Journal: Breast Cancer Research : BCR

Article Title: Pro-oncogene Pokemon promotes breast cancer progression by upregulating survivin expression

doi: 10.1186/bcr2843

Figure Lengend Snippet: Target genes of Pokemon in MCF-7 cells . cDNA microarray analysis was performed as described in Materials and methods. Data from three independent replicates were combined, and any spot with at least a 2.0-fold increase or decrease compared to vector control was considered a significant change. Signaling pathways were classified by using Molecule Annotation System (MAS) 2.0 software (CapitalBio, Beijing,China ). (A) Ectopic expression of Pokemon in MCF-7 breast cancer cells detected by Western blot analysis. (B) Scatterplots showing differential expression profile of Pokemon target genes in MCF-7 cells. (C) Pathway classification of Pokemon target genes in MCF-7 cells. (D) Survivin expression regulated by Pokemon. MDA-MB-231 cells treated with siRNA for 48 hours were harvested for Western blot analysis with the indicated antibodies (I) . Cells transiently transfected with either Pokemon expression vector (MCF-7 cells) or siRNA (MDA-MB-231 cells) were used for time-dependent expression by Western blot analysis as described in Materials and methods (II) .

Article Snippet: Human cDNA microarrays covering 22 kb cDNA spots (CapitalBio, Beijing, China) were used.

Techniques: Microarray, Plasmid Preparation, Control, Protein-Protein interactions, Software, Expressing, Western Blot, Quantitative Proteomics, Transfection

Journal: Nucleic Acids Research

Article Title: Implementation of GenePattern within the Stanford Microarray Database

doi: 10.1093/nar/gkn786

Figure Lengend Snippet: Accessing GenePattern microarray data analysis package from a publication record in SMD. Clicking on the red gear icon in a publication record will take the user to the SMD data retrieval pipeline. At any point after the data are retrieved, the user will be able to download the data files or click on the ‘Analyze with GenePattern’ option. GenePattern is launched with the data already loaded into the PCL to GCT conversion module.

Article Snippet: SMD stores data from gene expression as well as array CGH and ChIP–chip experiments, and supports multiple microarray platforms (spotted cDNA or oligonucleotide arrays, Affymetrix, Agilent, Combimatrix and Nimblegen arrays).

Techniques: Microarray