Clinical relevance of blood-based ctDNA analysis: mutation detection and beyond

L Keller, Y Belloum, H Wikman, K Pantel - British journal of cancer, 2021 - nature.com
Cell-free DNA (cfDNA) derived from tumours is present in the plasma of cancer patients. The
majority of currently available studies on the use of this circulating tumour DNA (ctDNA) deal …

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 …

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 …

Review of clinical next-generation sequencing

S Yohe, B Thyagarajan - Archives of pathology & …, 2017 - meridian.allenpress.com
Context.—Next-generation sequencing (NGS) is a technology being used by many
laboratories to test for inherited disorders and tumor mutations. This technology is new for …

Bioinformatics and computational tools for next-generation sequencing analysis in clinical genetics

R Pereira, J Oliveira, M Sousa - Journal of clinical medicine, 2020 - mdpi.com
Clinical genetics has an important role in the healthcare system to provide a definitive
diagnosis for many rare syndromes. It also can have an influence over genetics prevention …

Genomic variant annotation and prioritization with ANNOVAR and wANNOVAR

H Yang, K Wang - Nature protocols, 2015 - nature.com
Recent developments in sequencing techniques have enabled rapid and high-throughput
generation of sequence data, democratizing the ability to compile information on large …

Design and analysis of single-cell sequencing experiments

D Grün, A van Oudenaarden - Cell, 2015 - cell.com
Recent advances in single-cell sequencing hold great potential for exploring biological
systems with unprecedented resolution. Sequencing the genome of individual cells can …

Mitochondrial DNA copy number variation across human cancers

E Reznik, ML Miller, Y Şenbabaoğlu, N Riaz… - elife, 2016 - elifesciences.org
Mutations, deletions, and changes in copy number of mitochondrial DNA (mtDNA), are
observed throughout cancers. Here, we survey mtDNA copy number variation across 22 …

–Omic and electronic health record big data analytics for precision medicine

PY Wu, CW Cheng, CD Kaddi… - IEEE Transactions …, 2016 - ieeexplore.ieee.org
Objective: Rapid advances of high-throughput technologies and wide adoption of electronic
health records (EHRs) have led to fast accumulation of–omic and EHR data. These …

The Genome 10K Project: a way forward

KP Koepfli, B Paten… - Annu. Rev. Anim …, 2015 - annualreviews.org
The Genome 10K Project was established in 2009 by a consortium of biologists and
genome scientists determined to facilitate the sequencing and analysis of the complete …