{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2025,10,22]],"date-time":"2025-10-22T20:53:57Z","timestamp":1761166437230,"version":"build-2065373602"},"reference-count":48,"publisher":"Elsevier BV","license":[{"start":{"date-parts":[[2018,10,1]],"date-time":"2018-10-01T00:00:00Z","timestamp":1538352000000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/www.elsevier.com\/tdm\/userlicense\/1.0\/"},{"start":{"date-parts":[[2018,10,1]],"date-time":"2018-10-01T00:00:00Z","timestamp":1538352000000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/www.elsevier.com\/legal\/tdmrep-license"}],"content-domain":{"domain":["elsevier.com","sciencedirect.com"],"crossmark-restriction":true},"short-container-title":["Journal of Molecular Graphics and Modelling"],"published-print":{"date-parts":[[2018,10]]},"DOI":"10.1016\/j.jmgm.2018.08.011","type":"journal-article","created":{"date-parts":[[2018,9,3]],"date-time":"2018-09-03T20:27:15Z","timestamp":1536006435000},"page":"242-249","update-policy":"https:\/\/doi.org\/10.1016\/elsevier_cm_policy","source":"Crossref","is-referenced-by-count":3,"special_numbering":"C","title":["The variation of mitochondrial NADH dehydrogenase subunit 4 (mtND4) and molecular dynamics simulation of SNPs among Iranian women with breast cancer"],"prefix":"10.1016","volume":"85","author":[{"given":"Parastoo","family":"Arezi","sequence":"first","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Zahra","family":"Rezvani","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"78","reference":[{"key":"10.1016\/j.jmgm.2018.08.011_bib1","doi-asserted-by":"crossref","first-page":"156","DOI":"10.1016\/j.breast.2016.05.011","article-title":"Breast cancer patients' information needs and information-seeking behavior in a developing country","volume":"28","author":"Kimiafar","year":"2016","journal-title":"Breast"},{"key":"10.1016\/j.jmgm.2018.08.011_bib2","doi-asserted-by":"crossref","first-page":"5853","DOI":"10.7314\/APJCP.2015.16.14.5853","article-title":"Relative survival of breast cancer patients in Iran","volume":"16","author":"Kasaeian","year":"2014","journal-title":"Asian Pac. J. Cancer Prev. APJCP: Asian Pac. J. Cancer Prev. APJCP"},{"key":"10.1016\/j.jmgm.2018.08.011_bib3","doi-asserted-by":"crossref","first-page":"335","DOI":"10.1038\/nature12985","article-title":"Mitochondrial form and function","volume":"505","author":"Friedman","year":"2014","journal-title":"Nature"},{"key":"10.1016\/j.jmgm.2018.08.011_bib4","first-page":"336","article-title":"Mitochondrial DNA mutations and breast tumorigenesis","volume":"1836","author":"Yadav","year":"2013","journal-title":"Biochim. Biophys. Acta"},{"key":"10.1016\/j.jmgm.2018.08.011_bib5","doi-asserted-by":"crossref","first-page":"1","DOI":"10.1186\/1756-0500-6-425","article-title":"Inherited common variants in mitochondrial DNA and invasive serous epithelial ovarian cancer risk","volume":"6","author":"Earp","year":"2013","journal-title":"BMC Res. Notes"},{"key":"10.1016\/j.jmgm.2018.08.011_bib6","doi-asserted-by":"crossref","first-page":"118","DOI":"10.1186\/s12876-016-0509-1","article-title":"Male-specific association between MT-ND4 11719 A\/G polymorphism and ulcerative colitis: a mitochondria-wide genetic association study","volume":"16","author":"Dankowski","year":"2016","journal-title":"BMC Gastroenterol."},{"key":"10.1016\/j.jmgm.2018.08.011_bib7","doi-asserted-by":"crossref","first-page":"289","DOI":"10.1038\/leu.2011.200","article-title":"Prognostic implications and molecular associations of NADH dehydrogenase subunit 4 (ND4) mutations in acute myeloid leukemia","volume":"26","author":"Damm","year":"2012","journal-title":"Leukemia"},{"key":"10.1016\/j.jmgm.2018.08.011_bib8","doi-asserted-by":"crossref","first-page":"60","DOI":"10.1016\/j.mam.2009.12.004","article-title":"The Warburg effect and mitochondrial stability in cancer cells","volume":"31","author":"Gogvadze","year":"2010","journal-title":"Mol. Aspect. Med."},{"key":"10.1016\/j.jmgm.2018.08.011_bib9","doi-asserted-by":"crossref","first-page":"156","DOI":"10.1016\/j.canlet.2014.04.001","article-title":"The Warburg effect in tumor progression: mitochondrial oxidative metabolism as an anti-metastasis mechanism","volume":"356","author":"Lu","year":"2015","journal-title":"Canc. Lett."},{"key":"10.1016\/j.jmgm.2018.08.011_bib10","doi-asserted-by":"crossref","first-page":"709","DOI":"10.1038\/nrc3803","article-title":"Mitochondrial ROS in cancer: initiators, amplifiers or an Achilles' heel?","volume":"14","author":"Sabharwal","year":"2014","journal-title":"Nat. Rev. Canc."},{"key":"10.1016\/j.jmgm.2018.08.011_bib11","doi-asserted-by":"crossref","first-page":"165","DOI":"10.1016\/j.tcb.2008.01.006","article-title":"Mitochondria in cancer cells: what is so special about them?","volume":"18","author":"Gogvadze","year":"2008","journal-title":"Trends Cell Biol."},{"key":"10.1016\/j.jmgm.2018.08.011_bib12","doi-asserted-by":"crossref","first-page":"287","DOI":"10.1007\/978-94-007-2869-1_13","article-title":"Mitochondria and cancer: a growing role in apoptosis, cancer cell metabolism and dedifferentiation","volume":"942","author":"Scatena","year":"2012","journal-title":"Adv. Exp. Med. Biol."},{"key":"10.1016\/j.jmgm.2018.08.011_bib13","doi-asserted-by":"crossref","first-page":"957","DOI":"10.1038\/bjc.2015.85","article-title":"Mitochondrial apoptosis: killing cancer using the enemy within","volume":"112","author":"Lopez","year":"2015","journal-title":"Br. J. Canc."},{"key":"10.1016\/j.jmgm.2018.08.011_bib14","first-page":"5","article-title":"Mitochondrial NADH-dehydrogenase polymorphisms as sporadic breast cancer risk factor","volume":"3","author":"Czarnecka","year":"2010","journal-title":"Development"},{"key":"10.1016\/j.jmgm.2018.08.011_bib15","doi-asserted-by":"crossref","DOI":"10.3791\/2763","article-title":"DNA extraction from paraffin embedded material for genetic and epigenetic analyses","author":"Pikor","year":"2011","journal-title":"JoVE"},{"key":"10.1016\/j.jmgm.2018.08.011_bib16","series-title":"Nucleic Acids-from Basic Aspects to Laboratory Tools","article-title":"Nucleic acids extraction from formalin-fixed and paraffin-embedded tissues","author":"Gouveia","year":"2016"},{"issue":"11","key":"10.1016\/j.jmgm.2018.08.011_bib17","first-page":"55","article-title":"Pitfall of real-time PCR method to find delta mtDNA in colon cancer","volume":"2","author":"Saidijam","year":"2013","journal-title":"Biol. Sci."},{"key":"10.1016\/j.jmgm.2018.08.011_bib18","doi-asserted-by":"crossref","first-page":"6837","DOI":"10.1007\/s11033-013-2801-2","article-title":"Fifteen novel mutations in the mitochondrial NADH dehydrogenase subunit 1, 2, 3, 4, 4L, 5 and 6 genes from Iranian patients with Leber's hereditary optic neuropathy (LHON)","volume":"40","author":"Rezvani","year":"2013","journal-title":"Mol. Biol. Rep."},{"key":"10.1016\/j.jmgm.2018.08.011_bib19","first-page":"149","article-title":"Single-strand conformational polymorphism analysis","volume":"108","author":"Dong","year":"2005","journal-title":"Meth. Mol. Med."},{"key":"10.1016\/j.jmgm.2018.08.011_bib20","doi-asserted-by":"crossref","first-page":"3121","DOI":"10.1038\/nprot.2006.485","article-title":"Single-strand conformation polymorphism (SSCP) for the analysis of genetic variation","volume":"1","author":"Gasser","year":"2006","journal-title":"Nat. Protoc."},{"key":"10.1016\/j.jmgm.2018.08.011_bib21","article-title":"Acrylamide gel electrophoresis of proteins and nucleic acids","volume":"334","author":"Maizel","year":"1969","journal-title":"Fundamental techniques in virology"},{"key":"10.1016\/j.jmgm.2018.08.011_bib22","series-title":"A\u00a0Hidden Markov Model for Predicting Transmembrane Helices in Protein Sequences","first-page":"175","author":"Sonnhammer","year":"1998"},{"year":"2005","series-title":"Protein Identification and Analysis Tools on the ExPASy Server","author":"Gasteiger","key":"10.1016\/j.jmgm.2018.08.011_bib23"},{"key":"10.1016\/j.jmgm.2018.08.011_bib24","doi-asserted-by":"crossref","DOI":"10.1371\/journal.pcbi.1003318","article-title":"Use of long term molecular dynamics simulation in predicting cancer associated SNPs","volume":"10","author":"Kumar","year":"2014","journal-title":"PLoS Comput. Biol."},{"key":"10.1016\/j.jmgm.2018.08.011_bib25","unstructured":"(!!! INVALID CITATION !!!)."},{"key":"10.1016\/j.jmgm.2018.08.011_bib26","doi-asserted-by":"crossref","first-page":"1772","DOI":"10.3892\/mmr.2014.2471","article-title":"Novel mitochondrial mutations in the ATP6 and ATP8 genes in patients with breast cancer","volume":"10","author":"Grzybowska-Szatkowska","year":"2014","journal-title":"Mol. Med. Rep."},{"key":"10.1016\/j.jmgm.2018.08.011_bib27","doi-asserted-by":"crossref","first-page":"248","DOI":"10.1038\/nmeth0410-248","article-title":"A\u00a0method and server for predicting damaging missense mutations","volume":"7","author":"Adzhubei","year":"2010","journal-title":"Nat. Methods"},{"year":"2002","series-title":"CPH models 2.0: X3M a computer program to extract 3D models","author":"Lund","key":"10.1016\/j.jmgm.2018.08.011_bib28"},{"key":"10.1016\/j.jmgm.2018.08.011_bib29","doi-asserted-by":"crossref","first-page":"363","DOI":"10.1038\/nprot.2009.2","article-title":"Protein structure prediction on the Web: a case study using the Phyre server","volume":"4","author":"Kelley","year":"2009","journal-title":"Nat. Protoc."},{"key":"10.1016\/j.jmgm.2018.08.011_bib30","doi-asserted-by":"crossref","first-page":"3381","DOI":"10.1093\/nar\/gkg520","article-title":"SWISS-MODEL: an automated protein homology-modeling server","volume":"31","author":"Schwede","year":"2003","journal-title":"Nucleic Acids Res."},{"key":"10.1016\/j.jmgm.2018.08.011_bib31","doi-asserted-by":"crossref","first-page":"40","DOI":"10.1186\/1471-2105-9-40","article-title":"I-TASSER server for protein 3D structure prediction","volume":"9","author":"Zhang","year":"2008","journal-title":"BMC Bioinf."},{"key":"10.1016\/j.jmgm.2018.08.011_bib32","doi-asserted-by":"crossref","first-page":"226","DOI":"10.1186\/1756-0500-3-226","article-title":"EasyModeller: a graphical interface to MODELLER","volume":"3","author":"Kuntal","year":"2010","journal-title":"BMC Res. Notes"},{"key":"10.1016\/j.jmgm.2018.08.011_bib33","doi-asserted-by":"crossref","first-page":"283","DOI":"10.1107\/S0021889892009944","article-title":"PROCHECK: a program to check the stereochemical quality of protein structures","volume":"26","author":"Laskowski","year":"1993","journal-title":"J.\u00a0Appl. Crystallogr."},{"year":"2013","series-title":"The GROMACS Development Team, GROMACS User Manual, Version 4.6. 5","author":"Van der Spoel","key":"10.1016\/j.jmgm.2018.08.011_bib34"},{"key":"10.1016\/j.jmgm.2018.08.011_bib35","series-title":"Interaction Models for Water in Relation to Protein Hydration. Intermolecular Forces","first-page":"331","author":"Berendsen","year":"1981"},{"key":"10.1016\/j.jmgm.2018.08.011_bib36","doi-asserted-by":"crossref","first-page":"7182","DOI":"10.1063\/1.328693","article-title":"Polymorphic transitions in single crystals: a new molecular dynamics method","volume":"52","author":"Parrinello","year":"1981","journal-title":"J.\u00a0Appl. Phys."},{"key":"10.1016\/j.jmgm.2018.08.011_bib37","doi-asserted-by":"crossref","first-page":"209","DOI":"10.1080\/07391102.2012.759885","article-title":"Drug resistance mechanism of PncA in Mycobacterium tuberculosis","volume":"32","author":"Rajendran","year":"2014","journal-title":"J.\u00a0Biomol. Struct. Dyn."},{"key":"10.1016\/j.jmgm.2018.08.011_bib38","doi-asserted-by":"crossref","first-page":"1033","DOI":"10.1080\/07391102.2013.803264","article-title":"Role of ELA region in auto-activation of mutant KIT receptor: a molecular dynamics simulation insight","volume":"32","author":"Purohit","year":"2014","journal-title":"J.\u00a0Biomol. Struct. Dyn."},{"key":"10.1016\/j.jmgm.2018.08.011_bib39","doi-asserted-by":"crossref","first-page":"2276","DOI":"10.1039\/C6MB00182C","article-title":"Structural analysis of oncogenic mutation of isocitrate dehydrogenase 1","volume":"12","author":"Rajendran","year":"2016","journal-title":"Mol. Biosyst."},{"key":"10.1016\/j.jmgm.2018.08.011_bib40","doi-asserted-by":"crossref","first-page":"151","DOI":"10.1016\/j.mito.2006.11.007","article-title":"Analysis of disease-associated ND4 mutations: how do we know which mutation is pathogenic?","volume":"7","author":"Tzen","year":"2007","journal-title":"Mitochondrion"},{"key":"10.1016\/j.jmgm.2018.08.011_bib41","first-page":"1","article-title":"The mitochondrial ATPase6 gene is more susceptible to mutation than the ATPase8 gene in breast cancer patients","volume":"14","author":"Ghaffarpour","year":"2014","journal-title":"Canc. Cell Int."},{"key":"10.1016\/j.jmgm.2018.08.011_bib42","doi-asserted-by":"crossref","first-page":"16","DOI":"10.1016\/j.mrrev.2015.01.001","article-title":"How do changes in the mtDNA and mitochondrial dysfunction influence cancer and cancer therapy? Challenges, opportunities and models","volume":"764","author":"Van Gisbergen","year":"2015","journal-title":"Mutat. Res. Rev. Mutat. Res."},{"key":"10.1016\/j.jmgm.2018.08.011_bib43","doi-asserted-by":"crossref","first-page":"e373","DOI":"10.1200\/JCO.2012.43.5933","article-title":"Mitochondrial DNA mutation in serous ovarian cancer: implications for mitochondria-coded genes in chemoresistance","volume":"30","author":"Guerra","year":"2012","journal-title":"J.\u00a0Clin. Oncol."},{"key":"10.1016\/j.jmgm.2018.08.011_bib44","doi-asserted-by":"crossref","first-page":"133","DOI":"10.1007\/s00414-002-0356-1","article-title":"Sequence polymorphisms within the human mitochondrial genes MTATP6, MTATP8 and MTND4","volume":"117","author":"Lutz-Bonengel","year":"2003","journal-title":"Int. J. Leg. Med."},{"key":"10.1016\/j.jmgm.2018.08.011_bib45","doi-asserted-by":"crossref","first-page":"175","DOI":"10.1046\/j.1365-2605.2001.00292.x","article-title":"High incidence of single nucleotide substitutions in the mitochondrial genome is associated with poor semen parameters in men","volume":"24","author":"Holyoake","year":"2001","journal-title":"Int. J. Androl."},{"key":"10.1016\/j.jmgm.2018.08.011_bib46","doi-asserted-by":"crossref","first-page":"103","DOI":"10.3389\/fgene.2012.00103","article-title":"Mitochondrial mutations and polymorphisms in psychiatric disorders","volume":"3","author":"Sequeira","year":"2012","journal-title":"Front. Genet."},{"key":"10.1016\/j.jmgm.2018.08.011_bib47","doi-asserted-by":"crossref","first-page":"201","DOI":"10.1007\/s00294-014-0425-2","article-title":"Mitochondrial D-loop and cytochrome oxidase C subunit I polymorphisms among the breast cancer patients of Mizoram, Northeast India","volume":"60","author":"Ghatak","year":"2014","journal-title":"Curr. Genet."},{"key":"10.1016\/j.jmgm.2018.08.011_bib48","first-page":"972","article-title":"Comprehensive scanning of somatic mitochondrial DNA mutations in breast cancer","volume":"62","author":"Tan","year":"2002","journal-title":"Canc. Res."}],"container-title":["Journal of Molecular Graphics and Modelling"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/api.elsevier.com\/content\/article\/PII:S1093326318302870?httpAccept=text\/xml","content-type":"text\/xml","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/api.elsevier.com\/content\/article\/PII:S1093326318302870?httpAccept=text\/plain","content-type":"text\/plain","content-version":"vor","intended-application":"text-mining"}],"deposited":{"date-parts":[[2025,10,21]],"date-time":"2025-10-21T21:00:29Z","timestamp":1761080429000},"score":1,"resource":{"primary":{"URL":"https:\/\/linkinghub.elsevier.com\/retrieve\/pii\/S1093326318302870"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2018,10]]},"references-count":48,"alternative-id":["S1093326318302870"],"URL":"https:\/\/doi.org\/10.1016\/j.jmgm.2018.08.011","relation":{},"ISSN":["1093-3263"],"issn-type":[{"type":"print","value":"1093-3263"}],"subject":[],"published":{"date-parts":[[2018,10]]},"assertion":[{"value":"Elsevier","name":"publisher","label":"This article is maintained by"},{"value":"The variation of mitochondrial NADH dehydrogenase subunit 4 (mtND4) and molecular dynamics simulation of SNPs among Iranian women with breast cancer","name":"articletitle","label":"Article Title"},{"value":"Journal of Molecular Graphics and Modelling","name":"journaltitle","label":"Journal Title"},{"value":"https:\/\/doi.org\/10.1016\/j.jmgm.2018.08.011","name":"articlelink","label":"CrossRef DOI link to publisher maintained version"},{"value":"article","name":"content_type","label":"Content Type"},{"value":"\u00a9 2018 Elsevier Inc. All rights reserved.","name":"copyright","label":"Copyright"}]}}