Fluorescence detection of DNA mismatch repair in human cells

Ito, Shunsuke; Shiraishi, Miyako; Tsuchihashi, Kazuki; Takatsuka, Reine; Yamamoto, Junpei; Kuraoka, Isao; Iwai, Shigenori

doi:10.1038/s41598-018-30733-x

Cited by 5 publications

(3 citation statements)

References 35 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…Recently, immunotherapy with immune checkpoint inhibitors is advancing rapidly and has attracted attention in cancer treatment. [18,19] So far, immunotherapy has shown great efficacy in various types of tumors, and researchers are paying increased attention to immunotherapy for glioma patients. [20] However, glioma and glioblastoma have remained refractory to monotherapy with ICIs.…”

Section: Discussionmentioning

confidence: 99%

CNN3 in glioma

Xu¹,

Chai

et al. 2021

Medicine

View full text Add to dashboard Cite

Background: Gliomas are the most intrinsic type of primary intracranial tumors. The protein encoded by The calponin 3 (CNN3) has been proven to be a member of the calponin family. Its relationships with cervical cancer, colorectal cancer, gastric cancer, and colon cancer have been emphasized by several studies. Our research aims to explore the prognosis value and immunotherapeutic targetability of CNN3 in glioma patients using bioinformatics approach.Methods: CNN3 expression in glioma was analyzed based on GEO and TCGA datasets. Gene expression profiling with clinical information was employed to investigate the correlation between clinicopathological features of glioma patients and relative CNN3 expression levels. Survival analysis was conducted using Kaplan-Meier analysis and the Cox proportional-hazards regression model. Gene set enrichment analysis was conducted to select the pathways significantly enriched for CNN3 associations. Correlations between inflammatory activities, immune checkpoint molecules and CNN3 were probed by gene set variation analysis, correlograms, and correlation analysis.Results: CNN3 was enriched in gliomas, and high expression of CNN3 correlated with worse clinicopathological features and prognosis. Associations between CNN3 and several immune-related pathways were confirmed using a bioinformatics approach. Correlation analysis revealed that CNN3 was associated with inflammatory and immune activities, tumor microenvironment, and immune checkpoint molecules. Conclusion:Our results indicate that high CNN3 expression levels predict poor prognosis, and CNN3 may be a promising immunotherapy target.Abbreviations: CI = confidence interval, CNN3 = The calponin 3, CTLA-4 = cytotoxic T-lymphocyte-associated antigen 4, FDR q-val = false discovery rate q-value, GSEA = gene set enrichment analysis, GSVA = gene set variation analysis, HR = hazard rate, IDH mutations = isocitrate dehydrogenase mutations, IDO = indoleamine 2,3-dioxygenase, KPS = Karnofsky performance score, LGG = low-grade glioma, MDSCs = myeloid-derived suppressor cells, NES = normalized enrichment score, NK = natural killer cells, NOM pval = normalized P-value, OR = odds ratio, PD-1 = programmed cell death protein 1, TAMs = tumor-associated macrophages, TCGA = the cancer genome atlas, Tregs = regulatory T cells.

show abstract

Section: Discussionmentioning

confidence: 99%

CNN3 in glioma

Xu¹,

Chai

et al. 2021

Medicine

View full text Add to dashboard Cite

show abstract

“…For example, quantification of RAD51 foci after IR in a genome-wide siRNA screen identified a role in homologous recombination for the glycolytic enzyme PFKB3 [175,218]. The use of plasmid reporters for different types of DNA damage, which are either fluorescent when damaged or after repair, can allow for the measurement of different DNA repair activities in combination [219,220].…”

Section: Outlook: Approaches To Identify Interactions Between Metabolmentioning

confidence: 99%

Interplay between Cellular Metabolism and the DNA Damage Response in Cancer

Moretton

Loizou

2020

Cancers

View full text Add to dashboard Cite

Metabolism is a fundamental cellular process that can become harmful for cells by leading to DNA damage, for instance by an increase in oxidative stress or through the generation of toxic byproducts. To deal with such insults, cells have evolved sophisticated DNA damage response (DDR) pathways that allow for the maintenance of genome integrity. Recent years have seen remarkable progress in our understanding of the diverse DDR mechanisms, and, through such work, it has emerged that cellular metabolic regulation not only generates DNA damage but also impacts on DNA repair. Cancer cells show an alteration of the DDR coupled with modifications in cellular metabolism, further emphasizing links between these two fundamental processes. Taken together, these compelling findings indicate that metabolic enzymes and metabolites represent a key group of factors within the DDR. Here, we will compile the current knowledge on the dynamic interplay between metabolic factors and the DDR, with a specific focus on cancer. We will also discuss how recently developed high-throughput technologies allow for the identification of novel crosstalk between the DDR and metabolism, which is of crucial importance to better design efficient cancer treatments.

show abstract

“…Optically-mediated DNA detection is based on identifying small changes in light emitted from typically fluorescent molecules as labels to the nucleic acid, with numerous examples in the recent literature. A method for the fluorescence detection of the cellular mismatch repair ability in human cells is proposed to improve the detection of repair defects [4]. A fluorescence-coded DNA nanostructure probe system is presented to enable discrimination of tumor heterogeneity via a screening of dual intracellular microRNA signatures in situ [5].…”

Section: Introductionmentioning

confidence: 99%

A Low-Cost Time-Correlated Single Photon Counting Portable DNA Analyzer

Tian

Wei

2019

Sensors

View full text Add to dashboard Cite

Photon-counting analysis of nucleic acids plays a key role in many diagnostics applications for its accurate and non-invasive nature. However, conventional photon-counting instrumentations are bulky and expensive due to the use of conventional optics and a lack of optimization of electronics. In this paper, we present a portable, low-cost time-correlated single photon-counting (TCSPC) analysis system for DNA detection. Both optical and electronic subsystems are carefully designed to provide effective emission filtering and size reduction, delivering good DNA detection and fluorescence lifetime extraction performance. DNA detection has been verified by fluorescence lifetime measurements of a V-carbazole conjugated fluorophore lifetime bioassay. The time-to-digital module of the proposed TCSPC system achieves a full width at half maximum (FWHM) timing resolution from 121 to 145 ps and a differential non-linearity (DNL) between −8.5% and +9.7% of the least significant bit (LSB) within the 500 ns full-scale range (FSR). With a detection limit of 6.25 nM and a dynamic range of 6.8 ns, the proposed TCSPC system demonstrates the enabling technology for rapid, point-of-care DNA diagnostics.

show abstract

Fluorescence detection of DNA mismatch repair in human cells

Cited by 5 publications

References 35 publications

CNN3 in glioma

CNN3 in glioma

Interplay between Cellular Metabolism and the DNA Damage Response in Cancer

A Low-Cost Time-Correlated Single Photon Counting Portable DNA Analyzer

Contact Info

Product

Resources

About