MET-dependent solid tumours—molecular diagnosis and targeted therapy

R Guo, J Luo, J Chang, N Rekhtman, M Arcila… - Nature reviews Clinical …, 2020 - nature.com
Attempts to develop MET-targeted therapies have historically focused on MET-expressing
cancers, with limited success. Thus, MET expression in the absence of a genomic marker of …

Sequencing depth and coverage: key considerations in genomic analyses

D Sims, I Sudbery, NE Ilott, A Heger… - Nature Reviews …, 2014 - nature.com
Sequencing technologies have placed a wide range of genomic analyses within the
capabilities of many laboratories. However, sequencing costs often set limits to the amount …

GATK-gCNV enables the discovery of rare copy number variants from exome sequencing data

M Babadi, JM Fu, SK Lee, AN Smirnov, LD Gauthier… - Nature …, 2023 - nature.com
Copy number variants (CNVs) are major contributors to genetic diversity and disease. While
standardized methods, such as the genome analysis toolkit (GATK), exist for detecting short …

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 …

Tissue-specific mutation accumulation in human adult stem cells during life

F Blokzijl, J De Ligt, M Jager, V Sasselli, S Roerink… - Nature, 2016 - nature.com
The gradual accumulation of genetic mutations in human adult stem cells (ASCs) during life
is associated with various age-related diseases, including cancer,. Extreme variation in …

Whole exome and genome sequencing in mendelian disorders: a diagnostic and health economic analysis

LJ Ewans, AE Minoche, D Schofield… - European Journal of …, 2022 - nature.com
Whole genome sequencing (WGS) improves Mendelian disorder diagnosis over whole
exome sequencing (WES); however, additional diagnostic yields and costs remain …

Recent ultra-rare inherited variants implicate new autism candidate risk genes

AB Wilfert, TN Turner, SC Murali, PH Hsieh… - Nature …, 2021 - nature.com
Autism is a highly heritable complex disorder in which de novo mutation (DNM) variation
contributes significantly to risk. Using whole-genome sequencing data from 3,474 families …

Excess of rare, inherited truncating mutations in autism

N Krumm, TN Turner, C Baker, L Vives, K Mohajeri… - Nature …, 2015 - nature.com
To assess the relative impact of inherited and de novo variants on autism risk, we generated
a comprehensive set of exonic single-nucleotide variants (SNVs) and copy number variants …

Whole-genome sequencing is more powerful than whole-exome sequencing for detecting exome variants

A Belkadi, A Bolze, Y Itan, A Cobat, QB Vincent… - Proceedings of the …, 2015 - pnas.org
We compared whole-exome sequencing (WES) and whole-genome sequencing (WGS) in
six unrelated individuals. In the regions targeted by WES capture (81.5% of the consensus …

Multiplex targeted sequencing identifies recurrently mutated genes in autism spectrum disorders

BJ O'Roak, L Vives, W Fu, JD Egertson, IB Stanaway… - Science, 2012 - science.org
Exome sequencing studies of autism spectrum disorders (ASDs) have identified many de
novo mutations but few recurrently disrupted genes. We therefore developed a modified …