A novel gene list identifies tumors with a stromal-mesenchymal phenotype and worse prognosis in gastric cancer

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buir.contributor.authorDemirkol Canlı, Seçil
buir.contributor.authorKüçükkaraduman, Barış
buir.contributor.orcidDemirkol Canlı, Seçil|0000-0003-0200-7962
buir.contributor.orcidKüçükkaraduman, Barış|0000-0002-5475-281X
dc.citation.epage25en_US
dc.citation.issueNumber11
dc.citation.spage[1]
dc.citation.volumeNumber15
dc.contributor.authorDemirkol Canlı, Seçil
dc.contributor.authorÜner, M.
dc.contributor.authorKüçükkaraduman, Barış
dc.contributor.authorKaraoğlu, D. A.
dc.contributor.authorIşık, A.
dc.contributor.authorTurhan, N.
dc.contributor.authorAkyol, A.
dc.contributor.authorGömceli, I.
dc.contributor.authorGüre, A. O. A
dc.date.accessioned2024-03-15T06:45:46Z
dc.date.available2024-03-15T06:45:46Z
dc.date.issued2023-06-02
dc.departmentDepartment of Molecular Biology and Genetics
dc.description.abstractBackground: Molecular biomarkers that predict disease progression can help identify tumor subtypes and shape treatment plans. In this study, we aimed to identify robust biomarkers of prognosis in gastric cancer based on transcriptomic data obtained from primary gastric tumors. Methods: Microarray, RNA sequencing, and single-cell RNA sequencing-based gene expression data from gastric tumors were obtained from public databases. Freshly frozen gastric tumors (n = 42) and matched FFPE (formalin-fixed, paraffin-embedded) (n = 40) tissues from a Turkish gastric cancer cohort were used for quantitative real-time PCR and immunohistochemistry-based assessments of gene expression, respectively. Results: A novel list of 20 prognostic genes was identified and used for the classification of gastric tumors into two major tumor subgroups with differential stromal gene expression (“Stromal-UP” (SU) and “Stromal-DOWN” (SD)). The SU group had a more mesenchymal profile with an enrichment of extracellular matrix-related gene sets and a poor prognosis compared to the SD group. Expression of the genes within the signature correlated with the expression of mesenchymal markers ex vivo. A higher stromal content in FFPE tissues was associated with shorter overall survival. Conclusions: A stroma-rich, mesenchymal subgroup among gastric tumors identifies an unfavorable clinical outcome in all cohorts tested.
dc.description.provenanceMade available in DSpace on 2024-03-15T06:45:46Z (GMT). No. of bitstreams: 1 A_Novel_Gene_List_Identifies_Tumors_with_a_Stromal-Mesenchymal_Phenotype_and_Worse_Prognosis_in_Gastric_Cancer.pdf: 1623870 bytes, checksum: 4b9d616602e8e82c42482cea961d3bed (MD5) Previous issue date: 2023-06-02en
dc.identifier.doi10.3390/cancers15113035
dc.identifier.eissn2072-6694
dc.identifier.urihttps://hdl.handle.net/11693/114778
dc.language.isoEnglish
dc.publisherMDPI
dc.relation.isversionofhttps://dx.doi.org/10.3390/cancers15113035
dc.source.titleCancer
dc.subjectGastric cancer
dc.subjectPrognosis
dc.subjectBiomarker
dc.subjectStroma
dc.titleA novel gene list identifies tumors with a stromal-mesenchymal phenotype and worse prognosis in gastric cancer
dc.typeArticle

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