Cancer‑related long noncoding RNAs show aberrant expression profiles and competing endogenous RNA potential in esophageal adenocarcinoma
Long non-coding RNAs (lncRNAs) govern gene expression by competitively binding to microRNA response elements (MREs). Although they were initially considered as transcriptional noise, lncRNAs have attracted increased attention in oncology. Dysregulation of lncRNAs occurs in various types of human tum...
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| Veröffentlicht in: | Oncology letters 2019-11, Vol.18 (5), p.4798-4808 |
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| creator | Yu, Yang Chen, Xingxing Cang, Shundong |
| description | Long non-coding RNAs (lncRNAs) govern gene expression by competitively binding to microRNA response elements (MREs). Although they were initially considered as transcriptional noise, lncRNAs have attracted increased attention in oncology. Dysregulation of lncRNAs occurs in various types of human tumor, including esophageal adenocarcinoma (EAC). However, the functions of these cancer-associated lncRNAs and of their related competitive endogenous RNA (ceRNA) network in EAC remains unknown. To determine the relevant potential mechanisms, the present study analyzed the transcriptome sequencing data and clinical information of 79 patients with EAC, including 79 tumor samples and 11 normal samples, which were obtained from The Cancer Genome Atlas esophageal cancer project. The edgeR v3.25.0 software was used for differential gene expression analysis. The results exhibited 561 cancer-associated lncRNAs with a >2.0-fold change and a false discovery rate-adjusted P |
| doi_str_mv | 10.3892/ol.2019.10808 |
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Although they were initially considered as transcriptional noise, lncRNAs have attracted increased attention in oncology. Dysregulation of lncRNAs occurs in various types of human tumor, including esophageal adenocarcinoma (EAC). However, the functions of these cancer-associated lncRNAs and of their related competitive endogenous RNA (ceRNA) network in EAC remains unknown. To determine the relevant potential mechanisms, the present study analyzed the transcriptome sequencing data and clinical information of 79 patients with EAC, including 79 tumor samples and 11 normal samples, which were obtained from The Cancer Genome Atlas esophageal cancer project. The edgeR v3.25.0 software was used for differential gene expression analysis. The results exhibited 561 cancer-associated lncRNAs with a >2.0-fold change and a false discovery rate-adjusted P<0.01. Among these lncRNAs, 26 were significantly associated with patient overall survival. According to data from bioinformatics databases and differentially expressed RNAs, an lncRNA-regulated ceRNA network for EAC was constructed. The results demonstrated that the aberrantly expressed lncRNA-associated ceRNA network included 37 EAC cancer-associated lncRNAs, five miRNAs and 13 mRNAs. In conclusion, the present study identified novel lncRNAs as candidate prognostic biomarkers and revealed a potential regulatory network of gene expression in EAC. Key words: esophageal adenocarcinoma, long non-coding RNA, competing endogenous RNA, The Cancer Genome Atlas, prognosis</description><identifier>ISSN: 1792-1074</identifier><identifier>EISSN: 1792-1082</identifier><identifier>DOI: 10.3892/ol.2019.10808</identifier><identifier>PMID: 31611990</identifier><language>eng</language><publisher>Athens: Spandidos Publications</publisher><subject>Adenocarcinoma ; Analysis ; Biochemistry ; Biological markers ; Biomarkers ; Bladder cancer ; Computational biology ; Esophageal cancer ; Gastric cancer ; Gene expression ; Genes ; Genomes ; Genomics ; Hypotheses ; Kidney cancer ; Kinases ; Medical prognosis ; Messenger RNA ; Metastasis ; MicroRNA ; MicroRNAs ; Novels ; Oncology ; RNA ; Studies ; Sunitinib ; Transcription (Genetics) ; Tumors</subject><ispartof>Oncology letters, 2019-11, Vol.18 (5), p.4798-4808</ispartof><rights>COPYRIGHT 2019 Spandidos Publications</rights><rights>Copyright Spandidos Publications UK Ltd. 2019</rights><rights>Copyright: © Yu et al. 2019</rights><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c490t-2a537ae91b99027f1238f112e88e4ee59350d14aadf075e845d0f46bade18b443</citedby><cites>FETCH-LOGICAL-c490t-2a537ae91b99027f1238f112e88e4ee59350d14aadf075e845d0f46bade18b443</cites></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktopdf>$$Uhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC6781732/pdf/$$EPDF$$P50$$Gpubmedcentral$$Hfree_for_read</linktopdf><linktohtml>$$Uhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC6781732/$$EHTML$$P50$$Gpubmedcentral$$Hfree_for_read</linktohtml><link.rule.ids>230,314,727,780,784,885,27923,27924,53790,53792</link.rule.ids></links><search><creatorcontrib>Yu, Yang</creatorcontrib><creatorcontrib>Chen, Xingxing</creatorcontrib><creatorcontrib>Cang, Shundong</creatorcontrib><title>Cancer‑related long noncoding RNAs show aberrant expression profiles and competing endogenous RNA potential in esophageal adenocarcinoma</title><title>Oncology letters</title><description>Long non-coding RNAs (lncRNAs) govern gene expression by competitively binding to microRNA response elements (MREs). Although they were initially considered as transcriptional noise, lncRNAs have attracted increased attention in oncology. Dysregulation of lncRNAs occurs in various types of human tumor, including esophageal adenocarcinoma (EAC). However, the functions of these cancer-associated lncRNAs and of their related competitive endogenous RNA (ceRNA) network in EAC remains unknown. To determine the relevant potential mechanisms, the present study analyzed the transcriptome sequencing data and clinical information of 79 patients with EAC, including 79 tumor samples and 11 normal samples, which were obtained from The Cancer Genome Atlas esophageal cancer project. The edgeR v3.25.0 software was used for differential gene expression analysis. The results exhibited 561 cancer-associated lncRNAs with a >2.0-fold change and a false discovery rate-adjusted P<0.01. Among these lncRNAs, 26 were significantly associated with patient overall survival. According to data from bioinformatics databases and differentially expressed RNAs, an lncRNA-regulated ceRNA network for EAC was constructed. The results demonstrated that the aberrantly expressed lncRNA-associated ceRNA network included 37 EAC cancer-associated lncRNAs, five miRNAs and 13 mRNAs. In conclusion, the present study identified novel lncRNAs as candidate prognostic biomarkers and revealed a potential regulatory network of gene expression in EAC. Key words: esophageal adenocarcinoma, long non-coding RNA, competing endogenous RNA, The Cancer Genome Atlas, prognosis</description><subject>Adenocarcinoma</subject><subject>Analysis</subject><subject>Biochemistry</subject><subject>Biological markers</subject><subject>Biomarkers</subject><subject>Bladder cancer</subject><subject>Computational biology</subject><subject>Esophageal cancer</subject><subject>Gastric cancer</subject><subject>Gene expression</subject><subject>Genes</subject><subject>Genomes</subject><subject>Genomics</subject><subject>Hypotheses</subject><subject>Kidney cancer</subject><subject>Kinases</subject><subject>Medical prognosis</subject><subject>Messenger RNA</subject><subject>Metastasis</subject><subject>MicroRNA</subject><subject>MicroRNAs</subject><subject>Novels</subject><subject>Oncology</subject><subject>RNA</subject><subject>Studies</subject><subject>Sunitinib</subject><subject>Transcription (Genetics)</subject><subject>Tumors</subject><issn>1792-1074</issn><issn>1792-1082</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2019</creationdate><recordtype>article</recordtype><sourceid>ABUWG</sourceid><sourceid>AFKRA</sourceid><sourceid>BENPR</sourceid><sourceid>CCPQU</sourceid><recordid>eNptkk2L1jAQx4so7rLu0XtAEC99TNKmTS_Cw4NvsCiInkOaTtssaaYmrS-3Pe_Nr-gnMXWX1UdMDpkhv_lPZjJZ9pjRXSEb_hzdjlPW7BiVVN7LTlnd8Dw5_P6dXZcn2XmMlzQtUTEpq4fZScEqxpqGnmbXB-0NhJ9XPwI4vUBHHPqBePQGO5usD-_2kcQRvxLdQgjaLwS-zQFitOjJHLC3DiLRviMGpxmWLQh8hwN4XOMWT2ZcwC9WO2I9gYjzqAdInu4SY3Qw1uOkH2UPeu0inN-eZ9mnVy8_Ht7kF-9fvz3sL3JTNnTJuRZFraFhbSqA1z3jhewZ4yAllACiKQTtWKl119NagCxFR_uyalMyJtuyLM6yFze689pO0Jn0tKCdmoOddPiuUFt1fOPtqAb8oqpasrrgSeDZrUDAzyvERU02GnBOe0glK15QUTeVkDShT_5BL3ENPpWXKEYrzkQj_lCDdqCs7zHlNZuo2ldUSFnKatPa_YdKu4PJGvSw_cRxwNO_AsbU8WWM6NYl_Vw8BvMb0ASMMUB_1wxG1TZoCp3aBk39HrTiF_mmxe4</recordid><startdate>20191101</startdate><enddate>20191101</enddate><creator>Yu, Yang</creator><creator>Chen, Xingxing</creator><creator>Cang, Shundong</creator><general>Spandidos Publications</general><general>Spandidos Publications UK Ltd</general><general>D.A. Spandidos</general><scope>AAYXX</scope><scope>CITATION</scope><scope>3V.</scope><scope>7X7</scope><scope>7XB</scope><scope>8FI</scope><scope>8FJ</scope><scope>8FK</scope><scope>ABUWG</scope><scope>AFKRA</scope><scope>AN0</scope><scope>BENPR</scope><scope>CCPQU</scope><scope>FYUFA</scope><scope>GHDGH</scope><scope>K9.</scope><scope>M0S</scope><scope>PQEST</scope><scope>PQQKQ</scope><scope>PQUKI</scope><scope>PRINS</scope><scope>7X8</scope><scope>5PM</scope></search><sort><creationdate>20191101</creationdate><title>Cancer‑related long noncoding RNAs show aberrant expression profiles and competing endogenous RNA potential in esophageal adenocarcinoma</title><author>Yu, Yang ; Chen, Xingxing ; Cang, Shundong</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c490t-2a537ae91b99027f1238f112e88e4ee59350d14aadf075e845d0f46bade18b443</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2019</creationdate><topic>Adenocarcinoma</topic><topic>Analysis</topic><topic>Biochemistry</topic><topic>Biological markers</topic><topic>Biomarkers</topic><topic>Bladder cancer</topic><topic>Computational biology</topic><topic>Esophageal cancer</topic><topic>Gastric cancer</topic><topic>Gene expression</topic><topic>Genes</topic><topic>Genomes</topic><topic>Genomics</topic><topic>Hypotheses</topic><topic>Kidney cancer</topic><topic>Kinases</topic><topic>Medical prognosis</topic><topic>Messenger RNA</topic><topic>Metastasis</topic><topic>MicroRNA</topic><topic>MicroRNAs</topic><topic>Novels</topic><topic>Oncology</topic><topic>RNA</topic><topic>Studies</topic><topic>Sunitinib</topic><topic>Transcription (Genetics)</topic><topic>Tumors</topic><toplevel>online_resources</toplevel><creatorcontrib>Yu, Yang</creatorcontrib><creatorcontrib>Chen, Xingxing</creatorcontrib><creatorcontrib>Cang, Shundong</creatorcontrib><collection>CrossRef</collection><collection>ProQuest Central (Corporate)</collection><collection>Health & Medical Collection</collection><collection>ProQuest Central (purchase pre-March 2016)</collection><collection>Hospital Premium Collection</collection><collection>Hospital Premium Collection (Alumni Edition)</collection><collection>ProQuest Central (Alumni) (purchase pre-March 2016)</collection><collection>ProQuest Central (Alumni Edition)</collection><collection>ProQuest Central UK/Ireland</collection><collection>British Nursing Database</collection><collection>ProQuest Central</collection><collection>ProQuest One Community College</collection><collection>Health Research Premium Collection</collection><collection>Health Research Premium Collection (Alumni)</collection><collection>ProQuest Health & Medical Complete (Alumni)</collection><collection>Health & Medical Collection (Alumni Edition)</collection><collection>ProQuest One Academic Eastern Edition (DO NOT USE)</collection><collection>ProQuest One Academic</collection><collection>ProQuest One Academic UKI Edition</collection><collection>ProQuest Central China</collection><collection>MEDLINE - Academic</collection><collection>PubMed Central (Full Participant titles)</collection><jtitle>Oncology letters</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Yu, Yang</au><au>Chen, Xingxing</au><au>Cang, Shundong</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Cancer‑related long noncoding RNAs show aberrant expression profiles and competing endogenous RNA potential in esophageal adenocarcinoma</atitle><jtitle>Oncology letters</jtitle><date>2019-11-01</date><risdate>2019</risdate><volume>18</volume><issue>5</issue><spage>4798</spage><epage>4808</epage><pages>4798-4808</pages><issn>1792-1074</issn><eissn>1792-1082</eissn><abstract>Long non-coding RNAs (lncRNAs) govern gene expression by competitively binding to microRNA response elements (MREs). Although they were initially considered as transcriptional noise, lncRNAs have attracted increased attention in oncology. Dysregulation of lncRNAs occurs in various types of human tumor, including esophageal adenocarcinoma (EAC). However, the functions of these cancer-associated lncRNAs and of their related competitive endogenous RNA (ceRNA) network in EAC remains unknown. To determine the relevant potential mechanisms, the present study analyzed the transcriptome sequencing data and clinical information of 79 patients with EAC, including 79 tumor samples and 11 normal samples, which were obtained from The Cancer Genome Atlas esophageal cancer project. The edgeR v3.25.0 software was used for differential gene expression analysis. The results exhibited 561 cancer-associated lncRNAs with a >2.0-fold change and a false discovery rate-adjusted P<0.01. Among these lncRNAs, 26 were significantly associated with patient overall survival. According to data from bioinformatics databases and differentially expressed RNAs, an lncRNA-regulated ceRNA network for EAC was constructed. The results demonstrated that the aberrantly expressed lncRNA-associated ceRNA network included 37 EAC cancer-associated lncRNAs, five miRNAs and 13 mRNAs. In conclusion, the present study identified novel lncRNAs as candidate prognostic biomarkers and revealed a potential regulatory network of gene expression in EAC. Key words: esophageal adenocarcinoma, long non-coding RNA, competing endogenous RNA, The Cancer Genome Atlas, prognosis</abstract><cop>Athens</cop><pub>Spandidos Publications</pub><pmid>31611990</pmid><doi>10.3892/ol.2019.10808</doi><tpages>11</tpages><oa>free_for_read</oa></addata></record> |
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| source | Spandidos Publications Journals; EZB-FREE-00999 freely available EZB journals; PubMed Central |
| subjects | Adenocarcinoma Analysis Biochemistry Biological markers Biomarkers Bladder cancer Computational biology Esophageal cancer Gastric cancer Gene expression Genes Genomes Genomics Hypotheses Kidney cancer Kinases Medical prognosis Messenger RNA Metastasis MicroRNA MicroRNAs Novels Oncology RNA Studies Sunitinib Transcription (Genetics) Tumors |
| title | Cancer‑related long noncoding RNAs show aberrant expression profiles and competing endogenous RNA potential in esophageal adenocarcinoma |
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