Journal: PLoS ONE

Article Title: Serum microRNA-based prediction of responsiveness to eribulin in metastatic breast cancer

doi: 10.1371/journal.pone.0222024

Figure Lengend Snippet: A. Coefficient path for the L1-regularised logistic regression applied to the cancer data plotted versus the logarithm of lambda (regularisation coefficient of L1 norm of the coefficient vector), relative to the norm of the estimate coefficients. The number of non-zero coefficients is shown above each plot. B. Cross-validation binomial deviance curve for logistic LASSO on the cancer data, with one-standard-error bands computed from 10-fold realisations. The vertical line on the left corresponds to the minimising value for logarithm Lambda. C. ROC curve analysis of the eight-miRNA combination predicting responsiveness to eribulin. AUC and p-values are shown in the plots. D. Kaplan-Meier plot of the rate of development of new distant metastases based on the prediction index. Black line: prediction index <0; Red line: prediction index ≥0.

Article Snippet: From all samples, comprehensive profiles of 2565 miRNAs were obtained using a highly sensitive miRNA microarray analysis on a standardised platform (3D-Gene ® , Toray Industries, Inc.).

Techniques: Plasmid Preparation, Biomarker Discovery

Journal: PLoS ONE

Article Title: Serum microRNA-based prediction of responsiveness to eribulin in metastatic breast cancer

doi: 10.1371/journal.pone.0222024

Figure Lengend Snippet: A. ROC curve analysis of the eight individual miRNAs. AUC and p-values are shown in the plots. B. PCA map of 53 new metastasis-positive samples (red) and 96 new metastasis-negative samples (blue) in metastatic breast cancer patients. C. Unsupervised hierarchical clustering analysis with a heatmap showing 149 metastatic breast cancer samples prior to eribulin treatment with eight selected miRNAs.

Article Snippet: From all samples, comprehensive profiles of 2565 miRNAs were obtained using a highly sensitive miRNA microarray analysis on a standardised platform (3D-Gene ® , Toray Industries, Inc.).

Techniques:

Journal: PLoS ONE

Article Title: Identification of a MicroRNA Signature for the Diagnosis of Fibromyalgia

doi: 10.1371/journal.pone.0121903

Figure Lengend Snippet: qPCR primers.

Article Snippet: Genome-wide expression profiling of miRNAs was assessed in Peripheral Blood Mononuclear Cells (PBMCs) of FM patients (N=11) and population-age-matched controls (N=10) using human v16-miRbase 3D-Gene microarrays (Toray Industries, Japan).

Techniques: Microarray, Sequencing

Journal: RNA Biology

Article Title: Two distinct extracellular RNA signatures released by a single cell type identified by microarray and next-generation sequencing

doi: 10.1080/15476286.2016.1249092

Figure Lengend Snippet: Microarray analysis of the RNA content in the high- and low-density fractions. Isolated samples were allowed to float into a sucrose gradient (0.4–2.5 M). High-density extracellular RNA (HD exRNA) was isolated from fractions 8–10 of the filtered sample, while low-density extracellular RNA (LD exRNA) was isolated from fractions 2–6 of the un-filtered sample. (A and B) RNA was extracted from the HD and LD fractions, and the RNA profiles were analyzed with a Bioanalyzer instrument. (C and D) HD and LD exRNA was analyzed for its mRNA and miRNA content with 3D Gene Microarray (Toray). Principal component analysis (PCA) was performed on the mRNA (C) and miRNA (D) content. PCA was used to visualize the variance in RNA among samples from cells (blue), HD exRNA (red), and LD exRNA (green). (E and F) Scatter plots were constructed to determine the relationship between mRNA (E) and miRNA (F) in the HD and LD exRNA with the cellular RNA. The correlation was determined with the Pearson's test (r = Pearson's correlation). (G and H) Hierarchical clustering of the identified mRNA (G) and miRNA (H) in cells, HD fractions, and LD fractions (normalized expression intensity is in log2 scale).

Article Snippet: For the miRNA analysis, all samples were mixed with miRNA spike (Toray Industries Inc., Tokyo, Japan) and further labeled, hybridized, and washed according to the manufacture's protocol (3DGENE miRNA label Hybridization 4plex v1, Toray Industries Inc.) using the miRCURY LNA microRNA Array Power Labeling kit (Exiqon) and Human miRNA Oligo chip – 4plex (Toray Industries Inc.).

Techniques: Microarray, Isolation, Construct, Expressing