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In Print: Last Week's Microarray Papers of Note: Jul 30, 2013


Development of a suspension microarray for the genotyping of African Swine Fever Virus targeting the SNPs in the C-terminal end of the p72 gene region of the genome.
Transbound Emerg Dis. 2013 Aug;60(4):378-383.
Leblanc N, et al.

The authors developed an assay to differentiate between 22 genotypes of the African swine fever virus using Luminex xMAP technology. In a validation study, the assay was able to detect and distinguish all 22 genotypes.

Comparison of genotyping using pooled DNA samples (allelotyping) and individual genotyping using the affymetrix genome-wide human SNP array 6.0.
BMC Genomics. 2013 Jul 26;14(1):506.
Teumer A, et al.

Data from 100 DNA samples individually genotyped with the Affymetrix Genome-wide Human SNP Array 6.0 were used to estimate the error of the pooling approach by comparing the results with those obtained using the same array type with DNA pools each composed of 50 of the same samples.

Alternative methods of bacterial pathogen detection: culture, GoldenGate, Universal Biosensor, 16s rRNA-gene survey.
J Clin Microbiol. 2013 Jul 24. [Epub ahead of print]
Lindsay B, et al.

The aim of this study was to compare four distinct detection technologies for the identification of pathogens in stools from children under 5 years of age in The Gambia, Mali, Kenya and Bangladesh. The authors tested approximately 8,000 samples using clinical culture techniques, Ibis Biosciences' Universal Biosensor, Illumina's GoldenGate array assay, and sequencing of 16S rRNA genes. According to the paper, the GoldenGate method revealed the greatest agreement with the most other methods.

The Scan

Foxtail Millet Pangenome, Graph-Based Reference Genome

Researchers in Nature Genetics described their generation of a foxtail millet pangenome, which they say can help in crop trait improvement.

Protein Length Distribution Consistent Across Species

An analysis in Genome Biology compares the lengths of proteins across more than 2,300 species, finding similar length distributions.

Novel Genetic Loci Linked to Insulin Resistance in New Study

A team reports in Nature Genetics that it used glucose challenge test data to home in on candidate genes involved in GLUT4 expression or trafficking.

RNA Editing in Octopuses Seems to Help Acclimation to Shifts in Water Temperature

A paper in Cell reports that octopuses use RNA editing to help them adjust to different water temperatures.