El Diario de Pontevedra : periódico liberal: Ano XXIII Número 6794 - 1906 decembro 11

Detail information of differentially expressed lncRNAs identified based on RNA-Seq data. (XLSX 230 kb

Additional file 6: of Differential expression analysis at the individual level reveals a lncRNA prognostic signature for lung adenocarcinoma

Table S7. The consistency score under top 3, 5 and 7 reversal pairs in pair-wise datasets. Table S8. Comparison of LncRIndiv and RankComp methods using simulation data. Table S9. Information of lncRNAs with significant consistence between differential expression status and copy number alteration. Table S10. Information of genes co-expressed with TMPO-AS1 and C1orf132 in cell cycle pathway in GSE50081. Table S11. Differentially expressed lncRNAs identified by LncRIndiv method supported by experimental evidence. Table S12. Information of competing endogenous RNA and miRNA with the lncRNA C1orf132. Table S13.. Sensitivity, specificity, and F-score in simulated data under different scenarios. (DOC 257 kb

Additional file 1: of Systematic analyses reveal long non-coding RNA (PTAF)-mediated promotion of EMT and invasion-metastasis in serous ovarian cancer

Table S1. Statistics of datasets. Figure S1. LncRNA-EMT gene correlation network in mesenchymal ovarian cancer. Nodes marked by rounded rectangle and ellipse denote lncRNA and EMT gene, respectively. Nodes with blue or green color represent lncRNA or EMT genes are significantly up-regulated in mesenchymal OvCa compared with epithelial OvCa. The edges represent the significant correlation between lncRNAs and EMT genes. Figure S2. Overexpression of miR-25 in OvCa cells promotes epithelial phenotype. (A) The mRNA levels of EMT-related markers in SKOV3 cells transfected with miR-25 or control miRNA (miR-Ctrl). (B) Quantification of E-cadherin and Vimentin in SKOV3 cells transfected with miR-25 or control miRNA (miR-Ctrl). Wound healing assay (C) and migration assay (D) determined the effect of miR-25 on cell migration in OvCa cells. n = 5 independent experiments. *p < 0.05, **p < 0.01 vs. miR-Ctrl. Figure S3. PTAF promoted migration in SKOV3 cells. (A) Overexpression of PTAF induced EMT by regulating miR-25 in SKOV3 cells, as measured by qRT-PCR. n = 6 independent experiments. *P < 0.05. Wound-healing (B) and migration assays (C) showed that PTAF promoted SKOV3 cell migration, which was inhibited by forced expression of miR-25. n = 5 independent experiments. *P < 0.05, **P < 0.01. (D) A Transwell invasion assay showed that PTAF promoted SKOV3 cell invasion by egulating miR-25. n = 5 independent experiments. **P < 0.01. Figure S4. Silencing of PTAF inhibited TGF-driven migration in SKOV3 cells. (A) Knockdown of PTAF attenuated TGF-β1-induced EMT in SKOV3 cells, which could be alleviated by miR-25 inhibition. n = 6 independent experiments. *P < 0.05. Wound-healing (B) and migration assays (C) showed that silencing of PTAF inhibited TGF-β1-driven migration in SKOV3 cells, which was abated by miR-25 knockdown. n = 5 independent experiments. *P < 0.05, **P < 0.01. (D) A Transwell invasion assay showed that knockdown of PTAF inhibited TGF-β1-induced SKOV3 cell invasion. n = 5 independent experiments. **P < 0.01. (DOC 13561 kb

Additional file 1: Table S1. of Differential expression analysis at the individual level reveals a lncRNA prognostic signature for lung adenocarcinoma

Information of probes, Ensembl ID/RefSeq ID and symbol for each lncRNA annotated from Affymetrix Human Genome U133 Plus 2.0 Array (HG-U133 Plus 2.0). (XLSX 151 kb