Objective To explore novel long non-coding RNA(lncRNA)molecular markers related to bladder cancer prognosis and to construct a prognostic prediction model for bladder cancer patients.Methods LncRNA expression data of ...Objective To explore novel long non-coding RNA(lncRNA)molecular markers related to bladder cancer prognosis and to construct a prognostic prediction model for bladder cancer patients.Methods LncRNA expression data of patients with bladder cancer were downloaded from TCGA database.Univariate Cox regression and likelihood-based survival analysis were used to discover prognosis related lncRNAs.Functional studies of prognosis related lncRNAs were conducted by co-expression analysis and pathway enrichment analysis.Multivariate Cox regression analysis was used to establish risk score model,and Receiver Operating Characteristic analysis was used to determine the optimal cut-off point of the model.The risk score model was validated through Kaplan Meier estimation method and log-rank test.Results Seven prognosis related lncRNAs(OCIAD1-AS1,RP11-111 J6.2,AC079354.3,RP11-553 A21.3,RP11-598 F7.3,CYP4 F35 P and RP11-113 K21.4)which can predict survival of bladder cancer patient were discovered.Co-expression analysis and pathway analysis of these novel lncRNA signature and their target genes further revealed that these lncRNAs play important roles in the occurrence and development of bladder cancer.Additionally,a seven-lncRNA signature based risk score model for prognostic prediction of bladder cancer patients was established and validated.Notably,we identified the potential significance of two tumor-related antisense lncRNAs(OCIAD1-AS1 and RP11-553 A21.3)in the prognosis of bladder cancer.Conclusion Our results suggest that these lncRNA markers may serve as potential prognosis predictors for bladder cancer and deserve further functional verification studies.展开更多
Abstract With the development of genome-wide sequencing technology, 195 types of functional long non-coding RNAs （lncRNAs） have so far been found, and their cellular roles are gradually being revealed. Now lncRNAs h...Abstract With the development of genome-wide sequencing technology, 195 types of functional long non-coding RNAs （lncRNAs） have so far been found, and their cellular roles are gradually being revealed. Now lncRNAs have become a hotspot in the life science. These small molecules exist in almost all higher eukaryotes, and have very important regulatory roles in these organisms. This review briefly summarizes recent progress in researches on antisense non-coding RNA in the INK4 locus.展开更多
The biological features of the valvular heart disease with atrial fibrillation(AF-VHD)remain unknown when involving long non-coding RNAs(lncRNAs).This study performed system analysis on lncRNA and messenger RNA(mRNA)e...The biological features of the valvular heart disease with atrial fibrillation(AF-VHD)remain unknown when involving long non-coding RNAs(lncRNAs).This study performed system analysis on lncRNA and messenger RNA(mRNA)expression profiles constructed by using bioinformatics methods and tools for biological features of AF-VHD.Fold change and t-test were used to identify differentially expressed(DE)lncRNAs and mRNAs.The enrichment analysis of DE mRNAs was performed.The subgroups formed by lncRNAs and nearby mRNAs were screened,and a transcriptional regulation network among lncRNAs,mRNAs,and transcription factors(TFs)was constructed.The interactions between mRNAs related to lncRNAs and drugs were predicted.The 620 AF-VHDrelated DE lncRNAs and 452 DE mRNAs were identified.The 3 lncRNA subgroups were screened.The 665 regulations mediated by lncRNAs and TFs were identified.The 9 mRNAs related to lncRNAs had 1 or more potential drug interactions,totaling 37 drugs.Of these,9 drugs targeting 3 genes are already known to be able to control or trigger atrial fibrillation(AF)or other cardiac arrhythmias.The found biological features of AF-VHD provide foundations for further biological experiments to better understand the roles of lncRNAs in development from the valvular heart disease(VHD)to AF-VHD.展开更多
With the development of genome-wide sequencing technology, 195 types of functional, long non-coding RNAs(lnc RNAs) have been identified so far, and their cellular roles are gradually being revealed. Lnc RNAs have now ...With the development of genome-wide sequencing technology, 195 types of functional, long non-coding RNAs(lnc RNAs) have been identified so far, and their cellular roles are gradually being revealed. Lnc RNAs have now become a hotspot in the field of life sciences. These small molecules exist in almost all higher eukaryotes and play very important regulatory roles in these organisms. This review briefly summarizes the recent progress in research on plasmacytoma variant translocation 1 gene(PVT1), an lnc RNA.展开更多
文摘Objective To explore novel long non-coding RNA(lncRNA)molecular markers related to bladder cancer prognosis and to construct a prognostic prediction model for bladder cancer patients.Methods LncRNA expression data of patients with bladder cancer were downloaded from TCGA database.Univariate Cox regression and likelihood-based survival analysis were used to discover prognosis related lncRNAs.Functional studies of prognosis related lncRNAs were conducted by co-expression analysis and pathway enrichment analysis.Multivariate Cox regression analysis was used to establish risk score model,and Receiver Operating Characteristic analysis was used to determine the optimal cut-off point of the model.The risk score model was validated through Kaplan Meier estimation method and log-rank test.Results Seven prognosis related lncRNAs(OCIAD1-AS1,RP11-111 J6.2,AC079354.3,RP11-553 A21.3,RP11-598 F7.3,CYP4 F35 P and RP11-113 K21.4)which can predict survival of bladder cancer patient were discovered.Co-expression analysis and pathway analysis of these novel lncRNA signature and their target genes further revealed that these lncRNAs play important roles in the occurrence and development of bladder cancer.Additionally,a seven-lncRNA signature based risk score model for prognostic prediction of bladder cancer patients was established and validated.Notably,we identified the potential significance of two tumor-related antisense lncRNAs(OCIAD1-AS1 and RP11-553 A21.3)in the prognosis of bladder cancer.Conclusion Our results suggest that these lncRNA markers may serve as potential prognosis predictors for bladder cancer and deserve further functional verification studies.
文摘Abstract With the development of genome-wide sequencing technology, 195 types of functional long non-coding RNAs （lncRNAs） have so far been found, and their cellular roles are gradually being revealed. Now lncRNAs have become a hotspot in the life science. These small molecules exist in almost all higher eukaryotes, and have very important regulatory roles in these organisms. This review briefly summarizes recent progress in researches on antisense non-coding RNA in the INK4 locus.
基金the National Natural Science Foundation of China under Grants No.61872405 and No.61720106004the Key Project of Natural Science Foundation of Guangdong Province under Grant No.2016A030311040.
文摘The biological features of the valvular heart disease with atrial fibrillation(AF-VHD)remain unknown when involving long non-coding RNAs(lncRNAs).This study performed system analysis on lncRNA and messenger RNA(mRNA)expression profiles constructed by using bioinformatics methods and tools for biological features of AF-VHD.Fold change and t-test were used to identify differentially expressed(DE)lncRNAs and mRNAs.The enrichment analysis of DE mRNAs was performed.The subgroups formed by lncRNAs and nearby mRNAs were screened,and a transcriptional regulation network among lncRNAs,mRNAs,and transcription factors(TFs)was constructed.The interactions between mRNAs related to lncRNAs and drugs were predicted.The 620 AF-VHDrelated DE lncRNAs and 452 DE mRNAs were identified.The 3 lncRNA subgroups were screened.The 665 regulations mediated by lncRNAs and TFs were identified.The 9 mRNAs related to lncRNAs had 1 or more potential drug interactions,totaling 37 drugs.Of these,9 drugs targeting 3 genes are already known to be able to control or trigger atrial fibrillation(AF)or other cardiac arrhythmias.The found biological features of AF-VHD provide foundations for further biological experiments to better understand the roles of lncRNAs in development from the valvular heart disease(VHD)to AF-VHD.
基金Supported by Science and Technology Plan of Guangdong Provincial Department of Science and Technology(2011B031800012)
文摘With the development of genome-wide sequencing technology, 195 types of functional, long non-coding RNAs(lnc RNAs) have been identified so far, and their cellular roles are gradually being revealed. Lnc RNAs have now become a hotspot in the field of life sciences. These small molecules exist in almost all higher eukaryotes and play very important regulatory roles in these organisms. This review briefly summarizes the recent progress in research on plasmacytoma variant translocation 1 gene(PVT1), an lnc RNA.
