Identification of ABCA5 among ATP-Binding Cassette Transporter Family as a New Biomarker for Colorectal Cancer
Background. The increasing incidence and mortality of colorectal cancer (CRC) urgently requires updated biomarkers. The ABC transporter family is a widespread family of membrane-bound proteins involved in the transportation of substrates associated with ATP hydrolysis, including metabolites, amino a...
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description | Background. The increasing incidence and mortality of colorectal cancer (CRC) urgently requires updated biomarkers. The ABC transporter family is a widespread family of membrane-bound proteins involved in the transportation of substrates associated with ATP hydrolysis, including metabolites, amino acids, peptides and proteins, sterols and lipids, organic and inorganic ions, sugars, metals, and drugs. They play an important role in the maintenance of homeostasis in the body. Purpose. This study aims to search for new markers in the ABC transporter gene family for diagnostic and prognostic purposes through data mining of The Cancer Genome Atlas (TCGA) and GEO (Gene Expression Omnibus) datasets. Methods. A total of 980 samples, including 684 CRC patients and 296 controls from five different datasets, were included for analysis. The construction of the PPI (protein-protein interaction) network and pathway analysis were performed in STRING database and DAVID (database for annotation, visualization, and integrated discovery), respectively. In addition, GSEA (gene set enrichment analysis) and WGCNA (weighted gene co-expression network analysis) were also used for functional analysis. Results. After several rounds of screening and validation, only the ABCB5 gene was retained among the 49 genes. Conclusions. The results demonstrated that ABCA5 expression is reduced in CRC and patients with high ABCA5 expression have better OS, which can provide guidance for better management and treatment of CRC in the future. |
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The increasing incidence and mortality of colorectal cancer (CRC) urgently requires updated biomarkers. The ABC transporter family is a widespread family of membrane-bound proteins involved in the transportation of substrates associated with ATP hydrolysis, including metabolites, amino acids, peptides and proteins, sterols and lipids, organic and inorganic ions, sugars, metals, and drugs. They play an important role in the maintenance of homeostasis in the body. Purpose. This study aims to search for new markers in the ABC transporter gene family for diagnostic and prognostic purposes through data mining of The Cancer Genome Atlas (TCGA) and GEO (Gene Expression Omnibus) datasets. Methods. A total of 980 samples, including 684 CRC patients and 296 controls from five different datasets, were included for analysis. The construction of the PPI (protein-protein interaction) network and pathway analysis were performed in STRING database and DAVID (database for annotation, visualization, and integrated discovery), respectively. In addition, GSEA (gene set enrichment analysis) and WGCNA (weighted gene co-expression network analysis) were also used for functional analysis. Results. After several rounds of screening and validation, only the ABCB5 gene was retained among the 49 genes. Conclusions. The results demonstrated that ABCA5 expression is reduced in CRC and patients with high ABCA5 expression have better OS, which can provide guidance for better management and treatment of CRC in the future.</description><identifier>ISSN: 1687-8450</identifier><identifier>EISSN: 1687-8450</identifier><identifier>EISSN: 1687-8469</identifier><identifier>DOI: 10.1155/2022/3399311</identifier><identifier>PMID: 35783152</identifier><language>eng</language><publisher>New York: Hindawi</publisher><subject>B cells ; Biomarkers ; Cancer ; Colorectal cancer ; Data mining ; Datasets ; Diagnosis ; Gene expression ; Genes ; Genetic aspects ; Genomes ; Health aspects ; Hydrolysis ; Medical prognosis ; Mortality ; Protein binding ; Protein-protein interactions ; Proteins ; Regression analysis ; Software ; Sterols ; Survival analysis ; Taiwan ; Tumors</subject><ispartof>Journal of oncology, 2022-06, Vol.2022, p.1-14</ispartof><rights>Copyright © 2022 Peilong Bu et al.</rights><rights>COPYRIGHT 2022 John Wiley & Sons, Inc.</rights><rights>Copyright © 2022 Peilong Bu et al. This work is licensed under http://creativecommons.org/licenses/by/4.0/ (the “License”). Notwithstanding the ProQuest Terms and Conditions, you may use this content in accordance with the terms of the License.</rights><rights>Copyright © 2022 Peilong Bu et al. 2022</rights><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c453t-c6e32b84b14228c82547c37671134a62f5aa4d0a286fccd53202777ab5899be93</citedby><cites>FETCH-LOGICAL-c453t-c6e32b84b14228c82547c37671134a62f5aa4d0a286fccd53202777ab5899be93</cites><orcidid>0000-0002-7704-8622 ; 0000-0001-8971-0225 ; 0000-0003-4295-4964 ; 0000-0002-7985-6682 ; 0000-0002-8623-331X ; 0000-0003-2421-9501 ; 0000-0002-9622-4409 ; 0000-0003-3730-4457 ; 0000-0002-2283-4351 ; 0000-0001-6447-4289</orcidid></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktopdf>$$Uhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC9242773/pdf/$$EPDF$$P50$$Gpubmedcentral$$Hfree_for_read</linktopdf><linktohtml>$$Uhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC9242773/$$EHTML$$P50$$Gpubmedcentral$$Hfree_for_read</linktohtml><link.rule.ids>230,314,727,780,784,885,27924,27925,53791,53793</link.rule.ids></links><search><contributor>Zheng, Mingjun</contributor><contributor>Mingjun Zheng</contributor><creatorcontrib>Bu, Peilong</creatorcontrib><creatorcontrib>Xiao, Yafei</creatorcontrib><creatorcontrib>Hu, Shaowen</creatorcontrib><creatorcontrib>Jiang, Xiaowei</creatorcontrib><creatorcontrib>Tan, Cong</creatorcontrib><creatorcontrib>Qiu, Mengyuan</creatorcontrib><creatorcontrib>Huang, Wanting</creatorcontrib><creatorcontrib>Li, Mengmeng</creatorcontrib><creatorcontrib>Li, Quanying</creatorcontrib><creatorcontrib>Qin, Changjiang</creatorcontrib><title>Identification of ABCA5 among ATP-Binding Cassette Transporter Family as a New Biomarker for Colorectal Cancer</title><title>Journal of oncology</title><description>Background. The increasing incidence and mortality of colorectal cancer (CRC) urgently requires updated biomarkers. The ABC transporter family is a widespread family of membrane-bound proteins involved in the transportation of substrates associated with ATP hydrolysis, including metabolites, amino acids, peptides and proteins, sterols and lipids, organic and inorganic ions, sugars, metals, and drugs. They play an important role in the maintenance of homeostasis in the body. Purpose. This study aims to search for new markers in the ABC transporter gene family for diagnostic and prognostic purposes through data mining of The Cancer Genome Atlas (TCGA) and GEO (Gene Expression Omnibus) datasets. Methods. A total of 980 samples, including 684 CRC patients and 296 controls from five different datasets, were included for analysis. The construction of the PPI (protein-protein interaction) network and pathway analysis were performed in STRING database and DAVID (database for annotation, visualization, and integrated discovery), respectively. In addition, GSEA (gene set enrichment analysis) and WGCNA (weighted gene co-expression network analysis) were also used for functional analysis. Results. After several rounds of screening and validation, only the ABCB5 gene was retained among the 49 genes. Conclusions. The results demonstrated that ABCA5 expression is reduced in CRC and patients with high ABCA5 expression have better OS, which can provide guidance for better management and treatment of CRC in the future.</description><subject>B cells</subject><subject>Biomarkers</subject><subject>Cancer</subject><subject>Colorectal cancer</subject><subject>Data mining</subject><subject>Datasets</subject><subject>Diagnosis</subject><subject>Gene expression</subject><subject>Genes</subject><subject>Genetic aspects</subject><subject>Genomes</subject><subject>Health aspects</subject><subject>Hydrolysis</subject><subject>Medical prognosis</subject><subject>Mortality</subject><subject>Protein binding</subject><subject>Protein-protein interactions</subject><subject>Proteins</subject><subject>Regression analysis</subject><subject>Software</subject><subject>Sterols</subject><subject>Survival analysis</subject><subject>Taiwan</subject><subject>Tumors</subject><issn>1687-8450</issn><issn>1687-8450</issn><issn>1687-8469</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2022</creationdate><recordtype>article</recordtype><sourceid>RHX</sourceid><sourceid>ABUWG</sourceid><sourceid>AFKRA</sourceid><sourceid>AZQEC</sourceid><sourceid>BENPR</sourceid><sourceid>CCPQU</sourceid><sourceid>DWQXO</sourceid><recordid>eNp9kUtv1DAURi0EoqWw4wdYYoNUQv2MnQ1SJqIPqQIWw9q6cZypS2IPdoaq_x6PZsRrwcpXusef7_VB6DUl7ymV8oIRxi44bxpO6RN0SmutKi0kefpHfYJe5HxPSC1IUz9HJ1wqzalkpyjcDC4sfvQWFh8DjiNuV10rMcwxbHC7_lKtfBh8qTvI2S2Lw-sEIW9jWlzClzD76RFDxoA_uQe88nGG9K10xphwF6eYnF1gKreDdeklejbClN2r43mGvl5-XHfX1e3nq5uuva2skHypbO0467XoqWBMW82kUJarWlHKBdRslABiIMB0PVo7SF4-QSkFvdRN07uGn6EPh9ztrp_dYMuOCSazTb5M92giePN3J_g7s4k_TMNESeIl4O0xIMXvO5cXM_ts3TRBcHGXDau1JFxwRQv65h_0Pu5SKOvtKa6JlET9pjYwOePDGMu7dh9qWkUaUsRoXah3B8qmmHNy46-RKTF73Wav2xx1F_z8gN8VR_Dg_0__BBIgpdE</recordid><startdate>20220622</startdate><enddate>20220622</enddate><creator>Bu, Peilong</creator><creator>Xiao, Yafei</creator><creator>Hu, Shaowen</creator><creator>Jiang, Xiaowei</creator><creator>Tan, Cong</creator><creator>Qiu, Mengyuan</creator><creator>Huang, Wanting</creator><creator>Li, Mengmeng</creator><creator>Li, Quanying</creator><creator>Qin, Changjiang</creator><general>Hindawi</general><general>John Wiley & Sons, Inc</general><general>Hindawi Limited</general><scope>RHU</scope><scope>RHW</scope><scope>RHX</scope><scope>AAYXX</scope><scope>CITATION</scope><scope>3V.</scope><scope>7RV</scope><scope>7X7</scope><scope>7XB</scope><scope>8FI</scope><scope>8FJ</scope><scope>8FK</scope><scope>ABUWG</scope><scope>AFKRA</scope><scope>AZQEC</scope><scope>BENPR</scope><scope>CCPQU</scope><scope>DWQXO</scope><scope>FYUFA</scope><scope>GHDGH</scope><scope>K9.</scope><scope>KB0</scope><scope>M0S</scope><scope>NAPCQ</scope><scope>PIMPY</scope><scope>PQEST</scope><scope>PQQKQ</scope><scope>PQUKI</scope><scope>PRINS</scope><scope>7X8</scope><scope>5PM</scope><orcidid>https://orcid.org/0000-0002-7704-8622</orcidid><orcidid>https://orcid.org/0000-0001-8971-0225</orcidid><orcidid>https://orcid.org/0000-0003-4295-4964</orcidid><orcidid>https://orcid.org/0000-0002-7985-6682</orcidid><orcidid>https://orcid.org/0000-0002-8623-331X</orcidid><orcidid>https://orcid.org/0000-0003-2421-9501</orcidid><orcidid>https://orcid.org/0000-0002-9622-4409</orcidid><orcidid>https://orcid.org/0000-0003-3730-4457</orcidid><orcidid>https://orcid.org/0000-0002-2283-4351</orcidid><orcidid>https://orcid.org/0000-0001-6447-4289</orcidid></search><sort><creationdate>20220622</creationdate><title>Identification of ABCA5 among ATP-Binding Cassette Transporter Family as a New Biomarker for Colorectal Cancer</title><author>Bu, Peilong ; Xiao, Yafei ; Hu, Shaowen ; Jiang, Xiaowei ; Tan, Cong ; Qiu, Mengyuan ; Huang, Wanting ; Li, Mengmeng ; Li, Quanying ; Qin, Changjiang</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c453t-c6e32b84b14228c82547c37671134a62f5aa4d0a286fccd53202777ab5899be93</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2022</creationdate><topic>B cells</topic><topic>Biomarkers</topic><topic>Cancer</topic><topic>Colorectal cancer</topic><topic>Data mining</topic><topic>Datasets</topic><topic>Diagnosis</topic><topic>Gene expression</topic><topic>Genes</topic><topic>Genetic aspects</topic><topic>Genomes</topic><topic>Health aspects</topic><topic>Hydrolysis</topic><topic>Medical prognosis</topic><topic>Mortality</topic><topic>Protein binding</topic><topic>Protein-protein interactions</topic><topic>Proteins</topic><topic>Regression analysis</topic><topic>Software</topic><topic>Sterols</topic><topic>Survival analysis</topic><topic>Taiwan</topic><topic>Tumors</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Bu, Peilong</creatorcontrib><creatorcontrib>Xiao, Yafei</creatorcontrib><creatorcontrib>Hu, Shaowen</creatorcontrib><creatorcontrib>Jiang, Xiaowei</creatorcontrib><creatorcontrib>Tan, Cong</creatorcontrib><creatorcontrib>Qiu, Mengyuan</creatorcontrib><creatorcontrib>Huang, Wanting</creatorcontrib><creatorcontrib>Li, Mengmeng</creatorcontrib><creatorcontrib>Li, Quanying</creatorcontrib><creatorcontrib>Qin, Changjiang</creatorcontrib><collection>Hindawi Publishing Complete</collection><collection>Hindawi Publishing Subscription Journals</collection><collection>Hindawi Publishing Open Access Journals</collection><collection>CrossRef</collection><collection>ProQuest Central (Corporate)</collection><collection>Nursing & Allied Health Database</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>ProQuest Central Essentials</collection><collection>ProQuest Central</collection><collection>ProQuest One Community College</collection><collection>ProQuest Central Korea</collection><collection>Health Research Premium Collection</collection><collection>Health Research Premium Collection (Alumni)</collection><collection>ProQuest Health & Medical Complete (Alumni)</collection><collection>Nursing & Allied Health Database (Alumni Edition)</collection><collection>Health & Medical Collection (Alumni Edition)</collection><collection>Nursing & Allied Health Premium</collection><collection>Publicly Available Content Database</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>Journal of oncology</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Bu, Peilong</au><au>Xiao, Yafei</au><au>Hu, Shaowen</au><au>Jiang, Xiaowei</au><au>Tan, Cong</au><au>Qiu, Mengyuan</au><au>Huang, Wanting</au><au>Li, Mengmeng</au><au>Li, Quanying</au><au>Qin, Changjiang</au><au>Zheng, Mingjun</au><au>Mingjun Zheng</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Identification of ABCA5 among ATP-Binding Cassette Transporter Family as a New Biomarker for Colorectal Cancer</atitle><jtitle>Journal of oncology</jtitle><date>2022-06-22</date><risdate>2022</risdate><volume>2022</volume><spage>1</spage><epage>14</epage><pages>1-14</pages><issn>1687-8450</issn><eissn>1687-8450</eissn><eissn>1687-8469</eissn><abstract>Background. The increasing incidence and mortality of colorectal cancer (CRC) urgently requires updated biomarkers. The ABC transporter family is a widespread family of membrane-bound proteins involved in the transportation of substrates associated with ATP hydrolysis, including metabolites, amino acids, peptides and proteins, sterols and lipids, organic and inorganic ions, sugars, metals, and drugs. They play an important role in the maintenance of homeostasis in the body. Purpose. This study aims to search for new markers in the ABC transporter gene family for diagnostic and prognostic purposes through data mining of The Cancer Genome Atlas (TCGA) and GEO (Gene Expression Omnibus) datasets. Methods. A total of 980 samples, including 684 CRC patients and 296 controls from five different datasets, were included for analysis. The construction of the PPI (protein-protein interaction) network and pathway analysis were performed in STRING database and DAVID (database for annotation, visualization, and integrated discovery), respectively. In addition, GSEA (gene set enrichment analysis) and WGCNA (weighted gene co-expression network analysis) were also used for functional analysis. Results. After several rounds of screening and validation, only the ABCB5 gene was retained among the 49 genes. Conclusions. The results demonstrated that ABCA5 expression is reduced in CRC and patients with high ABCA5 expression have better OS, which can provide guidance for better management and treatment of CRC in the future.</abstract><cop>New York</cop><pub>Hindawi</pub><pmid>35783152</pmid><doi>10.1155/2022/3399311</doi><tpages>14</tpages><orcidid>https://orcid.org/0000-0002-7704-8622</orcidid><orcidid>https://orcid.org/0000-0001-8971-0225</orcidid><orcidid>https://orcid.org/0000-0003-4295-4964</orcidid><orcidid>https://orcid.org/0000-0002-7985-6682</orcidid><orcidid>https://orcid.org/0000-0002-8623-331X</orcidid><orcidid>https://orcid.org/0000-0003-2421-9501</orcidid><orcidid>https://orcid.org/0000-0002-9622-4409</orcidid><orcidid>https://orcid.org/0000-0003-3730-4457</orcidid><orcidid>https://orcid.org/0000-0002-2283-4351</orcidid><orcidid>https://orcid.org/0000-0001-6447-4289</orcidid><oa>free_for_read</oa></addata></record> |
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subjects | B cells Biomarkers Cancer Colorectal cancer Data mining Datasets Diagnosis Gene expression Genes Genetic aspects Genomes Health aspects Hydrolysis Medical prognosis Mortality Protein binding Protein-protein interactions Proteins Regression analysis Software Sterols Survival analysis Taiwan Tumors |
title | Identification of ABCA5 among ATP-Binding Cassette Transporter Family as a New Biomarker for Colorectal Cancer |
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