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In Print: Last Week's Microarray Papers of Note: Jul 31, 2012


Genome-wide analysis of copy number variations reveals that aging processes influence body fat distribution in Korea Associated Resource (KARE) cohorts.
Hum Genet. 2012 Jul 24. [Epub ahead of print]
Lee BY, Shin DH, Cho S, et al.

The authors used Affymetrix genome-wide human SNP Array 5.0 data of 8,842 healthy unrelated adults in KARE cohorts and identified CNVs associated with body mass index and fat distribution-related traits including waist-hip ratio and subcutaneous skinfold thickness at suprailiac and subscapular sites.

Deleted in colorectal cancer (DCC) gene polymorphism is associated with H. pylori infection among susceptible Malays from the northeastern region of peninsular Malaysia.
Hepatogastroenterology. 2012 Jul 25;60(121).
Maran S, Lee YY, Xu S, et al.

Using an array-based genome-wide case-control association approach, the authors of this study aimed to determine what SNPs are associated with Helicobacter pylori infection among ethnic Malays from the north-eastern region of peninsular Malaysia, a region with an low prevalence for H. pylori infection and gastric cancer.

Analyzing multiple-probe microarray: estimation and application of gene expression indexes.
Biometrics. 2012 Jul 26. [Epub ahead of print]
Maadooliat M, Huang JZ, Hu J.

The authors developed a new profile likelihood-based transformation estimation approach that they claim is "more statistically elegant and computationally efficient" than existing methods and demonstrated its applicability using a benchmark Affymetrix U95A spiked-in experiment.

Transcriptional network analysis of the tryptophan-accumulating rice mutant during grain filling.
Mol Genet Genomics. 2012 Jul 27. [Epub ahead of print]
Kim DS, Lee KJ, Yim WC, et al.

To obtain detailed information about the tryptophan biosynthetic pathway during grain-filling in rice, the authors used microarray analysis to study gene-expression profiles in the wild-type and the high-level Trp-accumulating mutant line at five different grain-filling stages.

Genome-wide identification of Epstein-Barr virus-driven promoter methylation profiles of human genes in gastric cancer cells.
Cancer. 2012 Jul 25. [Epub ahead of print]
Zhao J, Liang Q, Cheung KF, et al.

A methyl-DNA immunoprecipitation microarray assay was used to assess methylation in Epstein-Barr virus-positive associated gastric cancer cells and EBV-negative AGS cells.

Expression of stem cell markers, CD133 and CD44, in pediatric solid tumors: a study using tissue microarray.
Fetal Pediatr Pathol. 2012 Jul 25. [Epub ahead of print]
Mehrazma M, Madjd Z, Kalantari E, et al.

Immunohistochemistry was performed to detect the expression of cancer stem cell markers, CD133 and CD44, in a series of pediatric tumors. In Wilms tumors, a significant positive correlation was found between expression of CD133 and the National Wilms Tumor Stage.

The Scan

Shape of Them All

According to BBC News, researchers have developed a protein structure database that includes much of the human proteome.

For Flu and More

The Wall Street Journal reports that several vaccine developers are working on mRNA-based vaccines for influenza.

To Boost Women

China's Ministry of Science and Technology aims to boost the number of female researchers through a new policy, reports the South China Morning Post.

Science Papers Describe Approach to Predict Chemotherapeutic Response, Role of Transcriptional Noise

In Science this week: neural network to predict chemotherapeutic response in cancer patients, and more.