scholarly journals Exploration of intermediate-sized INDELs by next-generation multigene panel testing in Han Chinese patients with breast cancer

2019 ◽  
Vol 6 (1) ◽  
Author(s):  
Chihiro Hata ◽  
Hirofumi Nakaoka ◽  
Yu Xiang ◽  
Dong Wang ◽  
Anping Yang ◽  
...  

Abstract Multigene panel testing via next-generation sequencing focuses on the detection of small-sized mutations, such as single nucleotide variants and short insertions and deletions (INDELs). However, intermediate-sized INDELs have not been fully explored due to technical difficulties. Here, we performed bioinformatics analyses to identify intermediate-sized INDELs in 54 cancer-related genes from 583 Han Chinese patients with breast cancer. We detected a novel deletion–insertion in a translational variant of PTEN (also known as PTENα) in one patient.

2019 ◽  
Vol 105 (4) ◽  
pp. 338-352 ◽  
Author(s):  
Maria Teresa Ricci ◽  
Sara Volorio ◽  
Stefano Signoroni ◽  
Paolo Mariani ◽  
Frederique Mariette ◽  
...  

Introduction: Recent advances in technology and research are rapidly changing the diagnostic approach to hereditary gastrointestinal cancer (HGIC) syndromes. Although the practice of clinical genetics is currently transitioning from targeted criteria-based testing to multigene panels, important challenges remain to be addressed. The aim of this study was to develop and technically validate the performance of a multigene panel for HGIC. Methods: CGT-colon-G14 is an amplicon-based panel designed to detect single nucleotide variants and small insertions/deletions in 14 well-established or presumed high-penetrance genes involved in HGIC. The assay parameters tested were sensitivity, specificity, accuracy, and inter-run and intra-run reproducibility. Performance and clinical impact were determined using 48 samples of patients with suspected HGIC/polyposis previously tested with the targeted approach. Results: The CGT-colon-G14 panel showed 99.99% accuracy and 100% inter- and intra-run reproducibility. Moreover, panel testing detected 1 actionable pathogenic variant and 16 variants with uncertain clinical impact that were missed by the conventional approach because they were located in genes not previously analyzed. Conclusion: Introduction of the CGT-colon-G14 panel into the clinic could provide a higher diagnostic yield than a step-wise approach; however, results may not always be straightforward without the implementation of new genetic counseling models.


2017 ◽  
Vol 35 (22) ◽  
pp. 2568-2575 ◽  
Author(s):  
Carin R. Espenschied ◽  
Holly LaDuca ◽  
Shuwei Li ◽  
Rachel McFarland ◽  
Chia-Ling Gau ◽  
...  

Purpose Most existing literature describes Lynch syndrome (LS) as a hereditary syndrome leading to high risks of colorectal cancer (CRC) and endometrial cancer mainly as a result of mutations in MLH1 and MSH2. Most of these studies were performed on cohorts with disease suggestive of hereditary CRC and population-based CRC and endometrial cancer cohorts, possibly biasing results. We aimed to describe a large cohort of mismatch repair (MMR) mutation carriers ascertained through multigene panel testing, evaluate their phenotype, and compare the results with those of previous studies. Methods We retrospectively reviewed clinical histories of patients who had multigene panel testing, including the MMR and EPCAM genes, between March 2012 and June 2015 (N = 34,981) and performed a series of statistical comparisons. Results Overall, MSH6 mutations were most frequent, followed by PMS2, MSH2, MLH1, and EPCAM mutations, respectively. Of 528 patients who had MMR mutations, 63 (11.9%) had breast cancer only and 144 (27.3%) had CRC only. When comparing those with breast cancer only to those with CRC only, MSH6 and PMS2 mutations were more frequent than MLH1 and MSH2 mutations ( P = 2.3 × 10−5). Of the 528 patients, 22.2% met BRCA1 and BRCA2 ( BRCA1/2) testing criteria and not LS criteria, and 5.1% met neither BRCA1/2 nor LS testing criteria. MSH6 and PMS2 mutations were more frequent than MLH1 and MSH2 mutations among patients who met BRCA1/2 testing criteria but did not meet LS testing criteria ( P = 4.3 × 10−7). Conclusion These results provide a new perspective on LS and suggest that individuals with MSH6 and PMS2 mutations may present with a hereditary breast and ovarian cancer phenotype. These data also highlight the limitations of current testing criteria in identifying these patients, as well as the need for further investigation of cancer risks in patients with MMR mutations.


2020 ◽  
Vol 22 (5) ◽  
pp. 840-846 ◽  
Author(s):  
Dana Farengo Clark ◽  
Scott T. Michalski ◽  
Rashmi Tondon ◽  
Bita Nehoray ◽  
Jessica Ebrahimzadeh ◽  
...  

Cancers ◽  
2019 ◽  
Vol 11 (9) ◽  
pp. 1340 ◽  
Author(s):  
Gianluca Tedaldi ◽  
Francesca Pirini ◽  
Michela Tebaldi ◽  
Valentina Zampiga ◽  
Ilaria Cangini ◽  
...  

The main gene involved in gastric cancer (GC) predisposition is CDH1, the pathogenic variants of which are associated with diffuse-type gastric cancer (DGC) and lobular breast cancer (LBC). CDH1 only explains a fraction (10–50%) of patients suspected of DGC/LBC genetic predisposition. To identify novel susceptibility genes, thus improving the management of families at risk, we performed a multigene panel testing on selected patients. We searched for germline pathogenic variants in 94 cancer-related genes in 96 GC or LBC Italian patients with early-onset and/or family history of GC. We found CDH1 pathogenic variants in 10.4% of patients. In 11.5% of cases, we identified loss-of-function variants in BRCA1, BRCA2, PALB2, and ATM breast/ovarian cancer susceptibility genes, as well as in MSH2, PMS2, BMPR1A, PRF1, and BLM genes. In 78.1% of patients, we did not find any variants with clear-cut clinical significance; however, 37.3% of these cases harbored rare missense variants predicted to be damaging by bioinformatics tools. Multigene panel testing decreased the number of patients that would have otherwise remained genetically unexplained. Besides CDH1, our results demonstrated that GC pathogenic variants are distributed across a number of susceptibility genes and reinforced the emerging link between gastric and breast cancer predisposition.


2018 ◽  
Vol 228-229 ◽  
pp. 1-4 ◽  
Author(s):  
Verónica Castillo-Guardiola ◽  
M Desamparados Sarabia-Meseguer ◽  
Miguel Marín-Vera ◽  
Ana Isabel Sánchez-Bermúdez ◽  
José Luis Alonso-Romero ◽  
...  

2018 ◽  
Vol 36 (15_suppl) ◽  
pp. 1579-1579
Author(s):  
Elena Zarcaro ◽  
Leif W. Ellisen ◽  
Kristen M Shannon ◽  
Erica Blouch ◽  
Steven J. Isakoff

2020 ◽  
Vol 26 (10) ◽  
pp. 2112-2114
Author(s):  
Claire C. Conley ◽  
Jennifer D. Garcia ◽  
Cristi Radford ◽  
Richard R. Reich ◽  
Alvaro N. Monteiro ◽  
...  

The Breast ◽  
2019 ◽  
Vol 45 ◽  
pp. 29-35 ◽  
Author(s):  
Chrystelle Colas ◽  
Lisa Golmard ◽  
Antoine de Pauw ◽  
Sandrine M. Caputo ◽  
Dominique Stoppa-Lyonnet

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