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In Print: Last Week's Microarray Papers of Note: Aug 27, 2013


Automated serial extraction of DNA and RNA from biobanked tissue specimens.
BMC Biotechnol. 2013 Aug 19;13(1):66.
Mathot L, Wallin M, Sjöblom T.

The authors developed an automated procedure for tissue homogenization and extraction of DNA and RNA into separate fractions from the same frozen tissue specimen. This purpose developed magnetic-bead based technology was automated on a Tecan Freedom Evo robotic workstation. Extracted DNA performed well on microarray and next-generation sequencing platforms.

TB-SPRINT: tuberculosis/spoligo.rifampin-isoniazid typing, an all-in-one assay technique for surveillance and control of multi-drug resistant tuberculosis on Luminex devices.
J Clin Microbiol. 2013 Aug 21. [Epub ahead of print]
Gomgnimbou M, Hernández-Neuta I, Panaiotov S, et al.

The featured microbead-based multiplexed assay provides mutation-based prediction of drug resistance profile data, critical for patient treatment management, and genotyping data for TB surveillance. It runs on the Luminex 200 and on the firm's recently launched Magpix instrument.

How does altering the resolution of chromosomal microarray analysis in the prenatal setting affect the rates of pathological and uncertain findings?
J Matern Fetal Neonatal Med. 2013 Aug 19. [Epub ahead of print]
Hillman S, McMullan D, Silcock L, et al.

The authors compared a 1 megabase bacterial artificial chromosome microarray with a 60,000-probe oligonucleotide array, and found that the oligo array detected variants of unknown significance at a rate that was 8 percent greater than conventional G-band karyotyping and BAC array. They suggest a need for additional studies to inform the national consensus on the best resolution for prenatal testing.

BioArray News spoke with lead author Sarah Hillman about the study last month (BAN 7/30/2013).

The Scan

Single-Cell Sequencing Points to Embryo Mosaicism

Mosaicism may affect preimplantation genetic tests for aneuploidy, a single-cell sequencing-based analysis of almost three dozen embryos in PLOS Genetics finds.

Rett Syndrome Mouse Model Study Points to RNA Editing Possibilities

Investigators targeted MECP2 in mutant mouse models of Rett syndrome, showing in PNAS that they could restore its expression and dial down symptoms.

Investigators Find Shared, Distinct Genetic Contributors to Childhood Hodgkin Lymphoma

An association study in JAMA Network Open uncovers risk variants within and beyond the human leukocyte antigen locus.

Transcriptomic, Epigenetic Study Appears to Explain Anti-Viral Effects of TB Vaccine

Researchers report in Science Advances on an interferon signature and long-term shifts in monocyte cell DNA methylation in Bacille Calmette-Guérin-vaccinated infant samples.