RNA-Seq Analysis of Clinical Samples from TCGA Reveal Molecular Signatures for Ovarian Cancer

Identifying differentially expressed genes and co-expression modules lead to novel biomarkers. GO, pathway enrichment, network, and tumor stage analysis of 318 ovarian cancer samples from TCGA, categorised into primary and recurrent, pre-menopause and post-menopause, and early and late stage tumors...

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Published inCancer investigation Vol. 41; no. 4; pp. 394 - 404
Main Authors Wadapurkar, Rucha M., Sivaram, Aruna, Vyas, Renu
Format Journal Article
LanguageEnglish
Published England Taylor & Francis 21.04.2023
Subjects
biomarker
Biomarkers
diagnosis
differential expression analysis
Female
Gene Regulatory Networks
Humans
Lithostathine - genetics
Neoplasm Recurrence, Local
Ovarian cancer
Ovarian Neoplasms - genetics
Ovarian Neoplasms - pathology
Sequence Analysis, RNA
TCGA
diagnosis
biomarker
TCGA
differential expression analysis
Ovarian cancer
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Abstract Identifying differentially expressed genes and co-expression modules lead to novel biomarkers. GO, pathway enrichment, network, and tumor stage analysis of 318 ovarian cancer samples from TCGA, categorised into primary and recurrent, pre-menopause and post-menopause, and early and late stage tumors was performed. Upregulated and downregulated genes in primary vs recurrent, early stage vs late-stage and pre-menopause vs post-menopause tumors were 84 and 62, 84 and 35, and 88 and 14, respectively. IRAK2 and CXCL8 had higher expression in recurrent tumors while REG1A had higher expression in post-menopause samples. In late stage tumors constant expression of IRAK2 and REG1A was observed, while that of CXCL8 and EGF decreased. These genes may be potential biomarkers for the diagnosis of the disease.
AbstractList Identifying differentially expressed genes and co-expression modules lead to novel biomarkers. GO, pathway enrichment, network, and tumor stage analysis of 318 ovarian cancer samples from TCGA, categorised into primary and recurrent, pre-menopause and post-menopause, and early and late stage tumors was performed. Upregulated and downregulated genes in primary vs recurrent, early stage vs late-stage and pre-menopause vs post-menopause tumors were 84 and 62, 84 and 35, and 88 and 14, respectively. IRAK2 and CXCL8 had higher expression in recurrent tumors while REG1A had higher expression in post-menopause samples. In late stage tumors constant expression of IRAK2 and REG1A was observed, while that of CXCL8 and EGF decreased. These genes may be potential biomarkers for the diagnosis of the disease.
Author Vyas, Renu
Wadapurkar, Rucha M.
Sivaram, Aruna
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CitedBy_id crossref_primary_10_21053_ceo_2023_00026
crossref_primary_10_1016_j_heliyon_2024_e33367
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differential expression analysis
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Snippet Identifying differentially expressed genes and co-expression modules lead to novel biomarkers. GO, pathway enrichment, network, and tumor stage analysis of 318...
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SubjectTerms biomarker
Biomarkers
diagnosis
differential expression analysis
Female
Gene Regulatory Networks
Humans
Lithostathine - genetics
Neoplasm Recurrence, Local
Ovarian cancer
Ovarian Neoplasms - genetics
Ovarian Neoplasms - pathology
Sequence Analysis, RNA
TCGA
Title RNA-Seq Analysis of Clinical Samples from TCGA Reveal Molecular Signatures for Ovarian Cancer
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