microarray-based gene expression analysis protocol  (Arraystar inc)

Journal: PLoS ONE

Article Title: Defining the Genomic Signature of Totipotency and Pluripotency during Early Human Development

doi: 10.1371/journal.pone.0062135

Figure Lengend Snippet: Significant genes of each signature were represented according to their gene function and specific role in the cell, localization and type of interaction between them. Node border color refers to cell localization, node shape to general function and node color to specific function in the cell. Edge color refers to physical interactions, biochemical interactions or to both; when not specified, a functional interaction is assumed. Upstream arrow (red) means up-regulation versus the other categories, and downstream arrow (blue) means down-regulation versus the other categories. Microarray data values represented here are shown in and .

Article Snippet: Following ‘One-Color Microarray-Based Gene Expression Analysis’ protocol Version 5.7 (Agilent p/n G4140-90040), 3 µg of labelled cRNA was hybridised with the Whole Human Genome Oligo Microarray Kit (Agilent p/n G2519F-014850) containing 41,000+ unique human genes and transcripts.

Techniques: Functional Assay, Microarray

Journal: EBioMedicine

Article Title: LncRNA PICSAR promotes cell proliferation, migration and invasion of fibroblast-like synoviocytes by sponging miRNA-4701-5p in rheumatoid arthritis

doi: 10.1016/j.ebiom.2019.11.024

Figure Lengend Snippet: Expression Profiles of differently expressed lncRNAs and mRNAs screened by microarray analysis of fibroblast-like synoviocytes (FLSs) samples from rheumatoid arthritis (RA) group ( n = 3) and control group ( n = 3). With the threshold of fold changes > 1.5 and P < 0.05, (a) the Volcano Plot showed differentially expressed lncRNAs between RA-FLSs and HC-FLSs and (b) the Scatter Plot showed differentially expressed mRNAs. (c) The Heat Map showing distinguishable lncRNA expression profiles with fold changes > 2.5 and P < 0.05.

Article Snippet: Sample labeling and array hybridization were performed according to the Agilent One-Color Microarray-Based Gene Expression Analysis protocol (Agilent Technology) with minor modifications.

Techniques: Expressing, Microarray

Journal: EBioMedicine

Article Title: LncRNA PICSAR promotes cell proliferation, migration and invasion of fibroblast-like synoviocytes by sponging miRNA-4701-5p in rheumatoid arthritis

doi: 10.1016/j.ebiom.2019.11.024

Figure Lengend Snippet: Verification of lncRNAs and effect of lncRNA PICSAR suppression on the proliferation of rheumatoid arthritis (RA) fibroblast-like synoviocytes (FLSs). (a) Quantitative real-time reverse transcription PCR (qRT-PCR) verified 5 selected lncRNAs with the highest up-regulated differential expression according to the microarray analysis. LncRNA PICSAR is the most significantly up-regulated in RA-FLSs. (b) LncRNA PICSAR was also over-expressed in the synovial fluid of RA patients compared with the control group by qPCR. (c) The inhibition efficiency of specific PICSAR small interference RNA (siRNA) in RA-FLSs was detected by qRT-PCR. (d) Compared with negative control, the expression of p-ERK1/2 in the total ERK1/2 protein was significantly decreased in the RA-FLSs after transfection. (e) PICSAR knockdown in RA-FLSs decreases cell proliferation assessed by a Cell Counting Kit-8 assay. The absorbance at 450 nm wavelength of PICSAR-siRNA group were significantly reduced at the indicated time points compared to the other two control groups. All the results were presented as the mean ± standard deviation (S.D.) based on ≥ 3 replicates involving ≥ 3 samples. * P < 0.05, ** P < 0.01, and *** P < 0.001 versus control groups.

Article Snippet: Sample labeling and array hybridization were performed according to the Agilent One-Color Microarray-Based Gene Expression Analysis protocol (Agilent Technology) with minor modifications.

Techniques: Quantitative RT-PCR, Expressing, Microarray, Inhibition, Negative Control, Transfection, Cell Counting, Standard Deviation