decipher grid sample specimen selection, rna extraction, and microarray hybridization  (GenomeDx Inc)

Journal: JAMA oncology

Article Title: Patient-Level DNA Damage and Repair Pathway Profiles and Prognosis After Prostatectomy for High-Risk Prostate Cancer

doi: 10.1001/jamaoncol.2015.4955

Figure Lengend Snippet: A, Microarray gene expression data is converted into (B) pathway enrichment data. Expression is median-scaled and ranked across all samples gene-by-gene. B, Gene Set Enrichment Analysis preranked on gene ranks generates pathway enrichment NES, and hierarchical clustering generates a pathway heatmap. C, Spearman ρ correlation matrix of intercorrelation among the pathways across all samples. BCR indicates biochemical recurrence; BER, base excision repair; DDR, DNA damage and repair; DSB, double-strand break; GSEA, Gene Set Enrichment Analysis; HRR, homologous recombination repair; MMR, mismatch repair; NER, nucleotide excision repair; NES, Normalized Enrichment Score; NHEJ, nonhomologous end joining.

Article Snippet: 5 – 7 RNA extraction and microarray hybridization was performed in a CLIA (Clinical Laboratory Improvement Amendments)-certified, clinical operations laboratory (GenomeDx Biosciences, Inc).

Techniques: Microarray, Gene Expression, Expressing, Homologous Recombination

Journal: Data in Brief

Article Title: Datasets for the validation of the "in vivo" siRNA-silencing of CD40 and for the detection of new markers of atherosclerosis progression in ApoE-deficient mice

doi: 10.1016/j.dib.2016.11.045

Figure Lengend Snippet:

Article Snippet: RNA extraction, microarray hybridization and analysis were performed on a commercial basis at Arraystar Inc. (Rockville, MD, USA).

Techniques: Gene Expression, Flow Cytometry, Immunohistochemistry, Microarray, TLDA Assay, Expressing, Control