Collagen-related gene expression level predicts the prognosis and immune therapy response
Background Gastric cancer patients responded differently to the same treatment strategy and had various prognoses for the lack of biomarkers to guide the therapy choice. Methods RNA data of a local gastric cancer cohort with 103 patients were processed and used to explore potential treatment guiding...
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| Veröffentlicht in: | Gastric cancer : official journal of the International Gastric Cancer Association and the Japanese Gastric Cancer Association 2023-11, Vol.26 (6), p.891-903 |
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| container_title | Gastric cancer : official journal of the International Gastric Cancer Association and the Japanese Gastric Cancer Association |
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| creator | Wang, Jianchao Liu, Zhentian Lin, Liyan Wu, Zhida Gao, Xuan Cai, Xiqian Chang, Lianpeng Xia, Xuefeng Zhang, Hejun Chen, Gang |
| description | Background
Gastric cancer patients responded differently to the same treatment strategy and had various prognoses for the lack of biomarkers to guide the therapy choice.
Methods
RNA data of a local gastric cancer cohort with 103 patients were processed and used to explore potential treatment guiding factors. Cluster analysis was performed by non-negative matrix factorization. The expression level of collagen-related genes was evaluated by ssGSEA named collagen score (CS). Data from TCGA, ACRG, and an immune therapy cohort were utilized to explore prognosis and efficacy. Prognostic predictive power of CS was assessed using the nomogram.
Results
In our study, local RNA data were processed by cluster analysis, and it was found that cluster 2 contained a worse tumor infiltration status. The GSEA result showed that collagen-related pathways were differentially activated in two clusters. In TCGA and ACRG cohorts, the CS can be used as an independent prognostic factor (TCGA OS:
p =
0.018, HR = 3.5; ACRG OS:
p =
0.014, HR = 4.88). An immunotherapy cohort showed that the patients with higher CS had a significantly worse ORR (
p =
0.0025). The high CS group contained several cell death pathways down-regulated and contained the worse tumor microenvironment. The nomogram demonstrated the survival prediction capability of collagen score.
Conclusion
CS was verified as an independent prognostic factor and potentially reflected the therapeutic effect of immunotherapy. The CS could provide a new way to evaluate the clinical prognosis and response information helping develop the collagen-targeted treatment. |
| doi_str_mv | 10.1007/s10120-023-01416-y |
| format | Article |
| fullrecord | <record><control><sourceid>proquest_pubme</sourceid><recordid>TN_cdi_proquest_miscellaneous_2847345344</recordid><sourceformat>XML</sourceformat><sourcesystem>PC</sourcesystem><sourcerecordid>2847345344</sourcerecordid><originalsourceid>FETCH-LOGICAL-p213t-22b985cd4fe7a0e6078f98ce3f109f8784e74997d0602c9ce8b3a841c26e5edf3</originalsourceid><addsrcrecordid>eNpdkU1PwzAMhiMEYmPwBzigSFy4BJyPtskRTXxJk7jAgVOUte7o1KalaRH79wS2CYmTbfmx9dovIeccrjlAdhM4cAEMhGTAFU_Z5oBMuZIpkxKSw30uDJ-QkxDWADwxPD0mE5klShqdTsnbvK1rt0LPeqzdgAWNOVL86noMoWo9rfETaxrLosqHQId3jEW78m2oAnW-oFXTjHEkNnrXbWic61of8JQcla4OeLaLM_J6f_cyf2SL54en-e2CdYLLgQmxNDrJC1Vi5gBTyHRpdI6y5GBKnWmFmTImKyAFkZsc9VI6rXguUkywKOWMXG33RlUfI4bBNlXIMV7lsR2DFVplUiVSqYhe_kPX7dj7qC5S2sSfStCRuthR47LBwnZ91bh-Y_dPi4DcAiG2_Ar7vzUc7I81dmuNjdbYX2vsRn4Dn4F_kw</addsrcrecordid><sourcetype>Aggregation Database</sourcetype><iscdi>true</iscdi><recordtype>article</recordtype><pqid>2889007308</pqid></control><display><type>article</type><title>Collagen-related gene expression level predicts the prognosis and immune therapy response</title><source>MEDLINE</source><source>Springer Nature - Complete Springer Journals</source><source>Elektronische Zeitschriftenbibliothek - Frei zugängliche E-Journals</source><creator>Wang, Jianchao ; Liu, Zhentian ; Lin, Liyan ; Wu, Zhida ; Gao, Xuan ; Cai, Xiqian ; Chang, Lianpeng ; Xia, Xuefeng ; Zhang, Hejun ; Chen, Gang</creator><creatorcontrib>Wang, Jianchao ; Liu, Zhentian ; Lin, Liyan ; Wu, Zhida ; Gao, Xuan ; Cai, Xiqian ; Chang, Lianpeng ; Xia, Xuefeng ; Zhang, Hejun ; Chen, Gang</creatorcontrib><description>Background
Gastric cancer patients responded differently to the same treatment strategy and had various prognoses for the lack of biomarkers to guide the therapy choice.
Methods
RNA data of a local gastric cancer cohort with 103 patients were processed and used to explore potential treatment guiding factors. Cluster analysis was performed by non-negative matrix factorization. The expression level of collagen-related genes was evaluated by ssGSEA named collagen score (CS). Data from TCGA, ACRG, and an immune therapy cohort were utilized to explore prognosis and efficacy. Prognostic predictive power of CS was assessed using the nomogram.
Results
In our study, local RNA data were processed by cluster analysis, and it was found that cluster 2 contained a worse tumor infiltration status. The GSEA result showed that collagen-related pathways were differentially activated in two clusters. In TCGA and ACRG cohorts, the CS can be used as an independent prognostic factor (TCGA OS:
p =
0.018, HR = 3.5; ACRG OS:
p =
0.014, HR = 4.88). An immunotherapy cohort showed that the patients with higher CS had a significantly worse ORR (
p =
0.0025). The high CS group contained several cell death pathways down-regulated and contained the worse tumor microenvironment. The nomogram demonstrated the survival prediction capability of collagen score.
Conclusion
CS was verified as an independent prognostic factor and potentially reflected the therapeutic effect of immunotherapy. The CS could provide a new way to evaluate the clinical prognosis and response information helping develop the collagen-targeted treatment.</description><identifier>ISSN: 1436-3291</identifier><identifier>ISSN: 1436-3305</identifier><identifier>EISSN: 1436-3305</identifier><identifier>DOI: 10.1007/s10120-023-01416-y</identifier><identifier>PMID: 37543986</identifier><language>eng</language><publisher>Singapore: Springer Nature Singapore</publisher><subject>Abdominal Surgery ; Cancer Research ; Cell death ; Cluster analysis ; Collagen ; Gastric cancer ; Gastroenterology ; Gene Expression ; Humans ; Immunotherapy ; Medical prognosis ; Medicine ; Medicine & Public Health ; Metastases ; Nomograms ; Oncology ; Original Article ; Patients ; Prognosis ; RNA ; Stomach Neoplasms - genetics ; Stomach Neoplasms - therapy ; Surgical Oncology ; Tumor microenvironment ; Tumor Microenvironment - genetics ; Tumors</subject><ispartof>Gastric cancer : official journal of the International Gastric Cancer Association and the Japanese Gastric Cancer Association, 2023-11, Vol.26 (6), p.891-903</ispartof><rights>The Author(s) under exclusive licence to The International Gastric Cancer Association and The Japanese Gastric Cancer Association 2023. Springer Nature or its licensor (e.g. a society or other partner) holds exclusive rights to this article under a publishing agreement with the author(s) or other rightsholder(s); author self-archiving of the accepted manuscript version of this article is solely governed by the terms of such publishing agreement and applicable law.</rights><rights>2023. The Author(s) under exclusive licence to The International Gastric Cancer Association and The Japanese Gastric Cancer Association.</rights><lds50>peer_reviewed</lds50><woscitedreferencessubscribed>false</woscitedreferencessubscribed><cites>FETCH-LOGICAL-p213t-22b985cd4fe7a0e6078f98ce3f109f8784e74997d0602c9ce8b3a841c26e5edf3</cites><orcidid>0000-0003-4095-8670</orcidid></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktopdf>$$Uhttps://link.springer.com/content/pdf/10.1007/s10120-023-01416-y$$EPDF$$P50$$Gspringer$$H</linktopdf><linktohtml>$$Uhttps://link.springer.com/10.1007/s10120-023-01416-y$$EHTML$$P50$$Gspringer$$H</linktohtml><link.rule.ids>314,776,780,27901,27902,41464,42533,51294</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/37543986$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Wang, Jianchao</creatorcontrib><creatorcontrib>Liu, Zhentian</creatorcontrib><creatorcontrib>Lin, Liyan</creatorcontrib><creatorcontrib>Wu, Zhida</creatorcontrib><creatorcontrib>Gao, Xuan</creatorcontrib><creatorcontrib>Cai, Xiqian</creatorcontrib><creatorcontrib>Chang, Lianpeng</creatorcontrib><creatorcontrib>Xia, Xuefeng</creatorcontrib><creatorcontrib>Zhang, Hejun</creatorcontrib><creatorcontrib>Chen, Gang</creatorcontrib><title>Collagen-related gene expression level predicts the prognosis and immune therapy response</title><title>Gastric cancer : official journal of the International Gastric Cancer Association and the Japanese Gastric Cancer Association</title><addtitle>Gastric Cancer</addtitle><addtitle>Gastric Cancer</addtitle><description>Background
Gastric cancer patients responded differently to the same treatment strategy and had various prognoses for the lack of biomarkers to guide the therapy choice.
Methods
RNA data of a local gastric cancer cohort with 103 patients were processed and used to explore potential treatment guiding factors. Cluster analysis was performed by non-negative matrix factorization. The expression level of collagen-related genes was evaluated by ssGSEA named collagen score (CS). Data from TCGA, ACRG, and an immune therapy cohort were utilized to explore prognosis and efficacy. Prognostic predictive power of CS was assessed using the nomogram.
Results
In our study, local RNA data were processed by cluster analysis, and it was found that cluster 2 contained a worse tumor infiltration status. The GSEA result showed that collagen-related pathways were differentially activated in two clusters. In TCGA and ACRG cohorts, the CS can be used as an independent prognostic factor (TCGA OS:
p =
0.018, HR = 3.5; ACRG OS:
p =
0.014, HR = 4.88). An immunotherapy cohort showed that the patients with higher CS had a significantly worse ORR (
p =
0.0025). The high CS group contained several cell death pathways down-regulated and contained the worse tumor microenvironment. The nomogram demonstrated the survival prediction capability of collagen score.
Conclusion
CS was verified as an independent prognostic factor and potentially reflected the therapeutic effect of immunotherapy. The CS could provide a new way to evaluate the clinical prognosis and response information helping develop the collagen-targeted treatment.</description><subject>Abdominal Surgery</subject><subject>Cancer Research</subject><subject>Cell death</subject><subject>Cluster analysis</subject><subject>Collagen</subject><subject>Gastric cancer</subject><subject>Gastroenterology</subject><subject>Gene Expression</subject><subject>Humans</subject><subject>Immunotherapy</subject><subject>Medical prognosis</subject><subject>Medicine</subject><subject>Medicine & Public Health</subject><subject>Metastases</subject><subject>Nomograms</subject><subject>Oncology</subject><subject>Original Article</subject><subject>Patients</subject><subject>Prognosis</subject><subject>RNA</subject><subject>Stomach Neoplasms - genetics</subject><subject>Stomach Neoplasms - therapy</subject><subject>Surgical Oncology</subject><subject>Tumor microenvironment</subject><subject>Tumor Microenvironment - genetics</subject><subject>Tumors</subject><issn>1436-3291</issn><issn>1436-3305</issn><issn>1436-3305</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2023</creationdate><recordtype>article</recordtype><sourceid>EIF</sourceid><recordid>eNpdkU1PwzAMhiMEYmPwBzigSFy4BJyPtskRTXxJk7jAgVOUte7o1KalaRH79wS2CYmTbfmx9dovIeccrjlAdhM4cAEMhGTAFU_Z5oBMuZIpkxKSw30uDJ-QkxDWADwxPD0mE5klShqdTsnbvK1rt0LPeqzdgAWNOVL86noMoWo9rfETaxrLosqHQId3jEW78m2oAnW-oFXTjHEkNnrXbWic61of8JQcla4OeLaLM_J6f_cyf2SL54en-e2CdYLLgQmxNDrJC1Vi5gBTyHRpdI6y5GBKnWmFmTImKyAFkZsc9VI6rXguUkywKOWMXG33RlUfI4bBNlXIMV7lsR2DFVplUiVSqYhe_kPX7dj7qC5S2sSfStCRuthR47LBwnZ91bh-Y_dPi4DcAiG2_Ar7vzUc7I81dmuNjdbYX2vsRn4Dn4F_kw</recordid><startdate>20231101</startdate><enddate>20231101</enddate><creator>Wang, Jianchao</creator><creator>Liu, Zhentian</creator><creator>Lin, Liyan</creator><creator>Wu, Zhida</creator><creator>Gao, Xuan</creator><creator>Cai, Xiqian</creator><creator>Chang, Lianpeng</creator><creator>Xia, Xuefeng</creator><creator>Zhang, Hejun</creator><creator>Chen, Gang</creator><general>Springer Nature Singapore</general><general>Springer Nature B.V</general><scope>CGR</scope><scope>CUY</scope><scope>CVF</scope><scope>ECM</scope><scope>EIF</scope><scope>NPM</scope><scope>7T5</scope><scope>H94</scope><scope>K9.</scope><scope>7X8</scope><orcidid>https://orcid.org/0000-0003-4095-8670</orcidid></search><sort><creationdate>20231101</creationdate><title>Collagen-related gene expression level predicts the prognosis and immune therapy response</title><author>Wang, Jianchao ; Liu, Zhentian ; Lin, Liyan ; Wu, Zhida ; Gao, Xuan ; Cai, Xiqian ; Chang, Lianpeng ; Xia, Xuefeng ; Zhang, Hejun ; Chen, Gang</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-p213t-22b985cd4fe7a0e6078f98ce3f109f8784e74997d0602c9ce8b3a841c26e5edf3</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2023</creationdate><topic>Abdominal Surgery</topic><topic>Cancer Research</topic><topic>Cell death</topic><topic>Cluster analysis</topic><topic>Collagen</topic><topic>Gastric cancer</topic><topic>Gastroenterology</topic><topic>Gene Expression</topic><topic>Humans</topic><topic>Immunotherapy</topic><topic>Medical prognosis</topic><topic>Medicine</topic><topic>Medicine & Public Health</topic><topic>Metastases</topic><topic>Nomograms</topic><topic>Oncology</topic><topic>Original Article</topic><topic>Patients</topic><topic>Prognosis</topic><topic>RNA</topic><topic>Stomach Neoplasms - genetics</topic><topic>Stomach Neoplasms - therapy</topic><topic>Surgical Oncology</topic><topic>Tumor microenvironment</topic><topic>Tumor Microenvironment - genetics</topic><topic>Tumors</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Wang, Jianchao</creatorcontrib><creatorcontrib>Liu, Zhentian</creatorcontrib><creatorcontrib>Lin, Liyan</creatorcontrib><creatorcontrib>Wu, Zhida</creatorcontrib><creatorcontrib>Gao, Xuan</creatorcontrib><creatorcontrib>Cai, Xiqian</creatorcontrib><creatorcontrib>Chang, Lianpeng</creatorcontrib><creatorcontrib>Xia, Xuefeng</creatorcontrib><creatorcontrib>Zhang, Hejun</creatorcontrib><creatorcontrib>Chen, Gang</creatorcontrib><collection>Medline</collection><collection>MEDLINE</collection><collection>MEDLINE (Ovid)</collection><collection>MEDLINE</collection><collection>MEDLINE</collection><collection>PubMed</collection><collection>Immunology Abstracts</collection><collection>AIDS and Cancer Research Abstracts</collection><collection>ProQuest Health & Medical Complete (Alumni)</collection><collection>MEDLINE - Academic</collection><jtitle>Gastric cancer : official journal of the International Gastric Cancer Association and the Japanese Gastric Cancer Association</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Wang, Jianchao</au><au>Liu, Zhentian</au><au>Lin, Liyan</au><au>Wu, Zhida</au><au>Gao, Xuan</au><au>Cai, Xiqian</au><au>Chang, Lianpeng</au><au>Xia, Xuefeng</au><au>Zhang, Hejun</au><au>Chen, Gang</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Collagen-related gene expression level predicts the prognosis and immune therapy response</atitle><jtitle>Gastric cancer : official journal of the International Gastric Cancer Association and the Japanese Gastric Cancer Association</jtitle><stitle>Gastric Cancer</stitle><addtitle>Gastric Cancer</addtitle><date>2023-11-01</date><risdate>2023</risdate><volume>26</volume><issue>6</issue><spage>891</spage><epage>903</epage><pages>891-903</pages><issn>1436-3291</issn><issn>1436-3305</issn><eissn>1436-3305</eissn><abstract>Background
Gastric cancer patients responded differently to the same treatment strategy and had various prognoses for the lack of biomarkers to guide the therapy choice.
Methods
RNA data of a local gastric cancer cohort with 103 patients were processed and used to explore potential treatment guiding factors. Cluster analysis was performed by non-negative matrix factorization. The expression level of collagen-related genes was evaluated by ssGSEA named collagen score (CS). Data from TCGA, ACRG, and an immune therapy cohort were utilized to explore prognosis and efficacy. Prognostic predictive power of CS was assessed using the nomogram.
Results
In our study, local RNA data were processed by cluster analysis, and it was found that cluster 2 contained a worse tumor infiltration status. The GSEA result showed that collagen-related pathways were differentially activated in two clusters. In TCGA and ACRG cohorts, the CS can be used as an independent prognostic factor (TCGA OS:
p =
0.018, HR = 3.5; ACRG OS:
p =
0.014, HR = 4.88). An immunotherapy cohort showed that the patients with higher CS had a significantly worse ORR (
p =
0.0025). The high CS group contained several cell death pathways down-regulated and contained the worse tumor microenvironment. The nomogram demonstrated the survival prediction capability of collagen score.
Conclusion
CS was verified as an independent prognostic factor and potentially reflected the therapeutic effect of immunotherapy. The CS could provide a new way to evaluate the clinical prognosis and response information helping develop the collagen-targeted treatment.</abstract><cop>Singapore</cop><pub>Springer Nature Singapore</pub><pmid>37543986</pmid><doi>10.1007/s10120-023-01416-y</doi><tpages>13</tpages><orcidid>https://orcid.org/0000-0003-4095-8670</orcidid></addata></record> |
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| source | MEDLINE; Springer Nature - Complete Springer Journals; Elektronische Zeitschriftenbibliothek - Frei zugängliche E-Journals |
| subjects | Abdominal Surgery Cancer Research Cell death Cluster analysis Collagen Gastric cancer Gastroenterology Gene Expression Humans Immunotherapy Medical prognosis Medicine Medicine & Public Health Metastases Nomograms Oncology Original Article Patients Prognosis RNA Stomach Neoplasms - genetics Stomach Neoplasms - therapy Surgical Oncology Tumor microenvironment Tumor Microenvironment - genetics Tumors |
| title | Collagen-related gene expression level predicts the prognosis and immune therapy response |
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