{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,9,24]],"date-time":"2026-09-24T09:21:28Z","timestamp":1790241688311,"version":"4.1.0"},"reference-count":69,"publisher":"Springer Science and Business Media LLC","issue":"1","license":[{"start":{"date-parts":[[2018,4,27]],"date-time":"2018-04-27T00:00:00Z","timestamp":1524787200000},"content-version":"tdm","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"DOI":"10.13039\/501100002803","name":"Fondazione Cariplo","doi-asserted-by":"publisher","award":["2013-1038"],"award-info":[{"award-number":["2013-1038"]}],"id":[{"id":"10.13039\/501100002803","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100003407","name":"MIUR","doi-asserted-by":"crossref","award":["Epigenetics Flagship project CNR-MIUR"],"award-info":[{"award-number":["Epigenetics Flagship project CNR-MIUR"]}],"id":[{"id":"10.13039\/501100003407","id-type":"DOI","asserted-by":"crossref"}]}],"content-domain":{"domain":["link.springer.com"],"crossmark-restriction":false},"short-container-title":["BMC Genomics"],"published-print":{"date-parts":[[2018,12]]},"DOI":"10.1186\/s12864-018-4679-9","type":"journal-article","created":{"date-parts":[[2018,4,27]],"date-time":"2018-04-27T10:50:17Z","timestamp":1524826217000},"update-policy":"https:\/\/doi.org\/10.1007\/springer_crossmark_policy","source":"Crossref","is-referenced-by-count":68,"title":["Transcriptional profiling of human bronchial epithelial cell BEAS-2B exposed to diesel and biomass ultrafine particles"],"prefix":"10.1186","volume":"19","author":[{"given":"Andrea","family":"Grilli","sequence":"first","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Rossella","family":"Bengalli","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Eleonora","family":"Longhin","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Laura","family":"Capasso","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Maria Carla","family":"Proverbio","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Mattia","family":"Forcato","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Silvio","family":"Bicciato","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Maurizio","family":"Gualtieri","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-3025-9657","authenticated-orcid":false,"given":"Cristina","family":"Battaglia","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Marina","family":"Camatini","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"297","published-online":{"date-parts":[[2018,4,27]]},"reference":[{"key":"4679_CR1","doi-asserted-by":"publisher","first-page":"1","DOI":"10.1155\/2013\/279371","volume":"2013","author":"A Nemmar","year":"2013","unstructured":"Nemmar A, Holme JA, Rosas I, Schwarze PE, Alfaro-Moreno E. Recent advances in particulate matter and nanoparticle toxicology: a review of the in vivo and in vitro studies. Biomed Res Int. 2013;2013:1\u201322. [cited 2015 Apr 8]. Available from: http:\/\/www.hindawi.com\/journals\/bmri\/2013\/279371\/","journal-title":"Biomed Res Int"},{"key":"4679_CR2","doi-asserted-by":"publisher","first-page":"95","DOI":"10.1016\/j.mrrev.2007.08.003","volume":"636","author":"J Lewtas","year":"2007","unstructured":"Lewtas J. Air pollution combustion emissions: characterization of causative agents and mechanisms associated with cancer, reproductive, and cardiovascular effects. Mutat Res. 2007;636:95\u2013133. [cited 2015 Dec 3]. Available from: http:\/\/www.ncbi.nlm.nih.gov\/pubmed\/17951105","journal-title":"Mutat Res"},{"key":"4679_CR3","doi-asserted-by":"publisher","first-page":"577","DOI":"10.2217\/fca.12.43","volume":"8","author":"MR Miller","year":"2012","unstructured":"Miller MR, Shaw CA, Langrish JP. From particles to patients: oxidative stress and the cardiovascular effects of air pollution. Futur Cardiol. 2012;8:577\u2013602. [cited 2016 Jun 24]. Available from: http:\/\/www.ncbi.nlm.nih.gov\/pubmed\/22871197","journal-title":"Futur Cardiol"},{"key":"4679_CR4","doi-asserted-by":"publisher","first-page":"2660","DOI":"10.1093\/eurheartj\/ehr195","volume":"32","author":"NL Mills","year":"2011","unstructured":"Mills NL, Miller MR, Lucking AJ, Beveridge J, Flint L, Boere AJF, et al. Combustion-derived nanoparticulate induces the adverse vascular effects of diesel exhaust inhalation. Eur Heart J. 2011;32:2660\u201371. Oxford University Press; [cited 2016 Jun 27]. Available from: http:\/\/www.ncbi.nlm.nih.gov\/pubmed\/21753226","journal-title":"Eur Heart J"},{"key":"4679_CR5","doi-asserted-by":"publisher","first-page":"802","DOI":"10.3109\/08958378.2013.850127","volume":"25","author":"FR Cassee","year":"2013","unstructured":"Cassee FR, H\u00e9roux M-E, Gerlofs-Nijland ME, Kelly FJ. Particulate matter beyond mass: recent health evidence on the role of fractions, chemical constituents and sources of emission. Inhal Toxicol. 2013;25:802\u201312. [cited 2015 Apr 8]. Available from: http:\/\/www.pubmedcentral.nih.gov\/articlerender.fcgi?artid=3886392&tool=pmcentrez&rendertype=abstract","journal-title":"Inhal Toxicol"},{"key":"4679_CR6","doi-asserted-by":"publisher","first-page":"228","DOI":"10.1080\/10473289.2007.10465322","volume":"57","author":"M Zheng","year":"2007","unstructured":"Zheng M, Cass GR, Ke L, Wang F, Schauer JJ, Edgerton ES, et al. Source apportionment of daily fine particulate matter at Jefferson street, Atlanta, GA, during summer and winter. J Air Waste Manage Assoc. 2007;57:228\u201342. [cited 2016 Dec 23]. Available from: http:\/\/www.ncbi.nlm.nih.gov\/pubmed\/17355084","journal-title":"J Air Waste Manage Assoc"},{"key":"4679_CR7","doi-asserted-by":"publisher","first-page":"366","DOI":"10.1016\/j.envpol.2016.05.015","volume":"215","author":"E Longhin","year":"2016","unstructured":"Longhin E, Gualtieri M, Capasso L, Bengalli R, Mollerup S, Holme JA, et al. Physico-chemical properties and biological effects of diesel and biomass particles. Environ Pollut. 2016;215:366\u201375. Available from: http:\/\/linkinghub.elsevier.com\/retrieve\/pii\/S0269749116303943","journal-title":"Environ Pollut"},{"key":"4679_CR8","doi-asserted-by":"publisher","first-page":"1","DOI":"10.1155\/2013\/685142","volume":"2013","author":"PE Schwarze","year":"2013","unstructured":"Schwarze PE, Totlandsdal AI, L\u00e5g M, Refsnes M, Holme JA, \u00d8vrevik J. Inflammation-related effects of diesel engine exhaust particles: studies on lung cells in vitro. Biomed Res Int. 2013;2013:1\u201313. Available from: https:\/\/doi.org\/10.1155\/2013\/685142","journal-title":"Biomed Res Int"},{"key":"4679_CR9","doi-asserted-by":"publisher","first-page":"438","DOI":"10.1016\/j.tiv.2014.12.002","volume":"29","author":"L P\u00e1lkov\u00e1","year":"2015","unstructured":"P\u00e1lkov\u00e1 L, Vondr\u00e1\u010dek J, Trilecov\u00e1 L, Ciganek M, P\u011bn\u010d\u00edkov\u00e1 K, Ne\u010da J, et al. The aryl hydrocarbon receptor-mediated and genotoxic effects of fractionated extract of standard reference diesel exhaust particle material in pulmonary, liver and prostate cells. Toxicol Vitr. 2015;29:438\u201348. Available from: http:\/\/www.ncbi.nlm.nih.gov\/pubmed\/25500124","journal-title":"Toxicol Vitr"},{"key":"4679_CR10","doi-asserted-by":"publisher","first-page":"441","DOI":"10.1016\/j.jaci.2015.02.014","volume":"136","author":"M Xia","year":"2015","unstructured":"Xia M, Viera-Hutchins L, Garcia-Lloret M, Noval Rivas M, Wise P, McGhee SA, et al. Vehicular exhaust particles promote allergic airway inflammation through an aryl hydrocarbon receptor\u2013notch signaling cascade. J Allergy Clin Immunol. 2015;136:441\u201353. [cited 2016 Jan 11]. Available from: http:\/\/www.ncbi.nlm.nih.gov\/pubmed\/25825216","journal-title":"J Allergy Clin Immunol"},{"key":"4679_CR11","doi-asserted-by":"publisher","first-page":"41","DOI":"10.1186\/1743-8977-7-41","volume":"7","author":"AI Totlandsdal","year":"2010","unstructured":"Totlandsdal AI, Cassee FR, Schwarze P, Refsnes M, L\u00e5g M. Diesel exhaust particles induce CYP1A1 and pro-inflammatory responses via differential pathways in human bronchial epithelial cells. Part Fibre Toxicol. 2010;7:41. BioMed Central; [cited 2015 Nov 17]. Available from: http:\/\/particleandfibretoxicology.biomedcentral.com\/articles\/10.1186\/1743-8977-7-41","journal-title":"Part Fibre Toxicol"},{"key":"4679_CR12","doi-asserted-by":"publisher","first-page":"2952","DOI":"10.1172\/JCI30639","volume":"117","author":"GM Mutlu","year":"2007","unstructured":"Mutlu GM, Green D, Bellmeyer A, Baker CM, Burgess Z, Rajamannan N, et al. Ambient particulate matter accelerates coagulation via an IL-6\u2013dependent pathway. J Clin Invest. 2007;117:2952\u201361. American Society for Clinical Investigation; [cited 2016 Jun 28]. Available from: http:\/\/www.ncbi.nlm.nih.gov\/pubmed\/17885684","journal-title":"J Clin Invest"},{"key":"4679_CR13","doi-asserted-by":"publisher","first-page":"e18525","DOI":"10.1371\/journal.pone.0018525","volume":"6","author":"GRS Budinger","year":"2011","unstructured":"Budinger GRS, McKell JL, Urich D, Foiles N, Weiss I, Chiarella SE, et al. Particulate matter-induced lung inflammation increases systemic levels of PAI-1 and activates coagulation through distinct mechanisms. PLoS One. 2011;6:e18525. Morty RE, editor. [cited 2016 Jun 28]. Available from: http:\/\/www.ncbi.nlm.nih.gov\/pubmed\/21494547","journal-title":"PLoS One"},{"key":"4679_CR14","doi-asserted-by":"publisher","first-page":"e39554","DOI":"10.1371\/journal.pone.0039554","volume":"7","author":"A Nemmar","year":"2012","unstructured":"Nemmar A, Subramaniyan D, Ali BH. Protective effect of curcumin on pulmonary and cardiovascular effects induced by repeated exposure to diesel exhaust particles in mice. PLoS One. 2012;7:e39554. Rojas M, editor. [cited 2016 Jun 28]. Available from: http:\/\/www.ncbi.nlm.nih.gov\/pubmed\/22745783","journal-title":"PLoS One"},{"key":"4679_CR15","first-page":"3886","volume":"10","author":"A Valavanidis","year":"2013","unstructured":"Valavanidis A, Vlachogianni T, Fiotakis K, Loridas S. Pulmonary oxidative stress, inflammation and cancer: respirable particulate matter, fibrous dusts and ozone as major causes of lung carcinogenesis through reactive oxygen species mechanisms. Int J Environ Res. 2013;10:3886\u2013907. Public Health. [cited 2016 Apr 5]. Available from: http:\/\/www.mdpi.com\/1660-4601\/10\/9\/3886\/","journal-title":"Int J Environ Res"},{"key":"4679_CR16","doi-asserted-by":"publisher","first-page":"381","DOI":"10.1080\/10937404.2013.832649","volume":"16","author":"Y-CT Huang","year":"2013","unstructured":"Huang Y-CT. The role of in vitro gene expression profiling in particulate matter health research. J Toxicol Environ Health B Crit Rev. 2013;16:381\u201394. Available from: http:\/\/www.tandfonline.com\/doi\/abs\/10.1080\/10937404.2013.832649","journal-title":"J Toxicol Environ Health B Crit Rev"},{"key":"4679_CR17","doi-asserted-by":"publisher","first-page":"136","DOI":"10.1016\/j.toxlet.2011.11.015","volume":"209","author":"M Gualtieri","year":"2012","unstructured":"Gualtieri M, Longhin E, Mattioli M, Mantecca P, Tinaglia V, Mangano E, et al. Gene expression profiling of A549 cells exposed to Milan PM2.5. Toxicol Lett. 2012;209:136\u201345.","journal-title":"Toxicol Lett"},{"key":"4679_CR18","doi-asserted-by":"publisher","first-page":"2114","DOI":"10.1093\/bioinformatics\/btu170","volume":"30","author":"AM Bolger","year":"2014","unstructured":"Bolger AM, Lohse M, Usadel B. Trimmomatic: a flexible trimmer for Illumina sequence data. Bioinformatics. 2014;30:2114\u201320. [cited 2018 Jan 24]. Available from: http:\/\/www.ncbi.nlm.nih.gov\/pubmed\/24695404","journal-title":"Bioinformatics"},{"key":"4679_CR19","doi-asserted-by":"publisher","first-page":"R36","DOI":"10.1186\/gb-2013-14-4-r36","volume":"14","author":"D Kim","year":"2013","unstructured":"Kim D, Pertea G, Trapnell C, Pimentel H, Kelley R, Salzberg SL. TopHat2: accurate alignment of transcriptomes in the presence of insertions, deletions and gene fusions. Genome Biol. 2013;14:R36. Available from: http:\/\/www.pubmedcentral.nih.gov\/articlerender.fcgi?artid=4053844&tool=pmcentrez&rendertype=abstract","journal-title":"Genome Biol"},{"key":"4679_CR20","doi-asserted-by":"publisher","first-page":"166","DOI":"10.1093\/bioinformatics\/btu638","volume":"31","author":"S Anders","year":"2015","unstructured":"Anders S, Pyl PT, Huber W. HTSeq--a Python framework to work with high-throughput sequencing data. Bioinformatics. 2015;31:166\u20139. Available from: https:\/\/academic.oup.com\/bioinformatics\/article-lookup\/doi\/10.1093\/bioinformatics\/btu638","journal-title":"Bioinformatics"},{"key":"4679_CR21","doi-asserted-by":"publisher","first-page":"139","DOI":"10.1093\/bioinformatics\/btp616","volume":"26","author":"MD Robinson","year":"2010","unstructured":"Robinson MD, McCarthy DJ, Smyth GK. edgeR: a Bioconductor package for differential expression analysis of digital gene expression data. Bioinformatics. 2010;26:139\u201340. Available from: http:\/\/www.ncbi.nlm.nih.gov\/pubmed\/19910308%5Cn . http:\/\/www.pubmedcentral.nih.gov\/articlerender.fcgi?artid=PMC2796818","journal-title":"Bioinformatics"},{"key":"4679_CR22","doi-asserted-by":"publisher","first-page":"W305","DOI":"10.1093\/nar\/gkp427","volume":"37","author":"J Chen","year":"2009","unstructured":"Chen J, Bardes EE, Aronow BJ, Jegga AG. ToppGene Suite for gene list enrichment analysis and candidate gene prioritization. Nucleic Acids Res. 2009;37:W305\u201311. Available from: https:\/\/academic.oup.com\/nar\/article-lookup\/doi\/10.1093\/nar\/gkp427","journal-title":"Nucleic Acids Res"},{"key":"4679_CR23","doi-asserted-by":"publisher","first-page":"61","DOI":"10.1186\/1471-2105-4-61","volume":"4","author":"KG Becker","year":"2003","unstructured":"Becker KG, Hosack D a, Dennis G, Lempicki R a, Bright TJ, Cheadle C, et al. PubMatrix: a tool for multiplex literature mining. BMC Bioinformatics. 2003;4:61.","journal-title":"BMC Bioinformatics"},{"key":"4679_CR24","doi-asserted-by":"publisher","first-page":"15545","DOI":"10.1073\/pnas.0506580102","volume":"102","author":"A Subramanian","year":"2005","unstructured":"Subramanian A, Tamayo P, Mootha VK, Mukherjee S, Ebert BL, Gillette M, et al. Gene set enrichment analysis: a knowledge-based approach for interpreting genome-wide expression profiles. Proc Natl Acad Sci U S A. 2005;102:15545\u201350. Available from: http:\/\/www.ncbi.nlm.nih.gov\/entrez\/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citation&list_uids=16199517","journal-title":"Proc Natl Acad Sci U S A"},{"key":"4679_CR25","doi-asserted-by":"publisher","first-page":"1096","DOI":"10.1093\/bioinformatics\/btl056","volume":"22","author":"A Conesa","year":"2006","unstructured":"Conesa A, Nueda MJ, Ferrer A, Tal\u00f3n M. maSigPro: a method to identify significantly differential expression profiles in time-course microarray experiments. Bioinformatics. 2006;22:1096\u2013102. Available from: https:\/\/academic.oup.com\/bioinformatics\/article-lookup\/doi\/10.1093\/bioinformatics\/btl056","journal-title":"Bioinformatics"},{"key":"4679_CR26","doi-asserted-by":"publisher","first-page":"2598","DOI":"10.1093\/bioinformatics\/btu333","volume":"30","author":"MJ Nueda","year":"2014","unstructured":"Nueda MJ, Tarazona S, Conesa A. Next maSigPro: updating maSigPro bioconductor package for RNA-seq time series. Bioinformatics. 2014;30:2598\u2013602. [cited 2016 Aug 30]. Available from: http:\/\/www.ncbi.nlm.nih.gov\/pubmed\/24894503","journal-title":"Bioinformatics"},{"key":"4679_CR27","doi-asserted-by":"publisher","first-page":"2498","DOI":"10.1101\/gr.1239303","volume":"13","author":"P Shannon","year":"2003","unstructured":"Shannon P, Markiel A, Ozier O, Baliga NS, Wang JT, Ramage D, et al. Cytoscape: a software environment for integrated models of biomolecular interaction networks. Genome Res. 2003;13:2498\u2013504. Available from: http:\/\/www.genome.org\/cgi\/doi\/10.1101\/gr.1239303","journal-title":"Genome Res"},{"key":"4679_CR28","first-page":"146","volume":"3","author":"G Wu","year":"2014","unstructured":"Wu G, Dawson E, Duong A, Haw R, Stein L. ReactomeFIViz: a Cytoscape app for pathway and network-based data analysis. F1000 Res. 2014;3:146. [cited 2016 Jul 25]. Available from: http:\/\/www.ncbi.nlm.nih.gov\/pubmed\/25309732","journal-title":"F1000 Res"},{"key":"4679_CR29","doi-asserted-by":"publisher","first-page":"R53","DOI":"10.1186\/gb-2010-11-5-r53","volume":"11","author":"G Wu","year":"2010","unstructured":"Wu G, Feng X, Stein L. A human functional protein interaction network and its application to cancer data analysis. Genome Biol. 2010;11:R53. Available from: http:\/\/genomebiology.biomedcentral.com\/articles\/10.1186\/gb-2010-11-5-r53","journal-title":"Genome Biol"},{"key":"4679_CR30","doi-asserted-by":"publisher","first-page":"147","DOI":"10.12688\/f1000research.4460.1","volume":"3","author":"JH Morris","year":"2014","unstructured":"Morris JH, Kuchinsky A, Ferrin TE, Pico AR. enhancedGraphics: a Cytoscape app for enhanced node graphics. F1000Res. 2014;3:147. Available from: http:\/\/f1000research.com\/articles\/3-147\/v1","journal-title":"F1000Res"},{"key":"4679_CR31","doi-asserted-by":"publisher","first-page":"6","DOI":"10.1186\/1743-8977-7-6","volume":"7","author":"R Li","year":"2010","unstructured":"Li R, Ning Z, Majumdar R, Cui J, Takabe W, Jen N, et al. Ultrafine particles from diesel vehicle emissions at different driving cycles induce differential vascular pro-inflammatory responses: implication of chemical components and NF-kappaB signaling. Part Fibre Toxicol. 2010;7:6. Available from: http:\/\/www.ncbi.nlm.nih.gov\/pubmed\/20307321","journal-title":"Part Fibre Toxicol"},{"key":"4679_CR32","doi-asserted-by":"publisher","first-page":"257","DOI":"10.2133\/dmpk.21.257","volume":"21","author":"T Shimada","year":"2006","unstructured":"Shimada T. Xenobiotic-metabolizing enzymes involved in activation and detoxification of carcinogenic polycyclic aromatic hydrocarbons. Drug Metab Pharmacokinet. 2006;21:257\u201376. Available from: http:\/\/www.ncbi.nlm.nih.gov\/pubmed\/16946553","journal-title":"Drug Metab Pharmacokinet"},{"key":"4679_CR33","doi-asserted-by":"publisher","first-page":"23","DOI":"10.1186\/2045-8118-8-23","volume":"8","author":"A Jacob","year":"2011","unstructured":"Jacob A, Hartz AM, Potin S, Coumoul X, Yousif S, Scherrmann J-M, et al. Aryl hydrocarbon receptor-dependent upregulation of Cyp1b1 by TCDD and diesel exhaust particles in rat brain microvessels. Fluids Barriers CNS. 2011;8:23. [cited 2016 Jul 18]. Available from: http:\/\/www.ncbi.nlm.nih.gov\/pubmed\/21867498","journal-title":"Fluids Barriers CNS"},{"key":"4679_CR34","doi-asserted-by":"publisher","first-page":"515","DOI":"10.1165\/ajrcmb.25.4.4515","volume":"25","author":"V Bonvallot","year":"2001","unstructured":"Bonvallot V, Baeza-Squiban A, Baulig A, Brulant S, Boland S, Muzeau F, et al. Organic compounds from diesel exhaust particles elicit a proinflammatory response in human airway epithelial cells and induce cytochrome p450 1A1 expression. Am J Respir Cell Mol Biol. 2001;25:515\u201321. [cited 2016 Jul 13]. Available from: http:\/\/www.ncbi.nlm.nih.gov\/pubmed\/11694458","journal-title":"Am J Respir Cell Mol Biol"},{"key":"4679_CR35","doi-asserted-by":"publisher","first-page":"188","DOI":"10.1002\/tox.21884","volume":"30","author":"AI Totlandsdal","year":"2015","unstructured":"Totlandsdal AI, L\u00e5g M, Lilleaas E, Cassee F, Schwarze P. Differential proinflammatory responses induced by diesel exhaust particles with contrasting PAH and metal content. Environ Toxicol. 2015;30:188\u201396. [cited 2016 Jul 13]. Available from: http:\/\/www.ncbi.nlm.nih.gov\/pubmed\/23900936","journal-title":"Environ Toxicol"},{"key":"4679_CR36","doi-asserted-by":"publisher","first-page":"123","DOI":"10.1016\/j.tox.2008.02.014","volume":"247","author":"A Kocbach","year":"2008","unstructured":"Kocbach A, Namork E, Schwarze PE. Pro-inflammatory potential of wood smoke and traffic-derived particles in a monocytic cell line. Toxicology. 2008;247:123\u201332. [cited 2015 Oct 13]. Available from: http:\/\/www.sciencedirect.com\/science\/article\/pii\/S0300483X08000851","journal-title":"Toxicology"},{"key":"4679_CR37","doi-asserted-by":"publisher","first-page":"1","DOI":"10.1155\/2014\/149185","volume":"2014","author":"G Landskron","year":"2014","unstructured":"Landskron G, De la Fuente M, Thuwajit P, Thuwajit C, Hermoso MA. Chronic inflammation and cytokines in the tumor microenvironment. J Immunol Res. 2014;2014:1\u201319. Available from: http:\/\/www.ncbi.nlm.nih.gov\/pubmed\/24901008","journal-title":"J Immunol Res"},{"key":"4679_CR38","doi-asserted-by":"publisher","first-page":"126","DOI":"10.1016\/j.toxlet.2008.10.028","volume":"184","author":"E-J Park","year":"2009","unstructured":"Park E-J, Park K. Induction of pro-inflammatory signals by 1-nitropyrene in cultured BEAS-2B cells. Toxicol Lett. 2009;184:126\u201333. Available from: http:\/\/linkinghub.elsevier.com\/retrieve\/pii\/S0378427408013295","journal-title":"Toxicol Lett"},{"key":"4679_CR39","doi-asserted-by":"publisher","first-page":"126","DOI":"10.1016\/j.chemosphere.2013.10.080","volume":"104","author":"L Bhavaraju","year":"2014","unstructured":"Bhavaraju L, Shannahan J, William A, McCormick R, McGee J, Kodavanti U, et al. Diesel and biodiesel exhaust particle effects on rat alveolar macrophages with in vitro exposure. Chemosphere. 2014;104:126\u201333.","journal-title":"Chemosphere"},{"key":"4679_CR40","doi-asserted-by":"publisher","first-page":"4","DOI":"10.1186\/1743-8977-3-4","volume":"3","author":"AT Saber","year":"2006","unstructured":"Saber AT, Jacobsen NR, Bornholdt J, Kj\u00e6r SL, Dybdahl M, Risom L, et al. Cytokine expression in mice exposed to diesel exhaust particles by inhalation. Role of tumor necrosis factor. Part Fibre Toxicol. 2006;3:4.","journal-title":"Part Fibre Toxicol"},{"key":"4679_CR41","doi-asserted-by":"publisher","first-page":"34","DOI":"10.1165\/ajrcmb.27.1.4787","volume":"27","author":"T Fujii","year":"2002","unstructured":"Fujii T, Hayashi S, Hogg J, Mukae H, Suwa T, Goto Y, et al. Interaction of alveolar macrophages and airway epithelial cells following exposure to particulate matter produces mediators that stimulate the bone marrow. Am J Respir Cell Mol Biol. 2002;27:34\u201341.","journal-title":"Am J Respir Cell Mol Biol"},{"key":"4679_CR42","doi-asserted-by":"publisher","first-page":"989","DOI":"10.1042\/CS20150436","volume":"129","author":"O Al-Sawaf","year":"2015","unstructured":"Al-Sawaf O, Clarner T, Fragoulis A, Kan YW, Pufe T, Streetz K, et al. Nrf2 in health and disease: current and future clinical implications. Clin Sci (Lond). 2015;129:989\u201399. [cited 2016 Jul 4]. Available from: http:\/\/www.ncbi.nlm.nih.gov\/pubmed\/26386022","journal-title":"Clin Sci (Lond)"},{"key":"4679_CR43","doi-asserted-by":"publisher","first-page":"147","DOI":"10.1016\/j.taap.2012.10.008","volume":"265","author":"H Sun","year":"2012","unstructured":"Sun H, Shamy M, Kluz T, Munoz AB, Zhong M, Laulicht F, et al. Gene expression profiling and pathway analysis of human bronchial epithelial cells exposed to airborne particulate matter collected from Saudi Arabia. Toxicol Appl Pharmacol. 2012;265:147\u201357.","journal-title":"Toxicol Appl Pharmacol"},{"key":"4679_CR44","doi-asserted-by":"publisher","first-page":"1257","DOI":"10.1007\/s00109-015-1304-0","volume":"93","author":"M-J Tsai","year":"2015","unstructured":"Tsai M-J, Wang T-N, Lin Y-S, Kuo P-L, Hsu Y-L, Huang M-S. Aryl hydrocarbon receptor agonists upregulate VEGF secretion from bronchial epithelial cells. J Mol Med. 2015;93:1257\u201369.","journal-title":"J Mol Med"},{"key":"4679_CR45","doi-asserted-by":"publisher","first-page":"615","DOI":"10.1007\/s00109-014-1121-x","volume":"92","author":"MJ Tsai","year":"2014","unstructured":"Tsai MJ, Hsu YL, Wang TN, Wu LY, Lien CT, Hung CH, et al. Aryl hydrocarbon receptor (AhR) agonists increase airway epithelial matrix metalloproteinase activity. J Mol Med. 2014;92:615\u201328.","journal-title":"J Mol Med"},{"key":"4679_CR46","doi-asserted-by":"publisher","first-page":"1449","DOI":"10.1183\/09031936.02.00089802","volume":"20","author":"S Koyama","year":"2002","unstructured":"Koyama S, Sato E, Tsukadaira A, Haniuda M, Numanami H, Kurai M, et al. Vascular endothelial growth factor mRNA and protein expression in airway epithelial cell lines in vitro. Eur Respir J. 2002;20:1449\u201356.","journal-title":"Eur Respir J"},{"key":"4679_CR47","doi-asserted-by":"crossref","unstructured":"Tseng C-Y, Wang J-S, Chao M-W. Causation by diesel exhaust particles of endothelial dysfunctions in cytotoxicity, pro-inflammation, permeability, and apoptosis induced by ROS generation. Cardiovasc Toxicol. 2016:1\u20139. Springer US. Available from: http:\/\/link.springer.com\/10.1007\/s12012-016-9364-0","DOI":"10.1007\/s12012-016-9364-0"},{"key":"4679_CR48","doi-asserted-by":"publisher","first-page":"589","DOI":"10.1161\/CIRCRESAHA.107.164970","volume":"102","author":"JA Araujo","year":"2008","unstructured":"Araujo JA, Barajas B, Kleinman M, Wang X, Bennett BJ, Gong KW, et al. Ambient particulate pollutants in the ultrafine range promote early atherosclerosis and systemic oxidative stress. Circ Res. 2008;102:589\u201396.","journal-title":"Circ Res"},{"key":"4679_CR49","doi-asserted-by":"publisher","unstructured":"Bai N, Kido T, Suzuki H, Yang G, Kavanagh TJ, Kaufman JD, et al. Changes in atherosclerotic plaques induced by inhalation of diesel exhaust. Atherosclerosis 2011;216:299\u2013306. Elsevier Ireland Ltd. Available from: https:\/\/doi.org\/10.1016\/j.atherosclerosis.2011.02.019 .","DOI":"10.1016\/j.atherosclerosis.2011.02.019"},{"key":"4679_CR50","doi-asserted-by":"publisher","first-page":"57","DOI":"10.1016\/j.toxlet.2009.08.006","volume":"191","author":"X Xu","year":"2009","unstructured":"Xu X, Kherada N, Hong X, Quan C, Zheng L, Wang A, et al. Diesel exhaust exposure induces angiogenesis. Toxicol Lett. 2009;191:57\u201368. Available from: http:\/\/www.ncbi.nlm.nih.gov\/pubmed\/19683567","journal-title":"Toxicol Lett"},{"key":"4679_CR51","doi-asserted-by":"publisher","first-page":"270","DOI":"10.3109\/08958378.2012.667455","volume":"24","author":"SK Seilkop","year":"2012","unstructured":"Seilkop SK, Campen MJ, Lund AK, McDonald JD, Mauderly JL. Identification of chemical components of combustion emissions that affect pro-atherosclerotic vascular responses in mice. Inhal Toxicol. 2012;24:270\u201387. [cited 2016 Jul 19]. Available from: http:\/\/www.tandfonline.com\/doi\/full\/10.3109\/08958378.2012.667455","journal-title":"Inhal Toxicol"},{"key":"4679_CR52","doi-asserted-by":"publisher","first-page":"855","DOI":"10.1093\/jnci\/djs034","volume":"104","author":"DT Silverman","year":"2012","unstructured":"Silverman DT, Samanic CM, Lubin JH, Blair AE, Stewart P a, Vermeulen R, et al. The diesel exhaust in miners study: a nested case-control study of lung cancer and diesel exhaust. J Natl Cancer Inst. 2012;104:855\u201368.","journal-title":"J Natl Cancer Inst"},{"key":"4679_CR53","doi-asserted-by":"publisher","first-page":"1262","DOI":"10.1016\/S1470-2045(13)70487-X","volume":"14","author":"D Loomis","year":"2013","unstructured":"Loomis D, Grosse Y, Lauby-Secretan B, El Ghissassi F, Bouvard V, Benbrahim-Tallaa L, et al. The carcinogenicity of outdoor air pollution. Lancet Oncol. 2013;14:1262\u20133. Elsevier; [cited 2015 Apr 23]. Available from: http:\/\/www.thelancet.com\/article\/S147020451370487X\/fulltext","journal-title":"Lancet Oncol"},{"key":"4679_CR54","doi-asserted-by":"publisher","first-page":"544","DOI":"10.1016\/j.pupt.2013.05.003","volume":"26","author":"K Vermaelen","year":"2013","unstructured":"Vermaelen K, Brusselle G. Exposing a deadly alliance: novel insights into the biological links between COPD and lung cancer. Pulm Pharmacol Ther. 2013;26:544\u201354. Elsevier Ltd","journal-title":"Pulm Pharmacol Ther"},{"key":"4679_CR55","doi-asserted-by":"publisher","first-page":"16975","DOI":"10.1073\/pnas.1315862110","volume":"110","author":"Y Wang","year":"2013","unstructured":"Wang Y, van Boxel-Dezaire AHH, Cheon H, Yang J, Stark GR. STAT3 activation in response to IL-6 is prolonged by the binding of IL-6 receptor to EGF receptor. Proc Natl Acad Sci U S A. 2013;110:16975\u201380.","journal-title":"Proc Natl Acad Sci U S A"},{"key":"4679_CR56","doi-asserted-by":"publisher","first-page":"651","DOI":"10.1038\/nrm909","volume":"3","author":"DE Levy","year":"2002","unstructured":"Levy DE, Darnell JE Jr. Stats: transcriptional control and biological impact. Nat Rev Mol Cell Biol. 2002;3:651\u201362.","journal-title":"Nat Rev Mol Cell Biol"},{"key":"4679_CR57","doi-asserted-by":"publisher","first-page":"1362","DOI":"10.1158\/1078-0432.CCR-06-2313","volume":"13","author":"S Huang","year":"2007","unstructured":"Huang S. Regulation of metastases by signal transducer and activator of transcription 3 signaling pathway: clinical implications. Clin Cancer Res. 2007;13:1362\u20136.","journal-title":"Clin Cancer Res"},{"key":"4679_CR58","doi-asserted-by":"publisher","first-page":"42667","DOI":"10.18632\/oncotarget.5626","volume":"6","author":"D Malanga","year":"2015","unstructured":"Malanga D, De Marco C, Guerriero I, Colelli F, Rinaldo N, Scrima M, et al. The Akt1\/IL-6\/STAT3 pathway regulates growth of lung tumor initiating cells. Oncotarget. 2015;6:42667\u201386.","journal-title":"Oncotarget"},{"key":"4679_CR59","doi-asserted-by":"publisher","first-page":"232","DOI":"10.1165\/rcmb.2006-0449OC","volume":"37","author":"D Cao","year":"2007","unstructured":"Cao D, Bromberg PA, Samet JM. COX-2 expression induced by diesel particles involves chromatin modification and degradation of HDAC1. Am J Respir Cell Mol Biol. 2007;37:232\u20139.","journal-title":"Am J Respir Cell Mol Biol"},{"key":"4679_CR60","doi-asserted-by":"publisher","first-page":"1812","DOI":"10.1111\/febs.13627","volume":"283","author":"T Cartwright","year":"2016","unstructured":"Cartwright T, Perkins ND, L Wilson C. NFKB1: a suppressor of inflammation, ageing and cancer. FEBS J. 2016;283:1812\u201322. [cited 2016 Jul 1]. Available from: http:\/\/www.ncbi.nlm.nih.gov\/pubmed\/26663363","journal-title":"FEBS J"},{"key":"4679_CR61","doi-asserted-by":"publisher","first-page":"C362","DOI":"10.1152\/ajpcell.00322.2012","volume":"304","author":"R Li","year":"2013","unstructured":"Li R, Mittelstein D, Kam W, Pakbin P, Du Y, Tintut Y, et al. Atmospheric ultrafine particles promote vascular calcification via the NF- B signaling pathway. AJP Cell Physiol. 2013;304:C362\u20139. [cited 2016 Jul 1]. Available from: http:\/\/www.ncbi.nlm.nih.gov\/pubmed\/23242187","journal-title":"AJP Cell Physiol"},{"key":"4679_CR62","doi-asserted-by":"publisher","first-page":"4034","DOI":"10.1038\/onc.2012.402","volume":"32","author":"N Sunaga","year":"2013","unstructured":"Sunaga N, Kaira K, Imai H, Shimizu K, Nakano T, Shames DS, et al. Oncogenic KRAS-induced epiregulin overexpression contributes to aggressive phenotype and is a promising therapeutic target in non-small-cell lung cancer. Oncogene. 2013;32:4034\u201342. [cited 2016 Jul 14]. Available from: http:\/\/www.ncbi.nlm.nih.gov\/pubmed\/22964644","journal-title":"Oncogene"},{"key":"4679_CR63","doi-asserted-by":"publisher","first-page":"87","DOI":"10.1016\/j.envpol.2015.11.013","volume":"209","author":"E Longhin","year":"2016","unstructured":"Longhin E, Capasso L, Battaglia C, Proverbio MC, Cosentino C, Cifola I, et al. Integrative transcriptomic and protein analysis of human bronchial BEAS-2B exposed to seasonal urban particulate matter. Environ Pollut. 2016;209:87\u201398. [cited 2016 Apr 6]. Available from: http:\/\/www.ncbi.nlm.nih.gov\/pubmed\/26647171","journal-title":"Environ Pollut"},{"key":"4679_CR64","doi-asserted-by":"publisher","first-page":"49","DOI":"10.1016\/j.semcdb.2014.03.005","volume":"28","author":"D Riese","year":"2014","unstructured":"Riese D, Cullum R. Epiregulin: roles in normal physiology and cancer. Semin Cell Dev Biol. 2014;28:49\u201356. Available from: http:\/\/www.ncbi.nlm.nih.gov\/pubmed\/24631357","journal-title":"Semin Cell Dev Biol"},{"key":"4679_CR65","doi-asserted-by":"publisher","first-page":"42","DOI":"10.1016\/j.toxlet.2014.03.021","volume":"228","author":"NS Bach","year":"2014","unstructured":"Bach NS, L\u00e5g M, \u00d8vrevik J. Toll like receptor-3 priming alters diesel exhaust particle-induced cytokine responses in human bronchial epithelial cells. Toxicol Lett. 2014;228:42\u20137. [cited 2017 Mar 28]. Available from: http:\/\/www.ncbi.nlm.nih.gov\/pubmed\/24709138","journal-title":"Toxicol Lett"},{"key":"4679_CR66","doi-asserted-by":"publisher","first-page":"48","DOI":"10.1016\/j.envres.2016.04.029","volume":"149","author":"R Van Den Heuvel","year":"2016","unstructured":"Van Den Heuvel R, Den Hond E, Govarts E, Colles A, Koppen G, Staelens J, et al. Identification of PM10 characteristics involved in cellular responses in human bronchial epithelial cells (Beas-2B). Environ Res. 2016;149:48\u201356. [cited 2017 Mar 28]. Available from: http:\/\/www.sciencedirect.com\/science\/article\/pii\/S0013935116301530","journal-title":"Environ Res"},{"key":"4679_CR67","doi-asserted-by":"publisher","unstructured":"Kooter IM, Alblas MJ, Jedynska AD, Steenhof M, Houtzager MMG, van Ras M. Alveolar epithelial cells (A549) exposed at the air-liquid interface to diesel exhaust: first study in TNO\u2019s powertrain test center. Toxicol in Vitro 2013;27:2342\u20132349. Elsevier Ltd. Available from: https:\/\/doi.org\/10.1016\/j.tiv.2013.10.007 .","DOI":"10.1016\/j.tiv.2013.10.007"},{"key":"4679_CR68","doi-asserted-by":"publisher","first-page":"287","DOI":"10.1016\/j.envpol.2017.04.080","volume":"227","author":"T Yu","year":"2017","unstructured":"Yu T, Zhang X, Zhong L, Cui Q, Hu X, Li B, et al. The use of a 0.20 \u03bcm particulate matter filter decreases cytotoxicity in lung epithelial cells following air-liquid interface exposure to motorcycle exhaust. Environ Pollut. 2017;227:287\u201395. Elsevier Ltd. Available from: http:\/\/www.sciencedirect.com\/science\/article\/pii\/S026974911632156X","journal-title":"Environ Pollut"},{"key":"4679_CR69","doi-asserted-by":"publisher","first-page":"250","DOI":"10.1016\/j.clim.2003.08.006","volume":"109","author":"N Li","year":"2003","unstructured":"Li N, Hao M, Phalen RF, Hinds WC, Nel AE. Particulate air pollutants and asthma. Clin Immunol. 2003;109:250\u201365. [cited 2017 Mar 28]. Available from: http:\/\/www.ncbi.nlm.nih.gov\/pubmed\/14697739","journal-title":"Clin Immunol"}],"container-title":["BMC Genomics"],"original-title":[],"language":"en","link":[{"URL":"http:\/\/link.springer.com\/content\/pdf\/10.1186\/s12864-018-4679-9.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"text-mining"},{"URL":"http:\/\/link.springer.com\/article\/10.1186\/s12864-018-4679-9\/fulltext.html","content-type":"text\/html","content-version":"vor","intended-application":"text-mining"},{"URL":"http:\/\/link.springer.com\/content\/pdf\/10.1186\/s12864-018-4679-9.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2022,8,21]],"date-time":"2022-08-21T04:51:15Z","timestamp":1661057475000},"score":1,"resource":{"primary":{"URL":"https:\/\/bmcgenomics.biomedcentral.com\/articles\/10.1186\/s12864-018-4679-9"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2018,4,27]]},"references-count":69,"journal-issue":{"issue":"1","published-print":{"date-parts":[[2018,12]]}},"alternative-id":["4679"],"URL":"https:\/\/doi.org\/10.1186\/s12864-018-4679-9","relation":{},"ISSN":["1471-2164"],"issn-type":[{"value":"1471-2164","type":"electronic"}],"subject":[],"published":{"date-parts":[[2018,4,27]]},"assertion":[{"value":"8 September 2017","order":1,"name":"received","label":"Received","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"16 April 2018","order":2,"name":"accepted","label":"Accepted","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"27 April 2018","order":3,"name":"first_online","label":"First Online","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"Not-applicable.","order":1,"name":"Ethics","group":{"name":"EthicsHeading","label":"Ethics approval and consent to participate"}},{"value":"The authors declare that they have no competing interests.","order":2,"name":"Ethics","group":{"name":"EthicsHeading","label":"Competing interests"}},{"value":"Springer Nature remains neutral with regard to jurisdictional claims in published maps and institutional affiliations.","order":3,"name":"Ethics","group":{"name":"EthicsHeading","label":"Publisher\u2019s Note"}}],"article-number":"302"}}