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In Print: Last Week's Microarray Papers of Note: Jun 25, 2013


Genetic markers associated with early cancer-specific mortality following prostatectomy.
Cancer. 2013 Jul 1;119(13):2405-12.
Liu W, Xie C, Thomas C, et al.

Using Affymetrix 6.0 SNP microarrays, the authors were able to identify copy number alterations and genes that likely contribute to the pathogenesis of localized prostate cancer. They also suggested that patients whose tumors have acquired alterations of PTEN, MYC, or both, have an increased risk of early prostate cancer-specific mortality.

The use of miRNA microarrays for the analysis of cancer samples with global miRNA decrease.
RNA. 2013 Jul;19(7):876-88.
Wu D, Hu Y, Tong S, Williams B, et al.

To assess whether miRNA microarrays are suited or not to accurately detecting global miRNA decreases seen in cancers, the authors analyzed the miRNA profiles of samples with global miRNA decreases using Affymetrix miRNA microarrays following the inducible genetic deletion of Dicer1. Findings were validated in samples from patients with prostate cancer, where the combination of normal-exponential background correction with cyclic loess normalization and array weights correctly identified the greatest number of decreased miRNAs.

Neonatal levels of neurotrophic factors and risk of autism spectrum disorders.
Acta Psychiatr Scand. 2013 Jul;128(1):61-9.
Abdallah M, Mortensen E, Greaves-Lord K, et al.

The authors examined the levels of neurotrophic factors in dried blood spot samples of neonates diagnosed with autism spectrum disorders using Luminex technology. Results indicated that NTFs decreased during the neonatal period in ASD, leading the authors to suggest this may contribute to the pathophysiology of ASD through impairments of neuroplasticity.

Application of chromosomal microarray in the evaluation of abnormal prenatal findings.
Clin Genet. 2013 Jul;84(1):47-54.
Yatsenko S, Davis S, Hendrix N, et al.

The authors performed karyotype and array comparative genomic hybridization analyses on 177 prenatal samples. For 23 pregnancies, aCGH contributed important new information. In the paper, they also discuss the interpretation challenges associated with CNVs of unclear significance, incidental findings, and technical aspects.

The Scan

Positive Framing of Genetic Studies Can Spark Mistrust Among Underrepresented Groups

Researchers in Human Genetics and Genomics Advances report that how researchers describe genomic studies may alienate potential participants.

Small Study of Gene Editing to Treat Sickle Cell Disease

In a Novartis-sponsored study in the New England Journal of Medicine, researchers found that a CRISPR-Cas9-based treatment targeting promoters of genes encoding fetal hemoglobin could reduce disease symptoms.

Gut Microbiome Changes Appear in Infants Before They Develop Eczema, Study Finds

Researchers report in mSystems that infants experienced an enrichment in Clostridium sensu stricto 1 and Finegoldia and a depletion of Bacteroides before developing eczema.

Acute Myeloid Leukemia Treatment Specificity Enhanced With Stem Cell Editing

A study in Nature suggests epitope editing in donor stem cells prior to bone marrow transplants can stave off toxicity when targeting acute myeloid leukemia with immunotherapy.