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 …

Structural variation in the sequencing era

SS Ho, AE Urban, RE Mills - Nature Reviews Genetics, 2020 - nature.com
Identifying structural variation (SV) is essential for genome interpretation but has been
historically difficult due to limitations inherent to available genome technologies. Detection …

Haplotype-resolved diverse human genomes and integrated analysis of structural variation

P Ebert, PA Audano, Q Zhu, B Rodriguez-Martin… - Science, 2021 - science.org
INTRODUCTION The characterization of the full spectrum of genetic variation is critical to
understanding human health and disease. Recent technological advances have made it …

Pangenome graphs improve the analysis of structural variants in rare genetic diseases

C Groza, C Schwendinger-Schreck, WA Cheung… - Nature …, 2024 - nature.com
Rare DNA alterations that cause heritable diseases are only partially resolvable by clinical
next-generation sequencing due to the difficulty of detecting structural variation (SV) in all …

Towards accurate and reliable resolution of structural variants for clinical diagnosis

Z Liu, R Roberts, TR Mercer, J Xu, FJ Sedlazeck… - Genome biology, 2022 - Springer
Structural variants (SVs) are a major source of human genetic diversity and have been
associated with different diseases and phenotypes. The detection of SVs is difficult, and a …

Map** recurrent mosaic copy number variation in human neurons

C Sun, K Kathuria, SB Emery, BJ Kim… - Nature …, 2024 - nature.com
When somatic cells acquire complex karyotypes, they often are removed by the immune
system. Mutant somatic cells that evade immune surveillance can lead to cancer. Neurons …

The structural variation landscape in 492 Atlantic salmon genomes

AC Bertolotti, RM Layer, MK Gundappa… - Nature …, 2020 - nature.com
Structural variants (SVs) are a major source of genetic and phenotypic variation, but remain
challenging to accurately type and are hence poorly characterized in most species. We …

Whole genome sequencing increases the diagnostic rate in Charcot-Marie-Tooth disease

CJ Record, M Pipis, M Skorupinska, J Blake, R Poh… - Brain, 2024 - academic.oup.com
Abstract Charcot-Marie-Tooth disease (CMT) is one of the most common and genetically
heterogeneous inherited neurological diseases, with more than 130 disease-causing genes …

Dysgu: efficient structural variant calling using short or long reads

K Cleal, DM Baird - Nucleic acids research, 2022 - academic.oup.com
Structural variation (SV) plays a fundamental role in genome evolution and can underlie
inherited or acquired diseases such as cancer. Long-read sequencing technologies have …

HiNT: a computational method for detecting copy number variations and translocations from Hi-C data

S Wang, S Lee, C Chu, D Jain, P Kerpedjiev… - Genome biology, 2020 - Springer
The three-dimensional conformation of a genome can be profiled using Hi-C, a technique
that combines chromatin conformation capture with high-throughput sequencing. However …