CNVkit: genome-wide copy number detection and visualization from targeted DNA sequencing

E Talevich, AH Shain, T Botton… - PLoS computational …, 2016 - journals.plos.org
Germline copy number variants (CNVs) and somatic copy number alterations (SCNAs) are
of significant importance in syndromic conditions and cancer. Massively parallel sequencing …

Exome sequencing and whole genome sequencing for the detection of copy number variation

JY Hehir-Kwa, R Pfundt, JA Veltman - Expert review of molecular …, 2015 - Taylor & Francis
Many laboratories now use genomic microarrays as their first-tier diagnostic test for copy
number variation (CNV) detection. In addition, whole exome sequencing is increasingly …

[HTML][HTML] Points to consider in the detection of germline structural variants using next-generation sequencing: a statement of the American College of Medical Genetics …

G Raca, C Astbury, A Behlmann, MJ De Castro… - Genetics in …, 2023 - Elsevier
Disclaimer: This Points to Consider document is designed primarily as an educational
resource for clinical laboratory geneticists to help them provide quality clinical laboratory …

[HTML][HTML] Detection of elusive DNA copy-number variations in hereditary disease and cancer through the use of noncoding and off-target sequencing reads

M Quinodoz, K Kaminska, F Cancellieri, JH Han… - The American Journal of …, 2024 - cell.com
Copy-number variants (CNVs) play a substantial role in the molecular pathogenesis of
hereditary disease and cancer, as well as in normal human interindividual variation …

Assessing the reproducibility of exome copy number variations predictions

CS Hong, LN Singh, JC Mullikin, LG Biesecker - Genome medicine, 2016 - Springer
Background Reproducibility is receiving increased attention across many domains of
science and genomics is no exception. Efforts to identify copy number variations (CNVs) …

PEcnv: accurate and efficient detection of copy number variations of various lengths

X Wang, Y Xu, R Liu, X Lai, Y Liu, S Wang… - Briefings in …, 2022 - academic.oup.com
Copy number variation (CNV) is a class of key biomarkers in many complex traits and
diseases. Detecting CNV from sequencing data is a substantial bioinformatics problem and …

Discovery of targetable genetic alterations in advanced non-small cell lung cancer using a next-generation sequencing-based circulating tumor DNA assay

H Hou, X Yang, J Zhang, Z Zhang, X Xu, X Zhang… - Scientific reports, 2017 - nature.com
Abstract Next-generation sequencing (NGS)-based circulating tumor DNA (ctDNA) assays
have provided a new method of identifying tumor-driving genes in patients with advanced …

The utility of next-generation sequencing in gene discovery for mutation-negative patients with Rett syndrome

WA Gold, J Christodoulou - Frontiers in Cellular Neuroscience, 2015 - frontiersin.org
Rett syndrome (RTT) is a rare, severe disorder of neuronal plasticity that predominantly
affects girls. Girls with RTT usually appear asymptomatic in the first 6–18 months of life, but …

HBOS-CNV: A new approach to detect copy number variations from next-generation sequencing data

Y Guo, S Wang, X Yuan - Frontiers in Genetics, 2021 - frontiersin.org
Copy number variation (CNV) is a genomic mutation that plays an important role in tumor
evolution and tumor genesis. Accurate detection of CNVs from next-generation sequencing …

[HTML][HTML] Characterization and genomic localization of a SMAD4 processed pseudogene

CM Watson, N Camm, LA Crinnion… - The Journal of Molecular …, 2017 - Elsevier
Like many clinical diagnostic laboratories, the Yorkshire Regional Genetics Service
undertakes routine investigation of cancer-predisposed individuals by high-throughput …