Structural variant calling: the long and the short of it

M Mahmoud, N Gobet, DI Cruz-Dávalos, N Mounier… - Genome biology, 2019 - Springer
Recent research into structural variants (SVs) has established their importance to medicine
and molecular biology, elucidating their role in various diseases, regulation of gene …

Current status of structural variation studies in plants

Y Yuan, PE Bayer, J Batley… - Plant Biotechnology …, 2021 - Wiley Online Library
Structural variations (SVs) including gene presence/absence variations and copy number
variations are a common feature of genomes in plants and, together with single nucleotide …

Whole-genome CNV analysis: advances in computational approaches

M Pirooznia, FS Goes, PP Zandi - Frontiers in genetics, 2015 - frontiersin.org
Accumulating evidence indicates that DNA copy number variation (CNV) is likely to make a
significant contribution to human diversity and also play an important role in disease …

Structural variation detection using next-generation sequencing data: a comparative technical review

P Guan, WK Sung - Methods, 2016 - Elsevier
Structural variations (SVs) are mutations in the genome of size at least fifty nucleotides. They
contribute to the phenotypic differences among healthy individuals, cause severe diseases …

Free-access copy-number variant detection tools for targeted next-generation sequencing data

I Roca, L González-Castro, H Fernández… - … Research/Reviews in …, 2019 - Elsevier
Copy number variants (CNVs) are intermediate-scale structural variants containing copy
number changes involving DNA fragments of between 1 kb and 5 Mb. Although known to …

Copy number variation and disease resistance in plants

A Dolatabadian, DA Patel, D Edwards… - Theoretical and Applied …, 2017 - Springer
Plant genome diversity varies from single nucleotide polymorphisms to large-scale
deletions, insertions, duplications, or re-arrangements. These re-arrangements of …

Incorporating CNV analysis improves the yield of exome sequencing for rare monogenic disorders—an important consideration for resource-constrained settings

N Louw, N Carstens, Z Lombard… - Frontiers in …, 2023 - frontiersin.org
Exome sequencing (ES) is a recommended first-tier diagnostic test for many rare monogenic
diseases. It allows for the detection of both single-nucleotide variants (SNVs) and copy …

Robust and exact structural variation detection with paired-end and soft-clipped alignments: SoftSV compared with eight algorithms

C Bartenhagen, M Dugas - Briefings in bioinformatics, 2016 - academic.oup.com
Structural variation (SV) plays an important role in genetic diversity among the population in
general and specifically in diseases such as cancer. Modern next-generation sequencing …

Next generation sequencing technology in the clinic and its challenges

LK Vestergaard, DNP Oliveira, CK Høgdall, EV Høgdall - Cancers, 2021 - mdpi.com
Simple Summary Precise identification and annotation of mutations are of utmost importance
in clinical oncology. Insights of the DNA sequence can provide meaningful knowledge to …

Detection of trait-associated structural variations using short-read sequencing

S Kosugi, Y Kamatani, K Harada, K Tomizuka… - Cell Genomics, 2023 - cell.com
Genomic structural variation (SV) affects genetic and phenotypic characteristics in diverse
organisms, but the lack of reliable methods to detect SV has hindered genetic analysis. We …