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In Print: Last Week's Microarray Papers of Note: Mar 18, 2014

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A revised design for microarray experiments to account for experimental noise and uncertainty of probe response.
PLoS One. 2014 Mar 11;9(3):e91295.
Pozhitkov A, et al.

The researchers developed a new experimental design that produces calibrated microarrays capable of directly measuring gene expression as well as gene copy number, without a need for follow up verification. BioArray News spoke recently with co-author Peter Noble about the new approach (see related story, this issue).


The impact of chromosomal microarray on clinical management: a retrospective analysis.
Genet Med. 2014 Mar 13. [Epub ahead of print]
Henderson L, et al.

The authors retrospectively reviewed the electronic medical records of all patients who had abnormal chromosomal microarray findings over a 3-year period and quantified the management recommendations made in response to these results. They reported that in the majority of cases, abnormal CMA findings led to health management decisions, including pharmacological treatment, cancer-related screening or exclusion of screening, contraindications, and referrals for further evaluation.


Simultaneous detection of RNA and DNA targets based on multiplex isothermal amplification.
J Agric Food Chem. 2014 Mar 13. [Epub ahead of print]
Dobnik D, et al.

The authors developed an isothermal nucleic-acid-sequence-based amplification (NASBA)-implemented microarray analysis procedure that is suitable for the simultaneous multiplex amplification of RNA and DNA targets. In the paper they demonstrated its use for the detection of two potato pathogens, the potato spindle tuber viroid, which has an RNA target, and Ralstonia solanacearum, which has a DNA target.


Single molecule characterization of DNA binding and strand displacement reactions on lithographic DNA origami microarrays.
Nano Lett. 2014 Mar 12;14(3):1627-33.
Scheible M, et al.

Based on a so-called origami hybrid assembly protocol using DNA self-assembly and electron-beam lithography on transparent glass substrates, the authors developed a DNA origami microarray that is compatible with the requirements of single molecule fluorescence and super-resolution microscopy.

The Scan

Long COVID-19 Susceptibility Clues Contained in Blood Plasma Proteome

A longitudinal study in eBioMedicine found weeks-long blood plasma proteome shifts after SARS-CoV-2 infection, along with proteomic signatures that appeared to coincide with long Covid risk.

Tibetan Study Finds Adaptive Variant Influencing Skin Pigmentation

With a combination of phenotyping and genetic data, researchers document at PNAS a Tibetan-enriched enhancer variant influencing melanin synthesis and ultraviolet light response.

Domestication Linked to Nervous System Genes in Inbred Mouse Strains

Researchers highlighted more than 300 positively selected genes in domesticated mice, including genes linked to nervous system function or behavior in Genome Biology.

ALS Genetic Testing May Be Informative Across Age Ranges, Study Finds

Researchers in the journal Brain identified clinically actionable variants in a significant subset of older ALS patients, prompting them to point to the potential benefits of broader test use.