasive breast cancer. J Pathol. 2011, 225: 222-231. 10.1002/path.2930.
Park SY, Kwon HJ, Lee HE, Ryu HS, Kim SW, Kim JH, Kim IA, Jung N, Cho NY, Kang GH: Promoter CpG island hypermethylation during breast cancer progression. Virchows Arch. 2011, 458: 73-84. 10.1007/s00428-010-1013-6.
Iakovlev VV, Arneson NC, Wong V, Wang C, Leung S, Iakovleva G, Warren K, Pintilie M, Done SJ: Genomic differences between pure ductal carcinoma in situ of the breast and that associated with invasive disease: a calibrated aCGH study. Clin Cancer Res. 2008, 14: 4446-4454. 10.1158/1078-0432.CCR-07-4960.
Farabegoli F, Champeme MH, Bieche I, Santini D, Ceccarelli C, Derenzini M, Lidereau R: Genetic pathways in the evolution of breast ductal carcinoma in situ. J Pathol. 2002, 196: 280-286. 10.1002/path.1048.
Krop IE, Sgroi D, Porter DA, Lunetta KL, LeVangie R, Seth P, Kaelin CM, Rhei E, Bosenberg M, Schnitt S, Marks JR, Pagon Z, Belina D, Razumovic J, Polyak K: HIN-1, a putative cytokine highly expressed in normal but not cancerous mammary epithelial cells. Proc Natl Acad Sci USA. 2001, 98: 9796-9801. 10.1073/pnas.171138398.
Verschuur-Maes AH, de Bruin PC, van Diest PJ: Epigenetic progression of columnar cell lesions of the breast to invasive breast cancer. Breast Cancer Res Treat. 2012, 136: 705-715. 10.1007/s10549-012-2301-4.
Faryna M, Konermann C, Aulmann S, Bermejo JL, Brugger M, Diederichs S, Rom J, Weichenhan D, Claus R, Rehli M, Schirmacher P, Sinn HP, Plass C, Gerhauser C: Genome-wide methylation screen in low-grade breast cancer identifies novel epigenetically altered genes as potential biomarkers for tumor diagnosis. FASEB J. 2012, 26: 4937-4950. 10.1096/fj.12-209502.
Tommasi S, Karm DL, Wu X, Yen Y, Pfeifer GP: Methylation of homeobox genes is a frequent and early epigenetic event in breast cancer. Breast Cancer Res. 2009, 11: R14-10.1186/bcr2233.
Lee JS: GSTP1 promoter hypermethylation is an early event in breast carcinogenesis. Virchows Arch. 2007, 450: 637-642. 10.1007/s00428-007-0421-8.
Stirzaker C, Song JZ, Davidson B, Clark SJ: Transcriptional gene silencing promotes DNA hypermethylation through a sequential change in chromatin modifications in cancer cells. Cancer Res. 2004, 64: 3871-3877. 10.1158/0008-5472.CAN-03-3690.
Xu X, Gammon MD, Zhang Y, Cho YH, Wetmur JG, Bradshaw PT, Garbowski G, Hibshoosh H, Teitelbaum SL, Neugut AI, Santella RM, Chen J: Gene promoter methylation is associated with increased mortality among women with breast cancer. Breast Cancer Res Treat. 2010, 121: 685-692. 10.1007/s10549-009-0628-2.
Jiang Y, Cui L, Chen WD, Shen SH, Ding LD: The prognostic role of RASSF1A promoter methylation in breast cancer: a meta-analysis of published data. PLoS One. 2012, 7: e36780-10.1371/journal.pone.0036780.
Dejeux E, Rønneberg JA, Solvang H, Bukholm I, Geisler S, Aas T, Gut IG, Børresen-Dale AL, Lønning PE, Kristensen VN, Tost J: DNA methylation profiling in doxorubicin treated primary locally advanced breast tumours identifies novel genes associated with survival and treatment response. Mol Cancer. 2010, 9: 68-10.1186/1476-4598-9-68.
Cho YH, Shen J, Gammon MD, Zhang YJ, Wang Q, Gonzalez K, Xu X, Bradshaw PT, Teitelbaum SL, Garbowski G, Hibshoosh H, Neugut AI, Chen J, Santella RM: Prognostic significance of gene-specific promoter hypermethylation in breast cancer patients. Breast Cancer Res Treat. 2012, 131: 197-205. 10.1007/s10549-011-1712-y.
Hill VK, Ricketts C, Bieche I, Vacher S, Gentle D, Lewis C, Maher ER, Latif F: Genome-wide DNA methylation profiling of CpG islands in breast cancer identifies novel genes associated with tumorigenicity. Cancer Res. 2011, 71: 2988-2999. 10.1158/0008-5472.CAN-10-4026.
Maier S, Nimmrich I, Koenig T, Eppenberger-Castori S, Bohlmann I, Paradiso A, Spyratos F, Thomssen C, Mueller V, Nährig J, Schittulli F, Kates R, Lesche R, Schwope I, Kluth A, Marx A, Martens JW, Foekens JA, Schmitt M, Harbeck N, European Organisation for Research and Treatment of Cancer (EORTC) PathoBiology group: DNA-methylation of the homeodomain transcription factor PITX2 reliably predicts risk of distant disease recurrence in tamoxifen-treated, node-negative breast cancer patients--Technical and clinical validation in a multi-centre setting in collaboration with the European Organisation for Research and Treatment of Cancer (EORTC) PathoBiology group. Eur J Cancer. 2007, 43: 1679-1686. 10.1016/j.ejca.2007.04.025.
Swift-Scanlan T, Vang R, Blackford A, Fackler MJ, Sukumar S: Methylated genes in breast cancer: associations with clinical and histopathological features in a familial breast cancer cohort. Cancer Biol Ther. 2011, 11: 853-865. 10.4161/cbt.11.10.15177.
Lo Nigro C, Monteverde M, Lee S, Lattanzio L, Vivenza D, Comino A, Syed N, McHugh A, Wang H, Proby C, Garrone O, Merlano M, Hatzimichael E, Briasoulis E, Gojis O, Palmieri C, Jordan L, Quinlan P, Thompson A, Crook T: NT5E CpG island methylation is a favourable breast cancer biomarker. Br J Cancer. 2012, 107: 75-83. 10.1038/bjc.2012.212.
Palmieri C, Monteverde M, Lattanzio L, Gojis O, Rudraraju B, Fortunato M, Syed N, Thompson A, Garrone O, Merlano M, Lo Nigro C, Crook T: Site-specific CpG methylation in the CCAAT/enhancer binding protein delta (CEBPdelta) CpG island in breast cancer is associated with metastatic relapse. Br J Cancer. 2012, 107: 732-738. 10.1038/bjc.2012.308.
Widschwendter M, Siegmund KD, Muller HM, Fiegl H, Marth C, Muller-Holzner E, Jones PA, Laird PW: Association of breast cancer DNA methylation profiles with hormone receptor status and response to tamoxifen. Cancer Res. 2004, 64: 3807-3813. 10.1158/0008-5472.CAN-03-3852.
Martens JW, Nimmrich I, Koenig T, Look MP, Harbeck N, Model F, Kluth A, Bolt-de Vries J, Sieuwerts AM, Portengen H, Meijer-Van Gelder ME, Piepenbrock C, Olek A, Höfler H, Kiechle M, Klijn JG, Schmitt M, Maier S, Foekens JA: Association of DNA methylation of phosphoserine aminotransferase with response to endocrine therapy in patients with recurrent breast cancer. Cancer Res. 2005, 65: 4101-4117. 10.1158/0008-5472.CAN-05-0064.
Hurd PJ, Nelson CJ: Advantages of next-generation sequencing versus the microarray in epigenetic research. Brief Funct Genomic Proteomic. 2009, 8: 174-183. 10.1093/bfgp/elp013.
Laird PW: Principles and challenges of genomewide DNA methylation analysis. Nat Rev Genet. 2010, 11: 191-203.
Zhao Q, Zhang Y: Epigenome sequencing comes of age in development, differentiation and disease mechanism research. Epigenomics. 2011, 3: 207-220. 10.2217/epi.10.78.
Ku CS, Naidoo N, Wu M, Soong R: Studying the epigenome using next generation sequencing. J Med Genet. 2011, 48: 721-730. 10.1136/jmedgenet-2011-100242.
Hirst M, Marra MA: Next generation sequencing based approaches to epigenomics. Brief Funct Genomics. 2010, 9: 455-465. 10.1093/bfgp/elq035.
Carvalho RH, Haberle V, Hou J, van Gent T, Thongjuea S, van Ijcken W, Kockx C, Brouwer R, Rijkers E, Sieuwerts A, Foekens J, van Vroonhoven M, Aerts J, Grosveld F, Lenhard B, Philipsen S: Genome-wide DNA methylation profiling of non-small cell lung carcinomas. Epigenetics Chromatin. 2012, 5: 9-10.1186/1756-8935-5-9.
Gu H, Bock C, Mikkelsen TS, Jager N, Smith ZD, Tomazou E, Gnirke A, Lander ES, Meissner A: Genome-scale DNA methylation mapping of clinical samples at single-nucleotide resolution. Nat Methods. 2010, 7: 133-136. 10.1038/nmeth.1414.
Kim JH, Dhanasekaran SM, Prensner JR, Cao X, Robinson D, Kalyana-Sundaram S, Huang C, Shankar S, Jing X, Iyer M, Hu M, Sam L, Grasso C, Maher CA, Palanisamy N, Mehra R, Kominsky HD, Siddiqui J, Yu J, Qin ZS, Chinnaiyan AM: Deep sequencing reveals distinct patterns of DNA methylation in prostate cancer. Genome Res. 2011, 21: 1028-1041. 10.1101/gr.119347.110.
Weng YI, Huang TH, Yan PS: Methylated DNA immunoprecipitation and microarray-based analysis: detection of DNA methylation in breast cancer cell lines. Methods Mol Biol. 2009, 590: 165-176. 10.1007/978-1-60327-378-7_10.
Ruike Y, Imanaka Y, Sato F, Shimizu K, Tsujimoto G: Genome-wide analysis of aberrant methylation in human breast cancer cells using methyl-DNA immunoprecipitation combined with high-throughput sequencing. BMC Genomics. 2010, 11: 137-10.1186/1471-2164-11-137.
Morita S, Takahashi RU, Yamashita R, Toyoda A, Horii T, Kimura M, Fujiyama A, Nakai K, Tajima S, Matoba R, Ochiya T, Hatada I: Genome-wide analysis of DNA methylation and expression of microRNAs in breast cancer cells. Int J Mol Sci. 2012, 13: 8259-8272. 10.3390/ijms13078259.
Frommer M, McDonald LE, Millar DS, Collis CM, Watt F, Grigg GW, Molloy PL, Paul CL: A genomic sequencing protocol that yields a positive display of 5-methylcytosine residues in individual DNA strands. Proc Natl Acad Sci USA. 1992, 89: 1827-1831. 10.1073/pnas.89.5.1827.
Clark SJ, Harrison J, Paul CL, Frommer M: High sensitivity mapping of methylated cytosines. Nucleic Acids Res. 1994, 22: 2990-2997. 10.1093/nar/22.15.2990.
Colella S, Shen L, Baggerly KA, Issa JP, Krahe R: Sensitive and quantitative universal Pyrosequencing methylation analysis of CpG sites. Biotechniques. 2003, 35: 146-150.
Tost J, Dunker J, Gut IG: Analysis and quantification of multiple methylation variable positions in CpG islands by Pyrosequencing. Biotechniques. 2003, 35: 152-156.
Ehrich M, Nelson MR, Stanssens P, Zabeau M, Liloglou T, Xinarianos G, Cantor CR, Field JK, van den Boom D: Quantitative high-throughput analysis of DNA methylation patterns by base-specific cleavage and mass spectrometry. Proc Natl Acad Sci USA. 2005, 102: 15785-15790. 10.1073/pnas.0507816102.
Coolen MW, Statham AL, Gardiner-Garden M, Clark SJ: Genomic profiling of CpG methylation and allelic specificity using quantitative highthroughput mass spectrometry: critical evaluation and improvements. Nucleic Acids Res. 2007, 35: e119-10.1093/nar/gkm662.
Herman JG, Myohanen S, Nelkin BD, Baylin SB: Methylation-specific PCR: a novel PCR assay for methylation status of CpG islands. Proc Natl Acad Sci USA. 1996, 93: 9821-9826. 10.1073/pnas.93.18.9821.
Eads CA, Danenberg KD, Kawakami K, Saltz LB, Blake C, Shibata D, Danenberg PV, Laird PW: MethyLight: a high-throughput assay to measure DNA methylation. Nucleic Acids Res. 2000, 28: E32-10.1093/nar/28.8.e32.
Kristensen LS, Mikeska T, Krypuy M, Dobrovic A: Sensitive Melting Analysis after Real Time- Methylation Specific PCR (SMART-MSP): high-throughput and probe-free quantitative DNA methylation detection. Nucleic Acids Res. 2008, 36: e42-10.1093/nar/gkn113.
Wojdacz TK, Dobrovic A: Methylation-sensitive high resolution melting (MS-HRM): a new approach for sensitive and high-throughput assessment of methylation. Nucleic Acids Res. 2007, 35: e41-10.1093/nar/gkm013.
Bianco T, Hussey D, Dobrovic A: Methylation-sensitive, single-strand conformation analysis (MS-SSCA): a rapid method to screen for and analyze methylation. Hum Mutat. 1999, 14: 289-293. 10.1002/(SICI)1098-1004(199910)14:4<289::AID-HUMU3>3.0.CO;2-A.
Gonzalgo ML, Jones PA: Rapid quantitation of methylation differences at specific sites using methylation-sensitive single nucleotide primer extension (Ms-SNuPE). Nucleic Acids Res. 1997, 25: 2529-2531. 10.1093/nar/25.12.2529.
Gonzalgo ML, Jones PA: Quantitative methylation analysis using methylation-sensitive single-nucleotide primer extension (Ms-SNuPE). Methods. 2002, 27: 128-133. 10.1016/S1046-2023(02)00064-6.
Xiong Z, Laird PW: COBRA: a sensitive and quantitative DNA methylation assay. Nucleic Acids Res. 1997, 25: 2532-2534. 10.1093/nar/25.12.2532.
Nygren AO, Ameziane N, Duarte HM, Vijzelaar RN, Waisfisz Q, Hess CJ, Schouten JP, Errami A: Methylation-specific MLPA (MS-MLPA): simultaneous detection of CpG methylation and copy number changes of up to 40 sequences. Nucleic Acids Res. 2005, 33: e128-10.1093/nar/gni127.
Candiloro IL, Mikeska T, Hokland P, Dobrovic A: Rapid analysis of heterogeneously methylated DNA using digital methylation-sensitive high resolution melting: application to the CDKN2B (p15) gene. Epigenetics Chromatin. 2008, 1: 7-10.1186/1756-8935-1-7.
Candiloro IL, Dobrovic A: Detection of MGMT promoter methylation in normal individuals is strongly associated with the T allele of the rs16906252 MGMT promoter single nucleotide polymorphism. Cancer Prev Res (Phila). 2009, 2: 862-867. 10.1158/1940-6207.CAPR-09-0056.
Li M, Chen WD, Papadopoulos N, Goodman SN, Bjerregaard NC, Laurberg S, Levin B, Juhl H, Arber N, Moinova H, Durkee K, Schmidt K, He Y, Diehl F, Velculescu VE, Zhou S, Diaz LA, Kinzler KW, Markowitz SD, Vogelstein B: Sensitive digital quantification of DNA methylation in clinical samples. Nat Biotechnol. 2009, 27: 858-863. 10.1038/nbt.1559.
Graff JR, Gabrielson E, Fujii H, Baylin SB, Herman JG: Methylation patterns of the E-cadherin 5' CpG island are unstable and reflect the dynamic, heterogeneous loss of E-cadherin expression during metastatic progression. J Biol Chem. 2000, 275: 2727-2732. 10.1074/jbc.275.4.2727.
Pu RT, Laitala LE, Alli PM, Fackler MJ, Sukumar S, Clark DP: Methylation profiling of benign and malignant breast lesions and its application to cytopathology. Mod Pathol. 2003, 16: 1095-1101. 10.1097/01.MP.0000095782.79895.E2.
Pasquali L, Bedeir A, Ringquist S, Styche A, Bhargava R, Trucco G: Quantification of CpG island methylation in progressive breast lesions from normal to invasive carcinoma. Cancer Lett. 2007, 257: 136-144. 10.1016/j.canlet.2007.07.010.
Alvarez C, Tapia T, Cornejo V, Fernandez W, Munoz A, Camus M, Alvarez M, Devoto L, Carvallo P: Silencing of tumor suppressor genes RASSF1A, SLIT2, and WIF1 by promoter hypermethylation in hereditary breast cancer. Mol Carcinog. 2013, 52: 475-487. 10.1002/mc.21881.
This work was supported by funding to SF from Cancer Australia and to AD from the National Breast Cancer Foundation. We thank Ida Candiloro, Jonathan Weiss, Stephen Wong, and Elena Takano for critically reviewing the manuscript.
The authors declare that they have no competing interests.
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Pang, JM.B., Dobrovic, A. & Fox, S.B. DNA methylation in ductal carcinoma in situof the breast. Breast Cancer Res 15, 206 (2013). https://doi.org/10.1186/bcr3420
- Methylation Level
- Invasive Ductal Carcinoma
- Normal Breast Tissue
- Massive Parallel Sequencing
- Flat Epithelial Atypia