Integrated analyses of long noncoding RNAs and mRNAs in the progression of breast cancer

Abstract

Objective The objective was to explore the expression and potential functions of long noncoding RNA (lncRNA) and mRNAs in human breast cancer (BC). Methods Differentially expressed lncRNAs and mRNAs were identified and annotated in BC tissues by using the Agilent human lncRNA assay (Agilent Technologies, Santa Clara, CA, USA) and RNA sequencing. After identification of lncRNAs and mRNAs through quantitative reverse transcription polymerase chain reaction, we conducted a series of functional experiments to confirm the effects of knockdown of one lncRNA, TCONS_00029809, on the progression of BC. Results We discovered 238 lncRNAs and 200 mRNAs that were differentially expressed in BC tissues and para-carcinoma tissue. We showed that differentially expressed mRNAs were related to biological adhesion and biological regulation and mainly enriched in cytokine-cytokine receptor interaction, metabolic pathways, and PI3K-Akt signaling pathway. We created a protein–protein interaction network to analyze the proteins enriched in these pathways. We demonstrated that silencing of TCONS_00029809 remarkably inhibited proliferation, invasion, and migration of BC cells, and accelerated their apoptosis. Conclusions We identified a large number of differentially expressed lncRNAs and mRNAs, which provide data useful in understanding BC carcinogenesis. The lncRNA TCONS_00029809 may be involved in the development of BC.

The prognostic value of an immune-related gene signature and infiltrating tumor immune cells based on bioinformatics analysis in primary esophageal cancer

“…We studied the changes in the immune genome profile in primary ESCA and uncovered its possible underlying molecular mechanisms. The KEEG analysis revealed that these IRGs were enriched in the cytokine-cytokine receptor interaction pathway, which reflects previous findings that these pathways play a crucial role in the proliferation, immune responses, and progression in several cancers (24)(25)(26). The dysregulation of cytokine interactions is also involved in the pathogenesis of ESCA (27).…”

Revealing the Potential Markers of N(4)-Acetylcytidine through acRIP-seq in Triple-Negative Breast Cancer

“…Their dysregulation and abnormal expression patterns are associated with various cancer types, including TNBC [ 20 , 21 ]. The lncRNA, SNHG14, induces BC resistance to trastuzumab through H3K27 acetylation-mediated regulation of PABPC1 expression, lncRNA GHSROS significantly promotes growth and migration of BC, and lncRNA NONHSAT101069 regulates Twist1 by targeting the microRNA, miR-129-5p, to induce epirubicin resistance and promote BC cell migration and invasion [ 22 ]. In addition, a novel lncRNA named RP11-22N19.2 was highly overexpressed in TNBC compared with non-TNBC tissues, which predicted poor prognosis for overall survival and recurrence-free survival in TNBC [ 23 ].…”