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对一小部分意大利乳腺癌/卵巢癌患者进行下一代测序检测:新的致病性和未知临床意义的变异体。

and Testing through Next Generation Sequencing in a Small Cohort of Italian Breast/Ovarian Cancer Patients: Novel Pathogenic and Unknown Clinical Significance Variants.

机构信息

Dipartimento Scienze di Laboratorio e Infettivologiche, Fondazione Policlinico Universitario Agostino Gemelli, IRCCS, 00168 Rome, Italy.

Ambulatorio Genetica Medica e Citogenetica Clinica, Poliambulatorio Sant'Anna, ASL Roma 1, Via Garigliano 55, 00198 Rome, Italy.

出版信息

Int J Mol Sci. 2019 Jul 12;20(14):3442. doi: 10.3390/ijms20143442.

Abstract

The aim of this report is to describe results of and Next Generation Sequencing Analysis (NGS) analysis in 132 selected Italian patients with breast/ovarian cancer. A NGS pipeline with a reliable Copy Number Variation (CNV) prediction algorithm was applied. In addition, VarSome and Priors V2.0 Software were employed for in silico analysis of novel missense variants. A total of 37 and pathogenic variants were found in 34 unrelated subjects with a frequency of positive patients of 25.7% (34/132). Twenty-four deleterious variants were detected in (representing the 64.9% of all identified pathogenic defects) and thirteen (35.1% of all identified pathogenic variants) in gene. The percentage of patients carrying a variant of unknown significance (VUS) was 7.5% (10/132). In addition, seven novel variants (five in and two in gene), never previously reported, were identified. Our approach represents a robust and easy-to-use method for full screening. However, a consistent number of our high-risk families still remained without a satisfying answer. Necessarily, further collective efforts must be directed to a definitive classification of VUSs. The future auspice is that the use of multi-gene panel and more advanced screenings, such as whole exome sequencing and/or RNA seq, in routine diagnostics increases the detection rate.

摘要

本报告旨在描述对 132 名意大利乳腺癌/卵巢癌患者进行的 和 下一代测序分析 (NGS) 分析的结果。应用了具有可靠拷贝数变异 (CNV) 预测算法的 NGS 管道。此外,还使用了 VarSome 和 Priors V2.0 软件对新的错义变异进行了计算机分析。在 34 名无亲缘关系的受试者中发现了 37 个 和 致病性变异,阳性患者的频率为 25.7%(34/132)。在 (代表所有鉴定出的致病性缺陷的 64.9%)中检测到 24 个有害变异,在 基因中检测到 13 个(所有鉴定出的致病性变异的 35.1%)。携带意义不明的变异(VUS)的患者比例为 7.5%(10/132)。此外,还鉴定了七个从未报道过的新变异(五个在 基因,两个在 基因)。我们的方法代表了一种强大且易于使用的 全面筛选方法。然而,我们的许多高风险家族仍然没有得到令人满意的答案。必要时,必须进一步共同努力,对 VUS 进行明确分类。未来的前景是,多基因面板和更先进的筛查(如全外显子组测序和/或 RNA seq)在常规诊断中的应用会提高检测率。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/bf46/6678297/480279084288/ijms-20-03442-g001.jpg

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