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In Print: Last Week's Microarray Papers of Note: Aug 13, 2013


Targeted resequencing of HIV variants by microarray thermodynamics.
Nucleic Acids Res. 2013 Aug 8. [Epub ahead of print]
Hadiwikarta W, et al.

The authors used DNA microarrays and inputs from hybridization thermodynamics to resequence genomic subsets of HIV. Seven coded clinical samples were analyzed, and the microarray results were found to be concordant with Sanger sequencing data.

Surface engineering for long-term culturing of mesenchymal stem cell microarrays.
Biomacromolecules. 2013 Aug 12;14(8):2675-83.
Rasi Ghaemi S, et al.

The authors describe surface modifications to passivate cell microarrays, in order to adapt the platform to study stem cell behavior over long-term culture periods. The functionalization of glass slides with (3-glycidyloxypropyl) trimethoxysilane enabled covalent anchoring of extracellular matrix proteins on microscale spots printed by a robotic contact printer.

Automated regenerable microarray-based immunoassay for rapid parallel quantification of mycotoxins in cereals.
Anal Bioanal Chem. 2013 Aug;405(20):6405-15.
Oswald S, et al.

This paper describes the development of an automated flow-through multi-mycotoxin immunoassay based on the Munich Chip Reader 3 platform. Using the array, the authors were able to detect in parallel aflatoxins, ochratoxin A, deoxynivalenol, and fumonisins in cereal samples in a competitive indirect immunoassay format.

The Scan

Study Points to Tuberculosis Protection by Gaucher Disease Mutation

A mutation linked to Gaucher disease in the Ashkenazi Jewish population appears to boost Mycobacterium tuberculosis resistance in a zebrafish model of the lysosomal storage condition, a new PNAS study finds.

SpliceVault Portal Provides Look at RNA Splicing Changes Linked to Genetic Variants

The portal, described in Nature Genetics, houses variant-related messenger RNA splicing insights drawn from RNA sequencing data in nearly 335,700 samples — a set known as the 300K-RNA resource.

Automated Sequencing Pipeline Appears to Allow Rapid SARS-CoV-2 Lineage Detection in Nevada Study

Researchers in the Journal of Molecular Diagnostics describe and assess a Clear Labs Dx automated workflow, sequencing, and bioinformatic analysis method for quickly identifying SARS-CoV-2 lineages.

UK Team Presents Genetic, Epigenetic Sequencing Method

Using enzymatic DNA preparation steps, researchers in Nature Biotechnology develop a strategy for sequencing DNA, along with 5-methylcytosine and 5-hydroxymethylcytosine, on existing sequencers.