Comparative transcriptome analysis of matched primary and distant metastatic ovarian carcinoma

Sallinen, Hanna; Janhonen, Sirpa; Pölönen, Petri; Niskanen, Henri; Liu, O. H.; Kivelä, Annukka M.; Hartikainen, Jaana M.; Anttila, Markku; Heinäniemi, Merja; Ylä‐Herttuala, Seppo

doi:10.1186/s12885-019-6339-0

Cited by 18 publications

(8 citation statements)

References 46 publications

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“…These results propose that the microenvironment of abdominal metastases did not strongly affect the global RNA expression patterns of cancer cells, although the cancer cells have invaded and proliferated in a different organ, and imply that the metastatic capacity was probably acquired at an early stage during tumorigenesis. In contrast, previous studies based on bulk RNA profiling have reported several differences between primary tumors and metastases ( 32–34 ). Such contradiction may be caused by different technologies used in the researches.…”

Section: Resultsmentioning

confidence: 66%

Single-Cell Dissection of the Multiomic Landscape of High-Grade Serous Ovarian Cancer

et al. 2022

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High-grade serous cancer (HGSC) is the most common subtype of ovarian cancer. HGSC is highly aggressive with poor patient outcomes, and a deeper understanding of HGSC tumorigenesis could help guide future treatment development. To systematically characterize the underlying pathological mechanisms and intratumoral heterogeneity in human HGSC, we used an optimized single-cell multiomics sequencing technology to simultaneously analyze somatic copy number alterations (SCNA), DNA methylation, chromatin accessibility, and transcription in individual cancer cells. Genes associated with interferon (IFN) signaling, metallothioneins, and metabolism were commonly upregulated in ovarian cancer cells. Integrated multiomics analyses revealed that upregulation of IFN signaling and metallothioneins was influenced by both demethylation of their promoters and hypomethylation of satellites and LINE1, and potential key transcription factors regulating glycolysis using chromatin accessibility data were uncovered. Additionally, gene expression and DNA methylation displayed similar patterns in matched primary and metastatic tumor cells of the same genetic lineage, suggesting that metastatic cells potentially preexist in subclones of primary tumors. Finally, the lineages of cancer cells with higher residual DNA methylation levels and upregulated expression of CCN1 and HSP90AA1 presented greater metastatic potential. This study characterizes the critical genetic, epigenetic, and transcriptomic features and their mutual regulatory relationships in ovarian cancer, providing valuable resources for identifying new molecular mechanisms and potential therapeutic targets for HGSC.

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Section: Resultsmentioning

confidence: 66%

Single-Cell Dissection of the Multiomic Landscape of High-Grade Serous Ovarian Cancer

et al. 2022

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“…Along with the development of new technologies and increasing their availability, the number of studies and new discoveries is growing. Recently, potential biomarkers of colon cancer [25], ovarian cancer [26], hepatocellular carcinoma [27], and endometrial cancer [28] have been selected. Similarly, in the case of the proteome, its analysis reveals detailed information on the activity of individual proteins or protein families, which is valuable in the diagnosis of various diseases, including cancer.…”

Section: Multiomics Strategiesmentioning

confidence: 99%

Recent Multiomics Approaches in Endometrial Cancer

Boroń¹,

Zmarzły²,

Wierzbik-Strońska³

et al. 2022

IJMS

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Endometrial cancer is the most common gynecological cancers in developed countries. Many of the mechanisms involved in its initiation and progression remain unclear. Analysis providing comprehensive data on the genome, transcriptome, proteome, and epigenome could help in selecting molecular markers and targets in endometrial cancer. Multiomics approaches can reveal disturbances in multiple biological systems, giving a broader picture of the problem. However, they provide a large amount of data that require processing and further integration prior to analysis. There are several repositories of multiomics datasets, including endometrial cancer data, as well as portals allowing multiomics data analysis and visualization, including Oncomine, UALCAN, LinkedOmics, and miRDB. Multiomics approaches have also been applied in endometrial cancer research in order to identify novel molecular markers and therapeutic targets. This review describes in detail the latest findings on multiomics approaches in endometrial cancer.

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“…The high-throughput gene expression pro les of ovarian cancer primary tissues and peritoneal metastasis tissues were extracted from the GEO database (GSE98281) [6]. The DEGs between primary tissues and peritoneal metastasis tissues were analysed by R 3.4 (edgeR and LIMMA package).…”

Section: Bioinformatics Analysismentioning

confidence: 99%

SFRP2 Promotes Peritoneal Metastasis of Ovarian Cancer within Phosphorylation of GSK3β

Zhang

Qin

Yuan

et al. 2021

Preprint

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BackgroundThe aim was to study further the molecular mechanism of ovarian cancer peritoneal metastasis and the corresponding prognostic markers.MaterialsWe analysed the sequencing data of 10 pairs of primary ovarian cancer and peritoneal metastasis from GSE98281 to determine SFRP2 through GO, KEGG and GSEA analysis. Western blot, invasion and migration experiments were used to detect the biological effects of SFRP2 on ovarian cancer cells. Immunohistochemistry was used to detect ovarian cancer in tissue samples from a TCGA-Ovarian Cancer cohort, and the survival analysis of SFRP2 was then performed.ResultsSFRP2 affected the phosphorylation level of GSK3β and upregulated the expression level of β-catenin. The high expression of SFRP2 in ovarian cancer cells improves cell invasion and migration capabilities. In histology studies, high expression of SFRP2 has increased the positive expression of β-catenin in the nucleus, and patients with high expression of SFRP2 had a worse prognosis. Similar results also appeared in ovarian cancer cases with high expression of SFRP2 mRNA in the TCGA data set.ConclusionSFRP2 activates the β-Catenin/Wnt signalling pathway through phosphorylation of GSK3β, which promotes the metastasis of ovarian cancer that leads to poor prognosis.

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Comparative transcriptome analysis of matched primary and distant metastatic ovarian carcinoma

Cited by 18 publications

References 46 publications

Single-Cell Dissection of the Multiomic Landscape of High-Grade Serous Ovarian Cancer

Single-Cell Dissection of the Multiomic Landscape of High-Grade Serous Ovarian Cancer

Recent Multiomics Approaches in Endometrial Cancer

SFRP2 Promotes Peritoneal Metastasis of Ovarian Cancer within Phosphorylation of GSK3β

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