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In Print: Last Week's Microarray Papers of Note: Nov 4, 2014

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Differentiation of genetic abnormalities in early pregnancy loss.
Ultrasound Obstet Gynecol. 2014 Oct 31. [Epub ahead of print]
Romero S, et.

The authors set out to characterize the proportion and type of genetic abnormalities in early pregnancy losses at different developmental stages. Chromosomal microarray analysis was performed on 64 samples, including 15 pre-embryonic, 31 embryonic, and 27 fetal losses. The overall rate of genetic abnormalities differed across developmental stages. Abnormalities were most common in embryonic cases, followed by fetal and then pre-embryonic cases.


Genome-wide QTL mapping of nine body composition and bone mineral density traits in pigs.
Genet Sel Evol. 2014 Oct 28;46(1):68.
Rothammer S, et al.

The purpose of this study was a genome-wide mapping of quantitative trait loci (QTL) associated with nine body composition and bone mineral traits in pigs. Data on the nine traits investigated were obtained by Dual-energy X-ray absorptiometry for 551 pigs that were between 160 and 200 days old. In addition, all pigs were genotyped using Illumina's PorcineSNP60 Genotyping BeadChip. Their QTL mapping approach identified 72 QTL, some of which confirmed results of previous studies in pigs. The authors also detected significant associations that had not been published before and were able to identify a number of new and promising candidate genes.


Microarray chip development using infrared imaging for identification of catfish species.
Appl Spectrosc. 2014 Nov 1. [Epub ahead of print]
Handy S, et al.

In this proof-of-concept study, microarrays coupled with mid-infrared imaging detection methods were applied to the identification of seven species of catfish. Species-specific DNA probes targeting three regions per species of the cytochrome c oxidase 1 barcoding gene were developed and printed as microarrays on glass slides. Deoxyribonucleic acid targets labeled with biotin were then hybridized to their complementary probes using a strategy that allowed the selective formation of a silver layer on hybridized spots needed for detection. Using this three-probe format, the seven species were all identified correctly, even when a limited number of false positive spots were observed.

The Scan

New Study Investigates Genomics of Fanconi Anemia Repair Pathway in Cancer

A Rockefeller University team reports in Nature that FA repair deficiency leads to structural variants that can contribute to genomic instability.

Study Reveals Potential Sex-Specific Role for Noncoding RNA in Depression

A long, noncoding RNA called FEDORA appears to be a sex-specific regulator of major depressive disorder, affecting more women, researchers report in Science Advances.

New mRNA Vaccines Offer Hope for Fighting Malaria

A George Washington University-led team has developed mRNA vaccines for malaria that appear to provide protection in mice, as they report in NPJ Vaccines.

Unique Germline Variants Found Among Black Prostate Cancer Patients

Through an exome sequencing study appearing in JCO Precision Oncology, researchers have found unique pathogenic or likely pathogenic variants within a cohort of Black prostate cancer patients.