Wang J, Feng J, Jia W, Chang S, Li S and Li Y: Lignin engineering through laccase modification: A promising field for energy plant improvement. Biotechnol Biofuels. 8:1452015. View Article : Google Scholar : PubMed/NCBI

Citrin DE, Shankavaram U, Horton JA, Shield W III, Zhao S, Asano H, White A, Sowers A, Thetford A and Chung EJ: Role of type II pneumocyte senescence in radiation-induced lung fibrosis. J Natl Cancer Inst. 105:1474–1484. 2013. View Article : Google Scholar : PubMed/NCBI

Siegel R, DeSantis C, Virgo K, Stein K, Mariotto A, Smith T, Cooper D, Gansler T, Lerro C, Fedewa S, et al: Cancer treatment and survivorship statistics, 2012. CA Cancer J Clin. 62:220–241. 2012. View Article : Google Scholar : PubMed/NCBI

Schabath MB, Nguyen A, Wilson P, Sommerer KR, Thompson ZJ and Chiappori AA: Temporal trends from 1986 to 2008 in overall survival of small cell lung cancer patients. Lung Cancer. 86:14–21. 2014. View Article : Google Scholar : PubMed/NCBI

Pedicini P, Strigari L, Benassi M, Caivano R, Fiorentino A, Nappi A, Salvatore M and Storto G: Critical dose and toxicity index of organs at risk in radiotherapy: analyzing the calculated effects of modified dose fractionation in non-small cell lung cancer. Med Dosim. 39:23–30. 2014. View Article : Google Scholar

Kuilman T, Michaloglou C, Mooi WJ and Peeper DS: The essence of senescence. Genes Dev. 24:2463–2479. 2010. View Article : Google Scholar : PubMed/NCBI

Linton PJ, Gurney M, Sengstock D, Mentzer RM Jr and Gottlieb RA: This old heart: Cardiac aging and autophagy. J Mol Cell Cardiol. 83:44–54. 2015. View Article : Google Scholar

Park YH: Stem cell therapy for sensorineural hearing loss, still alive? J Audiol Otol. 19:63–67. 2015. View Article : Google Scholar : PubMed/NCBI

Durham AL and Adcock IM: The relationship between COPD and lung cancer. Lung Cancer. 90:121–127. 2015. View Article : Google Scholar : PubMed/NCBI

Farup J, Madaro L, Puri PL and Mikkelsen UR: Interactions between muscle stem cells, mesenchymal-derived cells and immune cells in muscle homeostasis, regeneration and disease. Cell Death Dis. 6:e18302015. View Article : Google Scholar : PubMed/NCBI

Mikhed Y, Daiber A and Steven S: Mitochondrial oxidative stress, mitochondrial DNA damage and their role in age-related vascular dysfunction. Int J Mol Sci. 16:15918–15953. 2015. View Article : Google Scholar : PubMed/NCBI

Hill RP: Radiation effects on the respiratory system. Brit J Radiol Suppl. 27:75–81. 2005. View Article : Google Scholar

Ley B, Brown KK and Collard HR: Molecular biomarkers in idiopathic pulmonary fibrosis. Am J Physiol Lung Cell Mol Physiol. 307:L681–L691. 2014. View Article : Google Scholar : PubMed/NCBI

Hernandez Bort JA, Hackl M, Höflmayer H, Jadhav V, Harreither E, Kumar N, Ernst W, Grillari J and Borth N: Dynamic mRNA and miRNA profiling of CHO-K1 suspension cell cultures. Biotechnol J. 7:500–515. 2012. View Article : Google Scholar

Xie L, Zhou J, Zhang S, Chen Q, Lai R, Ding W, Song C, Meng X and Wu J: Integrating microRNA and mRNA expression profiles in response to radiation-induced injury in rat lung. Radiat Oncol. 9:1112014. View Article : Google Scholar : PubMed/NCBI

Chauhan V and Howland M: Gene expression responses in human lung fibroblasts exposed to alpha particle radiation. Toxicol In Vitro. 28:1222–1229. 2014. View Article : Google Scholar : PubMed/NCBI

Zhang B and Horvath S: A general framework for weighted gene co-expression network analysis. Stat Appl Genet Mol Biol. 4:2005.

Chou WC, Cheng AL, Brotto M and Chuang CY: Visual gene-network analysis reveals the cancer gene co-expression in human endometrial cancer. BMC Genomics. 15:3002014. View Article : Google Scholar : PubMed/NCBI

de Jong S, Boks MP, Fuller TF, Strengman E, Janson E, de Kovel CG, Ori AP, Vi N, Mulder F, Blom JD, et al: A gene co-expression network in whole blood of schizophrenia patients is independent of antipsychotic-use and enriched for brain-expressed genes. PLoS One. 7:e394982012. View Article : Google Scholar : PubMed/NCBI

Clarke C, Madden SF, Doolan P, Aherne ST, Joyce H, O'Driscoll L, Gallagher WM, Hennessy BT, Moriarty M, Crown J, et al: Correlating transcriptional networks to breast cancer survival: A large-scale coexpression analysis. Carcinogenesis. 34:2300–2308. 2013. View Article : Google Scholar : PubMed/NCBI

Barrett T, Troup DB, Wilhite SE, Ledoux P, Rudnev D, Evangelista C, Kim IF, Soboleva A, Tomashevsky M, Edgar R, et al: NCBI GEO: Mining tens of millions of expression profiles-database and tools update. Nucleic Acids Res. 35D760–D765. (Database issue)2007. View Article : Google Scholar

Gautier L, Cope L, Bolstad BM and Irizarry RA: affy-analysis of Affymetrix GeneChip data at the probe level. Bioinformatics. 20:307–315. 2004. View Article : Google Scholar : PubMed/NCBI

Gentleman RC, Carey VJ, Bates DM, Bolstad B, Dettling M, Dudoit S, Ellis B, Gautier L, Ge Y, Gentry J, et al: Bioconductor: Open software development for computational biology and bioinformatics. Genome Biol. 5:R802004. View Article : Google Scholar : PubMed/NCBI

Tejera E, Bernardes J and Rebelo I: Co-expression network analysis and genetic algorithms for gene prioritization in preeclampsia. BMC Med Genomics. 6:512013. View Article : Google Scholar : PubMed/NCBI

Yip AM and Horvath S: Gene network interconnectedness and the generalized topological overlap measure. BMC Bioinformatics. 8:222007. View Article : Google Scholar : PubMed/NCBI

Lecca P and Re A: Detecting modules in biological networks by edge weight clustering and entropy significance. Front Genet. 6:2652015. View Article : Google Scholar : PubMed/NCBI

Langfelder P, Zhang B and Horvath S: Defining clusters from a hierarchical cluster tree: The Dynamic tree cut package for R. Bioinformatics. 24:719–720. 2008. View Article : Google Scholar

Langfelder P and Horvath S: Eigengene networks for studying the relationships between co-expression modules. BMC Syst Biol. 1:542007. View Article : Google Scholar : PubMed/NCBI

Langfelder P, Luo R, Oldham MC and Horvath S: Is my network module preserved and reproducible? PLoS Comput Biol. 7:e10010572011. View Article : Google Scholar : PubMed/NCBI

Tan N, Chung MK, Smith JD, Hsu J, Serre D, Newton DW, Castel L, Soltesz E, Pettersson G, Gillinov AM, et al: Weighted gene coexpression network analysis of human left atrial tissue identifies gene modules associated with atrial fibrillation. Circ Cardiovasc Genet. 6:362–371. 2013. View Article : Google Scholar : PubMed/NCBI

Peña-Castillo L, Mercer RG, Gurinovich A, Callister SJ, Wright AT, Westbye AB, Beatty JT and Lang AS: Gene co-expression network analysis in Rhodobacter capsulatus and application to comparative expression analysis of Rhodobacter sphaeroides. BMC Genomics. 15:7302014. View Article : Google Scholar : PubMed/NCBI

Filteau M, Pavey SA, St-Cyr J and Bernatchez L: Gene coexpression networks reveal key drivers of phenotypic divergence in lake whitefish. Mol Biol Evol. 30:1384–1396. 2013. View Article : Google Scholar : PubMed/NCBI

Langfelder P and Horvath S: WGCNA: An R package for weighted correlation network analysis. BMC Bioinformatics. 9:5592008. View Article : Google Scholar : PubMed/NCBI

Liu J, Yang XY and Shi WJ: Identifying differentially expressed genes and pathways in two types of non-small cell lung cancer: Adenocarcinoma and squamous cell carcinoma. Genet Mol Res. 13:95–102. 2014. View Article : Google Scholar : PubMed/NCBI

Aiba Y, Yamazaki T, Okada T, Gotoh K, Sanjo H, Ogata M and Kurosaki T: BANK negatively regulates Akt activation and subsequent B cell responses. Immunity. 24:259–268. 2006. View Article : Google Scholar : PubMed/NCBI

Kozyrev SV, Abelson AK, Wojcik J, Zaghlool A, Linga Reddy MV, Sanchez E, Gunnarsson I, Svenungsson E, Sturfelt G, Jönsen A, et al: Functional variants in the B-cell gene BANK1 are associated with systemic lupus erythematosus. Nat Genet. 40:211–216. 2008. View Article : Google Scholar : PubMed/NCBI

Rueda B, Gourh P, Broen J, Agarwal SK, Simeon C, Ortego-Centeno N, Vonk MC, Coenen M, Riemekasten G, Hunzelmann N, et al: BANK1 functional variants are associated with susceptibility to diffuse systemic sclerosis in Caucasians. Ann Rheum Dis. 69:700–705. 2010. View Article : Google Scholar :

Wu M, Liu Y, Di X, Kang H, Zeng H, Zhao Y, Cai K, Pang T, Wang S, Yao Y and Hu X: EIF4E over-expresses and enhances cell proliferation and cell cycle progression in nasopharyngeal carcinoma. Med Oncol. 30:4002013. View Article : Google Scholar : PubMed/NCBI

Blesa JR, Hernández JM and Hernández-Yago J: NRF-2 transcription factor is essential in promoting human Tomm70 gene expression. Mitochondrion. 3:251–259. 2004. View Article : Google Scholar

Kim Y, Kim HD and Kim J: Cytoplasmic ribosomal protein S3 (rpS3) plays a pivotal role in mitochondrial DNA damage surveillance. Biochim Biophys Acta. 1833:2943–2952. 2013. View Article : Google Scholar : PubMed/NCBI

Sen N, Paul BD, Gadalla MM, Mustafa AK, Sen T, Xu R, Kim S and Snyder SH: Hydrogen sulfide-linked sulfhydration of NF-kB mediates its antiapoptotic actions. Mol Cell. 45:13–24. 2012. View Article : Google Scholar : PubMed/NCBI

Liu XY, Wei B, Shi HX, Shan YF and Wang C: Tom70 mediates activation of interferon regulatory factor 3 on mitochondria. Cell Res. 20:994–1011. 2010. View Article : Google Scholar : PubMed/NCBI

Kasama Y, Saito M, Takano T, Nishimura T, Satoh M, Wang Z, Ali SN, Harada S, Kohara M and Tsukiyama-Kohara K: Translocase of outer mitochondrial membrane 70 induces interferon response and is impaired by hepatitis C virus NS3. Virus Res. 163:405–409. 2012. View Article : Google Scholar

Resnitzky D, Yarden A, Zipori D and Kimchi A: Autocrine beta-related interferon controls c-myc suppression and growth arrest during hematopoietic cell differentiation. Cell. 46:31–40. 1986. View Article : Google Scholar : PubMed/NCBI

Bertolin G, Ferrando-Miguel R, Jacoupy M, Traver S, Grenier K, Greene AW, Dauphin A, Waharte F, Bayot A, Salamero J, et al: The TOMM machinery is a molecular switch in PINK1 and PARK2/PARKIN-dependent mitochondrial clearance. Autophagy. 9:1801–1817. 2013. View Article : Google Scholar : PubMed/NCBI

Kang HT, Lee KB, Kim SY, Choi HR and Park SC: Autophagy impairment induces premature senescence in primary human fibroblasts. PLoS One. 6:e233672011. View Article : Google Scholar : PubMed/NCBI

Xiao H, Han B, Lodyga M, Bai XH, Wang Y and Liu M: The actin-binding domain of actin filament-associated protein (AFAP) is involved in the regulation of cytoskeletal structure. Cell Mol Life Sci. 69:1137–1151. 2012. View Article : Google Scholar

Snyder BN1, Cho Y, Qian Y, Coad JE, Flynn DC and Cunnick JM: AFAP1L1 is a novel adaptor protein of the AFAP family that interacts with cortactin and localizes to invadosomes. Eur J Cell Biol. 90:376–389. 2011. View Article : Google Scholar : PubMed/NCBI

Frame MC: Newest findings on the oldest oncogene; how activated src does it. J Cell Sci. 117:989–998. 2004. View Article : Google Scholar : PubMed/NCBI

Zhang J, Park SI, Artime MC, Summy JM, Shah AN, Bomser JA, Dorfleutner A, Flynn DC and Gallick GE: AFAP-110 is overex-pressed in prostate cancer and contributes to tumorigenic growth by regulating focal contacts. J Clin Invest. 117:2962–2973. 2007. View Article : Google Scholar : PubMed/NCBI

Han B, Xiao H, Xu J, Lodyga M, Bai XH, Jin T and Liu M: Actin filament associated protein mediates c-Src related SRE/AP-1 transcriptional activation. FEBS Lett. 585:471–477. 2011. View Article : Google Scholar : PubMed/NCBI

Ye N, Ding Y, Wild C, Shen Q and Zhou J: Small molecule inhibitors targeting activator protein 1 (AP-1). J Med Chem. 57:6930–6948. 2014. View Article : Google Scholar : PubMed/NCBI

Hofmann S, Vögtle T, Bender M, Rose-John S and Nieswandt B: The SLAM family member CD84 is regulated by ADAM10 and calpain in platelets. J Thromb Haemost. 10:2581–2592. 2012. View Article : Google Scholar : PubMed/NCBI

Wang A, Batteux F and Wakeland EK: The role of SLAM/CD2 polymorphisms in systemic autoimmunity. Curr Opin Immunol. 22:706–714. 2010. View Article : Google Scholar : PubMed/NCBI

Binsky-Ehrenreich I, Marom A, Sobotta MC, Shvidel L, Berrebi A, Hazan-Halevy I, Kay S, Aloshin A, Sagi I and Goldenberg DM: CD84 is a survival receptor for CLL cells. Oncogene. 33:1006–1016. 2014. View Article : Google Scholar

Tangye SG, Nichols KE, Hare NJ and van de Weerdt BC: Functional requirements for interactions between CD84 and Src homology 2 domain-containing proteins and their contribution to human T cell activation. J Immunol. 171:2485–2495. 2003. View Article : Google Scholar : PubMed/NCBI

Asakawa H, Hayashi A, Haraguchi T and Hiraoka Y: Dissociation of the Nuf2-Ndc80 complex releases centromeres from the spindle-pole body during meiotic prophase in fission yeast. Mol Biol Cell. 16:2325–2338. 2005. View Article : Google Scholar : PubMed/NCBI

Sundin LJ, Guimaraes GJ and Deluca JG: The NDC80 complex proteins Nuf2 and Hec1 make distinct contributions to kinetochore-microtubule attachment in mitosis. Mol Biol Cell. 22:759–768. 2011. View Article : Google Scholar : PubMed/NCBI

DeLuca JG, Dong Y, Hergert P, Strauss J, Hickey JM, Salmon ED and McEwen BF: Hec1 and nuf2 are core components of the kinetochore outer plate essential for organizing microtubule attachment sites. Mol Biol Cell. 16:519–531. 2005. View Article : Google Scholar :

Brobeil A, Graf M, Eiber M and Wimmer M: Interaction of PTPIP51 with Tubulin, CGI-99 and Nuf2 During cell cycle progression. Biomolecules. 2:122–142. 2012. View Article : Google Scholar : PubMed/NCBI

Kaneko N, Miura K, Gu Z, Karasawa H, Ohnuma S, Sasaki H, Tsukamoto N, Yokoyama S, Yamamura A, Nagase H, et al: siRNA-mediated knockdown against CDCA1 and KNTC2, both frequently overexpressed in colorectal and gastric cancers, suppresses cell proliferation and induces apoptosis. Biochem Biophys Res Commun. 390:1235–1240. 2009. View Article : Google Scholar : PubMed/NCBI

Suzuki H, Fukuhara M, Yamaura T, et al: Multiple therapeutic peptide vaccines consisting of combined novel cancer testis antigens and anti-angiogenic peptides for patients with non-small cell lung cancer. J Transl Med. 11:972013. View Article : Google Scholar : PubMed/NCBI

Jung KA and Kwak MK: The Nrf2 system as a potential target for the development of indirect antioxidants. Molecules. 15:7266–7291. 2010. View Article : Google Scholar : PubMed/NCBI

Fujita R, Takayama-Tsujimoto M, Satoh H, Gutiérrez L, Aburatani H, Fujii S, Sarai A, Bresnick EH, Yamamoto M and Motohashi H: NF-E2 p45 is important for establishing normal function of platelets. Mol Cell Biol. 33:2659–2670. 2013. View Article : Google Scholar : PubMed/NCBI

Gasiorek JJ, Nouhi Z and Blank V: Abnormal differentiation of erythroid precursors in p45 NF-E2(−/−) mice. Exp Hematol. 40:393–400. 2012. View Article : Google Scholar : PubMed/NCBI

Yigit N, Covey S, Barouk-Fox S, Turker T, Geyer JT and Orazi A: Nuclear factor-erythroid 2, nerve growth factor receptor, and CD34-microvessel density are differentially expressed in primary myelofibrosis, polycythemia vera, and essential thrombocythemia. Hum Pathol. 46:1217–1225. 2015. View Article : Google Scholar : PubMed/NCBI

Chan JY, Kwong M, Lo M, Emerson R and Kuypers FA: Reduced oxidative-stress response in red blood cells from p45NFE2-deficient mice. Blood. 97:2151–2158. 2001. View Article : Google Scholar : PubMed/NCBI

Leontieva OV and Blagosklonny MV: Tumor promoter-induced cellular senescence: Cell cycle arrest followed by geroconversion. Oncotarget. 5:12715–12727. 2014. View Article : Google Scholar

Demidenko ZN and Blagosklonny MV: Growth stimulation leads to cellular senescence when the cell cycle is blocked. Cell Cycle. 7:3355–3361. 2008. View Article : Google Scholar : PubMed/NCBI

Demidenko ZN, Zubova SG, Bukreeva EI, Pospelov VA, Pospelova TV and Blagosklonny MV: Rapamycin decelerates cellular senescence. Cell Cycle. 8:1888–1895. 2009. View Article : Google Scholar : PubMed/NCBI

Serrano M, Lin AW, McCurrach ME, Beach D and Lowe SW: Oncogenic ras provokes premature cell senescence associated with accumulation of p53 and p16INK4a. Cell. 88:593–602. 1997. View Article : Google Scholar : PubMed/NCBI

Zhu J, Woods D, McMahon M and Bishop JM: Senescence of human fibroblasts induced by oncogenic Raf. Genes Dev. 12:2997–3007. 1998. View Article : Google Scholar : PubMed/NCBI

Liao EC, Hsu YT, Chuah QY, Lee YJ, Hu JY, Huang TC, Yang PM and Chiu SJ: Radiation induces senescence and a bystander effect through metabolic alterations. 5:e12552014.

Ghosh AK and Li J: A stereoselective synthesis of (+)-herbox-idiene/GEX1A. Org Lett. 13:66–69. 2011. View Article : Google Scholar :

Yokoi A, Kotake Y, Takahashi K, Kadowaki T, Matsumoto Y, Minoshima Y, Sugi NH, Sagane K, Hamaguchi M, Iwata M and Mizui Y: Biological validation that SF3b is a target of the antitumor macrolide pladienolide. Febs J. 278:4870–4880. 2011. View Article : Google Scholar : PubMed/NCBI

Pawellek A, McElroy S, Samatov T, Mitchell L, Woodland A, Ryder U, Gray D, Lührmann R and Lamond AI: Identification of small molecule inhibitors of pre-mRNA splicing. J Biol Chem. 289:34683–34698. 2014. View Article : Google Scholar : PubMed/NCBI

Hegde AN, Haynes KA, Bach SV and Beckelman BC: Local ubiquitin-proteasome-mediated proteolysis and long-term synaptic plasticity. Front Mol Neurosci. 7:962014. View Article : Google Scholar : PubMed/NCBI

Xu Y, Li N, Xiang R and Sun P: Emerging roles of the p38 MAPK and PI3K/AKT/mTOR pathways in oncogene-induced senescence. Trends Biochem Sci. 39:268–276. 2014. View Article : Google Scholar : PubMed/NCBI

Muñoz-Espín D and Serrano M: Cellular senescence: From physiology to pathology. Nat Rev Mol Cell Biol. 15:482–496. 2014. View Article : Google Scholar : PubMed/NCBI

Carrillo J, González A, Manguán-García C, Pintado-Berninches L and Perona R: p53 pathway activation by telomere attrition in X-DC primary fibroblasts occurs in the absence of ribosome biogenesis failure and as a consequence of DNA damage. Clin Transl Oncol. 16:529–538. 2014. View Article : Google Scholar

Wang Y, Yu H, Zhang J, Gao J, Ge X and Lou G: Hesperidin inhibits HeLa cell proliferation through apoptosis mediated by endoplasmic reticulum stress pathways and cell cycle arrest. BMC Cancer. 15:6822015. View Article : Google Scholar : PubMed/NCBI

Wiel C, Lallet-Daher H, Gitenay D, Gras B, Le Calvé B, Augert A, Ferrand M, Prevarskaya N, Simonnet H, Vindrieux D and Bernard D: Endoplasmic reticulum calcium release through ITPR2 channels leads to mitochondrial calcium accumulation and senescence. Nat Commun. 5:37922014. View Article : Google Scholar : PubMed/NCBI

Zhu B, Ferry CH, Markell LK, Blazanin N, Glick AB, Gonzalez FJ and Peters JM: The nuclear receptor peroxisome proliferator-activated receptor-β/Δ (PPARβ/Δ) promotes oncogene-induced cellular senescence through repression of endoplasmic reticulum stress. J Biol Chem. 289:20102–20119. 2014. View Article : Google Scholar : PubMed/NCBI

Choque B, Catheline D, Rioux V and Legrand P: Linoleic acid: Between doubts and certainties. Biochimie. 96:14–21. 2014. View Article : Google Scholar

Kim MH, Kim MO, Kim YH, Kim JS and Han HJ: Linoleic acid induces mouse embryonic stem cell proliferation via Ca2+/PKC, PI3K/Akt, and MAPKs. Cell Physiol Biochem. 23:53–64. 2009. View Article : Google Scholar : PubMed/NCBI