Multi-omics approaches to disease

Y Hasin, M Seldin, A Lusis - Genome biology, 2017 - Springer
High-throughput technologies have revolutionized medical research. The advent of
genotyping arrays enabled large-scale genome-wide association studies and methods for …

The power and promise of RNA‐seq in ecology and evolution

EV Todd, MA Black, NJ Gemmell - Molecular ecology, 2016 - Wiley Online Library
Reference is regularly made to the power of new genomic sequencing approaches. Using
powerful technology, however, is not the same as having the necessary power to address a …

RNA-Seq perspectives to improve clinical diagnosis

G Marco-Puche, S Lois, J Benítez, JC Trivino - Frontiers in genetics, 2019 - frontiersin.org
In recent years, high-throughput next-generation sequencing technology has allowed a
rapid increase in diagnostic capacity and precision through different bioinformatics …

dupRadar: a Bioconductor package for the assessment of PCR artifacts in RNA-Seq data

S Sayols, D Scherzinger, H Klein - BMC bioinformatics, 2016 - Springer
Background PCR clonal artefacts originating from NGS library preparation can affect both
genomic as well as RNA-Seq applications when protocols are pushed to their limits. In RNA …

High expression of glycolytic genes in clinical glioblastoma patients correlates with lower survival

KM Stanke, C Wilson, S Kidambi - Frontiers in Molecular Biosciences, 2021 - frontiersin.org
Glioblastoma (GBM), the most aggressive brain tumor, is associated with a median survival
at diagnosis of 16–20 months and limited treatment options. The key hallmark of GBM is …

Informatics for RNA sequencing: a web resource for analysis on the cloud

M Griffith, JR Walker, NC Spies… - PLoS computational …, 2015 - journals.plos.org
Massively parallel RNA sequencing (RNA-seq) has rapidly become the assay of choice for
interrogating RNA transcript abundance and diversity. This article provides a detailed …

[HTML][HTML] The most common technologies and tools for functional genome analysis

E Gasperskaja, V Kučinskas - Acta Medica Lituanica, 2017 - ncbi.nlm.nih.gov
Since the sequence of the human genome is complete, the main issue is how to understand
the information written in the DNA sequence. Despite numerous genome-wide studies that …

Empirical assessment of the impact of sample number and read depth on RNA-Seq analysis workflow performance

A Baccarella, CR Williams, JZ Parrish, CC Kim - BMC bioinformatics, 2018 - Springer
Background RNA-Sequencing analysis methods are rapidly evolving, and the tool choice for
each step of one common workflow, differential expression analysis, which includes read …

Toward reliable biomarker signatures in the age of liquid biopsies-how to standardize the small RNA-Seq workflow

D Buschmann, A Haberberger, B Kirchner… - Nucleic Acids …, 2016 - academic.oup.com
Small RNA-Seq has emerged as a powerful tool in transcriptomics, gene expression
profiling and biomarker discovery. Sequencing cell-free nucleic acids, particularly microRNA …

Activation of MYC, a bona fide client of HSP90, contributes to intrinsic ibrutinib resistance in mantle cell lymphoma

J Lee, LL Zhang, W Wu, H Guo, Y Li… - Blood …, 2018 - ashpublications.org
The BTK inhibitor ibrutinib has demonstrated a remarkable therapeutic effect in mantle cell
lymphoma (MCL). However, approximately one-third of patients do not respond to the drug …