Skip to main content
Premium Trial:

Request an Annual Quote

In Print: Last Week's Microarray Papers of Note: Aug 26, 2014

Premium

The concordance between RNA-seq and microarray data depends on chemical treatment and transcript abundance.
Nature. 2014 Aug 25. [Epub ahead of print]
Wang C, et al.

The authors generated Illumina RNA-seq and Affymetrix microarray data from the same liver samples of rats exposed in triplicate to varying degrees of perturbation by 27 chemicals representing multiple modes of action. RNA-seq outperformed microarray in digital gene expression verification as assessed by quantitative PCR, with the gain mainly due to its improved accuracy for low-abundance transcripts, according to the authors. Nonetheless, classifiers to predict MOAs perform similarly when developed using data from either platform. They concluded that the endpoint studied and its biological complexity, transcript abundance, and the genomic application are important factors in transcriptomic research and for clinical and regulatory decision making.


Establishment of a reborn MMV-microarray technology: realization of microbiome analysis and other hitherto inaccessible technologies.
BMC Biotechnol. 2014 Aug 21;14(1):78. [Epub ahead of print]
Sharma H, et al.

The authors have developed a microarray with manageable volumes using a soft gel. In this study, they introduced new applications based on the array, including C2D2P, in which the cells in each well are converted from DNA to protein in parallel; next-generation-sequencing-non-dependent microbiome analysis; and others.


Loss-of-function variants of SETD5 cause intellectual disability and the core phenotype of microdeletion 3p25.3 syndrome.
Eur J Hum Genet. 2014 Aug 20. [Epub ahead of print]
Kuechler A, et al.

Whole-exome sequencing analysis revealed de novo intragenic variants in SET domain-containing five in two patients with intellectual disability. One patient carried a nonsense variant, and the other an 81 basepair deletion located across a splice-donor site. Chromosomal microarray diagnostics further identified four de novo non-recurrent microdeletions encompassing SETD5.

The Scan

Not as High as Hoped

The Associated Press says initial results from a trial of CureVac's SARS-CoV-2 vaccine suggests low effectiveness in preventing COVID-19.

Finding Freshwater DNA

A new research project plans to use eDNA sampling to analyze freshwater rivers across the world, the Guardian reports.

Rise in Payments

Kaiser Health News investigates the rise of payments made by medical device companies to surgeons that could be in violation of anti-kickback laws.

Nature Papers Present Ginkgo Biloba Genome Assembly, Collection of Polygenic Indexes, More

In Nature this week: a nearly complete Ginkgo biloba genome assembly, polygenic indexes for dozens of phenotypes, and more.