Galectin-3 and Beclin1/Atg6 genes in human cancers: using cDNA tissue panel, qRT-PCR, and logistic regression model to identify cancer cell biomarkers
Cancer biomarkers are sought to support cancer diagnosis, predict cancer patient response to treatment and survival. Identifying reliable biomarkers for predicting cancer treatment response needs understanding of all aspects of cancer cell death and survival. Galectin-3 and Beclin1 are involved in t...
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| description | Cancer biomarkers are sought to support cancer diagnosis, predict cancer patient response to treatment and survival. Identifying reliable biomarkers for predicting cancer treatment response needs understanding of all aspects of cancer cell death and survival. Galectin-3 and Beclin1 are involved in two coordinated pathways of programmed cell death, apoptosis and autophagy and are linked to necroptosis/necrosis. The aim of the study was to quantify galectin-3 and Beclin1 mRNA in human cancer tissue cDNA panels and determine their utility as biomarkers of cancer cell survival.
A panel of 96 cDNAs from eight (8) different normal and cancer tissue types were used for quantitative real-time polymerase chain reaction (qRT-PCR) using ABI7900HT. Miner2.0, a web-based 4- and 3-parameter logistic regression software was used to derive individual well polymerase chain reaction efficiencies (E) and cycle threshold (Ct) values. Miner software derived formula was used to calculate mRNA levels and then fold changes. The ratios of cancer to normal tissue levels of galectin-3 and Beclin1 were calculated (using the mean for each tissue type). Relative mRNA expressions for galectin-3 were higher than for Beclin1 in all tissue (normal and cancer) types. In cancer tissues, breast, kidney, thyroid and prostate had the highest galectin-3 mRNA levels compared to normal tissues. High levels of Beclin1 mRNA levels were in liver and prostate cancers when compared to normal tissues. Breast, kidney and thyroid cancers had high galectin-3 levels and low Beclin1 levels.
Galectin-3 expression patterns in normal and cancer tissues support its reported roles in human cancer. Beclin1 expression pattern supports its roles in cancer cell survival and in treatment response. qRT-PCR analysis method used may enable high throughput studies to generate molecular biomarker sets for diagnosis and predicting cancer treatment response. |
| doi_str_mv | 10.1371/journal.pone.0026150 |
| format | Article |
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A panel of 96 cDNAs from eight (8) different normal and cancer tissue types were used for quantitative real-time polymerase chain reaction (qRT-PCR) using ABI7900HT. Miner2.0, a web-based 4- and 3-parameter logistic regression software was used to derive individual well polymerase chain reaction efficiencies (E) and cycle threshold (Ct) values. Miner software derived formula was used to calculate mRNA levels and then fold changes. The ratios of cancer to normal tissue levels of galectin-3 and Beclin1 were calculated (using the mean for each tissue type). Relative mRNA expressions for galectin-3 were higher than for Beclin1 in all tissue (normal and cancer) types. In cancer tissues, breast, kidney, thyroid and prostate had the highest galectin-3 mRNA levels compared to normal tissues. High levels of Beclin1 mRNA levels were in liver and prostate cancers when compared to normal tissues. Breast, kidney and thyroid cancers had high galectin-3 levels and low Beclin1 levels.
Galectin-3 expression patterns in normal and cancer tissues support its reported roles in human cancer. Beclin1 expression pattern supports its roles in cancer cell survival and in treatment response. qRT-PCR analysis method used may enable high throughput studies to generate molecular biomarker sets for diagnosis and predicting cancer treatment response.</description><identifier>ISSN: 1932-6203</identifier><identifier>EISSN: 1932-6203</identifier><identifier>DOI: 10.1371/journal.pone.0026150</identifier><identifier>PMID: 22039439</identifier><language>eng</language><publisher>United States: Public Library of Science</publisher><subject>Analysis ; Apoptosis ; Apoptosis Regulatory Proteins - genetics ; Autophagy ; Beclin-1 ; Biological markers ; Biology ; Biomarkers ; Biomarkers, Tumor - analysis ; Breast cancer ; Cancer ; Cancer diagnosis ; Cancer genetics ; Cancer research ; Cancer therapies ; Cancer treatment ; Care and treatment ; Cell death ; Cell survival ; Computer programs ; Cytochrome ; Diagnosis ; DNA, Complementary ; Galectin 3 - genetics ; Galectin-3 ; Genes ; Genetic aspects ; Genomics ; Humans ; Kidneys ; Kinases ; Laboratories ; Liver ; Liver cancer ; Medical prognosis ; Medical research ; Medicine ; Membrane Proteins - genetics ; Metabolism ; mRNA ; Necroptosis ; Ovarian cancer ; Phagocytosis ; Polymerase chain reaction ; Prognosis ; Prostate cancer ; Real-Time Polymerase Chain Reaction ; Regression analysis ; Regression models ; RNA ; RNA, Messenger - genetics ; Survival ; Thyroid ; Thyroid cancer ; Thyroid gland ; Tissues</subject><ispartof>PloS one, 2011-10, Vol.6 (10), p.e26150-e26150</ispartof><rights>COPYRIGHT 2011 Public Library of Science</rights><rights>2011 Halliday A. Idikio. This is an open-access article distributed under the terms of the Creative Commons Attribution License: https://creativecommons.org/licenses/by/4.0/ (the “License”), which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited. Notwithstanding the ProQuest Terms and Conditions, you may use this content in accordance with the terms of the License.</rights><rights>Halliday A. Idikio. 2011</rights><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c757t-8cb00b9b8a915a5201fefd53004f3d5211efab1daa3c1a0f3158afdaaf12fef33</citedby><cites>FETCH-LOGICAL-c757t-8cb00b9b8a915a5201fefd53004f3d5211efab1daa3c1a0f3158afdaaf12fef33</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/PMC3198435/pdf/$$EPDF$$P50$$Gpubmedcentral$$Hfree_for_read</linktopdf><linktohtml>$$Uhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC3198435/$$EHTML$$P50$$Gpubmedcentral$$Hfree_for_read</linktohtml><link.rule.ids>230,315,728,781,785,865,886,2103,2929,23867,27925,27926,53792,53794</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/22039439$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><contributor>Cho, William C. S.</contributor><creatorcontrib>Idikio, Halliday A</creatorcontrib><title>Galectin-3 and Beclin1/Atg6 genes in human cancers: using cDNA tissue panel, qRT-PCR, and logistic regression model to identify cancer cell biomarkers</title><title>PloS one</title><addtitle>PLoS One</addtitle><description>Cancer biomarkers are sought to support cancer diagnosis, predict cancer patient response to treatment and survival. Identifying reliable biomarkers for predicting cancer treatment response needs understanding of all aspects of cancer cell death and survival. Galectin-3 and Beclin1 are involved in two coordinated pathways of programmed cell death, apoptosis and autophagy and are linked to necroptosis/necrosis. The aim of the study was to quantify galectin-3 and Beclin1 mRNA in human cancer tissue cDNA panels and determine their utility as biomarkers of cancer cell survival.
A panel of 96 cDNAs from eight (8) different normal and cancer tissue types were used for quantitative real-time polymerase chain reaction (qRT-PCR) using ABI7900HT. Miner2.0, a web-based 4- and 3-parameter logistic regression software was used to derive individual well polymerase chain reaction efficiencies (E) and cycle threshold (Ct) values. Miner software derived formula was used to calculate mRNA levels and then fold changes. The ratios of cancer to normal tissue levels of galectin-3 and Beclin1 were calculated (using the mean for each tissue type). Relative mRNA expressions for galectin-3 were higher than for Beclin1 in all tissue (normal and cancer) types. In cancer tissues, breast, kidney, thyroid and prostate had the highest galectin-3 mRNA levels compared to normal tissues. High levels of Beclin1 mRNA levels were in liver and prostate cancers when compared to normal tissues. Breast, kidney and thyroid cancers had high galectin-3 levels and low Beclin1 levels.
Galectin-3 expression patterns in normal and cancer tissues support its reported roles in human cancer. Beclin1 expression pattern supports its roles in cancer cell survival and in treatment response. qRT-PCR analysis method used may enable high throughput studies to generate molecular biomarker sets for diagnosis and predicting cancer treatment response.</description><subject>Analysis</subject><subject>Apoptosis</subject><subject>Apoptosis Regulatory Proteins - genetics</subject><subject>Autophagy</subject><subject>Beclin-1</subject><subject>Biological markers</subject><subject>Biology</subject><subject>Biomarkers</subject><subject>Biomarkers, Tumor - analysis</subject><subject>Breast cancer</subject><subject>Cancer</subject><subject>Cancer diagnosis</subject><subject>Cancer genetics</subject><subject>Cancer research</subject><subject>Cancer therapies</subject><subject>Cancer treatment</subject><subject>Care and treatment</subject><subject>Cell death</subject><subject>Cell survival</subject><subject>Computer programs</subject><subject>Cytochrome</subject><subject>Diagnosis</subject><subject>DNA, Complementary</subject><subject>Galectin 3 - 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S.</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Galectin-3 and Beclin1/Atg6 genes in human cancers: using cDNA tissue panel, qRT-PCR, and logistic regression model to identify cancer cell biomarkers</atitle><jtitle>PloS one</jtitle><addtitle>PLoS One</addtitle><date>2011-10-19</date><risdate>2011</risdate><volume>6</volume><issue>10</issue><spage>e26150</spage><epage>e26150</epage><pages>e26150-e26150</pages><issn>1932-6203</issn><eissn>1932-6203</eissn><abstract>Cancer biomarkers are sought to support cancer diagnosis, predict cancer patient response to treatment and survival. Identifying reliable biomarkers for predicting cancer treatment response needs understanding of all aspects of cancer cell death and survival. Galectin-3 and Beclin1 are involved in two coordinated pathways of programmed cell death, apoptosis and autophagy and are linked to necroptosis/necrosis. The aim of the study was to quantify galectin-3 and Beclin1 mRNA in human cancer tissue cDNA panels and determine their utility as biomarkers of cancer cell survival.
A panel of 96 cDNAs from eight (8) different normal and cancer tissue types were used for quantitative real-time polymerase chain reaction (qRT-PCR) using ABI7900HT. Miner2.0, a web-based 4- and 3-parameter logistic regression software was used to derive individual well polymerase chain reaction efficiencies (E) and cycle threshold (Ct) values. Miner software derived formula was used to calculate mRNA levels and then fold changes. The ratios of cancer to normal tissue levels of galectin-3 and Beclin1 were calculated (using the mean for each tissue type). Relative mRNA expressions for galectin-3 were higher than for Beclin1 in all tissue (normal and cancer) types. In cancer tissues, breast, kidney, thyroid and prostate had the highest galectin-3 mRNA levels compared to normal tissues. High levels of Beclin1 mRNA levels were in liver and prostate cancers when compared to normal tissues. Breast, kidney and thyroid cancers had high galectin-3 levels and low Beclin1 levels.
Galectin-3 expression patterns in normal and cancer tissues support its reported roles in human cancer. Beclin1 expression pattern supports its roles in cancer cell survival and in treatment response. qRT-PCR analysis method used may enable high throughput studies to generate molecular biomarker sets for diagnosis and predicting cancer treatment response.</abstract><cop>United States</cop><pub>Public Library of Science</pub><pmid>22039439</pmid><doi>10.1371/journal.pone.0026150</doi><tpages>e26150</tpages><oa>free_for_read</oa></addata></record> |
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| issn | 1932-6203 1932-6203 |
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| source | MEDLINE; DOAJ Directory of Open Access Journals; Elektronische Zeitschriftenbibliothek - Frei zugängliche E-Journals; Public Library of Science (PLoS) Journals Open Access; PubMed Central; Free Full-Text Journals in Chemistry |
| subjects | Analysis Apoptosis Apoptosis Regulatory Proteins - genetics Autophagy Beclin-1 Biological markers Biology Biomarkers Biomarkers, Tumor - analysis Breast cancer Cancer Cancer diagnosis Cancer genetics Cancer research Cancer therapies Cancer treatment Care and treatment Cell death Cell survival Computer programs Cytochrome Diagnosis DNA, Complementary Galectin 3 - genetics Galectin-3 Genes Genetic aspects Genomics Humans Kidneys Kinases Laboratories Liver Liver cancer Medical prognosis Medical research Medicine Membrane Proteins - genetics Metabolism mRNA Necroptosis Ovarian cancer Phagocytosis Polymerase chain reaction Prognosis Prostate cancer Real-Time Polymerase Chain Reaction Regression analysis Regression models RNA RNA, Messenger - genetics Survival Thyroid Thyroid cancer Thyroid gland Tissues |
| title | Galectin-3 and Beclin1/Atg6 genes in human cancers: using cDNA tissue panel, qRT-PCR, and logistic regression model to identify cancer cell biomarkers |
| url | https://sfx.bib-bvb.de/sfx_tum?ctx_ver=Z39.88-2004&ctx_enc=info:ofi/enc:UTF-8&ctx_tim=2024-12-18T15%3A09%3A40IST&url_ver=Z39.88-2004&url_ctx_fmt=infofi/fmt:kev:mtx:ctx&rfr_id=info:sid/primo.exlibrisgroup.com:primo3-Article-gale_plos_&rft_val_fmt=info:ofi/fmt:kev:mtx:journal&rft.genre=article&rft.atitle=Galectin-3%20and%20Beclin1/Atg6%20genes%20in%20human%20cancers:%20using%20cDNA%20tissue%20panel,%20qRT-PCR,%20and%20logistic%20regression%20model%20to%20identify%20cancer%20cell%20biomarkers&rft.jtitle=PloS%20one&rft.au=Idikio,%20Halliday%20A&rft.date=2011-10-19&rft.volume=6&rft.issue=10&rft.spage=e26150&rft.epage=e26150&rft.pages=e26150-e26150&rft.issn=1932-6203&rft.eissn=1932-6203&rft_id=info:doi/10.1371/journal.pone.0026150&rft_dat=%3Cgale_plos_%3EA476867468%3C/gale_plos_%3E%3Curl%3E%3C/url%3E&disable_directlink=true&sfx.directlink=off&sfx.report_link=0&rft_id=info:oai/&rft_pqid=1310007616&rft_id=info:pmid/22039439&rft_galeid=A476867468&rft_doaj_id=oai_doaj_org_article_b5e6463519ea45ac90a6a09ae43f3de2&rfr_iscdi=true |