scholarly journals DNA methylation markers as triage test for the early identification of cervical lesions in a Chinese population

2020 ◽  
Author(s):  
Na Li ◽  
Yuanjing Hu ◽  
Xinying Zhang ◽  
Yixin Liu ◽  
Ya He ◽  
...  
Keyword(s):  
Dna Methylation ◽  
Early Identification ◽  
Chinese Population ◽  
Cervical Lesions ◽  
Triage Test

scholarly journals DNA methylation markers as a triage test for identification of cervical lesions in a high risk human papillomavirus positive screening cohort

2018 ◽  
Vol 144 (4) ◽  
pp. 746-754 ◽  
Author(s):  
Robert W. van Leeuwen ◽  
Anja Oštrbenk ◽  
Mario Poljak ◽  
Ate G. J. van der Zee ◽  
Ed Schuuring ◽  
...  
Keyword(s):  
Dna Methylation ◽  
Human Papillomavirus ◽  
High Risk ◽  
Cervical Lesions ◽  
Triage Test

scholarly journals DNA methylation of imprinted gene control regions in the regression of low-grade cervical lesions

2018 ◽  
Vol 143 (3) ◽  
pp. 552-560 ◽  
Author(s):  
Ayodele Gomih ◽  
Jennifer S. Smith ◽  
Kari E. North ◽  
Michael G. Hudgens ◽  
Wendy R. Brewster ◽  
...  
Keyword(s):  
Dna Methylation ◽  
Low Grade ◽  
Gene Control ◽  
Cervical Lesions ◽  
Imprinted Gene ◽  
Control Regions

scholarly journals Triage of hrHPV-positive women: comparison of two commercial methylation-specific PCR assays

2020 ◽  
Vol 12 (1) ◽  
Author(s):  
Carolin Dippmann ◽  
Martina Schmitz ◽  
Kristina Wunsch ◽  
Stefanie Schütze ◽  
Katrin Beer ◽  
...  
Keyword(s):  
Dna Methylation ◽  
False Positive ◽  
Pap Smear ◽  
Intraepithelial Neoplasia ◽  
Molecular Diagnostic ◽  
Cervical Lesions ◽  
Detection Rates ◽  
Diagnostic Assays ◽  
Specific Pcr

Abstract Aim High-risk human papillomavirus (hrHPV)-based screening is becoming increasingly important, either by supplementing or replacing the traditional cytology-based cervical Pap smear. However, hrHPV screening lacks specificity, because it cannot differentiate between transient virus infection and clinically relevant hrHPV-induced disease. Therefore, reliable triage methods are needed for the identification of HPV-positive women with cervical intraepithelial neoplasia (CIN) in need of treatment. Promising tools discussed for the triage of these patients are molecular diagnostic tests based on epigenetic markers. Here, we compare the performance of two commercially available DNA methylation-based diagnostic assays—GynTect® and the QIAsure Methylation Test—in physician-taken cervical scrapes from 195 subjects. Findings Both GynTect® and the QIAsure Methylation Test detected all cervical carcinoma and carcinoma in situ (CIS). The differences observed in the detection rates between both assays for the different grades of cervical lesions (QIAsure Methylation Test: CIN1 26.7%, CIN2 27.8% and CIN3 74.3%; GynTect®: CIN1 13.3%, CIN2 33.3% and CIN3 60%) were not significant. Concerning the false-positive rates, significant differences were evident. For the healthy (NILM) hrHPV-positive group, the false-positive rates were 5.7% for GynTect® and 26.4% for QIAsure Methylation Test (p = 0.003) and for the NILM hrHPV-negative group 2.2% vs. 23.9% (p = 0.006), respectively. When considering hrHPV-positive samples only for comparison (n = 149), GynTect® delivered significantly higher specificity compared to the QIAsure Methylation Test for CIN2 + (87.6% vs. 67.4% (p < 0.001)) and CIN3 + (84.1% vs. 68.2% (p = 0.002)). Overall our findings suggest that DNA methylation-based tests are suitable for the triage of hrHPV-positive women. With the goal to provide a triage test that complements the limited specificity of HPV testing in HPV-based screening, GynTect® may be preferable, due to its higher specificity for CIN2+ or CIN3+ .

scholarly journals DNA methylation analysis in self-sampled brush material as a triage test in hrHPV-positive women

2014 ◽  
Vol 111 (6) ◽  
pp. 1095-1101 ◽  
Author(s):  
A Boers ◽  
R P Bosgraaf ◽  
R W van Leeuwen ◽  
E Schuuring ◽  
D A M Heideman ◽  
...  
Keyword(s):  
Dna Methylation ◽  
Methylation Analysis ◽  
Dna Methylation Analysis ◽  
Triage Test

scholarly journals Molecular Analyses of Soma-clonal Variation in Date Palm and Banana for Early Identification and Control of Off-types Generation

2010 ◽  
Author(s):  
Yuval Cohen ◽  
Christopher A. Cullis ◽  
Uri Lavi
Keyword(s):  
Gene Expression ◽  
Dna Methylation ◽  
Tissue Culture ◽  
Oil Palm ◽  
Early Identification ◽  
Date Palm ◽  
Differentially Expressed ◽  
Date Palms ◽  
Fruit Setting ◽  
Methylation Patterns

Date palm (Phoenix dactylifera L.) is the major fruit tree grown in arid areas in the Middle East and North Africa. In the last century, dates were introduced to new regions including the USA. Date palms are traditionally propagated through offshoots. Expansion of modern date palm groves led to the development of Tissue Culture propagation methods that generate a large number of homogenous plants, have no seasonal effect on plant source and provide tools to fight the expansion of date pests and diseases. The disadvantage of this procedure is the occurrence of off-type trees which differ from the original cultivar. In the present project we focused on two of the most common date palm off-types: (1) trees with reduced fruit setting, in which most of the flowers turn into three-carpel parthenocarpic fruits. In a severe form, multi-carpel flowers and fruitlets (with up to six or eight carpels instead of the normal three-carpel flowers) are also formed. (2) dwarf trees, having fewer and shorter leaves, very short trunk and are not bearing fruits at their expected age, compared to the normal trees. Similar off-types occur in other crop species propagated by tissue culture, like banana (mainly dwarf plants) or oil palm (with a common 'Mantled' phenotype with reduced fruit setting and occurrence of supernumerary carpels). Some off-types can only be detected several years after planting in the fields. Therefore, efficient methods for prevention of the generation of off-types, as well as methods for their detection and early removal, are required for date palms, as well as for other tissue culture propagated crops. This research is aimed at the understanding of the mechanisms by which off-types are generated, and developing markers for their early identification. Several molecular and genomic approaches were applied. Using Methylation Sensitive AFLP and bisulfite sequencing, we detected changes in DNA methylation patterns occurring in off-types. We isolated and compared the sequence and expression of candidate genes, genes related to vegetative growth and dwarfism and genes related to flower development. While no sequence variation were detected, changes in gene expression, associated with the severity of the "fruit set" phenotype were detected in two genes - PdDEF (Ortholog of rice SPW1, and AP3 B type MADS box gene), and PdDIF (a defensin gene, highly homologous to the oil palm gene EGAD). We applied transcriptomic analyses, using high throughput sequencing, to identify genes differentially expressed in the "palm heart" (the apical meristem and the region of embryonic leaves) of dwarf vs. normal trees. Among the differentially expressed genes we identified genes related to hormonal biosynthesis, perception and regulation, genes related to cell expansion, and genes related to DNA methylation. Using Representation Difference Analyses, we detected changes in the genomes of off-type trees, mainly chloroplast-derived sequences that were incorporated in the nuclear genome and sequences of transposable elements. Sequences previously identified as differing between normal and off-type trees of oil palms or banana, successfully identified variation among date palm off-types, suggesting that these represent highly labile regions of monocot genomes. The data indicate that the date palm genome, similarly to genomes of other monocot crops as oil palm and banana, is quite unstable when cells pass through a cycle of tissue culture and regeneration. Changes in DNA sequences, translocation of DNA fragments and alteration of methylation patterns occur. Consequently, patterns of gene expression are changed, resulting in abnormal phenotypes. The data can be useful for future development of tools for early identification of off-type as well as for better understanding the phenomenon of somaclonal variation during propagation in vitro.

Evaluation of DNA methylation in promoter regions of SFRP4 and ZAR1 in urine and plasma of women with cervical lesions

2017 ◽  
Vol 6 (1) ◽  
pp. 157-168 ◽  
Author(s):  
Rene Hoffstetter ◽  
Ismael Riquelme ◽  
Alejandra Andana ◽  
Carmen G. Ili ◽  
Kurt Buchegger ◽  
...  
Keyword(s):  
Dna Methylation ◽  
Cervical Lesions ◽  
Promoter Regions
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