{'fraction_non_alphanumeric': 0.04151110237767734, 'fraction_numerical': 0.03939870308508548, 'mean_word_length': 4.983833039388595, 'pattern_counts': {'":': 0, '<': 0, '<?xml version=': 0, '>': 0, 'https://': 0, 'lorem ipsum': 0, 'www.': 0, 'xml': 0}, 'pii_count': 0, 'substrings_counts': 0, 'word_list_counts': {'cursed_substrings.json': 0, 'profanity_word_list.json': 0, 'sexual_word_list.json': 0, 'zh_pornsignals.json': 0}}
Differential effect of MMSET mRNA levels on survival to first-line FOLFOX and second-line docetaxel in gastric cancer

Background: Breast cancer susceptibility gene 1 (BRCA1) expression differentially affects outcome to platinum- and taxane-based chemotherapy. Mediator of DNA damage checkpoint protein 1 (MDC1), p53-binding protein 1 (53BP1), multiple myeloma SET domain (MMSET) and ubiquitin-conjugating enzyme 9 (UBC9) are involved in DNA repair and could modify the BRCA1 predictive model. Methods: Mediator of DNA damage checkpoint protein 1, 53BP1, MMSET and UBC9 mRNA were assessed in gastric tumours from patients in whom BRCA1 levels had previously been determined. Results: In vitro chemosensitivity assay, MMSET levels were higher in docetaxel-sensitive samples. In a separate cohort, survival was longer in those with low MMSET (12.3 vs 8.8 months; P=0.04) or UBC9 (12.4 vs 8.8 months; P=0.01) in patients receiving only folinic acid, fluorouracil (5-FU) and oxaliplatin (FOLFOX). Conversely, among patients receiving second-line docetaxel, longer survival was associated with high MMSET (19.1 vs 13.9 months; P=0.003). Patients with high MMSET and BRCA1 attained a median survival of 36.6 months, compared with 13.9 months for those with high BRCA1 and low MMSET (P=0.003). In the multivariate analyses, low MMSET (hazard ratio (HR), 0.59; P=0.04) and low UBC9 (HR, 0.52; P=0.01) levels were markers of longer survival to first-line FOLFOX, whereas palliative surgery (HR, 2.47; P=0.005), low BRCA1 (HR, 3.17; P=0.001) and low MMSET (HR, 2.52; P=0.004) levels were markers of shorter survival to second-line docetaxel. Conclusions: Breast cancer susceptibility gene 1, MMSET and UBC9 can be useful for customising chemotherapy in gastric cancer patients.

Gastric cancer represents 8% of total cancer cases and 10% of total deaths worldwide, with an annual estimate of 989 600 new cases and 738 000 deaths (Jemal et al, 2011). China accounts for 40% of all gastric cancer patients, most of whom are diagnosed with advanced disease (Jemal et al, 2011). The outcome for locally advanced and metastatic gastric cancer is still dismal, with a median survival of o1 year (Wagner et al, 2006). In our previous experience, however, median survival was 15.8 months in gastric cancer patients with low mRNA expression of excision repair cross-complementing 1 (ERCC1) treated with the combination of folinic acid, fluorouracil (5-FU) and oxaliplatin (FOLFOX) . We also found that among patients receiving second-line docetaxel, median overall survival was 25.8 months for patients with high mRNA expression of breast cancer susceptibility gene 1 (BRCA1; Wei et al, 2011).
Chemotherapy induces widespread DNA damage. Although ERCC1 and BRCA1 can affect survival to chemotherapy because of their pivotal roles in DNA damage response pathways, recent studies have revealed a more complex network involved in the response to DNA damage. Preclinical evidence showed that receptor-associated protein 80 (RAP80) is essential for the BRCA1 repair function (Sobhian et al, 2007;Morris et al, 2009). In addition, BRCA1 is also modified by small ubiquitin-related modifier (SUMO) in response to genotoxic damage. Protein inhibitor of activated STAT (PIAS) SUMO ligases are required for proficient double-strand break repair , which has been investigated in our previous study (Wei et al, 2011). In DNA damage repair, mediator of DNA damage checkpoint protein 1 (MDC1) serves as a upstream molecular, which promotes H2AX phosphorylation and then helps to amplify ataxia telangiectasia mutated signalling by a time-dependent, sequential assembly of repair proteins, including BRCA1 and p53-binding protein 1 (53BP1), thus controlling damage-induced cell cycle arrest checkpoints (Stewart et al, 2003;Stucki et al, 2005). The function of 53BP1 in DNA repair is abrogated when BRCA1 is depleted (Rauch et al, 2005;Bunting et al, 2010). Impaired 53BP1 accumulation to DNA damage sites was also observed along with depletion of PIAS4 and ubiquitin-conjugating enzyme 9 (UBC9), the E3 and E2 ubiquitin ligases in the SUMO conjugation system ). Ubiquitin-conjugating enzyme 9 transports BRCA1 proteins to the nucleus, and knockdown of UBC9 resulted in cytoplasmic localisation of BRCA1 proteins, which were impaired in their capacity to inhibit growth of ovarian cancer cells (Qin et al, 2012). The methyltransferase multiple myeloma SET domain (MMSET) has a central role in the recruitment of 53BP1 to DNA damage sites (Pei et al, 2011), and depletion of MMSET confers hypersensitivity to ionising radiation (Pei et al, 2011). Multiple myeloma SET domain is highly expressed in several tumour types compared with normal tissues (Kassambara et al, 2009;Hudlebusch et al, 2011a), and high MMSET expression contributes to cell viability and growth and thus to poor prognosis (Hudlebusch et al, 2011b). In addition, MMSET knockdown decreased transcript levels of several cell cycle genes, including BRCA1 (Brito et al, 2009; Figure 1).
In order to examine the impact of MDC1, 53BP1, MMSET and UBC9 on the predictive model based on BRCA1 mRNA expression, we have analysed the mRNA expression of these genes in tumour samples from two separate cohorts of advanced gastric cancer patients. In 99 patients, we correlated expression levels with in vitro cytotoxicity of cisplatin and docetaxel, and in the second cohort of 132 advanced gastric cancer patients in whom BRCA1 mRNA expression had previously been determined (Wei et al, 2011), we correlated expression levels with survival to first-line FOLFOX and to second-line docetaxel-based chemotherapy.

MATERIALS AND METHODS
Patients. Freshly removed gastric tumour tissues were obtained from 99 patients undergoing gastrectomy between 2010 and 2011 at the General Surgery Department of Drum Tower Hospital, Nanjing, China. Gene expression levels of MDC1, 53BP1, MMSET and UBC9 were determined and correlated with in vitro tumour chemosensitivity. In a second independent cohort of 132 patients (Wei et al, 2011) with histologically proven locally advanced or metastatic gastric cancer and Eastern Cooperative Oncology Group (ECOG) performance status (PS) p2, we examined the expression of the four genes in tumour samples obtained at the time of surgical resection and correlated gene expression levels with overall survival. All patients received a modified FOLFOX regimen as firstline chemotherapy, and 58 patients were also treated with secondline docetaxel-based chemotherapy. Thirty-five patients received single-agent docetaxel and the remaining 23 patients were treated with docetaxel-based doublets, based on their response to first-line chemotherapy, PS and patient consent.
Survival was calculated from the starting date of first-line treatment to the date of last follow-up or death from any cause. All patients gave their signed informed consent, and the study was approved by the institutional ethics review board of Drum Tower Hospital.
In vitro chemosensitivity. Sensitivity to docetaxel and cisplatin was examined in vitro by histoculture drug response assay (Furukawa et al, 1995). Briefly, fresh tumour specimens were cut into small pieces of approximately 10 mg and then placed on prepared collagen surfaces in 24-well microplates. After treatment with docetaxel and cisplatin at the concentration of 100 mg ml -1 (Hayashi et al, 2009) and 20 mg ml -1 (Fujita et al, 2009), respectively, 3-(4,5-dimethyl-2-thiazotyl)-2,5-diphenyl-2H-tetrazoliumbromide assay was used to examine cytotoxicity. The inhibition rate was calculated as previously reported (Shen et al, 2012).
Gene expression analysis. Breast cancer susceptibility gene 1 expression had previously been determined in all patients (Wei et al, 2011). We analysed the mRNA expression of MDC1, 53BP1, MMSET and UBC9 by quantitative PCR. RNA was isolated from the macrodissected tumour tissue specimens in accordance with a proprietary procedure (European patent number EP1945764-B1). Briefly, paraffin was removed by xylene. Macrodissected tumour samples were lysed in a proteinase K-containing buffer. RNA was then purified with phenol-chloroform-isoamyl alcohol, followed by precipitation with isopropanol in the presence of glycogen and sodium acetate. RNA was re-suspended in water and treated with DNAse I to avoid DNA contamination. cDNA was generated using M-MLV retrotranscriptase enzyme. Template cDNA was amplified with specific primers and probes for each gene and Taqman Universal Master Mix (Applied Biosystems, Foster City, CA, USA). Quantification of gene expression was performed using the ABI Prism 7900HT Sequence Detection System (Applied Biosystems). In all quantitative experiments, only triplicates with an s.d. of the In response to DNA double-stand breaks, MDC1 directly binds to histone H2A variant H2AX, regulating cellular responses to DNA repair by BRCA1 and 53BP1. Breast cancer susceptibility gene 1 needs to be SUMOylated through the activity of UBC9-PIAS1/4 at sites of DNA damage to increase its ubiquitin ligase activity. Multiple myeloma SET domain is required for the recruitment of 53BP1 to DNA damage sites.
Ct values o0.30 were accepted. Relative gene expression quantifications were calculated according to the comparative Ct method using b-actin as an endogenous control and commercial human lung and liver RNA (Stratagene, La Jolla, CA, USA) as calibrators. Final results were determined by the formula 2 À DDCt and were performed according to Technical Bulletin #2 (Applied Biosystems).
Statistical analysis. Median values and ranges were calculated for quantitative variables and gene mRNA expression. Qualitative variables were summarised by absolute frequencies and percentages. The normality of quantitative variables was analysed by the Kolmogorov-Smirnov test and compared with the Mann-Whitney U and Kruskal-Wallis tests. In order to correlate gene expression levels with clinical characteristics, the w 2 test or Fisher's exact test was used for qualitative variables. The Spearman rho method was used to correlate the expression levels of the four genes. The Mann-Whitney U-test was used to compare gene expression levels in chemosensitive and chemoresistant groups. The distributions of survival were obtained by the Kaplan-Meier method and compared with the log-rank test. A univariate analysis was performed to evaluate the survival differences according to gender, ECOG PS, histology, site, stage or expression levels of MDC1, 53BP1, MMSET and UBC9. A multivariate analysis was performed and the hazard ratio (HR) and 95% confidence intervals (CIs) were estimated with the use of the forward and backward Cox proportional hazards model.
All statistical calculations were performed with the Statistical Package for the Social Sciences for Windows version 17 (SPSS Inc., Chicago, IL, USA) and S-Plus 6.1 (Insightful Corporation, Seattle, WA, USA). Two-sided P-values o0.05 was considered statistically significant.

RESULTS
Patient characteristics. The in vitro study included 99 gastric cancer patients. All patients had adenocarcinoma, and 73.3% were males. The clinical study included a separate cohort of 132 gastric cancer patients in whom BRCA1 expression had previously been analysed (Wei et al, 2011). Median age was 60.5 years (range, 22-84); 102 patients were males; 90.9% had PS 0-1; 98.4% had adenocarcinoma. Curative gastrectomy was performed in 65.9% of the patients, while the rest received palliative surgery. Forty patients (30.3%) had stage IIIA, 41 (31.1%) stage IIIB and 51 (38.6%) stage IV disease at the time of diagnosis (Table 1). The median number of cycles of FOLFOX was three (range, 1-8). All patients progressed to first-line chemotherapy, and 58 patients were treated with second-line docetaxel chemotherapy. The median number of cycles of second-line chemotherapy was three (range, 1-7). The median age of patients receiving second-line docetaxel-based therapy was younger than those treated only with first-line chemotherapy (58 vs 64 years, P ¼ 0.05). No other differences were observed between patients receiving and those not receiving second-line therapy (Table 1).
Gene expression levels and in vitro chemosensitivity. The expression levels of MDC1, 53BP1 and MMSET were successfully assessed in 94 of the 99 samples, whereas UBC9 expression was assessed in 90 samples. In the in vitro study, the median gene expression relative to the housekeeping b-actin gene was 1.1 for MDC1 (range, 0.05-18.8), 3.6 for 53BP1 (range, 0.2-23.4), 3.3 for MMSET (range, 0.1-35.8) and 2.5 for UBC9 (range, 0.04-13.1). When the gastric cancer samples were divided into chemosensitive and chemoresistant subgroups by the median value of inhibition to docetaxel or cisplatin, MMSET mRNA levels were higher in the docetaxel-sensitive than in the docetaxel-resistant group (7.17 vs 3.63; P ¼ 0.013; Figure 2). No other differences in gene expression were observed between the chemosensitive and chemoresistant groups.
Gene expression levels and overall survival. BRCA1 expression levels had previously been determined in all 132 patients (Wei et al, 2011). The expression levels of MDC1, 53BP1, MMSET and UBC9 were successfully assessed in all samples. The median gene expression relative to the housekeeping b-actin gene was 3.3 for MDC1 (range, 0.5-43.7), 5.7 for 53BP1 (range, 1.2-66), 6.5 for MMSET (range, 0.8-73.6) and 1.9 for UBC9 (range, 0.3-13.2). Patients were classified as having high or low gene expression using the median as cutoff. No differences in clinical characteristics were observed according to the mRNA expression levels of any of the four genes.
With a median follow-up of 13.7 months (range, 1.3-68.1 months), median survival was 11.6 months (95% CI, 9.8-13.4 months) for all 132 patients. There was no difference in overall survival time according to the expression levels of any of the genes. Median survival time for the 58 patients receiving second-line therapy was 14.9 months (95% CI, 11.6-18.3 months), compared with 9.9 months (95% CI, 8.2-11.7 months) for those receiving only first-line chemotherapy (P ¼ 0.03).

DISCUSSION
Most gastric cancer patients present with advanced disease and their prognosis is dismal (Leung et al, 2008). Although there was no remarkable progress in chemotherapy for advanced gastric cancer in the 1990s, in the early 2000s new agents and optional treatments emerged. The ToGA trial (Bang et al, 2010) showed that trastuzumab confers a survival benefit for patients with HER2-positive gastric cancer, which comprises 10-20% of patients. Many targeted agents are currently being investigated and the progress in the treatment of advanced gastric cancer, including individualised therapy, can be expected in the near future. We have previously observed that gastric cancer patients with low ERCC1 mRNA levels could benefit from FOLFOX chemotherapy  and that patients with high BRCA1 levels had longer survival when treated with docetaxel-based second-line chemotherapy (Wei et al, 2011).
In this study, patients with low levels of MMSET had longer survival than those with high levels (12.3 vs 8.8 months) when treated with only platinum-based first-line chemotherapy. Multiple myeloma SET domain is involved in the t(4 : 14) translocation, which is present in approximately 15-25% of multiple myelomas (Asangani et al, 2013). High MMSET protein levels are associated with high malignant potential in several solid tumours (Glinsky et al, 2004;Yang et al, 2005;Wurmbach et al, 2007;Xiao et al, 2012;Zhou et al, 2012). Overexpression of MMSET was associated with increased c-MYC expression, related to the ability of MMSET to repress the expression of miR-126*, a microRNA targeting c-MYC (Min et al, 2012), which also has an oncogenic function in gastric cancer through suppression of SOX2 (Otsubo et al, 2011). Multiple myeloma SET domain interacts with MDC1 in a DNA damage-inducible manner and downregulation of MMSET significantly decreases histone methylation and the subsequent accumulation of 53BP1 (Pei et al, 2011). A similar effect of MMSET was also observed in class switch recombination (Pei et al, 2013). Downregulation of MMSET confers hypersensitivity to DNA damage (Pei et al, 2011).
In contrast to the survival benefit conferred by low MMSET expression in patients receiving platinum-based treatment, MMSET expression was higher in docetaxel-sensitive than in docetaxel-resistant samples in vitro, and moreover, low levels of MMSET were associated with shorter survival (13.9 vs 19.1 months) in patients receiving docetaxel-based treatment. High MMSET levels could potentially enhance BRCA1 function, and a similar differential effect has been reported for BRCA1 expression, which induces a 10-to 1000-fold increase in resistance to cisplatin but an 800-to 41000-fold increase in sensitivity to docetaxel (Quinn et al, 2003(Quinn et al, , 2007. In our previous study in tumour cells isolated from malignant effusions of gastric cancer patients, we observed a similar effect of BRCA1 expression (Wang et al, 2008).
Nevertheless, the most intriguing finding in this study was the combined effect of MMSET and BRCA1 in patients receiving second-line docetaxel-based treatment, wherein those with high levels of both genes attained an unprecedented median survival of 36.6 months compared with 13.9 months in those with high levels of BRCA1 and low levels of MMSET (P ¼ 0.003). The 2-year and 5-year survival rates were also higher in patients with high levels of both BRCA1 and MMSET (70.6% vs 25% and 33% vs 0%, respectively). Moreover, in the multivariate analysis, together with type of surgery, BRCA1 and MMSET levels emerged as significant markers of survival. This combined effect of MMSET and BRCA1 expression on outcome to docetaxel in advanced gastric cancer could be explained by the experimental data in myeloma, where MMSET deregulation affected cell cycle progression and adhesion regulations, including BRCA1 (Brito et al, 2009). However, MMSET serves as chromatin modifiers in cancer development. It functions as a master regulator of transcriptional repression, activation and oncogenesis (Asangani et al, 2013). The global impact of MMEST levels in patients beyond DNA damage response should be further investigated.
In this study, we have also observed striking differences in survival according to UBC9 expression in patients receiving only first-line FOLFOX. Patients with low levels of UBC9 attained a median survival of 12.4 months, in contrast with 8.8 months for those with high levels (P ¼ 0.01). Similar, although nonsignificant, trends were also observed in patients with low levels of BRCA1, MDC1 or 53BP1, and a subgroup of patients with low levels of both MMSET and 53BP1 attained the longest overall survival (19.9 months). In the multivariate analysis, only MMSET and UBC9 levels significantly influenced survival to first-line FOLFOX. In response to DNA damage, inhibition of MDC1 results in defective BRCA1 and 53BP1 foci formation after ionising radiation (Goldberg et al, 2003). Before being transported to DNA damage sites, BRCA1 needs to be SUMOylated through the activity of UBC9-PIAS1/4 at sites of DNA damage to increase its ubiquitin ligase activity (Morris et al, 2009). Ubiquitin-conjugating enzyme 9 is the sole E2-conjugating enzyme identified for SUMOylation. Ubiquitin-conjugating enzyme 9 depletion impairs 53BP1 accumulation ). Dysregulation of UBC9, MMSET, MDC1, 53BP1 and BRCA1 results in aberrant responses to DNA damage, which may have led to the poorer outcome observed in this subgroup of patients treated with platinum-based chemotherapy.
To date, there is no gold standard for first-line chemotherapy for gastric cancer patients, despite a great deal of information on the heterogeneous biological background of the disease. Moreover, at the time of failure to first-line chemotherapy, nearly half the patients could be candidates for further treatment (Ji et al, 2009). This study provides a tool for selecting patients who will likely benefit from FOLFOX -based on MMSET and UBC9 -and those who will benefit from docetaxel -based on BRCA1 (Wei et al, 2011) and MMSET. Prospective studies are needed to further validate the potential roles of MMSET and UBC9 on BRCA1 expression-based personalised therapeutic strategy in gastric cancer patients.