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M, Castellanos KJ, Rhodes DH, Fantuzzi G. Obesity and IL-6 interact in modulating the response to endotoxemia in mice. Cytokine. 2013;61(1):71–7.",{"doi":281},"10.1016\u002Fj.cyto.2012.08.027",{"id":18,"text":283,"url":18,"identifiers":284},"Goodwin JE, Feng Y, Velazquez H, Zhou H, Sessa WC. Loss of the endothelial glucocorticoid receptor prevents the therapeutic protection afforded by dexamethasone after LPS. PLoS One. 2014;9(10):e108126.",{"doi":285},"10.1371\u002Fjournal.pone.0108126",{"id":18,"text":287,"url":18,"identifiers":288},"Leary S, Underwood W, Anthony R, Cartner S, Corey D, Grandin T, Greenacre CB, Gwaltney-Bran S, McCrackin MA, Meyer R. AVMA Guidelines for the Euthanasia of Animals, 2013 Edition. Schaumburg: American Veterinary Medical Association; 2013.",{},{"id":18,"text":290,"url":18,"identifiers":291},"Biesmans S, Meert TF, Bouwknecht JA, Acton PD, Davoodi N, De Haes P, Kuijlaars J, Langlois X, Matthews LJ, Ver Donck L, et al. Systemic immune activation leads to neuroinflammation and sickness behavior in mice. Mediat Inflamm. 2013;2013:271359.",{"doi":292},"10.1155\u002F2013\u002F271359",{"id":18,"text":294,"url":18,"identifiers":295},"Dinges MM, Schlievert PM. Role of T cells and gamma interferon during induction of hypersensitivity to lipopolysaccharide by toxic shock syndrome toxin 1 in mice. Infect Immun. 2001;69(3):1256–64.",{"doi":296},"10.1128\u002FIAI.69.3.1256-1264.2001",{"id":18,"text":298,"url":18,"identifiers":299},"Al-Harbi NO, Imam F, Al-Harbi MM, Ansari MA, Zoheir KM, Korashy HM, Sayed-Ahmed MM, Attia SM, Shabanah OA, Ahmad SF. Dexamethasone attenuates LPS-induced acute lung injury through inhibition of NF-kappaB, COX-2, and pro-inflammatory mediators. Immunol Investig. 2016;45(4):349–69.",{"doi":300},"10.3109\u002F08820139.2016.1157814",{"id":18,"text":302,"url":18,"identifiers":303},"Raphael I, Nalawade S, Eagar TN, Forsthuber TG. T cell subsets and their signature cytokines in autoimmune and inflammatory diseases. Cytokine. 2015;74(1):5–17.",{"doi":304},"10.1016\u002Fj.cyto.2014.09.011",{"id":18,"text":306,"url":18,"identifiers":307},"Chau CH, Rixe O, McLeod H, Figg WD. Validation of analytic methods for biomarkers used in drug development. Clin Cancer Res. 2008;14(19):5967–76.",{"doi":308},"10.1158\u002F1078-0432.CCR-07-4535",{"id":18,"text":310,"url":18,"identifiers":311},"Lee JW, Devanarayan V, Barrett YC, Weiner R, Allinson J, Fountain S, Keller S, Weinryb I, Green M, Duan L, et al. Fit-for-purpose method development and validation for successful biomarker measurement. Pharm Res. 2006;23(2):312–28.",{"doi":312},"10.1007\u002Fs11095-005-9045-3",{"id":18,"text":314,"url":18,"identifiers":315},"Barnard RM. Flow cytometry: a flexible tool for biomarker research. Bioanalysis. 2012;4(20):2471–83.",{"doi":316},"10.4155\u002Fbio.12.225",{"id":18,"text":318,"url":18,"identifiers":319},"Wu DY, Patti-Diaz L, Hill CG. Development and validation of flow cytometry methods for pharmacodynamic clinical biomarkers. Bioanalysis. 2010;2(9):1617–26.",{"doi":320},"10.4155\u002Fbio.10.33",{"id":18,"text":322,"url":18,"identifiers":323},"NC dP, Wang K, Wadhwa PD, Culhane JF, Nelson EL. Validation and comparison of luminex multiplex cytokine analysis kits with ELISA: determinations of a panel of nine cytokines in clinical sample culture supernatants. J Reprod Immunol. 2005;66(2):175–91.",{"doi":324},"10.1016\u002Fj.jri.2005.03.005",{"id":18,"text":326,"url":18,"identifiers":327},"Richens JL, Urbanowicz RA, Metcalf R, Corne J, O'Shea P, Fairclough L. Quantitative validation and comparison of multiplex cytokine kits. J Biomol Screen. 2010;15(5):562–8.",{"doi":328},"10.1177\u002F1087057110362099",{"id":18,"text":330,"url":18,"identifiers":331},"Moncunill G, Campo JJ, Dobano C. Quantification of multiple cytokines and chemokines using cytometric bead arrays. Methods Mol Biol. 2014;1172:65–86.",{"doi":332},"10.1007\u002F978-1-4939-0928-5_6",{"id":18,"text":334,"url":18,"identifiers":335},"Djoba Siawaya JF, Roberts T, Babb C, Black G, Golakai HJ, Stanley K, Bapela NB, Hoal E, Parida S, van Helden P, et al. An evaluation of commercial fluorescent bead-based luminex cytokine assays. PLoS One. 2008;3(7):e2535.",{"doi":336},"10.1371\u002Fjournal.pone.0002535",false,{"id":339,"createTime":340,"updateTime":341,"relativeEntities":342,"slug":343,"properties":344,"entityType":148,"verifyStatus":149,"verifyTime":354,"verifyNote":151,"languages":18,"translateLanguages":18,"viewCount":19,"primaryUrl":355,"fullTextUrl":18,"authors":356,"publicationType":235,"publisherRelationship":403,"citationCount":18,"citationInfo":18,"publishDate":442,"publishYear":443,"citationAnalyzeStatus":274,"lastCitationAnalyze":444,"indexDatabases":445,"openAccess":18,"references":18,"isForceReanalyzing":337},"301d9324-e3ac-453c-80ac-65c649abdafd","2024-01-09T15:04:01.907+00:00","2026-01-10T16:15:32.768+00:00",[],"Immunohistochemical-detection-of-laminin-1-and-Ki-67-in-radicular-cysts-and-keratocystic-odontogenic-tumors",{"abstract":345,"title":347,"gsPaper":349,"references":350,"doi":352},{"EN":346},"Odontogenic cysts are those which arise from the epithelium associated with the development of teeth. Some odontogenic cysts were found to have special biological features that make them distinct from other lesions. This study was conducted to detect the immunoepxression of laminin-1 and Ki-67 in both radicular cysts (RCs) and keratocystic odontogenic tumors (KCOTs) and to examine the possible predictive value of these markers. Thirteen cases of RCs and twelve cases of KCOTs were included in this study. Antibodies against laminin-1 and Ki-67 were used as primary antibodies. ten cases out of thirteen cases of RCs were immunopositive to laminin-1. The immunonegative cases of RCs showed high degree of inflammation inside the connective tissue wall. One case out of twelve cases of KCOTs was immunopositive to laminin-1 and the rest were immunonegative. Seven cases out of thirteen cases of RCs showed immunopositivity for Ki-67 with increased numbers of immunopositive cells when the inflammation was severe in the connective tissue wall. All KCOTS were immunopositive to Ki-67. The benign nature of radicular cysts and the aggressive behavior of keratocystic odontogenic tumors could be explained by the expression of laminin and Ki-67. Laminin-1 and Ki-67 could be valuable markers for the prediction of the biologic behavior of cystic lesions.",{"EN":348},"Immunohistochemical detection of laminin-1 and Ki-67 in radicular cysts and keratocystic odontogenic tumors",{"VOID":137},{"VOID":351},"Nair P, Sundqvist G, Sjogren U: Experimental evidence supports the abscess theory of development of radicular cysts. Oral Surg Oral Med Oral Pathol Oral Radiol Endod. 2008, 106: 294-303. 10.1016\u002Fj.tripleo.2008.04.009.\nNair P: On the causes of persistent apical periodontitis: a review. Int Endod J. 2006, 39: 249-81. 10.1111\u002Fj.1365-2591.2006.01099.x.\nLoyola A, Cardoso V, Lisa G, Oliveira L, Mesquita R, Carmo M, Aguiar M: Apoptosis in epithelial cells of apical radicular cysts. Int Endod J. 2005, 38: 465-469. 10.1111\u002Fj.1365-2591.2005.00971.x.\nMoreria P, Santos D, Martins R, Gomez R: CD57+ cells in radicular cysts. Int Endod J. 2000, 33: 99-102. 10.1046\u002Fj.1365-2591.2000.00276.x.\nHayashi M, Obsbima T, Obsbima M, Yamaguchi Y, Miyata H, Takeichi O, Ogiso B, Ito K, Ostman A, Otsuka K: Profiling of radicular cyst and odontogenic keratocyst cytokine production suggests common growth. J Endod. 2008, 34: 14-21. 10.1016\u002Fj.joen.2007.08.020.\nNeville B, Damm D, Allen C, Bouquot J: Oral and Maxillofacial Pathology. 2009, Philadelphia: W.B. Saunders, 683-3\nAmorim R, Godoy G, Galvão H, Souza L, Freitas R: Immunohistochemical assessment of extracellular matrix components in syndrome and non-syndrome odontogenic keratocyst. Oral Disease. 2004, 10: 265-270. 10.1111\u002Fj.1601-0825.2004.01023.x.\nKimi K, Ohki K, Kumamoto H: Immunohistochemical analysis of cell cycle and apoptosis related factors in lining epithelium of odontogenic keratocyst. J Oral Pathol Med. 2001, 30: 434-443. 10.1034\u002Fj.1600-0714.2001.300709.x.\nDa Silva M, De Sousa S, Correa L, Carvalhosa A, De Araujo V: Immunohistochemical study of the orthokeratinized odontogenic cyst: a comparison with the odontogenic keratocyst. Oral Surg Oral Med Oral Pathol Oral Radiol Endod. 2002, 94: 732-7. 10.1067\u002Fmoe.2002.125199.\nPoomsawat S, Punyasingh J, Vejchapipat P: Expression of basement membrane components in odontogenic tumors. Oral Surg Oral Med Oral Pathol Oral Radiol Endod. 2007, 104: 666-75. 10.1016\u002Fj.tripleo.2006.08.025.\nPoomsawat S, Punyasingh J, Weerapradist W: Expression of basement membrane components in odontogenic cysts. Oral Diseases. 2006, 12: 290-96. 10.1111\u002Fj.1601-0825.2005.01193.x.\nDe Arcangelis A, Lefebvre O, Mechine-Neuville A, Arnold C, Kline A, Remy L: Overexpression of laminin alpha1 chain in colonic cancer cells induces an increase in tumor growth. Int J Cancer. 2001, 94: 44-53. 10.1002\u002Fijc.1444.\nScholzen T, Gerdens J: The Ki-67 protein from the known and the unknown. J cell Physiol. 2000, 182: 311-22. 10.1002\u002F(SICI)1097-4652(200003)182:3\u003C311::AID-JCP1>3.0.CO;2-9.\nPoomsawat S, Punyasingh J, Weerapradist W: Expression of basement membrane components in odontogenic cysts. Oral Diseases. 2006, 12: 290-96. 10.1111\u002Fj.1601-0825.2005.01193.x.\nFuruyama A, Takeshi Hosokawa T, Mochitate K: Interleukin-1β and tumor necrosis factor-α have opposite effects on fibroblasts and epithelial cells during basement membrane formation. Matrix Biology. 2008, 27: 429-440. 10.1016\u002Fj.matbio.2008.02.005.\nAmorim R, Godoy G, Galvão H, Souza L, Freitas R: Immunohistochemical assessment of extracellular matrix component in syndrome & non-syndrome odontogenic keratocyst. Oral Disease. 2004, 10: 265-270. 10.1111\u002Fj.1601-0825.2004.01023.x.\nGurgel C, Ramos E, Melo L, chlaepfer C, De Souza R, Oliveira M, Santos J: Immunolocalisation of laminin-1 in Keratocystic odontogenic tumor. Acta Histochem. 2009, (Journal Article).\nWilloughbya S, Hoppsa R, Johnson N: Changes in the rate of epithelial proliferation of rat oral mucosa in response to acute inflammation induced by turpentine. Archives of Oral Biology. 1986, 31: 193-199. 10.1016\u002F0003-9969(86)90127-5.\nKichi E, Enokiya Y, Muramatsu T, Hashimoto S, Inoue T, Abiko Y, Shimono M: Cell proliferation, apoptosis and apoptosis-related factors in OKC & DC. J Oral Pathol Med. 2005, 34: 280-6. 10.1111\u002Fj.1600-0714.2005.00314.x.\nThe pre-publication history for this paper can be accessed here:http:\u002F\u002Fwww.biomedcentral.com\u002F1472-6890\u002F11\u002F4\u002Fprepub",{"VOID":353},"10.1186\u002F1472-6890-11-4","2024-05-07T19:08:00.440+00:00","https:\u002F\u002Fbmcclinpathol.biomedcentral.com\u002Farticles\u002F10.1186\u002F1472-6890-11-4",[357,373,388],{"id":358,"sortIndex":19,"researcher":18,"roles":359,"affiliations":361,"properties":370,"displayName":372,"givenName":18,"familyName":18},"aecb9d03-30a0-4c33-a1f5-b40323cb38c8",[360],"AUTHOR",[362],{"id":363,"sortIndex":19,"affiliation":364,"properties":18},"9f3dec7d-63c2-4b68-a781-ed1cffeed24b",{"id":363,"createTime":18,"updateTime":18,"relativeEntities":365,"slug":18,"properties":366,"entityType":18,"verifyStatus":18,"verifyTime":18,"verifyNote":18,"languages":18,"translateLanguages":18,"viewCount":18,"url":18,"parentIds":369,"statistic":18},[],{"title":367},{"VI":368},"Professor, Oral Pathology Department, Faculty of Dentistry, Ain Shams University, Cairo, Egypt",[],{"title":371},{"VI":372},"Mohamed S Ayoub",{"id":374,"sortIndex":101,"researcher":18,"roles":375,"affiliations":376,"properties":385,"displayName":387,"givenName":18,"familyName":18},"d43741ba-4fdb-42fa-9db3-fa65e8b528ba",[360],[377],{"id":378,"sortIndex":19,"affiliation":379,"properties":18},"8704d00c-73be-4af9-bcca-3ae8e1a0f907",{"id":378,"createTime":18,"updateTime":18,"relativeEntities":380,"slug":18,"properties":381,"entityType":18,"verifyStatus":18,"verifyTime":18,"verifyNote":18,"languages":18,"translateLanguages":18,"viewCount":18,"url":18,"parentIds":384,"statistic":18},[],{"title":382},{"VI":383},"Associate Professor, Oral Pathology Department, Faculty of Dentistry, Ain Shams University, Cairo, Egypt",[],{"title":386},{"VI":387},"Houry M Baghdadi",{"id":389,"sortIndex":102,"researcher":18,"roles":390,"affiliations":391,"properties":400,"displayName":402,"givenName":18,"familyName":18},"0dad0ff0-2f46-4016-b398-33c6df568e8b",[360],[392],{"id":393,"sortIndex":19,"affiliation":394,"properties":18},"9de37146-e465-4e23-a7ea-c3063e73e1de",{"id":393,"createTime":18,"updateTime":18,"relativeEntities":395,"slug":18,"properties":396,"entityType":18,"verifyStatus":18,"verifyTime":18,"verifyNote":18,"languages":18,"translateLanguages":18,"viewCount":18,"url":18,"parentIds":399,"statistic":18},[],{"title":397},{"VI":398},"Assistant Lecturer, Oral Pathology Department, Faculty of Dental Surgery, Modern Science and Arts University, Cairo, Egypt",[],{"title":401},{"VI":402},"Moataz El-Kholy",{"url":355,"publisher":404,"properties":437},{"id":6,"createTime":7,"updateTime":8,"relativeEntities":405,"slug":10,"properties":406,"entityType":16,"verifyStatus":17,"verifyTime":18,"verifyNote":18,"languages":18,"translateLanguages":18,"viewCount":19,"subjectFields":409,"manageAffiliations":418,"indexDatabases":424,"url":60,"thumbnailPath":18,"statistic":432,"gsStatistic":18,"type":122,"analyzePriority":18},[],{"issn":407,"title":408},{"VOID":13},{"EN":15},[410,414],{"id":22,"createTime":18,"updateTime":18,"relativeEntities":411,"label":412,"description":413,"parentId":18,"standard":18,"scholarHubFieldId":18},[],{"EN":25},{},{"id":28,"createTime":18,"updateTime":18,"relativeEntities":415,"label":416,"description":417,"parentId":18,"standard":18,"scholarHubFieldId":18},[],{"EN":31},{},[419],{"id":35,"createTime":18,"updateTime":18,"relativeEntities":420,"slug":18,"properties":421,"entityType":18,"verifyStatus":18,"verifyTime":18,"verifyNote":18,"languages":18,"translateLanguages":18,"viewCount":18,"url":18,"parentIds":423,"statistic":18},[],{"title":422},{"EN":39},[],[425],{"id":43,"indexDatabase":426,"url":54,"indexYears":55,"academicFieldIds":431,"indexDatabaseRanking":59},{"id":45,"createTime":18,"updateTime":18,"relativeEntities":427,"label":428,"description":429,"key":51,"publicationTags":430,"standard":18},[],{"EN":48,"VI":48},{"EN":48,"VI":50},[53],[57,58],{"impactFactor":19,"impactFactorByYear":433,"i10Index":70,"i10IndexLast5Year":19,"totalPublication":71,"totalPublicationByYear":434,"totalCitation":86,"totalCitationByYear":435,"totalCitationPerPublication":103,"totalCitationPerPublicationByYear":436,"hindexLast5Year":121,"hindex":121},{"2013":63,"2014":64,"2015":65,"2016":65,"2017":66,"2018":67,"2019":68,"2021":69},{"2001":73,"2002":74,"2003":75,"2005":76,"2006":76,"2007":77,"2008":78,"2009":79,"2010":74,"2011":79,"2012":80,"2013":81,"2014":82,"2015":78,"2016":83,"2017":84,"2018":85,"2019":74},{"2001":88,"2002":89,"2003":90,"2005":91,"2006":92,"2007":93,"2008":94,"2009":95,"2011":77,"2012":96,"2013":97,"2014":98,"2015":99,"2016":90,"2017":100,"2018":101,"2019":102},{"2001":79,"2002":105,"2003":106,"2005":107,"2006":108,"2007":109,"2008":110,"2009":111,"2011":112,"2012":113,"2013":114,"2014":115,"2015":116,"2016":117,"2017":118,"2018":119,"2019":120},{"pages":438,"volume":440},{"VOID":439},"1-6",{"VOID":441},"11","2011-03-02",2011,"2026-01-10T16:15:32.767+00:00",[59],{"id":447,"createTime":448,"updateTime":449,"relativeEntities":450,"slug":451,"properties":452,"entityType":148,"verifyStatus":149,"verifyTime":449,"verifyNote":151,"languages":18,"translateLanguages":18,"viewCount":19,"primaryUrl":461,"fullTextUrl":18,"authors":462,"publicationType":235,"publisherRelationship":573,"citationCount":18,"citationInfo":18,"publishDate":612,"publishYear":613,"citationAnalyzeStatus":17,"lastCitationAnalyze":18,"indexDatabases":614,"openAccess":18,"references":18,"isForceReanalyzing":337},"7d8d8646-e86a-4e1c-b521-c265ce44dc82","2024-01-26T01:19:58.104+00:00","2025-02-26T16:24:50.748+00:00",[],"High-expression-of-EphA3-erythropoietin-producing-hepatocellular-A3-in-gastric-cancer-is-associated-with-metastasis-and-poor-survival",{"abstract":453,"title":455,"references":457,"doi":459},{"EN":454},"As the major subfamily of receptor tyrosine, erythropoietin-producing hepatocellular (Eph) receptor has been related to progression and prognosis in different types of tumors. However, the role and mechanism of EPHA3 in gastric cancer is still not well understood. Specimen were collected from 202 patients who underwent gastric resection for gastric adenocarcinoma. The expression of EphA3 was studied using immunohistochemistry. We analyzed the clinicopathological factors and prognostic relevance of EphA3 expression in gastric cancer. High expression of EphA3 was associated with male predominance (p = 0.031), differentiated histology (p \u003C 0.001), depth of tumor (p = 0.002), lymph node metastasis (p = 0.001), distant metastasis (p = 0.021), liver metastasis (p = 0.024), advanced stage (p \u003C 0.001), and high HER2 expression (p = 0.017). Relapse-free survival (RFS) was significantly worse in patients with high expression of EphA3 than in those with low expression of EphA3 (p = 0.014). Multivariate analysis for RFS showed that depth of tumor [hazard ratio (HR) 9.333, 95% confidence interval (CI) 2.183–39.911, p = 0.003] and lymph node metastasis [hazard ratio (HR) 5.734, 95% confidence interval (CI) 2.349–13.997, p \u003C 0.001] were independent prognostic factors. These findings suggest that high expression EphA3 may participate in metastasis and worse survival.",{"EN":456},"High expression of EphA3 (erythropoietin-producing hepatocellular A3) in gastric cancer is associated with metastasis and poor survival",{"VOID":458},"Global Cancer Statistic. GLOBOCAN 2012: Estimated Cancer Incidence, Mortality and Prevalence Worldwide in 2012. http:\u002F\u002Fglobocan.iarc.fr\u002FDefault.aspx.\nAmerican Cancer Society’s publication, Cancer Fact & Figures 2015.\nGravalos C, Jimeno A. HER-2 in gastric cancer: a new prognostic factor and a novel therapeutic target. Ann Oncol. 2008;19(9):1523–9.\nBang YJ, Van Cutsem E, Feyereislova A, et al. ToGA Trial Investigators. Trastuzumab in combination with chemotherapy versus chemotherapy alone for treatment of HER-2 positive advanced gastric or gastro-oesophageal junction cancer (ToGA): a phase 3, open-label, randomized controlled trial. Lancet. 2010;376:687–97.\nBoyd AW, Bartlett PF, Lackmann M. Therapeutic targeting of EPH receptors and their ligands. Nat Rev Drug Discov. 2014;13:39–62.\nNoren NK, Foos G, Hauser CA, Pasquale EB. The EphB4 receptor suppresses breast cancer cell tumorigenicity through an Abl-Crk pathway. Nat Cell Biol. 2006;8:815–25.\nGenander M, Halford MM, Xu NJ, Eriksson M, Yu Z, Qiu Z, et al. Dissociation of EphB2 signaling pathways mediating progenitor cell proliferation and tumor suppression. Cell. 2009;139:679–92.\nDay BW, Stringer BW, Al-Ejeh F, Ting MJ, Wilson J, Ensbey KS, et al. EphA3 maintains tumorigenicity and is a therapeutic target in glioblastoma multiforme. Cancer Cell. 2013;23:238–48.\nStephen LJ, Fawkes AL, Verhoeve A, Lemke G, Brown A. A critical role for the EphA3 receptor tyrosine kinase in heart development. Dev Biol. 2007;302:66–79.\nKeane N, Freeman C, Swords R, Giles FJ. EPHA3 as a novel therapeutic target in the hematological malignancies. Expert Rev Hematol. 2012;5:325–40.\nNakagawa M, Inokuchi M, Takagi Y, Kato K, Sugita H, Otsuki S, Kojima K, Uetake H, Sugihara K. Erythropoietin-producing hepatocellular A1 is an Independent prognostic factor for gastric cancer. Ann Surg Oncol. 2015;22(7):2329–35.\nMiyazaki K, Inokuchi M, Takagi Y, Kato K, Kojima K, Sugihara K. EphA4 is a prognostic factor in gastric cancer. BMC Clin Pathol. 2013;13(1):19. Oates AC, Lackmann M, Power MA, Brennan C, Down LM, Do C, et al.\nLu CY, Yang ZX, Zhou L, Huang ZZ, et al. High levels of EphA3 expression are associated with high invasive capacity and poor overall survival in hepatocellular carcinoma. Oncol Rep. 2013;30(5):2179–86.\nZhuang G, Song W, Amato K, Hwang Y, et al. Effects of cancer-associated EPHA3 mutations on lung cancer. J Natl Cancer Inst. 2012;104(15):1182–97.\nXi H-Q, Wu X-S, Wei B, Lin C. Aberrant expression of EphA3 in gastric carcinoma: correlation with tumor angiogenesis and survival. J Gastroenterol. 2012;47(7):785–94.\nOates AC, Lackmann M, Power MA, Brennan C. An early developmental role for eph-ephrin interaction during vertebrate gastrulation. Mech Dev. 1999;83:77–94.\nXi HQ, Zhao P. Clinicopathological significance and prognostic value of EphA3 and CD133 expression in colorectal carcinoma. J Clin Pathol. 2011;64(6):498–503.\nWu R, Wang H, Wang J, et al. EphA3, induced by PC-1\u002FPrLZ, contributes to the malignant progression of prostate cancer. Oncol Rep. 2014;32(6):2657–65.\nPasquale EB. Eph receptors and ephrins in cancer: bidirectional signaling and beyond. Nat Rev Cancer. 2010;10:165–80.\nDavies H, Hunter C, Smith R, et al. Somatic mutations of the protein kinase gene family in human lung cancer. Cancer Res. 2005;65:7591–5.\nBardelli A, Parsons DW, Silliman N, et al. Mutational analysis of the tyrosine kinome in colorectal cancers. Science. 2003;300(5621):949.\nLee JS, Thorgeirsson SS. Comparative and integrative functional genomics of HCC. Oncogene. 2006;25(27):3801–9. Lai KO, Chen Y, Po HM, Lok KC, Gong K et al.\nPasquale EB. Eph-ephrins bidirectional signaling in physiology and disease. Cell. 2008;133(1):38–52.\nIdentification of the Jak\u002FStat proteins as novel downstream targets of EphA4 signaling in muscle: implications in the regulation of acetylcholinesterase expression. J Biol Chem. 2004; 279(14):13383–92",{"VOID":460},"10.1186\u002Fs12907-017-0047-y","https:\u002F\u002Fbmcclinpathol.biomedcentral.com\u002Farticles\u002F10.1186\u002Fs12907-017-0047-y",[463,478,493,506,519,534,547,560],{"id":464,"sortIndex":19,"researcher":18,"roles":465,"affiliations":466,"properties":475,"displayName":477,"givenName":18,"familyName":18},"2f5f5b56-ebcd-479e-8782-d181098bbdf8",[360],[467],{"id":468,"sortIndex":19,"affiliation":469,"properties":18},"254a04fa-1969-460e-b65a-64d33b31d086",{"id":468,"createTime":18,"updateTime":18,"relativeEntities":470,"slug":18,"properties":471,"entityType":18,"verifyStatus":18,"verifyTime":18,"verifyNote":18,"languages":18,"translateLanguages":18,"viewCount":18,"url":18,"parentIds":474,"statistic":18},[],{"title":472},{"VI":473},"Matsuzawa Hospital, Tokyo, Japan",[],{"title":476},{"VI":477},"Baongoc Nasri",{"id":479,"sortIndex":101,"researcher":18,"roles":480,"affiliations":481,"properties":490,"displayName":492,"givenName":18,"familyName":18},"1373c8a8-b30d-4c1f-a709-23827a4e7650",[360],[482],{"id":483,"sortIndex":19,"affiliation":484,"properties":18},"6ea8e144-6899-4e61-a855-9593efed1eee",{"id":483,"createTime":18,"updateTime":18,"relativeEntities":485,"slug":18,"properties":486,"entityType":18,"verifyStatus":18,"verifyTime":18,"verifyNote":18,"languages":18,"translateLanguages":18,"viewCount":18,"url":18,"parentIds":489,"statistic":18},[],{"title":487},{"VI":488},"Department of Surgical Oncology, Graduate School, Tokyo Medical and Dental University, Tokyo, Japan",[],{"title":491},{"VI":492},"Mikito 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Takagi",{"id":535,"sortIndex":75,"researcher":18,"roles":536,"affiliations":537,"properties":544,"displayName":546,"givenName":18,"familyName":18},"6ea0fc8c-7f1a-4ef1-b383-fdc09f670b04",[360],[538],{"id":483,"sortIndex":19,"affiliation":539,"properties":18},{"id":483,"createTime":18,"updateTime":18,"relativeEntities":540,"slug":18,"properties":541,"entityType":18,"verifyStatus":18,"verifyTime":18,"verifyNote":18,"languages":18,"translateLanguages":18,"viewCount":18,"url":18,"parentIds":543,"statistic":18},[],{"title":542},{"VI":488},[],{"title":545},{"VI":546},"Sho 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in situ hybridization (CISH) is fast becoming a well established technique for easy and sensitive determination of HER2 gene status in breast cancer. However, for the chromogenic method to achieve status as a safe and reliable technique, the method needs to be validated against already known and validated FISH techniques. Here it is reported from a comparative study where HER2 gene status obtained by HER2 CISH pharmDx™ Kit was compared to HER2 gene status obtained by the FDA approved HER2 FISH pharmDx™ Kit and the PathVysion HER-2 DNA probe Kit. The study included 365 formalin fixed and paraffin-embedded invasive breast cancer tissue specimens collected consecutively at a US reference laboratory. The data obtained revealed an overall HER2 status concordance of approximately 98% for comparisons of HER2 CISH pharmDx™ Kit to both HER2 FISH pharmDx™ Kit and PathVysion HER-2 DNA Probe Kit. The concordance between results obtained using the recently FDA approved HER2 CISH pharmDx™ Kit with previously FDA approved FISH techniques for HER2 gene status determination indicate that the HER2 CISH pharmDx™ Kit is a reliable chromogenic alternative to fluorescence-based methods.",{"EN":625},"Dual color chromogenic in situ hybridization for determination of HER2 status in breast cancer: a large comparative study to current state of the art fluorescence in situ hybridization",{"VOID":627},"Ross JS, Slodkowska EA, Symmans WF, Pusztai L, Ravdin PM, Hortobagyi GN: The HER-2 receptor and breast cancer: ten years of targeted anti-HER-2 therapy and personalized medicine. Oncologist. 2009, 14 (4): 320-368. 10.1634\u002Ftheoncologist.2008-0230.\nSlamon DJ, Clark GM, Wong SG, Levin WJ, Ullrich A, McGuire WL: Human breast cancer: correlation of relapse and survival with amplification of the HER-2\u002Fneu oncogene. Science. 1987, 235 (4785): 177-182. 10.1126\u002Fscience.3798106.\nRoss JS, Fletcher JA: The HER-2\u002Fneu oncogene in breast cancer: prognostic factor, predictive factor, and target for therapy. Stem Cells. 1998, 16 (6): 413-428. 10.1002\u002Fstem.160413.\nKallioniemi OP, Kallioniemi A, Kurisu W, Thor A, Chen LC, Smith HS, Waldman FM, Pinkel D, Gray JW: ERBB2 amplification in breast cancer analyzed by fluorescence in situ hybridization. Proc Natl Acad Sci USA. 1992, 89 (12): 5321-5325. 10.1073\u002Fpnas.89.12.5321.\nTanner M, Gancberg D, Di LA, Larsimont D, Rouas G, Piccart MJ, Isola J: Chromogenic in situ hybridization: a practical alternative for fluorescence in situ hybridization to detect HER-2\u002Fneu oncogene amplification in archival breast cancer samples. Am J Pathol. 2000, 157 (5): 1467-1472. 10.1016\u002FS0002-9440(10)64785-2.\nBhargava R, Lal P, Chen B: Chromogenic in situ hybridization for the detection of HER-2\u002Fneu gene amplification in breast cancer with an emphasis on tumors with borderline and low-level amplification: does it measure up to fluorescence in situ hybridization?. Am J Clin Pathol. 2005, 123 (2): 237-243. 10.1309\u002FC4PEBGB9LN830TVL.\nArnould L, Denoux Y, MacGrogan G, Penault-Llorca F, Fiche M, Treilleux I, Mathieu MC, Vincent-Salomon A, Vilain MO, Couturier J: Agreement between chromogenic in situ hybridisation (CISH) and FISH in the determination of HER2 status in breast cancer. Br J Cancer. 2003, 88 (10): 1587-1591. 10.1038\u002Fsj.bjc.6600943.\nLambros MB, Natrajan R, Reis-Filho JS: Chromogenic and fluorescent in situ hybridization in breast cancer. Hum Pathol. 2007, 38 (8): 1105-1122. 10.1016\u002Fj.humpath.2007.04.011.\nRoss JS, Fletcher JA, Bloom KJ, Linette GP, Stec J, Symmans WF, Pusztai L, Hortobagyi GN: Targeted therapy in breast cancer: the HER-2\u002Fneu gene and protein. Molecular Cell Proteomics. 2004, 3 (4): 379-398. 10.1074\u002Fmcp.R400001-MCP200.\nArena V, Pennacchia I, Vecchio FM, Carbone A: \"CISH the FISH\" for HER2: our laboratory experience. Am J Clin Pathol. 2010, 134 (2): 347-348. 10.1309\u002FAJCPVH1IGEG8CPXB.\nBrown LD, Cai T, DasGupta A: Interval Estimation for a Binomial Proportion. Stat Sci. 2001, 16 (2): 101-133.\nDendukuri N, Khetani K, McIsaac M, Brophy J: Testing for HER2-positive breast cancer: a systematic review and cost-effectiveness analysis. CMAJ. 2007, 176 (10): 1429-1434. 10.1503\u002Fcmaj.061011.\nCohen J: A Coefficient of Agreement for Nominal Scales. Educ Psychol Meas. 1960, 20 (1): 37-46. 10.1177\u002F001316446002000104.\nDwyer AJ: Matchmaking and McNemar in the comparison of diagnostic modalities. Radiology. 1991, 178 (2): 328-330.\nGarcía-Caballero T, Grabau D, Green AR, Gregory J, Schad A, Kohlwes E, Ellis IO, Watts S, Mollerup J: Determination of HER2 amplification in primary breast cancer using dual-color chromogenic in situ hybridization is comparable to fluorescence in situ hybridization: a European multicenter study involving 168 specimens. Histopathology. 2010, 56: 472-480. 10.1111\u002Fj.1365-2559.2010.03503.x.\nPedersen M, Rasmussen BB: The correlation between dual-color chromogenic in situ hybridization and fluorescence in situ hybridization in assessing HER2 gene amplification in breast cancer. Diagn Mol Pathol. 2009, 18 (2): 96-102. 10.1097\u002FPDM.0b013e31817f5227.\nHoff K, Jorgensen JT, Muller S, Rongaard E, Rasmussen O, Schonau A: Visualization of FISH Probes by dual-color chromogenic in situ hybridization. Am J Clin Pathol. 2009, 133 (2): 205-211.\nKato N, Itoh H, Serizawa A, Hatanaka Y, Umemura S, Osamura RY: Evaluation of HER2 gene amplification in invasive breast cancer using a dual-color chromogenic in situ hybridization (dual CISH). Pathol Int. 2010, 60 (7): 510-515. 10.1111\u002Fj.1440-1827.2010.02553.x.\nDandachi N, Dietze O, Hauser-Kronberger C: Chromogenic in situ hybridization: a novel approach to a practical and sensitive method for the detection of HER2 oncogene in archival human breast carcinoma. Lab Invest. 2002, 82 (8): 1007-1014.\nThe pre-publication history for this paper can be accessed here:http:\u002F\u002Fwww.biomedcentral.com\u002F1472-6890\u002F12\u002F3\u002Fprepub",{"VOID":629},"10.1186\u002F1472-6890-12-3","https:\u002F\u002Fbmcclinpathol.biomedcentral.com\u002Farticles\u002F10.1186\u002F1472-6890-12-3",[632,647,660,673],{"id":633,"sortIndex":19,"researcher":18,"roles":634,"affiliations":635,"properties":644,"displayName":646,"givenName":18,"familyName":18},"b301d8f2-87de-44d2-a012-6fc1edc2c6a5",[360],[636],{"id":637,"sortIndex":19,"affiliation":638,"properties":18},"9919ad3c-65fd-45fe-9126-77cd9f876a45",{"id":637,"createTime":18,"updateTime":18,"relativeEntities":639,"slug":18,"properties":640,"entityType":18,"verifyStatus":18,"verifyTime":18,"verifyNote":18,"languages":18,"translateLanguages":18,"viewCount":18,"url":18,"parentIds":643,"statistic":18},[],{"title":641},{"VI":642},"Dako Denmark A\u002FS, Glostrup, Denmark",[],{"title":645},{"VI":646},"Jens 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T-cell lymphoma is one of the most common types of peripheral T-cell lymphomas, usually presenting at an older age with an aggressive clinical course. Its characteristic morphological presentation and follicular helper T-cell phenotype help to distinguish it from other T-cell lymphomas. We recently encountered the unique case of a 63-year old patient with relapsed tumour-cell rich angioimmunoblastic T-cell lymphoma, presenting with a “classical” phenotype and, in addition, an acquired, strong, aberrant expression of CD20. “Lineage infidelity” of phenotypic markers is a well-documented phenomenon in lymphomas and leukemias, a circumstance currently still poorly understood and with the potential to bring about erroneous interpretations, causing diagnostic havoc. This case represents one of the few documented angioimmunoblastic T-cell lymphomas with strong CD20 expression. Of interest, CD20 expression was only detected in the recurrent lymphoma and not upon initial diagnosis. The clinical importance of this finding lies in the potential for treatment with an anti-CD20 antibody, for instance Rituximab, in addition to standard chemotherapy protocols for angioimmunoblastic T-cell lymphoma. Diagnostic work-up of lymphomas to determine their lineage should therefore consider morphology, pheno- as well as genotypic characteristics, where appropriate, and in particular signs of progression and change in marker profile in relapsed cases e.g. acquisition of “non-lineage” markers such as CD20 in T-cell lymphoma.",{"EN":737},"Relapsed angioimmunoblastic T-cell lymphoma with acquired expression of CD20: a case report and review of the literature",{"VOID":739},"Rudiger T, Weisenburger DD, Anderson JR, Armitage JO, Diebold J, MacLennan KA, Nathwani BN, Ullrich F, Müller-Hermelink HK: Peripheral T-cell lymphoma (excluding anaplastic large cell lymphoma): Results from the Non-Hodgkin’s Lymphoma Classification Project. Ann Oncol. 2002, 13: 140-149. 10.1093\u002Fannonc\u002Fmdf033.\nMourad N, Mounier N, Brière J, Raffoux E, Delmer A, Feller A, Meijer CJ, Emile JF, Bouabdallah R, Bosly A, Diebold J, Haioun C, Coiffier B, Gisselbrecht C, Gaulard P: Clinical, biologic, and pathologic features in 157 patients with angioimmunoblastic T-cell lymphoma treated within the Groupe d’Étude des Lymphomes de l’Adulte (GELA) trials. Blood. 2008, 111: 4463-4470. 10.1182\u002Fblood-2007-08-105759.\nde Leval L, Rickman DS, Thielen C, Reynies A, Huang YL, Delsol G, Lamant L, Leroy K, Brière J, Molina T, Berger F, Gisselbrecht C, Xerri L, Gaulard P: The gene expression profile of nodal peripheral T-cell lymphoma demonstrates a molecular link between angioimmunoblastic T-cell lymphoma (AITL) and follicular helper T (FHT) cells. Blood. 2007, 109: 4952-4963. 10.1182\u002Fblood-2006-10-055145.\nVinuesa CG, Tangye SG, Moser B, Mackay CR: Follicular B helper T cells in antibody responses and autoimmunity. Nat Rev Immunol. 2005, 5: 853-865. 10.1038\u002Fnri1714.\nRahemtullah A, Longtine JA, Harris NL, Dorn M, Zembowicz A, Quintanilla-Fend L, Preffer FI, Ferry JA: CD20+ T-cell lymphoma: clinicopathologic analysis of 9 cases and a review of the literature. Am J Surg Pathol. 2008, 32: 1593-1607. 10.1097\u002FPAS.0b013e31817d7452.\nMeier VS, Rufle A, Gudat F: Simultaneous evaluation of T- and B-cell clonality, t(11;14) and t(14;18), in a single reaction by a four-color multiplex polymerase chain reaction assay and automated high-resolution fragment analysis: a method for the rapid molecular diagnosis of lymphoproliferative disorders applicable to fresh frozen and formalin-fixed, paraffin-embedded tissues, blood, and bone marrow aspirates. Am J Pathol. 2001, 159: 2031-43. 10.1016\u002FS0002-9440(10)63055-6.\nYokose N, Ogata K, Sugisaki Y, Mori S, Yamada T, An E, Dan K: CD20-positive T cell leukemia\u002Flymphoma: case report and review of the literature. Ann Hematol. 2001, 80: 372-375. 10.1007\u002Fs002770100297.\nTachibana T, Tomita N, Furuya M, Yamanaka S, Takeuchi K, Nakamura N, Fujita H, Ishigatsubo Y: Aberrant CD20 expression in angioimmunoblastic T-cell lymphoma. Intern Med. 2011, 50: 495-499. 10.2169\u002Finternalmedicine.50.4386.\nFoukas PG, Kefala M, Papageorgiou S, Tsirigotis P, Panayiotidis P, Korkolopoulou P, Spathis A, Dervenoulas J, Patsouris E, Karakitsos P, Panayiotides IG: CD20 expression in angioimmunoblastic T cell lymphoma. Leuk Lymphoma. 2012, 53: 345-347. 10.3109\u002F10428194.2011.602768.\nBlakolmer K, Vesely M, Kummer JA, Jurecka W, Mannhalter C, Chott A: Immunoreactivity of B-cell markers (CD79a, L26) in rare cases of extranodal cytotoxic peripheral T- (NK\u002FT-) cell lymphomas. Mod Pathol. 2001, 13: 766-772.\nKaleem Z, White G, Zutter MM: Aberrant expression of T-cell-associated antigens on B-cell non-Hodgkin lymphomas. Am J Clin Pathol. 2001, 115: 396-403. 10.1309\u002FV8YG-8PP4-B4TE-9X6J.\nWent P, Agostinelli C, Gallamini A: Marker expression in peripheral T-cell lymphoma: a proposed clinical-pathologic prognostic score. J Clin Oncol. 2006, 24: 2472-2479. 10.1200\u002FJCO.2005.03.6327.\nTzankov AS, Went PT, Münst S, Papadopoulos T, Jundt G, Dirnhofer SR: Rare expression of BSAP (PAX-5) in mature T-cell lymphomas. Mod Pathol. 2007, 20: 632-637. 10.1038\u002Fmodpathol.3800778.\nMurayama Y, Mukai R, Sata T, Matsunaga S, Noguchi A, Yoshikawa Y: Transient expression of CD20 antigen (pan B cell marker) in activated lymph node T cells. Microbiol Immunol. 1996, 40: 467-471.\nJoly E, Hudrisier D: What is trogocytosis and what is its purpose?. Nat Immunol. 2003, 4: 815-10.1038\u002Fni0903-815.\nHwang I, Huang JF, Kishimoto H, Brunmark A, Peterson PA, Jackson MR, Surh CD, Cai Z, Sprent J: T cells can use either T cell receptor or CD28 receptors to absorb and internalize cell surface molecules derived from antigen-presenting cells. J Exp Med. 2000, 191: 1137-1148. 10.1084\u002Fjem.191.7.1137.\nMaloney DG: Anti-CD20 antibody therapy for B-cell lymphomas. New Engl J Med. 2012, 366: 2008-2016. 10.1056\u002FNEJMct1114348.\nAlizadeh AA, Advani RH: Evaluation and management of angioimmunoblastic T-cell lymphoma: a review of current approaches and future strategies. Clin Adv Hematol Oncol. 2008, 6: 899-909.\nDelfau-Larue MH, de Leval L, Joly B, Plonquet A, Challine D, Parrens M, Delmer A, Salles G, Morschhauser F, Delarue R, Brice P, Bouabdallah R, Casasnovas O, Tilly H, Gaulard P, Haioun C: Targeting intratumoral B-cells with Rituximab in addition to CHOP in angioimmunoblastic T-cell lymphoma. A clinicobiological study of the GELA. Haematol. 2012, 97: 1594-602. 10.3324\u002Fhaematol.2011.061507.\nKarin M: Nuclear factor-kappaB in cancer development and progression. Nature. 2006, 441: 431-436. 10.1038\u002Fnature04870.\nThe pre-publication history for this paper can be accessed here:http:\u002F\u002Fwww.biomedcentral.com\u002F1472-6890\u002F13\u002F18\u002Fprepub",{"VOID":741},"10.1186\u002F1472-6890-13-18","https:\u002F\u002Fbmcclinpathol.biomedcentral.com\u002Farticles\u002F10.1186\u002F1472-6890-13-18",[744,759,774,789],{"id":745,"sortIndex":19,"researcher":18,"roles":746,"affiliations":747,"properties":756,"displayName":758,"givenName":18,"familyName":18},"a4824976-7dfd-4f6b-9225-1828f808844e",[360],[748],{"id":749,"sortIndex":19,"affiliation":750,"properties":18},"0774234f-f0b3-44b5-97ca-dbdd7a6acf72",{"id":749,"createTime":18,"updateTime":18,"relativeEntities":751,"slug":18,"properties":752,"entityType":18,"verifyStatus":18,"verifyTime":18,"verifyNote":18,"languages":18,"translateLanguages":18,"viewCount":18,"url":18,"parentIds":755,"statistic":18},[],{"title":753},{"VI":754},"Institute of Pathology, University of Bern, Bern, 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Muscle Nerve. 2006, 33: 424-432. 10.1002\u002Fmus.20480.",{"doi":1188},"10.1002\u002Fmus.20480",{"id":18,"text":1190,"url":18,"identifiers":1191},"Gregorio CC, Trombitás K, Centner T, Kolmerer B, Stier G, Kunke K, Suzuki K, Obermayr F, Herrmann B, Granzier H, Sorimachi H, Labeit S: The NH2 terminus of titin spans the Z-disc: its interaction with a novel 19-kD ligand (T-cap) is required for sarcomeric integrity. J Cell Biol. 1998, 143: 1013-1027. 10.1083\u002Fjcb.143.4.1013.",{"doi":1192},"10.1083\u002Fjcb.143.4.1013",{"id":18,"text":1194,"url":18,"identifiers":1195},"Zhang S, Londhe P, Zhang M, Davie JK: Transcriptional analysis of the titin cap gene. Mol Genet Genomics. 2011, 285: 261-272. 10.1007\u002Fs00438-011-0603-6.",{"doi":1196},"10.1007\u002Fs00438-011-0603-6",{"id":18,"text":1198,"url":18,"identifiers":1199},"Vainzof M, Moreira ES, Suzuki OT, Faulkner G, Valle G, Beggs AH, Carpen O, Ribeiro AF, Zanoteli E, Gurgel-Gianneti J, Tsanaclis AM, Silva HC, Passos-Bueno MR, Zatz M: Telethonin protein expression in neuromuscular disorders. Biochim Biophys Acta. 2002, 1588: 33-40. 10.1016\u002FS0925-4439(02)00113-8.",{"doi":1200},"10.1016\u002FS0925-4439(02)00113-8",{"id":1202,"createTime":1203,"updateTime":1204,"relativeEntities":1205,"slug":1206,"properties":1207,"entityType":148,"verifyStatus":149,"verifyTime":1204,"verifyNote":151,"languages":1222,"translateLanguages":18,"viewCount":19,"primaryUrl":1223,"fullTextUrl":18,"authors":1224,"publicationType":235,"publisherRelationship":1370,"citationCount":77,"citationInfo":1407,"publishDate":1409,"publishYear":443,"citationAnalyzeStatus":17,"lastCitationAnalyze":18,"indexDatabases":1410,"openAccess":18,"references":1411,"isForceReanalyzing":337},"5285d642-3160-469a-b37c-deb33bf4d52d","2024-04-20T04:52:11.514+00:00","2025-02-24T00:09:28.537+00:00",[],"Methyl-binding-domain-protein-based-DNA-isolation-from-human-blood-serum-combines-DNA-analyses-and-serum-autoantibody-testing",{"mag":1208,"pmc":1210,"openalex":1212,"abstract":1214,"title":1216,"pm":1218,"doi":1220},{"VOID":1209},"2140813812",{"VOID":1211},"3180258",{"VOID":1213},"W2140813812",{"EN":1215},"\u003Cjats:title>Abstract\u003C\u002Fjats:title>\n          \u003Cjats:sec>\n            \u003Cjats:title>Background\u003C\u002Fjats:title>\n            \u003Cjats:p>Circulating cell free DNA in serum as well as serum-autoantibodies and the serum proteome have great potential to contribute to early cancer diagnostics via non invasive blood tests. However, most DNA preparation protocols destroy the protein fraction and therefore do not allow subsequent protein analyses. In this study a novel approach based on methyl binding domain protein (MBD) is described to overcome the technical difficulties of combining DNA and protein analysis out of one single serum sample.\u003C\u002Fjats:p>\n          \u003C\u002Fjats:sec>\n          \u003Cjats:sec>\n            \u003Cjats:title>Methods\u003C\u002Fjats:title>\n            \u003Cjats:p>Serum or plasma samples from 98 control individuals and 54 breast cancer patients were evaluated upon silica membrane- or MBD affinity-based DNA isolation via qPCR targeting potential DNA methylation markers as well as by protein-microarrays for tumor-autoantibody testing.\u003C\u002Fjats:p>\n          \u003C\u002Fjats:sec>\n          \u003Cjats:sec>\n            \u003Cjats:title>Results\u003C\u002Fjats:title>\n            \u003Cjats:p>In control individuals, an average DNA level of 22.8 ± 25.7 ng\u002Fml was detected applying the silica membrane based protocol and 8.5 ± 7.5 ng\u002Fml using the MBD-approach, both values strongly dependent on the serum sample preparation methods used. In contrast to malignant and benign tumor serum samples, cell free DNA concentrations were significantly elevated in sera of metastasizing breast cancer patients. Technical evaluation revealed that serum upon MBD-based DNA isolation is suitable for protein-array analyses when data are consistent to untreated serum samples.\u003C\u002Fjats:p>\n          \u003C\u002Fjats:sec>\n          \u003Cjats:sec>\n            \u003Cjats:title>Conclusion\u003C\u002Fjats:title>\n            \u003Cjats:p>MBD affinity purification allows DNA isolations under native conditions retaining the protein function, thus for example enabling combined analyses of DNA methylation and autoantigene-profiles from the same serum sample and thereby improving minimal invasive diagnostics.\u003C\u002Fjats:p>\n          \u003C\u002Fjats:sec>",{"EN":1217},"Methyl-binding domain protein-based DNA isolation from human blood serum combines DNA analyses and serum-autoantibody testing",{"VOID":1219},"21896199",{"VOID":1221},"10.1186\u002F1472-6890-11-11",[153],"https:\u002F\u002Fbmcclinpathol.biomedcentral.com\u002Farticles\u002F10.1186\u002F1472-6890-11-11",[1225,1244,1259,1274,1289,1306,1321,1338,1353],{"id":1226,"sortIndex":19,"researcher":18,"roles":1227,"affiliations":1228,"properties":1237,"displayName":1241,"givenName":18,"familyName":18},"4131886b-5ff8-49be-a7bf-9e48708a7b1d",[],[1229],{"id":1230,"sortIndex":19,"affiliation":1231,"properties":18},"96c835cc-1026-46de-9cb5-1d864d66f8c9",{"id":1230,"createTime":18,"updateTime":18,"relativeEntities":1232,"slug":18,"properties":1233,"entityType":18,"verifyStatus":18,"verifyTime":18,"verifyNote":18,"languages":18,"translateLanguages":18,"viewCount":18,"url":18,"parentIds":1236,"statistic":18},[],{"title":1234},{"EN":1235},"Molecular Medicine, Austrian Institute of Technology, Vienna, Austria",[],{"orcid":1238,"title":1240,"openalex":1242},{"VOID":1239},"https:\u002F\u002Forcid.org\u002F0000-0003-4138-1383",{"EN":1241},"Matthias Wielscher",{"VOID":1243},"A5066770644",{"id":1245,"sortIndex":101,"researcher":18,"roles":1246,"affiliations":1247,"properties":1254,"displayName":1256,"givenName":18,"familyName":18},"6fb8ceb4-f0af-4132-8d8c-55442d4c52c5",[],[1248],{"id":1230,"sortIndex":19,"affiliation":1249,"properties":18},{"id":1230,"createTime":18,"updateTime":18,"relativeEntities":1250,"slug":18,"properties":1251,"entityType":18,"verifyStatus":18,"verifyTime":18,"verifyNote":18,"languages":18,"translateLanguages":18,"viewCount":18,"url":18,"parentIds":1253,"statistic":18},[],{"title":1252},{"EN":1235},[],{"title":1255,"openalex":1257},{"EN":1256},"Walter Pulverer",{"VOID":1258},"A5000363344",{"id":1260,"sortIndex":102,"researcher":18,"roles":1261,"affiliations":1262,"properties":1269,"displayName":1271,"givenName":18,"familyName":18},"0efcaa1d-513c-4d95-947e-bfe979bf1d80",[],[1263],{"id":1230,"sortIndex":19,"affiliation":1264,"properties":18},{"id":1230,"createTime":18,"updateTime":18,"relativeEntities":1265,"slug":18,"properties":1266,"entityType":18,"verifyStatus":18,"verifyTime":18,"verifyNote":18,"languages":18,"translateLanguages":18,"viewCount":18,"url":18,"parentIds":1268,"statistic":18},[],{"title":1267},{"EN":1235},[],{"title":1270,"openalex":1272},{"EN":1271},"Johannes R. 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Mol Cell. 2005, 19: 667-678. 10.1016\u002Fj.molcel.2005.07.021.",{"doi":1472},"10.1016\u002Fj.molcel.2005.07.021",{"id":18,"text":1474,"url":18,"identifiers":1475},"Cross SH, Charlton JA, Nan X, Bird AP: Purification of CpG islands using a methylated DNA binding column. Nat Genet. 1994, 6: 236-244. 10.1038\u002Fng0394-236.",{"doi":1476},"10.1038\u002Fng0394-236",{"id":18,"text":1478,"url":18,"identifiers":1479},"Shiraishi M, Chuu YH, Sekiya T: Isolation of DNA fragments associated with methylated CpG islands in human adenocarcinomas of the lung using a methylated DNA binding column and denaturing gradient gel electrophoresis. Proc Natl Acad Sci USA. 1999, 96: 2913-2918. 10.1073\u002Fpnas.96.6.2913.",{"doi":1480},"10.1073\u002Fpnas.96.6.2913",{"id":18,"text":1482,"url":18,"identifiers":1483},"Serre D, Lee BH, Ting AH: MBD-isolated Genome Sequencing provides a high-throughput and comprehensive survey of DNA methylation in the human genome. Nucleic Acids Res. 2010, 38: 391-399. 10.1093\u002Fnar\u002Fgkp992.",{"doi":1484},"10.1093\u002Fnar\u002Fgkp992",{"id":18,"text":1486,"url":18,"identifiers":1487},"Zou H, Harrington J, Rego RL, Ahlquist DA: A novel method to capture methylated human DNA from stool: implications for colorectal cancer screening. Clin Chem. 2007, 53: 1646-1651. 10.1373\u002Fclinchem.2007.086223.",{"doi":1488},"10.1373\u002Fclinchem.2007.086223",{"id":18,"text":1490,"url":18,"identifiers":1491},"Yu Y, Blair S, Gillespie D, Jensen R, Myszka D, Badran AH, Ghosh I, Chagovetz A: Direct DNA methylation profiling using methyl binding domain proteins. Anal Chem. 2010, 82: 5012-5019. 10.1021\u002Fac1010316.",{"doi":1492},"10.1021\u002Fac1010316",{"id":18,"text":1494,"url":18,"identifiers":1495},"Yegnasubramanian S, Lin X, Haffner MC, DeMarzo AM, Nelson WG: Combination of methylated-DNA precipitation and methylation-sensitive restriction enzymes (COMPARE-MS) for the rapid, sensitive and quantitative detection of DNA methylation. Nucleic Acids Res. 2006, 34: e19-10.1093\u002Fnar\u002Fgnj022.",{"doi":1496},"10.1093\u002Fnar\u002Fgnj022",{"id":18,"text":1498,"url":18,"identifiers":1499},"Zanetti-Dallenbach R, Wight E, Fan AX, Lapaire O, Hahn S, Holzgreve W, Zhong XY: Positive correlation of cell-free DNA in plasma\u002Fserum in patients with malignant and benign breast disease. Anticancer Res. 2008, 28: 921-925.",{},{"id":18,"text":1474,"url":18,"identifiers":1501},{"doi":1476},{"id":18,"text":1503,"url":18,"identifiers":1504},"Muller HM, Widschwendter A, Fiegl H, Ivarsson L, Goebel G, Perkmann E, Marth C, Widschwendter M: DNA methylation in serum of breast cancer patients: an independent prognostic marker. Cancer Res. 2003, 63: 7641-7645.",{},{"id":18,"text":1506,"url":18,"identifiers":1507},"Simon R, Lam A, Li MC, Ngan M, Menenzes S, Zhao Y: Analysis of Gene Expression Data Using BRB-Array Tools. Cancer Inform. 2007, 3: 11-17.",{"doi":1508},"10.1177\u002F117693510700300022",{"id":18,"text":1510,"url":18,"identifiers":1511},"Weinhaeusel A, Thiele S, Hofner M, Hiort O, Noehammer C: PCR-based analysis of differentially methylated regions of GNAS enables convenient diagnostic testing of pseudohypoparathyroidism type Ib. Clin Chem. 2008, 54: 1537-1545. 10.1373\u002Fclinchem.2008.104216.",{"doi":1512},"10.1373\u002Fclinchem.2008.104216",{"id":18,"text":1514,"url":18,"identifiers":1515},"Zhong XY, Hahn S, Kiefer V, Holzgreve W: Is the quantity of circulatory cell-free DNA in human plasma and serum samples associated with gender, age and frequency of blood donations?. Ann Hematol. 2007, 86: 139-143.",{"doi":1516},"10.1007\u002Fs00277-006-0182-5",{"id":18,"text":1518,"url":18,"identifiers":1519},"Gahan PB, Swaminathan R: Circulating nucleic acids in plasma and serum. Recent developments. Ann N Y Acad Sci. 2008, 1137: 1-6. 10.1196\u002Fannals.1448.050.",{"doi":1520},"10.1196\u002Fannals.1448.050",{"id":18,"text":1522,"url":18,"identifiers":1523},"Nygaard V, Hovig E: Options available for profiling small samples: a review of sample amplification technology when combined with microarray profiling. Nucleic Acids Res. 2006, 34: 996-1014. 10.1093\u002Fnar\u002Fgkj499.",{"doi":1524},"10.1093\u002Fnar\u002Fgkj499",{"id":18,"text":1526,"url":18,"identifiers":1527},"Ho KL, McNae IW, Schmiedeberg L, Klose RJ, Bird AP, Walkinshaw MD: MeCP2 binding to DNA depends upon hydration at methyl-CpG. Mol Cell. 2008, 29: 525-531. 10.1016\u002Fj.molcel.2007.12.028.",{"doi":1528},"10.1016\u002Fj.molcel.2007.12.028",{"id":18,"text":1530,"url":18,"identifiers":1531},"Jang JS, Lee SJ, Choi JE, Cha SI, Lee EB, Park TI, Kim CH, Lee WK, Kam S, Choi JY, Kang YM, Park RW, Kim IS, Cho YL, Jung TH, Han SB, Park JY: Methyl-CpG binding domain 1 gene polymorphisms and risk of primary lung cancer. Cancer Epidemiol Biomarkers Prev. 2005, 14: 2474-2480. 10.1158\u002F1055-9965.EPI-05-0423.",{"doi":1532},"10.1158\u002F1055-9965.EPI-05-0423",{"id":18,"text":1534,"url":18,"identifiers":1535},"Holdenrieder S, Stieber P, Chan LY, Geiger S, Kremer A, Nagel D, Lo YM: Cell-free DNA in serum and plasma: comparison of ELISA and quantitative PCR. Clin Chem. 2005, 51: 1544-1546. 10.1373\u002Fclinchem.2005.049320.",{"doi":1536},"10.1373\u002Fclinchem.2005.049320",{"id":18,"text":1538,"url":18,"identifiers":1539},"Andriani F, Conte D, Mastrangelo T, Leon M, Ratcliffe C, Roz L, Pelosi G, Goldstraw P, Sozzi G, Pastorino U: Detecting lung cancer in plasma with the use of multiple genetic markers. Int J Cancer. 2004, 108: 91-96. 10.1002\u002Fijc.11510.",{"doi":1540},"10.1002\u002Fijc.11510",{"id":18,"text":1542,"url":18,"identifiers":1543},"Kohler C, Radpour R, Barekati Z, Asadollahi R, Bitzer J, Wight E, Burki N, Diesch C, Holzgreve W, Zhong XY: Levels of plasma circulating cell free nuclear and mitochondrial DNA as potential biomarkers for breast tumors. Mol Cancer. 2009, 8: 105-10.1186\u002F1476-4598-8-105.",{"doi":1544},"10.1186\u002F1476-4598-8-105",{"id":18,"text":1546,"url":18,"identifiers":1547},"Van dA, Elst HJ, Van Laere SJ, Maes H, Huget P, van DP, Van Marck EA, Vermeulen PB, Dirix LY: The presence of circulating total DNA and methylated genes is associated with circulating tumour cells in blood from breast cancer patients. Br J Cancer. 2009, 100: 1277-1286. 10.1038\u002Fsj.bjc.6605013.",{"doi":1548},"10.1038\u002Fsj.bjc.6605013",{"id":18,"text":1550,"url":18,"identifiers":1551},"Tokuhisa Y, Iizuka N, Sakaida I, Moribe T, Fujita N, Miura T, Tamatsukuri S, Ishitsuka H, Uchida K, Terai S, Sakamoto K, Tamesa T, Oka M: Circulating cell-free DNA as a predictive marker for distant metastasis of hepatitis C virus-related hepatocellular carcinoma. Br J Cancer. 2007, 97: 1399-1403. 10.1038\u002Fsj.bjc.6604034.",{"doi":1552},"10.1038\u002Fsj.bjc.6604034",{"id":18,"text":1554,"url":18,"identifiers":1555},"Ionov Y: A high throughput method for identifying personalized tumor-associated antigens. Oncotarget. 2010, 1: 148-155.",{"doi":1556},"10.18632\u002Foncotarget.118",{"id":18,"text":1558,"url":18,"identifiers":1559},"Ludwig N, Keller A, Comtesse N, Rheinheimer S, Pallasch C, Fischer U, Fassbender K, Steudel WI, Lenhof HP, Meese E: Pattern of serum autoantibodies allows accurate distinction between a tumor and pathologies of the same organ. Clin Cancer Res. 2008, 14: 4767-4774. 10.1158\u002F1078-0432.CCR-07-4715.",{"doi":1560},"10.1158\u002F1078-0432.CCR-07-4715",{"id":1562,"createTime":1563,"updateTime":1564,"relativeEntities":1565,"slug":1566,"properties":1567,"entityType":148,"verifyStatus":149,"verifyTime":1564,"verifyNote":151,"languages":18,"translateLanguages":18,"viewCount":102,"primaryUrl":1576,"fullTextUrl":18,"authors":1577,"publicationType":235,"publisherRelationship":1662,"citationCount":18,"citationInfo":18,"publishDate":1699,"publishYear":725,"citationAnalyzeStatus":17,"lastCitationAnalyze":18,"indexDatabases":1700,"openAccess":18,"references":18,"isForceReanalyzing":337},"20284bf1-c22e-4155-b31a-6dcaac216ac0","2023-12-12T01:02:08.884+00:00","2025-02-23T06:37:45.978+00:00",[],"Elevated-expression-of-LSD1-Lysine-specific-demethylase-1-during-tumour-progression-from-pre-invasive-to-invasive-ductal-carcinoma-of-the-breast",{"abstract":1568,"title":1570,"references":1572,"doi":1574},{"EN":1569},"Lysine-specific demethylase1 (LSD1) is a nuclear protein which belongs to the aminooxidase-enzymes playing an important role in controlling gene expression. It has also been found highly expressed in several human malignancies including breast carcinoma. Our aim was to detect LSD1 expression also in pre-invasive neoplasias of the breast. In the current study we therefore analysed LSD1 protein expression in ductal carcinoma in situ (DCIS) in comparison to invasive ductal breast cancer (IDC). Using immunohistochemistry we systematically analysed LSD1 expression in low grade DCIS (n = 27), intermediate grade DCIS (n = 30), high grade DCIS (n = 31) and in invasive ductal breast cancer (n = 32). SPSS version 18.0 was used for statistical analysis. LSD1 was differentially expressed in DCIS and invasive ductal breast cancer. Interestingly, LSD1 was significantly overexpressed in high grade DCIS versus low grade DCIS. Differences in LSD1 expression levels were also statistically significant between low\u002Fintermediate DCIS and invasive ductal breast carcinoma. LSD1 is also expressed in pre-invasive neoplasias of the breast. Additionally, there is a gradual increase of LSD1 expression within tumour progression from pre-invasive DCIS to invasive ductal breast carcinoma. Therefore upregulation of LSD1 may be an early tumour promoting event.",{"EN":1571},"Elevated expression of LSD1 (Lysine-specific demethylase 1) during tumour progression from pre-invasive to invasive ductal carcinoma of the breast",{"VOID":1573},"Culhane JC, Cole P: LSD1 and the chemistry of histone demethylation. Chem Bio. 2007, 11: 561-568.\nStrahl BD, Allis CD: The language of covalent histone modification. Nature. 2000, 403: 41-45. 10.1038\u002F47412.\nLan F, Nottke AC, Shi Y: Mechanisms involved in the regulation of histone lysine demethylases. Curr Opin Cell Biol. 2008, 20 (3): 316-325. 10.1016\u002Fj.ceb.2008.03.004.\nShi YJ, Matson C, Lan F, Iwase S, Baba T, Shi Y: Regulation of LSD1 histone demethylase activity by associated factors. Mol Cell. 2005, 19: 857-864. 10.1016\u002Fj.molcel.2005.08.027.\nForneris F, Battaglioni E, Mattevi A, Binda C: New roles of flavoproteins in molecular cell biology: Histone demethylase LSD1 and chromatin. FEBS. 2009, 276: 4304-4312. 10.1111\u002Fj.1742-4658.2009.07142.x.\nScoumanne A, Chen X: The lysine-specific demethylase 1 is required for cell proliferation in both p53-depended and –independend manners. J Biol Chem. 2007, 282: 15471-15478. 10.1074\u002Fjbc.M701023200.\nShi Y, Lan F, Matson C, Mulligan P, Whetstine JR, Cole PA, Casero RA, Shi Y: Histone demethylation mediated by the nuclear amine oxidase homolog LSD1. Cell. 2004, 119: 941-953. 10.1016\u002Fj.cell.2004.12.012.\nMetzger E, Imhof A, Patel D, Kahl P, Hoffmeyer K, Friedrichs N, Müller JM, Greschik H, Kirfel J, Ji S, Kunowska N, Beisenherz-Huss C, Günther T, Buettner R, Schüle R: Phosphorylation of histone H3T6 by PKCßI controls demethylation at histone H3K4. Nature. 2010, 464: 792-796. 10.1038\u002Fnature08839.\nKahl P, Gullotti L, Heukamp LC, Wolf S, Friedrichs N, Vorreuther R, Solleder G, Bastian PJ, Ellinger J, Metzger E, Schüle R, Buettner R: Androgen receptor coactivators lysine-specific histone demethylase 1 and four and a half LIM domain protein 2 predict risk of prostate cancer recurrence. Cancer Res. 2006, 66 (23): 11341-11347. 10.1158\u002F0008-5472.CAN-06-1570.\nSchulte JH, Lim S, Schramm A, Friedrichs N, Koster J, Versteeg R, Ora I, Pajtler K, Klein-Hitpass L, Kuhfittig-Kulle S, Metzger E, Schüle R, Eggert A, Buettner R, Kirfel J: Lysine-specific demethylase 1 is strongly expressed in poor differentiated neuroblastoma: implications for therapy. Cancer Res. 2009, 69: 2065-2071.\nHayami S, Kelly JD, Cho HS, Yoshimatsu M, Unoki M, Tsunoda T, Field HI, Neal DE, Yamaue H, Ponder BA, Nakamura Y, Hamamoto R: Overexpression of LSD1 contributes to human carcinogenesis through chromatin regulation in various cancers. International Journal of Cancer. 2011, 128 (3): 574-586. 10.1002\u002Fijc.25349.\nKauffmann EC, Robinson BD, Downes MJ, Powell LG, Lee MM, Scherr DS, Gudas LJ, Mongan NP: Role of androgen receptor and associated lysine-demethylase coregulators, LSD1 and JMJD2A, in localilzed and advanced human bladder cancer. Mol Carcinog. 2011, 50 (12): 931-944. 10.1002\u002Fmc.20758. Epub 2011 Mar 11.\nLim S, Janzer A, Becker A, Zimmer A, Schüle R, Buettner R, Kirfel J: Lysine-specific demethylase 1 (LSD1) is highly expressed in ER-negative breast cancers and a biomarker predicting aggressive biology. Carcinogenesis. 2010, 31 (3): 512-520. 10.1093\u002Fcarcin\u002Fbgp324.\nCui X, Schiff R, Arpino G, Osborne CK, Lee AV: Biology of progesterone receptor loss in breast cancer and its implication for endocrine therapy. J Clin Oncol. 2005, 23 (30): 7721-7735. 10.1200\u002FJCO.2005.09.004.\nBradley C, van der Meer R, Roodi N, Yan H, Chandrasekharan MB, Sun ZW, Mernaugh RL, Parl FF: Carcinogen-induced alteration in normal human mammary epithelial cells. Carcinogenesis. 2007, 28 (10): 2184-2192. 10.1093\u002Fcarcin\u002Fbgm100.\nTavassoli FA, Devilee P:World Health Organization Classification of Tumours. Pathology and Genetics of Tumours of the Breast and Female Genital Organs. 2003, IARC Press, Lyon,\nRemmele W, Stegner HE: Recommendation for uniform definition of an immunoreactive score (IRS) for immunhistochemical estrogen receptor detection (ER-ICA) in breast cancer tissue. Pathologe. 1987, 8 (3): 138-140.\nPunglia RS, Burstein HJ, Weeks JC: Radiation therapy for ductal carcinoma in situ: a decision analysis. Cancer. 2012, 118 (3): 603-611. 10.1002\u002Fcncr.26293. Epub 2011 Jun 30.\nBoughey JC, Gonzalez RJ, Bonner E, Kuerer HM: Current treatment and clinical trial developments for ductal carcinoma in situ of the breast. Oncologist. 2007, 12 (11): 1276-1287. 10.1634\u002Ftheoncologist.12-11-1276.\nKuerer HM, Buzdar AU, Mittendorf EA, Esteva FJ, Lucci A, Vence LM, Radvanyi L, Meric-Bernstam F, Hunt KK, Symmans WF: Biologic and immunologic effects of preoperative trastuzumab for ductal carcinoma in situ of the breast. Cancer. 2011, 117 (1): 39-47. 10.1002\u002Fcncr.25399.\nLidauvais JC, Hwang ES, Karliner L, Nápoles A, Stewart S, Bloom J, Kaplan CP: Adjuvant hormonal therapy use among women with ductal carcinoma in situ. J Womens Health (Larchmt). 2012, 21 (1): 35-42. 10.1089\u002Fjwh.2011.2773. Epub 2011 Sep 8\nZujewski JA, Harlan LC, Morrell DM, Stevens JL: Ductal carcinoma in situ: trends in treatment over time in the US. Breast Cancer Res Treat. 2011, 127 (1): 251-257. 10.1007\u002Fs10549-010-1198-z.\nLee MG, Wynder C, Schmidt DM, McCafferty DG, Shiekhattar R: Histone H3 Lysine 4 Demethylation is a target of nonselective antidepressive medications. Chemistry and Biology. 2006, 13: 563-567. 10.1016\u002Fj.chembiol.2006.05.004.\nSobin LH, Gospodarowicz MK, Wittekind C: UICC: TNM classification of malignant tumors. 2009, Wiley-Blackwell, Oxford, 7\nThe pre-publication history for this paper can be accessed 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RS, Berson SA: Assay of plasma insulin in human subjects by immunological methods. Nature (London). 1959, 184 (Suppl 21): 1648-1649.",{"doi":1866},"10.1038\u002F1841648b0",{"id":18,"text":1868,"url":18,"identifiers":1869},"Smith DS, Al Hakiem MHH, Landon J: A review of fluoroimmunoassay and immunofluorimetric assay. Ann. Clin. Biochem. 1981, 18: 253-274.",{"doi":1870},"10.1177\u002F000456328101800501",{"id":18,"text":1872,"url":18,"identifiers":1873},"Hemmilä I, Dakubu S, Mukkala V-M, Siitari H, Lövgren T: Europium as a label in time-resolved immunofluorometric assays. Anal. Biochem. 1984, 137 (2): 335-343.",{"doi":1874},"10.1016\u002F0003-2697(84)90095-2",{"id":18,"text":1876,"url":18,"identifiers":1877},"Selby C: Interference in immunoassay. Ann. Clin. Biochem. 1999, 36: 704-721.",{"doi":1878},"10.1177\u002F000456329903600603",{"id":18,"text":1880,"url":18,"identifiers":1881},"Butler J.: Negative interference in immunoassays. [Letter] Clin. Chem. 1995, 41: 481-482.",{"doi":1882},"10.1093\u002Fclinchem\u002F41.3.481",{"id":18,"text":1884,"url":18,"identifiers":1885},"Evans MJ, Livesey JH, Ellis MJ, Yandle TG: Effect of anticoagulants and storage temperatures on stability of plasma and serum hormones. Clin. Biochem. 2001, 34: 107-112. 10.1016\u002FS0009-9120(01)00196-5.",{"doi":1886},"10.1016\u002FS0009-9120(01)00196-5",{"id":1888,"createTime":1889,"updateTime":1890,"relativeEntities":1891,"slug":1892,"properties":1893,"entityType":148,"verifyStatus":149,"verifyTime":1890,"verifyNote":151,"languages":18,"translateLanguages":18,"viewCount":19,"primaryUrl":1902,"fullTextUrl":18,"authors":1903,"publicationType":235,"publisherRelationship":1973,"citationCount":18,"citationInfo":18,"publishDate":2011,"publishYear":1122,"citationAnalyzeStatus":17,"lastCitationAnalyze":18,"indexDatabases":2012,"openAccess":18,"references":18,"isForceReanalyzing":337},"7f9d0654-ccd4-4f8d-b279-9490f37cf008","2023-12-03T00:02:27.930+00:00","2025-02-22T07:44:20.407+00:00",[],"A-simple-and-cost-effective-method-of-DNA-extraction-from-small-formalin-fixed-paraffin-embedded-tissue-for-molecular-oncologic-testing",{"abstract":1894,"title":1896,"references":1898,"doi":1900},{"EN":1895},"Extraction of DNA from formalin-fixed, paraffin-embedded (FFPE) tissue is a critical step in molecular oncologic testing. As molecular oncology testing becomes more important for prognostic and therapeutic decision making and tissue specimens become smaller due to earlier detection of suspicious lesions and the use of fine needle aspiration methods for tissue collection, it becomes more challenging for the typical molecular pathology laboratory to obtain reliable test results. We developed a DNA extraction method to obtain sufficient quantity and high quality genomic DNA from limited FFPE tissue for molecular oncology testing using a combination of H&E stained slides, a matrix capture method and the Qiagen DNA column. Three DNA extraction methods were compared: our standard procedure of manually scraping tissue from unstained slides followed by DNA extraction using the QIAamp FFPE column (Qiagen, Valencia, CA), a glue capture method (Pinpoint Solution, Zymo Research Corp, Inc) on H&E stained slides followed by DNA extraction using either the QIAamp column or the column included with the Pinpoint kit (Zymo Research). The DNA extraction protocol was optimized. Statistical analysis was performed using the paired two-sample student’s t-test. The combination of the matrix capture method with the QIAamp column gave an equivalent amount of DNA as our standard extraction method using the unstained slides and a 4.6-fold higher DNA yield than using the Zymo column included in the Pinpoint Slide Solution kit. Several molecular tests were performed and DNA purified using the new method gave the same results as for the previous methods. Using H&E stained slides allows visual confirmation of tumor cells during microdissection. The Pinpoint solution made removal of specific tissue from the slides easier and reduced the risk of contamination and tissue loss. This DNA extraction method is simple, cost-effective, and blends with our current workflow requiring no additional equipment.",{"EN":1897},"A simple and cost-effective method of DNA extraction from small formalin-fixed paraffin-embedded tissue for molecular oncologic testing",{"VOID":1899},"Ausch C, Buxhofer-Ausch V, Oberkanins C, Holzer B, Minai-Pour M, Jahn S, Dandachi N, Zeillinger R, Kriegshauser G: Sensitive detection of KRAS mutations in archived formalin-fixed paraffin-embedded tissue using mutant-enriched PCR and reverse-hybridization. J Mol Diagn. 2009, 11 (6): 508-513.\nLewis FD, Letsinger RL, Wasielewski MR: Dynamics of photoinduced charge transfer and hole transport in synthetic DNA hairpins. Acc Chem Res. 2001, 34 (2): 159-170.\nLynch TJ, Bell DW, Sordella R, Gurubhagavatula S, Okimoto RA, Brannigan BW, Harris PL, Haserlat SM, Supko JG, Haluska FG, Louis DN, Christiani DC, Settleman J, Haber DA: Activating mutations in the epidermal growth factor receptor underlying responsiveness of non-small-cell lung cancer to gefitinib. N Engl J Med. 2004, 350 (21): 2129-2139.\nHeinrich MC, Corless CL, Demetri GD, Blanke CD, von Mehren M, Joensuu H, McGreevey LS, Chen CJ, Van den Abbeele AD, Druker BJ, Kiese B, Eisenberg B, Roberts PJ, Singer S, Fletcher CD, Silberman S, Dimitrijevic S, Fletcher JA: Kinase mutations and imatinib response in patients with metastatic gastrointestinal stromal tumor. J Clin Oncol. 2003, 21 (23): 4342-4349.\nKong Y, Si L, Zhu Y, Xu X, Corless CL, Flaherty KT, Li L, Li H, Sheng X, Cui C, Chi Z, Li S, Han M, Mao L, Lu A, Guo J: Large-scale analysis of KIT aberrations in Chinese patients with melanoma. Clin Cancer Res. 2011, 17 (7): 1684-1691.\nOgino S, Nosho K, Kirkner GJ, Shima K, Irahara N, Kure S, Chan AT, Engelman JA, Kraft P, Cantley LC, Giovannucci EL, Fuchs CS: PIK3CA mutation is associated with poor prognosis among patients with curatively resected colon cancer. J Clin Oncol. 2009, 27 (9): 1477-1484.\nHofman V, Ilie M, Gavric-Tanga V, Lespinet V, Mari M, Lassalle S, Butori C, Coelle C, Bordone O, Selva E, Lamy A, Sabourin JC, Hofman P: Role of the surgical pathology laboratory in the pre-analytical approach of molecular biology techniques. Ann Pathol. 2010, 30 (2): 85-93.\nBartley AN, Yao H, Barkoh BA, Ivan C, Mishra BM, Rashid A, Calin GA, Luthra R, Hamilton SR: Complex patterns of altered MicroRNA expression during the adenoma-adenocarcinoma sequence for microsatellite-stable colorectal cancer. Clin Cancer Res. 2011, 17 (23): 7283-7293.\nIda CM, Lambert SR, Rodriguez FJ, Voss JS, Mc Cann BE, Seys AR, Halling KC, Collins VP, Giannini C: BRAF alterations are frequent in cerebellar low-grade astrocytomas with diffuse growth pattern. J Neuropathol Exp Neurol. 2012, 71 (7): 631-639.\nSarafan-Vasseur N, Sefrioui D, Tougeron D, Lamy A, Blanchard F, Le Pessot F, Di Fiore F, Michel P, Bezieau S, Latouche JB, Frebourg T, Sesboue R: Genetic variations of the A13\u002FA14 repeat located within the EGFR 3′ untranslated region have no oncogenic effect in patients with colorectal cancer. BMC Cancer. 2013, 13: 183-\nHu W, Siegfried EC, Siegel DM: Product-related emphasis of skin disease information online. Arch Dermatol. 2002, 138 (6): 775-780.\nOhyama H, Mahadevappa M, Luukkaa H, Todd R, Warrington JA, Wong DT: Use of laser capture microdissection-generated targets for hybridization of high-density oligonucleotide arrays. Methods Enzymol. 2002, 356: 323-333.\nTodd R, Lingen MW, Kuo WP: Gene expression profiling using laser capture microdissection. Expert Rev Mol Diagn. 2002, 2 (5): 497-507.\nMurase T, Inagaki H, Eimoto T: Influence of histochemical and immunohistochemical stains on polymerase chain reaction. Mod Pathol. 2000, 13 (2): 147-151.\nDiss TC, Pan L, Peng H, Wotherspoon AC, Isaacson PG: Sources of DNA for detecting B cell monoclonality using PCR. J Clin Pathol. 1994, 47 (6): 493-496.\nBurton MP, Schneider BG, Brown R, Escamilla-Ponce N, Gulley ML: Comparison of histologic stains for use in PCR analysis of microdissected, paraffin-embedded tissues. BioTechniques. 1998, 24 (1): 86-92.\nde Lang A, Wilander E: Sensitivity of HPV tests on stained vs. unstained cervical smears. Acta Cytol. 2005, 49 (6): 595-599.\nMedintz I, Levine L, McCurdy L, Chiriboga L, Kingston C, Crim D, Desnick RJ, Eng CM, Kobilinsky L: HLA-DQA1 and polymarker allele frequencies in two New York City Jewish populations. J Forensic Sci. 1997, 42 (5): 919-922.\nMorikawa T, Shima K, Kuchiba A, Yamauchi M, Tanaka N, Imamura Y, Liao X, Qian ZR, Brahmandam M, Longtine JA, Lindeman NI, Fuchs CS, Ogino S: No evidence for interference of h&e staining in DNA testing: usefulness of DNA extraction from H&E-stained archival tissue sections. Am J Clin Pathol. 2012, 138 (1): 122-129.\nLewis F, Maughan NJ, Smith V, Hillan K, Quirke P: Unlocking the archive–gene expression in paraffin-embedded tissue. J Pathol. 2001, 195 (1): 66-71.\nDedhia P, Tarale S, Dhongde G, Khadapkar R, Das B: Evaluation of DNA extraction methods and real time PCR optimization on formalin-fixed paraffin-embedded tissues. Asian Pac J Cancer Prev. 2007, 8 (1): 55-59.\nPikor LA, Enfield KS, Cameron H, Lam WL: DNA extraction from paraffin embedded material for genetic and epigenetic analyses. J Vis Exp. 2011, 49: 2763-\nDiaz-Cano SJ, Brady SP: DNA extraction from formalin-fixed, paraffin-embedded tissues: protein digestion as a limiting step for retrieval of high-quality DNA. Diagn Mol Pathol. 1997, 6 (6): 342-346.\nOkello JB, Zurek J, Devault AM, Kuch M, Okwi AL, Sewankambo NK, Bimenya GS, Poinar D, Poinar HN: Comparison of methods in the recovery of nucleic acids from archival formalin-fixed paraffin-embedded autopsy tissues. Anal Biochem. 2010, 400 (1): 110-117.\nTurashvili G, Yang W, McKinney S, Kalloger S, Gale N, Ng Y, Chow K, Bell L, Lorette J, Carrier M, Luk M, Aparicio S, Huntsman D, Yip S: Nucleic acid quantity and quality from paraffin blocks: defining optimal fixation, processing and DNA\u002FRNA extraction techniques. Exp Mol Pathol. 2012, 92 (1): 33-43.\nLiu X, Harada S: DNA Isolation from Mammalian Samples. Current Protocols in Molecular Biology Volume Chapter 2. 2013, Unit 2.14-2013\nGeurts-Giele WR, der Velden AW D-v, Bartalits NM, Verhoog LC, Hanselaar WE, Dinjens WN: Molecular diagnostics of a single multifocal non-small cell lung cancer case using targeted next generation sequencing. Virchows Arch. 2013, 462 (2): 249-254.\nMardis ER: Next-generation sequencing platforms. Annu Rev Anal Chem (Palo Alto Calif). 2013, 6: 287-303.\nKorbel JO, Urban AE, Affourtit JP, Godwin B, Grubert F, Simons JF, Kim PM, Palejev D, Carriero NJ, Du L, Taillon BE, Chen Z, Tanzer A, Saunders AC, Chi J, Yang F, Carter NP, Hurles ME, Weissman SM, Harkins TT, Gerstein MB, Egholm M, Snyder M: Paired-end mapping reveals extensive structural variation in the human genome. Science. 2007, 318 (5849): 420-426.\nKonoplev S, Yin CC, Kornblau SM, Kantarjian HM, Konopleva M, Andreeff M, Lu G, Zuo Z, Luthra R, Medeiros LJ, Bueso-Ramos CE: Molecular characterization of de novo Philadelphia chromosome-positive acute myeloid leukemia. Leuk Lymphoma. 2013, 54 (1): 138-144.\nCho S, Kim MJ, Choi YY, Yoo SS, Lee WK, Lee EJ, Jang EJ, Bae EY, Jin G, Jeon HS, Lee SY, Cha SI, Park TI, Kim CH, Park JY: Associations between polymorphisms in DNA repair genes and TP53 mutations in non-small cell lung cancer. Lung Cancer. 2011, 73 (1): 25-31.\nLurkin I, Stoehr R, Hurst CD, van Tilborg AA, Knowles MA, Hartmann A, Zwarthoff EC: Two multiplex assays that simultaneously identify 22 possible mutation sites in the KRAS, BRAF, NRAS and PIK3CA genes. 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