Bioinformatics analysis reveals the changes of peroxisome proliferator-activated receptor (PPAR) pathway in the development of Marjolin ulcers

References

• Baldursson B, Sigurgeirsson B, Lindelöf B. 1995. Venous leg ulcers and squamous cell carcinoma a large-scale epidemiological study. Br J Dermatol. 133:571–574.
   PubMed Web of Science ®Google Scholar
• Bazaliński D, Przybek-Mita J, Barańska B, Więch P. 2017. Marjolin’s ulcer in chronic wounds - review of available literature. Contemp Oncol (Poznan, Poland). 21:197–202.
   PubMed Web of Science ®Google Scholar
• Berger J, Moller DE. 2002. The mechanisms of action of PPARs. Annu Rev Med. 53(1):409–435.
   PubMed Web of Science ®Google Scholar
• Bostwick J, PendergrastJrWJ, Vasconez LOJP, Surgery R. 1976. Marjolins ulcer. Plast Reconstr Surg. 57(1):66–69.
   PubMed Web of Science ®Google Scholar
• Chen S, Xu H, Hu F, Wang T. 2020. Identification of Key players involved in CoCl2 hypoxia induced pulmonary artery hypertension in vitro. Front Genet. 11:232.
   PubMed Web of Science ®Google Scholar
• Coussens LM, Werb Z. 2002. Inflammation and cancer. Nature. 420:860–867.
   PubMed Web of Science ®Google Scholar
• Esther RJ, Lamps L, Schwartz HS. 1999. Marjolin ulcers: secondary carcinomas in chronic wounds. J South Orthop Assoc. 8:181–187.
   PubMedGoogle Scholar
• Fucci A, Colangelo T, Votino C, Pancione M, Sabatino L, Colantuoni V. 2012. The role of peroxisome proliferator-activated receptors in the esophageal, gastric, and colorectal cancer. PPAR Res. 2012:1.
   Web of Science ®Google Scholar
• Gene Ontology Consortium. 2019. The gene ontology resource: 20 years and still GOing strong. Nucleic Acids Res. 47:D330–D338.
   PubMed Web of Science ®Google Scholar
• Gong R, Chen M, Zhang C, Chen M, Li H. 2017. A comparison of gene expression profiles in patients with coronary artery disease, type 2 diabetes, and their coexisting conditions. Diagn Pathol. 12:44.
   PubMed Web of Science ®Google Scholar
• Grenier JM, Barrière I, Rouffy J. 1993. Transformation maligne des ulcères des membres inférieurs. Rev Med Interne. 14:51–53.
   PubMedGoogle Scholar
• Harland DL, Robinson WA, Franklin WA. 1997. Deletion of the p53 gene in a patient with aggressive burn scar carcinoma. J Trauma: Inj Infection Crit Care. 42(1):104–107.
   PubMedGoogle Scholar
• Jensen JM, Proksch E. 2009. The skin’s barrier. G Ital Dermatol Venereol. 144:689–700.
   PubMed Web of Science ®Google Scholar
• Kanehisa M, Goto S. 2000. KEGG: kyoto encyclopedia of genes and genomes. Nucleic Acids Res. 28:27–30.
   PubMed Web of Science ®Google Scholar
• Kerr-Valentic MA, Samimi K, Rohlen BH, Agarwal JP, Rockwell WB. 2009. Marjolin’s ulcer: modern analysis of an ancient problem. Plastic Reconstructive Surgery. 123:184–191.
   PubMed Web of Science ®Google Scholar
• Keshava Prasad TS, Goel R, Kandasamy K, Keerthikumar S, Kumar S, Mathivanan S, Telikicherla D, Raju R, Shafreen B, Venugopal A, Balakrishnan L. 2009. Human protein reference database–2009 update. Nucleic Acids Res. 37:D767–D772.
   PubMed Web of Science ®Google Scholar
• Khaidakov M, Mitra S, Kang BY, Wang X, Kadlubar S, Novelli G, Raj V, Winters M, Carter WC, Mehta JL. 2011. Oxidized LDL receptor 1 (OLR1) as a possible link between obesity, dyslipidemia and cancer. PLoS One. 6:e20277.
   PubMed Web of Science ®Google Scholar
• Kim D, Langmead B, Salzberg SL. 2015. HISAT: a fast spliced aligner with low memory requirements. Nat Methods. 12:357–360.
   PubMed Web of Science ®Google Scholar
• Kleine AH, Glatz JFC, Van Nieuwenhoven FA, Van Der Vusse GJ. 1992. Release of heart fatty acid-binding protein into plasma after acute myocardial infarction in man. Mol Cell Biochem. 116:155–162.
   PubMed Web of Science ®Google Scholar
• Konger RL, Derr-Yellin E, Ermatov N, Ren L, Sahu RP. 2019. The PPARγ agonist rosiglitazone suppresses syngeneic mouse SCC (squamous cell carcinoma) tumor growth through an immune-mediated mechanism. Molecules. 24:2192.
   PubMed Web of Science ®Google Scholar
• Lee SH, Shin MS, Kim HS, Park WS, Kim SY, Jang J, Lee HK, Park JY, Oh RR, Han SY, Lee JH. 2000. Somatic mutations of Fas (Apo-1/CD95) gene in cutaneous squamous cell carcinoma arising from a burn scar. J Invest Dermatol. 114:122–126.
   PubMed Web of Science ®Google Scholar
• Li B, Dewey CN. 2011. RSEM: accurate transcript quantification from RNA-Seq data with or without a reference genome. BMC Bioinformatics. 12:323.
   PubMed Web of Science ®Google Scholar
• Lian M, Chen J, Shen X, Hou L, Fang J. 2020. Pparg may promote chemosensitivity of hypopharyngeal squamous cell carcinoma. PPAR Res. 2020:1.
   Web of Science ®Google Scholar
• Lian M, Tao Y, Chen J, Shen X, Hou L, Cao S, Fang J. 2021. Variation of PPARG expression in chemotherapy-sensitive patients of hypopharyngeal squamous cell carcinoma. PPAR Res. 2021:1.
   Web of Science ®Google Scholar
• Liu Z, Ren L, Tian J, Liu N, Hu Y, Zhang P. 2018. Comprehensive analysis of long noncoding RNAs and messenger RNAs expression profiles in patients with marjolin ulcer. Med Sci Monit. 24:7828–7840.
   PubMed Web of Science ®Google Scholar
• Luo W, Pant G, Bhavnasi YK, Blanchard SG, Jr, Brouwer C. 2017. Pathview Web: user friendly pathway visualization and data integration. Nucleic Acids Res. 45:W501–W508.
   PubMed Web of Science ®Google Scholar
• Man MQ, Choi EH, Schmuth M, Crumrine D, Uchida Y, Elias PM, Holleran WM, Feingold KR. 2006. Basis for improved permeability barrier homeostasis induced by PPAR and LXR activators: liposensors stimulate lipid synthesis, lamellar body secretion, and post-secretory lipid processing. J Invest Dermatol. 126:386–392.
   PubMed Web of Science ®Google Scholar
• Masuda T, Wada K, Nakajima A, Okura M, Kudo C, Kadowaki T, Kogo M, Kamisaki Y. 2005. Critical role of peroxisome proliferator-activated receptor γ on anoikis and invasion of squamous cell carcinoma. Clin Cancer Res. 11:4012–4021.
   PubMed Web of Science ®Google Scholar
• Michalik L, Auwerx J, Berger JP, Chatterjee VK, Glass CK, Gonzalez FJ, Grimaldi PA, Kadowaki T, Lazar MA, O’rahilly S, et al. 2006. International union of pharmacology. LXI. Peroxisome Proliferator-Activated Receptors. 58:726–741.
   Google Scholar
• Nijsten T, Geluyckens E, Colpaert C, Lambert J. 2005. Peroxisome proliferator-activated receptors in squamous cell carcinoma and its precursors. J Cutan Pathol. 32:340–347.
   PubMed Web of Science ®Google Scholar
• Pavlovic S, Wiley E, Guzman G, Morris D, Braniecki M. 2011. Marjolin ulcer: an overlooked entity. Int Wound J. 8:419–424.
   PubMed Web of Science ®Google Scholar
• Pekarek B, Buck S, Osher L. 2011. A comprehensive review on marjolin’s ulcers: diagnosis and treatment. J Am Col Certif Wound Spec. 3:60–64.
   PubMedGoogle Scholar
• Pertea M, Pertea GM, Antonescu CM, Chang TC, Mendell JT, Salzberg SL. 2015. Stringtie enables improved reconstruction of a transcriptome from RNA-seq reads. Nat Biotechnol. 33:290–295.
   PubMed Web of Science ®Google Scholar
• Piel FB, Steinberg MH, Rees DC. 2017. Sickle cell disease. N Engl J Med. 376:1561–1573.
   PubMed Web of Science ®Google Scholar
• Ren L, Konger RL. 2019. Evidence that peroxisome proliferator-activated receptor γ suppresses squamous carcinogenesis through anti-inflammatory signaling and regulation of the immune response. Mol Carcinog. 58:1589–1601.
   PubMed Web of Science ®Google Scholar
• Robinson MD, Mccarthy DJ, Smyth GK. 2010. Edger: a bioconductor package for differential expression analysis of digital gene expression data. Bioinformatics. 26:139–140.
   PubMed Web of Science ®Google Scholar
• Sahu RP, Dasilva SC, Rashid B, Martel KC, Jernigan D, Mehta SR, Mohamed DR, Rezania S, Bradish JR, Armstrong AB, et al. 2012. Mice lacking epidermal PPARγ exhibit a marked augmentation in photocarcinogenesis associated with increased UVB-induced apoptosis, inflammation and barrier dysfunction. Int J Cancer. 131:E1055–E1066.
   PubMed Web of Science ®Google Scholar
• Sawayama H, Ishimoto T, Watanabe M, Yoshida N, Sugihara H, Kurashige J, Hirashima K, Iwatsuki M, Baba Y, Oki E, et al. 2014. Small molecule agonists of PPAR-γ exert therapeutic effects in esophageal cancer. Cancer Res. 74:575–585.
   PubMed Web of Science ®Google Scholar
• Shah M, Crane JS. 2022. Marjolin ulcer. In: Statpearls. StatPearls publishing copyright © 2022. Treasure Island (FL): StatPearls Publishing LLC.
   Google Scholar
• Shannon P, Markiel A, Ozier O, Baliga NS, Wang JT, Ramage D, Amin N, Schwikowski B, Ideker T. 2003. Cytoscape: a software environment for integrated models of biomolecular interaction networks. Genome Res. 13:2498–2504.
   PubMed Web of Science ®Google Scholar
• Shi T, Shen X, Gao G. 2019. Gene expression profiles of peripheral blood monocytes in osteoarthritis and analysis of differentially expressed genes. BioMed Res Int. 2019:4291689.
   PubMed Web of Science ®Google Scholar
• Shiba N, Yoshida K, Hara Y, Yamato G, Shiraishi Y, Matsuo H, Okuno Y, Chiba K, Tanaka H, Kaburagi T, Takeuchi M. 2019. Transcriptome analysis offers a comprehensive illustration of the genetic background of pediatric acute myeloid leukemia. Blood Adv. 3:3157–3169.
   PubMed Web of Science ®Google Scholar
• Sinha S, Su S, Workentine M, Agabalyan N, Cheng M, Gabriel V, Biernaskie J. 2017. Transcriptional analysis reveals evidence of chronically impeded ECM turnover and epithelium-to-mesenchyme transition in scar tissue giving rise to marjolin’s ulcer. J Burn Care Res. 38:e14–e22.
   PubMed Web of Science ®Google Scholar
• Sturm M, Schroeder C, Bauer P. 2016. Seqpurge: highly-sensitive adapter trimming for paired-end NGS data. BMC Bioinformatics. 17:208.
   PubMed Web of Science ®Google Scholar
• Treves NJSGO. 1930. The development of cancer in burn scars: an analysis and report of thirty-four cases. Surg Gynecol Obstet. 51:749–782.
   Google Scholar
• Tseng CH. 2014. Pioglitazone and oral cancer risk in patients with type 2 diabetes. Oral Oncol. 50:98–103.
   PubMed Web of Science ®Google Scholar
• Tsukahara R, Haniu H, Matsuda Y, Tsukahara T. 2014. Heart-type fatty-acid-binding protein (FABP3) is a lysophosphatidic acid-binding protein in human coronary artery endothelial cells. FEBS Open Bio. 4:947–951.
   PubMed Web of Science ®Google Scholar
• Wang C, Song C, Liu Q, Zhang R, Fu R, Wang H, Yin D, Song W, Zhang H, Dou K. 2021. Gene expression analysis suggests immunological changes of peripheral blood monocytes in the progression of patients With coronary artery disease. Front Genet. 12:641117.
   PubMed Web of Science ®Google Scholar
• Wang Z, Gerstein M, Snyder M. 2009. RNA-Seq: a revolutionary tool for transcriptomics. Nat Rev Genet. 10:57–63.
   PubMed Web of Science ®Google Scholar
• Xiang F, Song HP, Huang YS. 2019. Clinical features and treatment of 140 cases of marjolin’s ulcer at a major burn center in southwest China. Exp Ther Med. 17:3403–3410.
   PubMed Web of Science ®Google Scholar
• Xu F, Lu C, Wu Q, Gu W, Chen J, Fang F, Zhao B, Du W, You M. 2018. Studies on the lipid-regulating mechanism of alisol-based compounds on lipoprotein lipase. Bioorg Chem. 80:347–360.
   PubMed Web of Science ®Google Scholar
• Xu G, Wang YM, Ying MM, Chen SD, Li ZR, Ma HL, Zheng MH, Wu J, Ding C. 2021. Serum lipocalin-2 is a potential biomarker for the clinical diagnosis of nonalcoholic steatohepatitis. Clin Mol Hepatol. 27:329–345.
   PubMed Web of Science ®Google Scholar
• Yu G, Wang LG, Han Y, He QY. 2012. Clusterprofiler: an R package for comparing biological themes among gene clusters. OMICS: A J Integr Biol. 16:284–287.
   PubMed Web of Science ®Google Scholar