Differential Expression Analysis of LncRNAs and mRNAs

LncRNA and mRNA microarrays were carried out by Arraystar Inc. (Rockville, MD) using the Mouse LncRNA Microarray V3.0, a Agilent Array Platform (Agilent Technologies, Inc., Santa Clara, CA, USA)^{16 (link)}. LncRNAs and the differentially expressed protein-coding genes were identified, and fold changes as well as P values from the statistics t-test were calculated. The up- or down-regulated lncRNAs were set as fold change ≥ 2.0 and P value ≤ 0.05 and shown in volcano plots and heat maps. GO and Kyoto Encyclopedia of Genes and Genomes (KEGG) analysis were applied to explore the potential roles that the differentially expressed mRNAs played in biological pathways or GO terms, including the following three categories: biological process, cellular component, and molecular function^{16 (link)}.

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Pant T., Dhanasekaran A., Zhao M., Thorp E.B., Forbess J.M., Bosnjak Z.J., Benjamin I.J, & Ge Z.D. (2021). Identification and analysis of circulating long non-coding RNAs with high significance in diabetic cardiomyopathy. Scientific Reports, 11, 2571.

Publication 2021

Agilent Array Platform

Biological Biological process Cellular component Down Genes Genomes Lncrnas Maps Microarray Mouse Mrnas Protein genes

Corresponding Organization :

Other organizations : Medical College of Wisconsin, Anna University, Chennai, Northwestern University, Lurie Children's Hospital

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Variable analysis

independent variables

None explicitly mentioned

dependent variables

Differentially expressed lncRNAs (fold change ≥ 2.0 and p-value ≤ 0.05)
Differentially expressed protein-coding genes (fold change and p-values calculated)

control variables

None explicitly mentioned

controls

No positive or negative controls specified

Annotations

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