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In Print: Last Week's Microarray Papers of Note: Feb 19, 2013


A common deletion in the APOBEC3 genes and breast cancer risk.
J Natl Cancer Inst. 2013 Feb 14. [Epub ahead of print]
Long J, Delahanty R, Li G, et al.

The authors conducted an association study in 2,623 breast cancer patients and 1,946 control subjects recruited from Chinese women in Shanghai using the Affymetrix SNP Array 6.0. They then replicated the most promising copy number variants using real-time quantitative PCR in an independent set of 4,254 case patients and 4,387 control subjects. The strongest association was found for a common deletion in the APOBEC3 genes and was replicated in the second stage of the study.

Evidence for three highly significant QTL for meat quality traits in the Finnish Yorkshire pig breed.
J Anim Sci. 2013 Feb 13. [Epub ahead of print]
Uimari P, Sironen A, Sevón-Aimonen M

The purpose of this study was to identify SNPs associated with meat quality traits in Finnish Yorkshire pigs using the Illumina PorcineSNP60 BeadChip. The association of each SNP with the quality traits was tested with a weighted linear model and the relatedness of samples was accounted for by a random polygenic genetic effect with the accompanying full relationship matrix. Three genomic regions were found to be significant for meat quality traits.

Prenatal diagnosis using combined qf-PCR and array CGH analysis as a first line test: results from over 1000 consecutive cases.
Ultrasound Obstet Gynecol. 2013 Feb 8. [Epub ahead of print]
Scott F, Murphy K, Carey L, et al.

Pregnant patients undergoing invasive prenatal testing in Sydney, Australia, were screened using quantitative fluorescence-PCR and a targeted Agilent ISCA 8x60K array. The authors determined that combining qf-PCR and aCGH is an effective first-tier prenatal testing regime, without requiring conventional karyotyping.

Multiplexed infectious protein microarray immunoassay suitable for the study of the specificity of monoclonal immunoglobulins.
Anal Biochem. 2013 Feb 15;433(2):202-9.
Feron D, Charlier C, Gourain V, et al.

The authors discuss a new assay based on a multiplexed infectious protein microarray combining different epitopes representative of Epstein-Barr virus, cytomegalovirus, Toxoplasma gondii, and hepatitis C virus. Results obtained in serum samples with the array-based immunoassay were compared with ELISAs. The authors observed concordances of 95 percent for EBV, 93 percent for CMV, 91 percent for T. gondii, and 100 percent for HCV.

Improvement of protein immobilization for the elaboration of tumor-associated antigen microarrays: application to the sensitive and specific detection of tumor markers from breast cancer sera.
Biosens Bioelectron. 2013 Feb 15;40(1):385-92.
Yang Z, Chevolot Y, Géhin T, et al.

A panel of 10 proteins, including well-known tumor-associated antigens and potential new biomarkers of breast cancer, were immobilized onto a microstructured microarray under optimized conditions in order to determine an autoimmune signature of breast cancer. Sera from 29 breast cancer patients and 28 healthy donors were screened in sandwich immunoassays on the miniaturized system to detect the eventual presence of anti-TAA autoantibodies. Results indicated that the detection level of each anti-TAA autoantibody in a given serum sample was strongly dependant on the surface chemistry.

The Scan

White-Tailed Deer Harbor SARS-CoV-2 Variants No Longer Infecting Humans, Study Finds

A new study in PNAS has found that white-tailed deer could act as a reservoir of SARS-CoV-2 variants no longer found among humans.

Study Points to Benefits of Local Consolidative Therapy, Targeted Treatments in Cancer Care

In JCO Precision Oncology, researchers report that local consolidative therapy combined with molecularly targeted treatments could improve survival for some lung cancer patients.

Genetic Variants That Lower LDL Cholesterol Linked to Reduced Heart Disease Risk

Rare variants in two genes that lower LDL cholesterol are also associated with a decreased risk of coronary heart disease, according to a new JAMA Cardiology study.

Study Links Evolution of Longevity, Social Organization in Mammals

With the help of comparative phylogenetics and transcriptomics, researchers in Nature Communications see ties between lifespan and social organization in mammals.