Advances in understanding cancer genomes through second-generation sequencing

By Matthew Meyerson, Stacey Gabriel, Gad Getz. Nature reviews genetics, 2010

1,137 citations recorded by the source corpus.

Subfields: Cancer Research, Molecular Biology, Pathology and Forensic Medicine

View Paper: https://www.semanticscholar.org/paper/086195c5153d6e2b2b88f2b14cbd71e7724b9441

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Citations in the corpus

Comparative analysis of RNA-Seq alignment algorithms and the RNA-Seq unified mapper (RUM) (2011, methodology): “Results: We developed an RNA-Seq simulator that models the main impediments to RNA alignment, including alternative splicing, insertions, deletions, substitutions, sequencing errors and intron signal.”
Noninvasive Identification and Monitoring of Cancer Mutations by Targeted Deep Sequencing of Plasma DNA (2012, background): “These have largely focused on large-scale analyses, including whole-genome or whole-exome sequencing (41).”
De Novo Discovery of Mutated Driver Pathways in Cancer (2011, background): “With the availability of next-generation DNA sequencing technologies, whole-genome or whole-exome measurements of the somatic mutations in large numbers of cancer genomes are now a reality (Mardis and Wilson 2009; International CancerGenomeConsortium2010;Meyerson et al. 2010).”
Effective use of nanocarriers as drug delivery systems for the treatment of selected tumors (2017, background): “However, the mortality rate of cancer has now declined in the past few years due to improved understanding of tumor biology and enhanced diagnostic procedures and treatments.(110) Conventional chemotherapies adapted for the tumor management have many toxic side effects, including hepatic, renal, bon”
Sequence to Medical Phenotypes: A Framework for Interpretation of Human Whole Genome DNA Sequence Data (2015, background): “High throughput sequencing has illuminated the underlying genetic basis for rare inherited disease syndromes[2–4], refined our molecular understanding of cancer pathogenesis [5].”
Lessons from the cancer genome. (2013, neutral): “or rearrangements based on their presence in multiple tumor sequence reads and absence in the paired normal DNA sequence (Meyerson et al., 2010).”
Snakemake - a scalable bioinformatics workflow engine (2012, neutral): “Listing 1 shows an example Snakefile for mapping sequence reads to a reference genome, which is a typical task in, e.g. cancer genomics (Meyerson et al. , 2010): paired-end sequence reads are given as .fastq files for four samples named 100–103 and mapped to the human reference genome.”
Identification of Targetable FGFR Gene Fusions in Diverse Cancers (2013, neutral): “Advances in next-generation sequencing technologies have refined the molecular taxonomy of a spectrum of human diseases and facilitated a move towards “precision medicine” (1, 2).”
Cumulative Haploinsufficiency and Triplosensitivity Drive Aneuploidy Patterns to Shape the Cancer Genome (2013, positive): “Research over the last 40 years has identified numerous potent drivers of the cancer phenotype (Meyerson et al., 2010; Stratton et al., 2009; Vogelstein et al., 2013).”
Computational tools for copy number variation (CNV) detection using next-generation sequencing data: features and perspectives (2013, background): “The advantages of the NGS approach also include higher coverage and resolution, more accurate estimation of copy numbers, more precise detection of breakpoints, and higher capability to identify novel CNVs [1,14].”