1  5667 105 SFRP TUMOUR SUPPRESSOR GENES ARE POTENTIAL PLASMA-BASED EPIGENETIC BIOMARKERS FOR MALIGNANT PLEURAL MESOTHELIOMA. MALIGNANT PLEURAL MESOTHELIOMA (MPM) IS ASSOCIATED WITH ASBESTOS EXPOSURE. ASBESTOS CAN INDUCE CHRONIC INFLAMMATION WHICH IN TURN CAN LEAD TO SILENCING OF TUMOUR SUPPRESSOR GENES. WNT SIGNALING PATHWAY CAN BE AFFECTED BY CHRONIC INFLAMMATION AND IS ABERRANTLY ACTIVATED IN MANY CANCERS INCLUDING COLON AND MPM. SFRP GENES ARE ANTAGONISTS OF WNT PATHWAY, AND SFRPS ARE POTENTIAL TUMOUR SUPPRESSORS IN COLON, GASTRIC, BREAST, OVARIAN, AND LUNG CANCERS AND MESOTHELIOMA. THIS STUDY INVESTIGATED THE EXPRESSION AND DNA METHYLATION OF SFRP GENES IN MPM CELLS LINES WITH AND WITHOUT DEMETHYLATION TREATMENT. SIXTY-SIX PATIENT FFPE SAMPLES WERE ANALYSED AND HAVE SHOWED METHYLATION OF SFRP2 (56%) AND SFRP5 (70%) IN MPM. SFRP2 AND SFRP5 TUMOUR-SUPPRESSIVE ACTIVITY IN ELEVEN MPM LINES WAS CONFIRMED, AND LONG-TERM ASBESTOS EXPOSURE LED TO REDUCED EXPRESSION OF THE SFRP1 AND SFRP2 GENES IN THE MESOTHELIUM (MET-5A) VIA EPIGENETIC ALTERATIONS. FINALLY, DNA METHYLATION OF SFRPS IS DETECTABLE IN MPM PATIENT PLASMA SAMPLES, WITH METHYLATED SFRP2 AND SFRP5 SHOWING A TENDENCY TOWARDS GREATER ABUNDANCE IN PATIENTS. THESE DATA SUGGESTED THAT SFRP GENES HAVE TUMOUR-SUPPRESIVE ACTIVITY IN MPM AND THAT METHYLATED DNA FROM SFRP GENE PROMOTERS HAS THE POTENTIAL TO SERVE AS A BIOMARKER FOR MPM PATIENT PLASMA.	2017	
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          
2  1065  32 CLINICAL SIGNIFICANCE OF SERUM DRAM1 MRNA, ARSA MRNA, HSA-MIR-2053 AND LNCRNA-RP1-86D1.3 AXIS EXPRESSION IN MALIGNANT PLEURAL MESOTHELIOMA. AIM AND BACKGROUND: MALIGNANT PLEURAL MESOTHELIOMA (MPM) IS A LETHAL CANCER MAINLY CAUSED BY CHRONIC EXPOSURE OF ASBESTOS. IN THIS PILOT STUDY, WE AIMED TO ASSESS THE EXPRESSION OF SERUM RNA-BASED BIOMARKER PANEL EXPLORING THEIR CLINICAL UTILITY AS DIAGNOSTIC AND PROGNOSTIC BIOMARKERS FOR MPM. METHODS: WE HAVE SELECTED AN MPM-SPECIFIC RNA-BASED BIOMARKER PANEL THROUGH BIOINFORMATICS ANALYSIS BASED ON THE INTEGRATION OF DNA DAMAGE REGULATED AUTOPHAGY MODULATOR 1 (DRAM1) AND ARYLSULFATASE A ( ARSA) GENE EXPRESSION WITH THEIR EPIGENETIC REGULATORS MICRORNA ( MIR-2053) AND LONG NONCODING RNA ( LNCRNA-RP1-86D1.3). THEN, QUANTITATIVE REAL-TIME POLYMERASE CHAIN REACTION (QPCR) VALIDATION IN SERA OF 60 MPM PATIENTS, 20 CHRONIC ASBESTOS EXPOSURE PATIENTS, AND 20 HEALTHY VOLUNTEERS WAS DONE. LASTLY, THE PROGNOSTIC POWER OF THE SELECTED PANEL WAS ASSESSED. RESULTS: THE EXPRESSION OF SERUM DRAM1 MESSENGER RNA (MRNA), ARSA MRNA, HSA-MIR-2053 AND LNCRNA-RP1-86D1.3 WERE POSITIVE IN 78.3%, 90%, 85%, AND 83.3% OF MPM PATIENTS, RESPECTIVELY. THE RNA-BASED BIOMARKER PANEL WAS ABLE TO DISCRIMINATE BETWEEN MPM PATIENTS AND CONTROLS WITH HIGH ACCURACY AND THEIR COMBINED SENSITIVITY REACHED 100% FOR THE DIAGNOSIS OF MPM. KAPLAN-MEIER ANALYSIS SHOWED THAT HSA-MIR-2053 IS AN INDEPENDENT PROGNOSTIC FACTOR OF MPM. CONCLUSION: OUR PRELIMINARY DATA REVEALED THAT THE CHOSEN RNAS PLAY AN IMPORTANT ROLE IN DRIVING MPM DEVELOPMENT AND PROGRESSION.	2019	
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                 
3  4835  27 ON THE RELATIONSHIP BETWEEN THEORETICAL PRESUMPTIONS ASBESTOS GENOTOXICITY AND THE PRACTICAL MONITORING OF EXPOSED WORKERS. FROM THE GENOTOXIC VIEWPOINT, THERE EXISTS A SUFFICIENT EVIDENCE FOR ASBESTOS CARCINOGENICITY TO HUMAN POPULATION AND ANIMALS. ASBESTOS IS A SOLID CANCER PROMOTER (COCARCINOGEN) OF NON-MUTAGENIC CHARACTER HAVING EPIGENETIC EFFECTS (15, 16). NO DATA HAVE BEEN PUBLISHED ON ITS MUTAGENIC ACTIVITY IN "IN VIVO" CONDITIONS IN MAN. THE ONLY RESULTS ARE THOSE OF OUR PILOT STUDY CARRIED OUT IN THE PERIOD OF 1981-1983, WHICH CAST DOUBTS ON THE OFFICIAL VIEW OF NON-MUTAGENIC CHARACTER OF ASBESTOS--AT LEAST UNDER OCCUPATIONAL CONDITIONS OF ITS PROCESSING (34, 36, 37). THE STUDY PRESENTED HERE REPRESENTS TEN YEARS' EFFORTS MADE IN THE BIOLOGICAL (CYTOGENETIC) MONITORING OF PERSONS OCCUPATIONALLY EXPOSED TO ASBESTOS IN A FACTORY FOR ITS PROCESSING (OCCUPATIONAL RISK). SIMULTANEOUSLY, A PRELIMINARY ANSWER IS GIVEN TO THE QUESTION WHETHER THE OSINEK FACTORY (SITUATED IN A HOUSING AREA) IS OR IS NOT DANGEROUS FOR INHABITANTS OF THE TOWN OF KOSTELEC NAD ORLICI, NAMELY FOR THEIR GENETIC APPARATUS (ENVIRONMENTAL RISK). USING THE METHOD OF CHROMOSOME ABERRATIONS ANALYSIS IN PERIPHERAL BLOOD LYMPHOCYTES, A TOTAL OF 431 SUBJECTS (245 MALES AND 186 FEMALES) WERE EXAMINED IN THE PERIOD OF 1981 TO 1988. OF THESE, 111 PERSONS WERE FROM CONTROL WORKPLACES (FROM OSINEK OR--STARTING FROM 1984--FROM OTHER PLANTS IN KOSTELEC NAD ORLICI; IN ADDITION TO THAT 14 PENSIONERS WITHOUT ANY OCCUPATIONAL EXPOSURE WERE EXAMINED). THE AVERAGE AGE OF WORKERS EXPOSED TO ASBESTOS RISK WAS 42.7 YEARS, IN THE CONTROLS IT WAS 43.9 YEARS, IN PENSIONERS EXPOSED TO ASBESTOS EARLIER 63.5 YEARS AND IN THOSE NEVER EXPOSED TO ASBESTOS 66.5 YEARS. THE AVERAGE NUMBER OF YEARS SPENT AT OSINEK FACTORY AMOUNTED TO 21.5 YEARS. ABOUT ONE THIRD OF EMPLOYEES WERE FOUND TO SUFFER FROM ALLERGIES (FIRST OF ALL THOSE OF AIR PASSAGES) AND ONE SIXTH FROM CHRONIC AILMENTS OF THE UPPER AIR PASSAGES (STAPHYLOCOCCUS AUREUS, HAEMOPHILUS INFLUENZAE AND STREPTOCOCCUS BETA-HAEMOLYTICUS WERE DIAGNOSED MOST FREQUENTLY). A THIRD PART OF WORKERS FROM HIGH-RISK WORKSHOPS ARE SMOKERS, ONLY A FOURTH OF THE CONTROLS. ABOUT 40% OF WORKERS REGULARLY CONSUME ALCOHOLIC DRINKS. THE AVERAGE MORBIDITY RATE AT OSINEK IN 1981 TO 1988 WAS 6.3% (IN WORKERS AS HIGH AS 9%), WHICH IS ABOUT 2% HIGHER AS COMPARED WITH MEAN VALUES OBTAINED IN THE DISTRICT OF RYCHNOV NAD KNEZNOU AND EAST-BOHEMIAN REGION. WITHIN THE NINE-YEAR PERIOD (1981-1989), 21 OCCUPATIONAL DISEASES WERE DIAGNOSED, WHILE IN THE PREVIOUS 24 YEARS THERE WERE 24 CASES OF AN OCCUPATIONAL DISEASE. EARLIER THEY WERE MAINLY ASBESTOSES (87%), IN THE LAST PERIOD MAINLY CANCER DISEASES COINCIDING WITH ASBESTOSIS (81%).(ABSTRACT TRUNCATED AT 400 WORDS)	1992	
                                 
4  4201  33 METABOLIC REWIRING AND REDOX ALTERATIONS IN MALIGNANT PLEURAL MESOTHELIOMA. MALIGNANT PLEURAL MESOTHELIOMA (MPM) IS A RARE MALIGNANCY OF MESOTHELIAL CELLS WITH INCREASING INCIDENCE, AND IN MANY CASES, DISMAL PROGNOSIS DUE TO ITS AGGRESSIVENESS AND LACK OF EFFECTIVE THERAPIES. ENVIRONMENTAL AND OCCUPATIONAL EXPOSURE TO ASBESTOS IS CONSIDERED THE MAIN AETIOLOGICAL FACTOR FOR MPM. INHALED ASBESTOS FIBRES ACCUMULATE IN THE LUNGS AND INDUCE THE GENERATION OF REACTIVE OXYGEN SPECIES (ROS) DUE TO THE PRESENCE OF IRON ASSOCIATED WITH THE FIBROUS SILICATES AND TO THE ACTIVATION OF MACROPHAGES AND INFLAMMATION. CHRONIC INFLAMMATION AND A ROS-ENRICHED MICROENVIRONMENT CAN FOSTER THE MALIGNANT TRANSFORMATION OF MESOTHELIAL CELLS. IN ADDITION, MPM CELLS HAVE A HIGHLY GLYCOLYTIC METABOLIC PROFILE AND ARE POSITIVE IN (18)F-FDG PET ANALYSIS. LOSS-OF-FUNCTION MUTATIONS OF BRCA-ASSOCIATED PROTEIN 1 (BAP1) ARE A MAJOR CONTRIBUTOR TO THE METABOLIC REWIRING OF MPM CELLS. A SUBSET OF MPM TUMOURS SHOW LOSS OF THE METHYLADENOSINE PHOSPHORYLASE (MTAP) LOCUS, RESULTING IN PROFOUND ALTERATIONS IN POLYAMINE METABOLISM, ATP AND METHIONINE SALVAGE PATHWAYS, AS WELL AS CHANGES IN EPIGENETIC CONTROL OF GENE EXPRESSION. THIS REVIEW PROVIDES AN OVERVIEW OF THE PERTURBATIONS IN METABOLISM AND ROS HOMOEOSTASIS OF MPM CELLS AND THE ROLE OF THESE ALTERATIONS IN MALIGNANT TRANSFORMATION AND TUMOUR PROGRESSION.	2020	
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                         
5  5582  30 ROLE OF NITRATIVE AND OXIDATIVE DNA DAMAGE IN INFLAMMATION-RELATED CARCINOGENESIS. CHRONIC INFLAMMATION INDUCED BY BIOLOGICAL, CHEMICAL, AND PHYSICAL FACTORS HAS BEEN FOUND TO BE ASSOCIATED WITH THE INCREASED RISK OF CANCER IN VARIOUS ORGANS. WE REVEALED THAT INFECTIOUS AGENTS INCLUDING LIVER FLUKE, HELICOBACTER PYLORI, AND HUMAN PAPILLOMA VIRUS AND NONINFECTIOUS AGENTS SUCH AS ASBESTOS FIBER INDUCED INOS-DEPENDENT FORMATION OF 8-NITROGUANINE AND 8-OXO-7, 8-DIHYDRO-2'-DEOXYGUANOSINE (8-OXODG) IN CANCER TISSUES AND PRECANCEROUS REGIONS. OUR RESULTS WITH THE COLOCALIZATION OF PHOSPHORYLATED ATM AND GAMMA-H2AX WITH 8-OXODG AND 8-NITROGUANINE IN INFLAMMATION-RELATED CANCER TISSUES SUGGEST THAT DNA BASE DAMAGE LEADS TO DOUBLE-STRANDED BREAKS. IT IS INTERESTING FROM THE ASPECT OF GENETIC INSTABILITY. WE ALSO DEMONSTRATED IL-6-MODULATED INOS EXPRESSION VIA STAT3 AND EGFR IN EPSTEIN-BARR-VIRUS-ASSOCIATED NASOPHARYNGEAL CARCINOMA AND FOUND PROMOTER HYPERMETHYLATION IN SEVERAL TUMOR SUPPRESSOR GENES. SUCH EPIGENETIC ALTERATION MAY OCCUR BY CONTROLLING THE DNA METHYLATION THROUGH IL-6-MEDIATED JAK/STAT3 PATHWAYS. COLLECTIVELY, 8-NITROGUANINE WOULD BE A USEFUL BIOMARKER FOR PREDICTING THE RISK OF INFLAMMATION-RELATED CANCERS.	2012	
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          
6  3671  34 INFLAMMATION AND CANCER. INFECTION AND INFLAMMATION ACCOUNT FOR APPROXIMATELY 25% OF CANCER-CAUSING FACTORS. INFLAMMATION-RELATED CANCERS ARE CHARACTERIZED BY MUTAGENIC DNA LESIONS, SUCH AS 8-OXO-7,8-DIHYDRO-2'-DEOXYGUANOSINE (8-OXODG) AND 8-NITROGUANINE. OUR PREVIOUS STUDIES DEMONSTRATED THE FORMATION OF 8-OXODG AND 8-NITROGUANINE IN THE TISSUES OF CANCER AND PRECANCEROUS LESIONS DUE TO INFECTION (E.G., OPISTHORCHIS VIVERRINI-RELATED CHOLANGIOCARCINOMA, SCHISTOSOMA HAEMATOBIUM-ASSOCIATED BLADDER CANCER, HELICOBACTER PYLORI-INFECTED GASTRIC CANCER, HUMAN PAPILLOMAVIRUS-RELATED CERVICAL CANCER, EPSTEIN-BARR VIRUS-INFECTED NASOPHARYNGEAL CARCINOMA) AND PRO-INFLAMMATORY FACTORS (E.G., ASBESTOS, NANOMATERIALS, AND INFLAMMATORY DISEASES SUCH AS BARRETT'S ESOPHAGUS AND ORAL LEUKOPLAKIA). INTERESTINGLY, SEVERAL OF OUR STUDIES SUGGESTED THAT INFLAMMATION-ASSOCIATED DNA DAMAGE IN CANCER STEM-LIKE CELLS LEADS TO CANCER DEVELOPMENT WITH AGGRESSIVE CLINICAL FEATURES. REACTIVE OXYGEN/NITROGEN SPECIES FROM INFLAMMATION DAMAGE NOT ONLY DNA BUT ALSO OTHER BIOMACROMOLECULES, SUCH AS PROTEINS AND LIPIDS, RESULTING IN THEIR DYSFUNCTION. WE IDENTIFIED OXIDATIVELY DAMAGED PROTEINS IN CANCER TISSUES BY 2D OXYBLOT FOLLOWED BY MALDI-TOF/TOF. AS AN EXAMPLE, OXIDATIVELY DAMAGED TRANSFERRIN RELEASED IRON ION, WHICH MAY MEDIATE FENTON REACTIONS AND GENERATE ADDITIONAL REACTIVE OXYGEN SPECIES. DYSFUNCTION OF ANTI-OXIDATIVE PROTEINS DUE TO THIS DAMAGE MIGHT INCREASE OXIDATIVE STRESS. SUCH DAMAGE IN BIOMACROMOLECULES MAY FORM A VICIOUS CYCLE OF OXIDATIVE STRESS, LEADING TO CANCER DEVELOPMENT. EPIGENETIC ALTERATIONS SUCH AS DNA METHYLATION AND MICRORNA DYSREGULATION PLAY VITAL ROLES IN CARCINOGENESIS, ESPECIALLY IN INFLAMMATION-RELATED CANCERS. WE EXAMINED EPIGENETIC ALTERATIONS, DNA METHYLATION AND MICRORNA DYSREGULATION, IN EPSTEIN-BARR VIRUS-RELATED NASOPHARYNGEAL CARCINOMA IN THE ENDEMIC AREA OF SOUTHERN CHINA AND FOUND SEVERAL DIFFERENTIALLY METHYLATED TUMOR SUPPRESSOR GENE CANDIDATES BY USING A NEXT-GENERATION SEQUENCER. AMONG THESE CANDIDATES, WE REVEALED HIGHER METHYLATION RATES OF RAS-LIKE ESTROGEN-REGULATED GROWTH INHIBITOR (RERG) IN BIOPSY SPECIMENS OF NASOPHARYNGEAL CARCINOMA MORE CONVENIENTLY BY USING RESTRICTION ENZYME-BASED REAL-TIME PCR. THIS RESULT MAY HELP TO IMPROVE CANCER SCREENING STRATEGIES. WE PROFILED MICRORNAS OF NASOPHARYNGEAL CARCINOMA TISSUES USING MICROARRAYS. QUANTITATIVE RT-PCR ANALYSIS CONFIRMED THE CONCORDANT DOWNREGULATION OF MIR-497 IN CANCER TISSUES AND PLASMA, SUGGESTING THAT PLASMA MIR-497 COULD BE USED AS A DIAGNOSTIC BIOMARKER FOR NASOPHARYNGEAL CARCINOMA. CHRONIC INFLAMMATION PROMOTES GENETIC AND EPIGENETIC ABERRATIONS, WITH VARIOUS PATHOGENESES. THESE CHANGES MAY BE USEFUL BIOMARKERS IN LIQUID BIOPSY FOR EARLY DETECTION AND PREVENTION OF CANCER.	2018	
      
7  5522  29 RISK OF OCCUPATIONAL EXPOSURE TO ASBESTOS, SILICON AND ARSENIC ON PULMONARY DISORDERS: UNDERSTANDING THE GENETIC-EPIGENETIC INTERPLAY AND FUTURE PROSPECTS. BACKGROUND: EPIDEMIOLOGICAL STUDIES SUGGEST STRONG ASSOCIATION OF LUNG DISORDERS WITH OCCUPATIONAL EXPOSURE TO ASBESTOS, SILICON AND ARSENIC. THE CHRONIC OCCUPATIONAL EXPOSURE PRIMARILY THROUGH INHALATION RESULTS IN ADVERSE OUTCOME ON THE RESPIRATORY TRACT WHICH MAY ALSO BE FATAL. ALTHOUGH SEVERAL MECHANISMS HAVE ATTRIBUTED TOWARDS THESE DISEASES; THE MOLECULAR PATHOGENESIS IS STILL UNKNOWN. OBJECTIVE: IN THIS REVIEW, WE INVESTIGATED THE PLAUSIBLE MOLECULAR MECHANISM BASED ON CURRENT RESEARCH THAT MAY IDENTIFY THE GENETIC AND EPIGENETIC SUSCEPTIBILITY OF RESPIRATORY DISORDERS UPON SUCH OCCUPATIONAL EXPOSURES IN HUMANS. METHODS: WE CONSIDERED GENETIC VARIANTS AND EPIGENETIC ALTERATIONS ASSOCIATED WITH PULMONARY EXPOSURE HAZARDS LEADING TO ASBESTOSIS, SILICOSIS AND ARSENICOSIS. OUR REVIEW IS STRINGENTLY BASED ON THE LITERATURES AVAILABLE THROUGH PEER-REVIEWED ARTICLES MOSTLY PUBLISHED IN THE LAST 10 YEARS. RELEVANT SEARCH WERE CONDUCTED USING KEYWORDS LIKE "OCCUPATIONAL LUNG DISORDERS" ALONG WITH "ASBESTOS", "SILICON" AND "ARSENIC". RESULTS: TILL SEPTEMBER 2015, PUBMED SEARCH YIELDED APPROXIMATELY 780 ARTICLES RELATING TO ASBESTOS EXPOSURE; 240 ARTICLES FOR SILICON EXPOSURE AND 60 ARTICLES FOR ARSENIC EXPOSURE. EXTENSIVE SCREENING FOR GENETIC AND EPIGENETIC FACTORS IDENTIFIED CERTAIN GENES AND RELATED PATHWAYS THAT ARE IMPORTANT TO DETERMINE THE SUSCEPTIBILITY OF AN INDIVIDUAL TOWARDS SUCH OCCUPATIONAL EXPOSURE. CONCLUSION: THE LINK BETWEEN GENOTYPE AND PHENOTYPE AND ITS ASSOCIATION WITH DISEASE SUSCEPTIBILITY IS VERY COMPLEX IN NATURE DUE TO SEVERAL FACTORS LIKE PERSON'S ENVIRONMENT, LIFESTYLE AND NUTRITIONAL STATUS. THE EPIGENOME IS DYNAMIC AS WELL AS REVERSIBLE AND CAN BE RESHAPED FURTHER BY CERTAIN DIETARY COMPONENTS THROUGHOUT ITS LIFE. IN THE PRESENT REVIEW, WE HAVE ADDRESSED THE ROLE OF MOLECULAR PATHOGENESIS OF OCCUPATIONAL LUNG DISEASES BASED ON THE GENETIC VARIABILITY AND EPIGENETIC ALTERATIONS AND ALSO ATTEMPTED TO HIGHLIGHT THE PROMISING ASPECT OF DIETARY INTERVENTIONS TO COUNTER TOXIC OUTCOMES UPON OCCUPATIONAL EXPOSURE TO ASBESTOS, SILICON OR ARSENIC.	2016	
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            
8  5526  18 RNA EDITING IN MESOTHELIOMA: A LOOK FORWARD. RNA EDITING IS A POST-TRANSCRIPTIONAL PROCESS INCREASING TRANSCRIPT DIVERSITY, THEREBY REGULATING DIFFERENT BIOLOGICAL PROCESSES. WE RECENTLY OBSERVED THAT MUTATIONS RESULTING FROM RNA EDITING DUE TO HYDROLYTIC DEAMINATION OF ADENOSINE INCREASE DURING THE DEVELOPMENT OF MESOTHELIOMA, A RARE CANCER LINKED TO CHRONIC EXPOSURE TO ASBESTOS. THIS REVIEW GATHERS INFORMATION FROM THE PUBLISHED LITERATURE AND PUBLIC DATA MINING TO EXPLORE SEVERAL ASPECTS OF RNA EDITING AND THEIR POSSIBLE IMPLICATIONS FOR CANCER GROWTH AND THERAPY. WE ADDRESS POSSIBLE LINKS BETWEEN RNA EDITING AND PARTICULAR TYPES OF MESOTHELIOMA GENETIC AND EPIGENETIC ALTERATIONS AND DISCUSS THE RELEVANCE OF AN EDITED SUBSTRATE IN THE CONTEXT OF CURRENT CHEMOTHERAPY OR IMMUNOTHERAPY.	2020	
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              
9  5144  29 POTENTIAL ROLE OF LNCRNA-TSIX, MIR-548-A-3P, AND SOGA1 MRNA IN THE DIAGNOSIS OF HEPATOCELLULAR CARCINOMA. RECENT TRENDS ARE MOVING TOWARDS THE USE OF THE CIRCULATING TRANSCRIPTOME AS A POTENTIAL DIAGNOSTIC AND THERAPEUTIC TOOL FOR HEPATOCELLULAR CARCINOMA (HCC). THE AIM OF THIS STUDY IS TO IDENTIFY CIRCULATORY RNA BASED BIOMARKER PANEL, IN ADDITION TO THEIR RELATIONSHIP TO THE OUTCOME IN HCC. FIRST, UTILIZING BIOINFORMATICS TOOLS, WE SELECTED AN HCC-SPECIFIC RNA-BASED BIOMARKER PANEL THAT DEPENDED ON THE INTEGRATION OF SUPPRESSOR OF GLUCOSE AUTOPHAGY-ASSOCIATED (SOGA1) GENE EXPRESSION WITH THE CHOSEN PANEL OF EPIGENETIC REGULATORS OF THIS GENE [LONG NON-CODING RNA ANTISENSE FOR X-INACTIVE-SPECIFIC TRANSCRIPT (LNCRNA-TSIX) AND MICRORNA-548-A-3P (MIR-548-A-3P)]. SECOND, WE ATTEMPTED TO VALIDATE THESE BIOMARKERS USING THE SERA OF 65 PATIENTS WITH HCC, 34 PATIENTS WITH CHRONIC HEPATITIS C VIRUS (CHC) INFECTION AND 32 HEALTHY VOLUNTEERS. FINALLY, THE EXPRESSION LEVELS OF THE CHOSEN RNA-BASED BIOMARKER PANEL WERE ASSESSED IN THE SERUM SAMPLES USING QRT-PCR ASSAYS. THE PANEL OF 3 RNA-BASED BIOMARKERS (LNCRNA-TSIX, MIR-548-A-3P, AND SOGA1) EXHIBITED HIGH SENSITIVITY AND SPECIFICITY IN DIFFERENTIATING HCC PATIENTS FROM CHC PATIENTS AND HEALTHY CONTROLS. AMONG THESE 3 RNAS, SERUM LNCRNA-TSIX AND SOGA1 WERE INDEPENDENT PROGNOSTIC FACTOR. THE CHOSEN CIRCULATORY RNA-BASED BIOMARKER PANEL MAY SERVE AS A DIAGNOSTIC AND PROGNOSTIC BIOMARKER FOR HCC.	2019	
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          
10  3657  36 INDUCTION AND RECOVERY OF CPG SITE SPECIFIC METHYLATION CHANGES IN HUMAN BRONCHIAL CELLS AFTER LONG-TERM EXPOSURE TO CARBON NANOTUBES AND ASBESTOS. INTRODUCTION: INHALATION OF ASBESTOS INDUCES LUNG CANCER VIA DIFFERENT CELLULAR MECHANISMS. TOGETHER WITH THE INCREASED PRODUCTION OF CARBON NANOTUBES (CNTS) GROWS THE CONCERN ABOUT ADVERSE EFFECTS ON THE LUNGS GIVEN THE SIMILARITIES WITH ASBESTOS. WHILE IT HAS BEEN ESTABLISHED THAT CNT AND ASBESTOS INDUCE EPIGENETIC ALTERATIONS, IT IS CURRENTLY NOT KNOWN WHETHER ALTERATIONS AT EPIGENETIC LEVEL REMAIN STABLE AFTER WITHDRAWAL OF THE EXPOSURE. IDENTIFICATION OF DNA METHYLATION CHANGES AFTER A LOW DOSE OF CNT AND ASBESTOS EXPOSURE AND RECOVERY CAN BE USEFUL TO DETERMINE THE FIBRE/PARTICLE TOXICITY AND ADVERSE OUTCOME. METHODS: HUMAN BRONCHIAL EPITHELIAL CELLS (16HBE) WERE TREATED WITH A LOW AND NON-CYTOTOXIC DOSE (0.25 MICROG/ML) OF MULTI-WALLED CARBON NANOTUBES (MWCNTS-NM400) OR SINGLE-WALLED CARBON NANOTUBES (SWCNTS-SRM2483) AND 0.05 MICROG/ML AMOSITE (BROWN) ASBESTOS FOR THE COURSE OF FOUR WEEKS (SUB-CHRONIC EXPOSURE). AFTER THIS TREATMENT, THE CELLS WERE FURTHER INCUBATED (WITHOUT PARTICLE/FIBRE) FOR TWO WEEKS, ALLOWING RECOVERY FROM THE EXPOSURE (RECOVERY PERIOD). NUCLEAR DEPOSITIONS OF THE CNTS WERE ASSESSED USING FEMTOSECOND PULSED LASER MICROSCOPY IN A LABEL-FREE MANNER. DNA METHYLATION ALTERATIONS WERE ANALYSED USING MICROARRAYS THAT ASSESS MORE THAN 850 THOUSAND CPG SITES IN THE WHOLE GENOME. RESULTS: AT NON-CYTOTOXIC DOSES, CNTS WERE NOTED TO BE INCORPORATED WITH IN THE NUCLEUS AFTER A FOUR WEEKS PERIOD. EXPOSURE TO MWCNTS INDUCED A SINGLE HYPOMETHYLATION AT A CPG SITE AND GENE PROMOTER REGION. NO CHANGE IN DNA METHYLATION WAS OBSERVED AFTER THE RECOVERY PERIOD FOR MWCNTS. EXPOSURE TO SWCNTS OR AMOSITE INDUCED HYPERMETHYLATION AT CPG SITES AFTER SUB-CHRONIC EXPOSURE WHICH MAY INVOLVE IN 'TRANSCRIPTION FACTOR ACTIVITY' AND 'SEQUENCE-SPECIFIC DNA BINDING' GENE ONTOLOGIES. AFTER THE RECOVERY PERIOD, HYPERMETHYLATION AND HYPOMETHYLATION WERE NOTED FOR BOTH SWCNTS AND AMOSITE. HIPPOCALCINLIKE 1 (HPCAL1), PROTEASE SERINE 3 (PRSS3), KALLIKREIN-RELATED PEPTIDASE 3 (KLK3), KRUPPEL LIKE FACTOR 3 (KLF3) GENES WERE HYPERMETHYLATED AT DIFFERENT TIME POINTS IN EITHER SWCNT-EXPOSED OR AMOSITE-EXPOSED CELLS. CONCLUSION: THESE RESULTS SUGGEST THAT THE SPECIFIC SWCNT (SRM2483) AND AMOSITE FIBRES STUDIED INDUCE HYPO- OR HYPERMETHYLATION ON CPG SITES IN DNA AFTER VERY LOW-DOSE EXPOSURE AND RECOVERY PERIOD. THIS EFFECT WAS NOT SEEN FOR THE STUDIED MWCNT (NM400).	2020	
                                                                                                                                                                                                                                                                               
11   672  25 BRAF, KRAS AND HELICOBACTER PYLORI EPIGENETIC CHANGES-ASSOCIATED CHRONIC GASTRITIS IN EGYPTIAN PATIENTS WITH AND WITHOUT GASTRIC CANCER. WE AIMED TO STUDY MLH1 AND MGMT METHYLATION STATUS IN HELICOBACTER PYLORI-ASSOCIATED CHRONIC GASTRITIS IN EGYPTIAN PATIENTS WITH AND WITHOUT GASTRIC CANCER. 39 PATIENTS WERE INCLUDED IN OUR STUDY. THEY WERE DIVIDED INTO 2 GROUPS; PATIENTS WITHOUT (GROUP I) AND WITH GASTRIC ADENOCARCINOMA (GROUP II). PATIENTS WERE SUBJECTED TO CLINICAL EXAMINATION, ABDOMINAL ULTRASOUND AND UPPER ENDOSCOPY FOR GASTRIC BIOPSY. BIOPSIES WERE SUBJECTED TO UREASE TEST, HISTOLOGICAL EXAMINATION, AND DNA PURIFICATION. H. PYLORI, BRAF, KRAS, MLH1 AND MGMT METHYLATION WERE ASSESSED BY QUANTITATIVE PCR. DNA SEQUENCING WAS PERFORMED TO ASSESS BRAF AND KRAS GENES MUTATION. QPCR OF H. PYLORI WAS SIGNIFICANTLY HIGHER IN PATIENTS WITH ADENOCARCINOMA (GROUP II) THAN THOSE WITHOUT ADENOCARCINOMA (GROUP I); WITH A P < 0.001 AS WELL AS IN PATIENTS WITH AGE ABOVE 50 YEARS WITH A P VALUE = 0.008. BY APPLYING LOGISTIC REGRESSION ANALYSIS IT WAS REPORTED THAT THE H. PYLORI QPCR IS A SIGNIFICANT PREDICTOR TO THE ADENOCARCINOMA WITH OR = 1.025 (95 % CI: 1. 002-1.048), WITH SENSITIVITY OF 90 % AND SPECIFICITY OF 100 %. ADENOCARCINOMA PATIENTS HAD A SIGNIFICANTLY HIGHER MEAN AGE AND LEVELS OF H. PYLORI, BRAF, K-RAS, METHYLATED MGMT AND METHYLATED MLH1 THAN THOSE OF GASTRITIS PATIENTS. DNA SEQUENCE ANALYSIS OF BRAF (CODON 12) AND KRAS (CODON 600) HAD GENES MUTATION IN GASTRIC ADENOCARCINOMA VERSUS CHRONIC GASTRITIS. CONCLUSION: H. PYLORI MAY CAUSE EPIGENETIC CHANGES PREDISPOSING THE PATIENTS TO CANCER STOMACH. ESTIMATION OF H. PYLORI BY QPCR CAN BE A GOOD PREDICTOR TO ADENOCARCINOMA. BRAF AND KRAS GENES MUTATION WERE REVELED IN GASTRITIS AND ADENOCARCINOMA PATIENTS.	2016	
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                 
12  2514  28 EPIGENETICS AND SARCOIDOSIS. EPIGENETIC MODIFICATIONS ARE EMERGING AS IMPORTANT REGULATORY MECHANISMS OF GENE EXPRESSION IN LUNG DISEASE, GIVEN THAT THEY ARE INFLUENCED BY ENVIRONMENTAL EXPOSURES AND GENETIC VARIANTS, AND THAT THEY REGULATE IMMUNE AND FIBROTIC PROCESSES. IN THIS REVIEW, WE INTRODUCE THESE CONCEPTS WITH A FOCUS ON THE STUDY OF DNA METHYLATION AND HISTONE MODIFICATIONS AND DISCUSS HOW THEY HAVE BEEN APPLIED TO LUNG DISEASE, AND HOW THEY CAN BE APPLIED TO SARCOIDOSIS. THIS INFORMATION HAS IMPLICATIONS FOR OTHER EXPOSURE AND IMMUNOLOGICALLY MEDIATED LUNG DISEASES, SUCH AS CHRONIC BERYLLIUM DISEASE, HYPERSENSITIVITY PNEUMONITIS, AND ASBESTOSIS.	2021	
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  
13  3413  35 HSA-MIR-29C AND HSA-MIR-135B DIFFERENTIAL EXPRESSION AS POTENTIAL BIOMARKER OF GASTRIC CARCINOGENESIS. AIM: TO INVESTIGATE THE EXPRESSION PROFILES OF HSA-MIR-29C AND HSA-MIR-135B IN GASTRIC MUCOSAL SAMPLES AND THEIR VALUES AS GASTRIC CARCINOGENESIS BIOMARKERS. METHODS: THE EXPRESSION LEVELS OF HSA-MIR-29C AND HSA-MIR-135B IN NORMAL GASTRIC MUCOSA, NON-ATROPHIC CHRONIC GASTRITIS, INTESTINAL METAPLASIA AND INTESTINAL-TYPE GASTRIC ADENOCARCINOMA WERE ANALYSED USING QUANTITATIVE REAL-TIME PCR. THE DIFFERENCE BETWEEN HSA-MIR-29C AND HSA-MIR-135B EXPRESSION PROFILES IN THE GROUPED SAMPLES WAS EVALUATED BY ANOVA AND STUDENT'S T-TEST TESTS. THE RESULTS WERE ADJUSTED FOR MULTIPLE TESTING BY USING BONFERRONI'S CORRECTION. P VALUES </= 0.05 WERE CONSIDERED STATISTICALLY SIGNIFICANT. TO EVALUATE HSA-MIR-29C AND HSA-MIR-135B EXPRESSIONS AS POTENTIAL BIOMARKERS OF GASTRIC CARCINOGENESIS, WE PERFORMED A RECEIVER OPERATING CHARACTERISTIC CURVE ANALYSIS AND THE DERIVED AREA UNDER THE CURVE, AND A CATEGORICAL PRINCIPAL COMPONENTS ANALYSIS. IN SILICO IDENTIFICATION OF THE GENETIC TARGETS OF HSA-MIR-29C AND HSA-MIR-135B WAS PERFORMED USING DIFFERENT PREDICTION TOOLS, IN ORDER TO IDENTIFY POSSIBLE GENES INVOLVED IN GASTRIC CARCINOGENESIS. RESULTS: THE EXPRESSION LEVELS OF HSA-MIR-29C WERE HIGHER IN NORMAL GASTRIC MUCOSAL SAMPLES, AND DECREASED PROGRESSIVELY IN NON-ATROPHIC CHRONIC GASTRITIS SAMPLES, INTESTINAL METAPLASIA SAMPLES AND INTESTINAL-TYPE GASTRIC ADENOCARCINOMA SAMPLES. THE EXPRESSION OF HSA-MIR-29C IN THE GASTRIC LESIONS SHOWED THAT NON-ATROPHIC GASTRITIS HAVE AN INTERMEDIATE PROFILE TO GASTRIC NORMAL MUCOSA AND INTESTINAL-TYPE GASTRIC ADENOCARCINOMA, AND THAT INTESTINAL METAPLASIA SAMPLES PRESENTED AN EXPRESSION PATTERN SIMILAR TO THAT IN INTESTINAL-TYPE GASTRIC ADENOCARCINOMA. THIS MICRORNA (MIRNA) HAS A GOOD DISCRIMINATORY ACCURACY BETWEEN NORMAL GASTRIC SAMPLES AND (1) INTESTINAL-TYPE GASTRIC ADENOCARCINOMA; AND (2) INTESTINAL METAPLASIA, AND REGULATES THE DMNT3A ONCOGENE. HSA-MIR-135B IS UP-REGULATED IN NON-ATROPHIC CHRONIC GASTRITIS AND INTESTINAL METAPLASIA SAMPLES AND DOWN-REGULATED IN NORMAL GASTRIC MUCOSA AND INTESTINAL-TYPE GASTRIC ADENOCARCINOMA SAMPLES. NON-ATROPHIC CHRONIC GASTRITIS AND INTESTINAL METAPLASIA ARE SIGNIFICANTLY DIFFERENT FROM NORMAL GASTRIC MUCOSA SAMPLES. HSA-MIR-135B EXPRESSION PRESENTED A GREATER DISCRIMINATORY ACCURACY BETWEEN NORMAL SAMPLES AND GASTRIC LESIONS. THIS MIRNA WAS ASSOCIATED WITH HELICOBACTER PYLORI PRESENCE IN NON-ATROPHIC CHRONIC GASTRITIS SAMPLES AND REGULATES THE APC AND KLF4 TUMOUR SUPPRESSOR GENES. CONCLUSION: OUR RESULTS PROVIDE EVIDENCE OF EPIGENETIC ALTERATIONS IN NON-ATROPHIC CHRONIC GASTRITIS AND INTESTINAL METAPLASIA AND SUGGEST THAT HSA-MIR-29C AND HSA-MIR-135B ARE PROMISING BIOMARKERS OF GASTRIC CARCINOGENESIS.	2016	

14   308  25 ALCOHOL AND DNA METHYLATION: AN EPIGENOME-WIDE ASSOCIATION STUDY IN BLOOD AND NORMAL BREAST TISSUE. THE BIOLOGICAL MECHANISMS DRIVING ASSOCIATIONS BETWEEN ALCOHOL CONSUMPTION AND CHRONIC DISEASES MIGHT INCLUDE EPIGENETIC MODIFICATION OF DNA METHYLATION. WE EXPLORED THE HYPOTHESIS THAT ALCOHOL CONSUMPTION IS ASSOCIATED WITH METHYLATION IN AN EPIGENOME-WIDE ASSOCIATION STUDY OF BLOOD AND NORMAL BREAST TISSUE DNA. INFINIUM HUMANMETHYLATION450 BEADCHIP (ILLUMINA INC., SAN DIEGO, CALIFORNIA) ARRAY DATA ON BLOOD DNA METHYLATION WAS EXAMINED IN A DISCOVERY SET OF 2,878 NON-HISPANIC WHITE WOMEN FROM THE SISTER STUDY (UNITED STATES, 2004-2015) WHO PROVIDED DETAILED QUESTIONNAIRE INFORMATION ON LIFETIME ALCOHOL USE. ROBUST LINEAR REGRESSION MODELING WAS USED TO IDENTIFY SIGNIFICANT ASSOCIATIONS (FALSE DISCOVERY RATE OF Q < 0.05) BETWEEN THE NUMBER OF ALCOHOLIC DRINKS PER WEEK AND DNA METHYLATION AT 5,458 CYTOSINE-PHOSPHATE-GUANINE (CPG) SITES. ASSOCIATIONS WERE REPLICATED (P < 0.05) FOR 677 CPGS IN AN INDEPENDENT SET OF 187 BLOOD DNA SAMPLES FROM THE SISTER STUDY AND FOR 628 CPGS IN AN INDEPENDENT SET OF 171 NORMAL BREAST DNA SAMPLES; 1,207 CPGS WERE REPLICATED IN EITHER BLOOD OR NORMAL BREAST, WITH 98 CPGS REPLICATED IN BOTH TISSUES. INDIVIDUAL GENE EFFECTS WERE NOTABLE FOR PHOSPHOGLYCERATE DEHYDROGENASE (PGHDH), PEPTIDYL-PROLYL CIS-TRANS ISOMERASE (PPIF), SOLUTE CARRIER 15 (SLC15), SOLUTE CARRIER FAMILY 43 MEMBER 1 (SLC43A1), AND SOLUTE CARRIER FAMILY 7 MEMBER 11 (SLC7A11). WE ALSO FOUND THAT HIGH ALCOHOL CONSUMPTION WAS ASSOCIATED WITH SIGNIFICANTLY LOWER GLOBAL METHYLATION AS MEASURED BY THE AVERAGE OF CPGS ON THE ENTIRE ARRAY.	2019	
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                         
15   974  30 CHRONIC OCCUPATIONAL EXPOSURE ENDURED BY TOBACCO FARMERS FROM BRAZIL AND ASSOCIATION WITH DNA DAMAGE. TOBACCO FARMING IS AN IMPORTANT ECONOMIC INCOME IN BRAZIL, ALTHOUGH IT HAS BEEN CHALLENGED AS REGARD THE OCCUPATIONAL EXPOSURE TO BOTH PESTICIDES AND NICOTINE ENDURED BY FARMERS. CHRONIC OCCUPATIONAL EXPOSURE TO COMPLEX MIXTURES CAN LEAD TO HEALTH HAZARDOUS. WE EXAMINED GENOMIC INSTABILITY AND EPIGENETIC CHANGES IN TOBACCO FARMERS OCCUPATIONALLY EXPOSED TO PESTICIDE MIXTURES AND NICOTINE AT TOBACCO FIELDS. DNA DAMAGE WAS ASSESSED BY ALKALINE COMET ASSAY IN BLOOD CELLS. GENOMIC DNA WAS ISOLATED, AND TELOMERE LENGTH WAS MEASURED USING QUANTITATIVE POLYMERASE CHAIN REACTION ASSAY. WE MEASURED 5-METHYL-2'-DEOXYCYTIDINE, A MARKER OF GLOBAL DNA METHYLATION, AND P16 PROMOTER METHYLATION. THE OXIDATIVE PROFILE WAS EVALUATED BY TROLOX EQUIVALENT ANTIOXIDANT CAPACITY AND LIPID PEROXIDATION (THIOBARBITURIC ACID REACTIVE SUBSTANCES) IN SERUM. EXPOSURE PARAMETERS, PLASMA COTININE AND INORGANIC ELEMENT LEVELS, WERE ALSO MEASURED. DNA DAMAGE WAS SIGNIFICANTLY ELEVATED FOR FARMERS IN RELATION TO UNEXPOSED GROUP (P < 0.001; MANN-WHITNEY TEST) AND POSITIVELY ASSOCIATED WITH YEARS OF EXPOSURE. INVERSE RELATIONSHIP BETWEEN DNA DAMAGE AND TOTAL EQUIVALENT ANTIOXIDANT ACTIVITY WAS DEMONSTRATED FOR EXPOSED AND UNEXPOSED GROUPS. EXPOSED GROUP SHOWED SIGNIFICANTLY SHORTER TELOMERES (P < 0.001; UNPAIRED T-TEST) AND DNA HYPOMETHYLATION (P < 0.001; UNPAIRED T-TEST), AS WELL AS P16 HYPERMETHYLATION (P = 0.003; MANN-WHITNEY TEST). LIPID PEROXIDATION WAS INCREASED FOR EXPOSED GROUP IN RELATION TO UNEXPOSED ONE (P = 0.02; MANN-WHITNEY TEST) AND PRESENTED A POSITIVE CORRELATION WITH GLOBAL DNA METHYLATION (P = 0.0264). FARMERS HAVE INCREASED PLASMA COTININE LEVELS (P < 0.001) AND INORGANIC ELEMENTS (PHOSPHORUS, SULPHUR AND CHLORINE) IN RELATION TO UNEXPOSED GROUP. ELEVATED OXIDATIVE STRESS LEVELS DUE TO CHRONIC OCCUPATIONAL PESTICIDE MIXTURES AND NICOTINE EXPOSURE IN TOBACCO FARMERS WERE ASSOCIATED WITH HIGHER DNA DAMAGE, SHORTER TELOMERES AND ALTERED DNA METHYLATION. TELOMERE-ACCELERATED ATTRITION DUE TO EXPOSURE MAY BE POTENTIAL INTERMEDIATE STEP BEFORE A DISEASE STATE.	2018	
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                         
16  4237  27 METHYLATION PATTERN OF THBS1, GATA-4, AND HIC1 IN PEDIATRIC AND ADULT PATIENTS INFECTED WITH HELICOBACTER PYLORI. BACKGROUND: HELICOBACTER PYLORI INFECTION IS USUALLY ACQUIRED IN CHILDHOOD AND PERSISTS INTO ADULTHOOD IF UNTREATED. THE BACTERIUM INDUCES A CHRONIC INFLAMMATORY RESPONSE, WHICH IS ASSOCIATED WITH EPIGENETIC ALTERATIONS IN ONCOGENES, TUMOR-SUPPRESSOR GENES, CELL-CYCLE REGULATORS, AND CELL-ADHESION MOLECULES. AIM: THE AIM OF THIS STUDY WAS TO ANALYZE THE EFFECT OF H. PYLORI INFECTION ON THE METHYLATION STATUS OF THROMBOSPONDIN-1 (THBS1), HYPERMETHYLATED IN CANCER 1 (HIC1) AND GATA BINDING PROTEIN-4 (GATA-4) IN GASTRIC BIOPSY SAMPLES FROM CHILDREN AND ADULTS INFECTED OR UNINFECTED WITH THE BACTERIUM AND IN SAMPLES OBTAINED FROM GASTRIC CANCER PATIENTS. METHODS: THE METHYLATION PATTERN WAS ANALYZED WITH METHYLATION-SPECIFIC PCR. RESULTS: OUR RESULTS SHOWED THAT H. PYLORI INFECTION WAS ASSOCIATED WITH METHYLATION OF THE PROMOTER REGIONS OF THE THBS1 AND GATA-4 GENES IN PEDIATRIC AND ADULT SAMPLES (P < 0.01). HIC1 SHOWED THE LOWEST LEVEL OF METHYLATION, WHICH WAS NOT AN EARLY EVENT DURING GASTRIC CARCINOGENESIS. CONCLUSIONS: THE RESULTS FROM THIS STUDY INDICATE THAT METHYLATION OF THBS1 AND GATA-4 OCCURS IN THE EARLY STAGES OF CHRONIC GASTRITIS AND GASTRIC CANCER IN ASSOCIATION WITH H. PYLORI INFECTION; HOWEVER, IN GASTRIC CANCER SAMPLES, OTHER MECHANISMS COOPERATE WITH THE DOWN-REGULATION OF THESE GENES. METHYLATION OF HIC1 MAY NOT BE THE PRINCIPAL MECHANISM IMPLICATED IN ITS DOWN-REGULATION IN GASTRIC CANCER SAMPLES.	2013	
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                           
17   143  25 ABERRANT DNA METHYLATION OF TWO TUMOR SUPPRESSOR GENES, P14(ARF) AND P15(INK4B), AFTER CHRONIC OCCUPATIONAL EXPOSURE TO LOW LEVEL OF BENZENE. BACKGROUND: EXPOSURE TO BENZENE WOULD BE ASSOCIATED WITH MANY DISEASES INCLUDING LEUKEMIA. EPIGENETIC ALTERATIONS SEEM TO BE AMONG THE MAIN MECHANISMS INVOLVED. OBJECTIVE: TO DETERMINE IF CHRONIC OCCUPATIONAL EXPOSURE TO LOW LEVEL OF BENZENE WOULD BE ASSOCIATED WITH DNA METHYLATION. METHODS: GLOBAL DNA METHYLATION AND PROMOTER-SPECIFIC METHYLATION OF THE TWO TUMOR SUPPRESSOR GENES, P14(ARF) AND P15(INK4B), WERE ASSESSED EMPLOYING METHYLATION-SPECIFIC PCR USING THE DNA EXTRACTED FROM 40 PETROCHEMICAL WORKERS EXPOSED TO AMBIENT BENZENE LEVELS OF <1 PPM, AND 31 OFFICE WORKERS NOT EXPOSED TO BENZENE OR ITS DERIVATIVES. RESULTS: WHILE AN INCREASE IN GLOBAL DNA METHYLATION OF 5% IN P14(ARF) (P=0.501) AND 28% IN P15(INK4B) (P=0.02) GENES WAS OBSERVED IN THE EXPOSED GROUP, NO HYPERMETHYLATION IN EITHER OF THE STUDIED GENES WAS OBSERVED IN THE UNEXPOSED GROUP. NO SIGNIFICANT ASSOCIATION WAS FOUND BETWEEN THE FREQUENCY OF ABERRANT METHYLATION AND EITHER OF AGE, WORK EXPERIENCE, AND SMOKING HABIT IN THE EXPOSED GROUP. CONCLUSION: CHRONIC OCCUPATIONAL EXPOSURE TO LOWER THAN THE PERMISSIBLE EXPOSURE LIMIT OF BENZENE MAY STILL RESULT IN DNA METHYLATION OF TUMOR SUPPRESSOR GENES THAT MAY ULTIMATELY LEAD TO DEVELOPMENT OF CANCER.	2018	
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                           
18  2960  24 GENETIC AND EPIGENETIC MARKERS IN THE EVALUATION OF PANCREATIC MASSES. BACKGROUND: METHYLATION MARKERS HAVE SHOWN PROMISE IN THE EARLY DIAGNOSIS OF PANCREATIC CARCINOMA. THE AIM OF THIS STUDY WAS TO ASSESS THE DIAGNOSTIC UTILITY OF HYPERMETHYLATION STATUS OF CANDIDATE GENES IN COMBINATION WITH KRAS MUTATION DETECTION IN THE EVALUATION OF PANCREATIC MASSES. EXPERIMENTAL DESIGN: SIXTY-ONE FINE NEEDLE ASPIRATES OF PANCREATIC MASSES (43 PANCREATIC ADENOCARCINOMAS AND 18 CHRONIC PANCREATITIS) WERE STUDIED. METHYLATION STATUS OF HRH2, EN1, SPARC, CDH13 AND APC WERE ANALYSED USING MELTING CURVE ANALYSIS AFTER DNA BISULFITE TREATMENT. KRAS MUTATIONS WERE ALSO ANALYSED. RESULTS: THE METHYLATION PANEL HAD A SENSITIVITY OF 73% (27 OF 37, CI 95% 56 TO 86%) AND A SPECIFICITY OF 100% WHENEVER TWO OR MORE PROMOTERS WERE FOUND HYPERMETHYLATED. KRAS MUTATIONS SHOWED A SENSITIVITY OF 77% (33 OF 43, CI 95% 62 TO 88%) AND A SPECIFICITY OF 100%. BOTH MOLECULAR ANALYSES ADDED USEFUL INFORMATION TO CYTOLOGY BY INCREASING THE NUMBER OF INFORMATIVE CASES. WHEN GENETIC AND EPIGENETIC ANALYSES WERE COMBINED SENSITIVITY WAS 84% (36 OF 43 CI 95% 69 TO 93%) MAINTAINING A 100% SPECIFICITY. CONCLUSIONS: ANALYSIS OF HYPERMETHYLATION STATUS OF A PANEL OF GENES AND KRAS MUTATION DETECTION OFFER A SIMILAR DIAGNOSTIC YIELD IN THE EVALUATION OF PANCREATIC MASSES. THE COMBINED MOLECULAR ANALYSIS INCREASES THE NUMBER OF INFORMATIVE CASES WITHOUT DIMINISHING SPECIFICITY.	2013	
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            
19   158  18 ABERRANT P16 PROMOTER METHYLATION AMONG GREEK LUNG CANCER PATIENTS AND SMOKERS: CORRELATION WITH SMOKING. GENETIC AND ENVIRONMENTAL FACTORS (DIETARY AND SMOKING) INFLUENCE LUNG CANCER EPIDEMIOLOGY AND INDUCE EPIGENETIC MODIFICATIONS THAT SHOULD BE ASSESSED IN INDIVIDUAL POPULATIONS. WE ANALYZED P16 METHYLATION AMONG GREEK NON-SMALL CELL LUNG CARCINOMA PATIENTS AND SMOKERS USING TWO-STAGE METHYLATION-SPECIFIC POLYMERASE CHAIN REACTION. ONE HUNDRED AND FIFTY SPECIMENS FROM CANCEROUS AND ADJACENT NON-CANCEROUS TISSUE, BRONCHIAL WASHINGS AND SPUTUM FROM PATIENTS AND 48 SPECIMENS, MOSTLY SPUTUM, FROM DISEASE-FREE SMOKERS WERE INCLUDED. P16 METHYLATION WAS VERY FREQUENT IN BIOPSIES (82.85%) AND BRONCHIAL WASHINGS (NON-SMALL CELL LUNG CARCINOMA, 80.35%; SMALL CELL LUNG CARCINOMA, 16.66%) FROM PATIENTS, BUT ALSO IN ADJACENT NON-CANCEROUS TISSUE (45.71%). CONCORDANCE OF P16 METHYLATION AND POSITIVITY BY CYTOLOGICAL EXAMINATION WAS 51.78%. METHYLATION WAS ALSO OBSERVED IN SPUTUM FROM ASYMPTOMATIC CYTOLOGY-NEGATIVE SMOKERS (22.5%) AND CHRONIC OBSTRUCTIVE PULMONARY DISEASE PATIENTS (THREE OF EIGHT). AMONG DISEASE-FREE INDIVIDUALS, METHYLATION CORRELATED ONLY WITH HEAVY SMOKING (>50 PACK-YEARS, P<0.001) AND DIFFERED AMONG MALE AND FEMALE DISEASE-FREE SMOKERS. IN SUMMARY, P16 METHYLATION IS VERY FREQUENT AMONG NON-SMALL CELL LUNG CARCINOMA PATIENTS, AND CORRELATES WITH HEAVY CIGARETTE CONSUMPTION ONLY IN DISEASE-FREE SMOKERS.	2007	
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                               
20  4267  26 MICROARRAY DATASET OF TRANSIENT AND PERMANENT DNA METHYLATION CHANGES IN HELA CELLS UNDERGOING INORGANIC ARSENIC-MEDIATED EPITHELIAL-TO-MESENCHYMAL TRANSITION. THE NOVEL DATASET PRESENTED HERE REPRESENTS THE RESULTS OF THE CHANGING PATTERN OF DNA METHYLATION PROFILES IN HELA CELLS EXPOSED TO CHRONIC LOW DOSE (0.5 MICROM) SODIUM ARSENITE, RESULTING IN EPITHELIAL-TO-MESENCHYMAL TRANSITION, AS WELL AS DNA METHYLATION PATTERNS IN CELLS WHERE INORGANIC ARSENIC HAS BEEN REMOVED. INORGANIC ARSENIC IS A KNOWN CARCINOGEN, THOUGH NOT MUTAGENIC. SEVERAL MECHANISMS HAVE BEEN PROPOSED AS TO HOW INORGANIC ARSENIC DRIVES CARCINOGENESIS SUCH AS REGULATION OF THE CELL?S REDOX POTENTIAL AND/OR EPIGENETICS. IN FACT, THERE ARE GENE SPECIFIC STUDIES AND LIMITED GENOME-WIDE STUDIES THAT HAVE IMPLICATED EPIGENETIC FACTORS SUCH AS DNA METHYLATION IN INORGANIC ARSENIC-MEDIATED EPITHELIAL-TO-MESENCHYMAL TRANSITION (EMT). HOWEVER, GENOME-WIDE STUDIES ABOUT THE IMPACT OF 1) CHRONIC, LOW-DOSE INORGANIC ARSENIC EXPOSURE ON DNA METHYLATION PATTERNS DURING INORGANIC ARSENIC-INDUCED EPITHELIAL-TO-MESENCHYMAL TRANSITION, AND 2) THE REMOVAL INORGANIC ARSENIC (REVERSAL) ON DNA METHYLATION PATTERNS, IS LACKING. FOR THIS DATASET, TWO REPLICATES WERE PERFORMED WITH EACH OF THE SAMPLES - NON-TREATED, INORGANIC ARSENIC-TREATED, AND REVERSE-TREATED CELLS. WE PROVIDE NORMALIZED AND PROCESSED DATA, AND LOG2 FOLD CHANGE IN DNA METHYLATION. THE RAW MICROARRAY DATA ARE AVAILABLE THROUGH NCBI GEO, ACCESSION NUMBER GSE95232 AND A RELATED RESEARCH PAPER HAS BEEN ACCEPTED FOR PUBLISHED IN TOXICOLOGY AND APPLIED PHARMACOLOGY (ECKSTEIN ET AL., 2017) [1].	2017