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


Three cases of isolated terminal deletion of chromosome 8p without heart defects presenting with a mild phenotype.
Am J Med Genet A. 2013 Mar 12. [Epub ahead of print]
Burnside R, Pappas J, Sacharow S, et al.

The authors used microarrays to characterize three individuals with isolated terminal deletion of 8p distal to the segmental duplication telomeric to GATA4. These individuals presented with a relatively mild and nonspecific phenotype including mildly dysmorphic features, developmental delay, speech delay, and early behavior issues.

Charge-neutral morpholino microarrays for nucleic acid analysis.
Anal Biochem. 2013 Mar 15;434(2):207-14.
Qiao W, Kalachikov S, Liu Y, et al.

The authors investigated the use of morpholinos, a class of uncharged DNA analogs, as microarray probes instead of DNA. The morpholino microarrays were fabricated by contact printing of amino-modified probes onto aldehyde slides. In addition to covalent immobilization, morpholinos were found to efficiently immobilize through physical adsorption; such physically adsorbed probes could be removed by post-printing washes with surfactant solutions.

Comparative study of RNA-seq- and Microarray-derived coexpression networks in Arabidopsis thaliana.
Bioinformatics. 2013 Mar 15;29(6):717-24.
Giorgi F, Del Fabbro C, Licausi F

The authors collected 65 publicly available Illumina RNA-seq high quality Arabidopsis thaliana samples and generated Pearson correlation coexpression networks. The networks were then compared with those derived from analogous microarray data. The microarray networks showed a slightly higher score in biology-derived quality assessments such as overlap with the known protein-protein interaction network and edge ontological agreement.

Polar body analysis by array comparative genomic hybridization accurately predicts aneuploidies of maternal meiotic origin in cleavage stage embryos of women of advanced maternal age.
Hum Reprod. 2013 Mar 10. [Epub ahead of print]
Christopikou D, Tsorva E, Economou K, et al.

Twenty couples requesting aneuploidy screening had 16 controlled ovarian hyperstimulation and seven natural in vitro fertilization cycles. Polar body 1 and PB2 were biopsied from mature oocytes, prior to intracytoplasmic sperm injection and following confirmation of normal fertilization, respectively. Array comparative genomic hybridization was used to detect chromosome copy number changes and to predict aneuploidy in the corresponding embryos. The authors found that polar body biopsy and array CGH analysis was efficient and accurately predicted most aneuploidies in cleavage stage embryos. However, as they noted in the paper, the size of the ratio shifts, particularly in PB1, should always be compared with the X chromosome shift before it can be concluded that there is a real copy number change.