scholarly journals GENT-49. SYSTEMATIC IDENTIFICATION OF ESSENTIAL LONG NON-CODING RNA GENES IN GLIOBLASTOMA

2016 ◽  
Vol 18 (suppl_6) ◽  
pp. vi84-vi85
Author(s):  
Siyuan Liu ◽  
Max Horlbeck ◽  
Seung Woo Cho ◽  
Harjus Birk ◽  
Martina Malatesta ◽  
...  
2021 ◽  
Vol 11 (8) ◽  
pp. 1306-1312
Author(s):  
Li Song ◽  
Ningchao Du ◽  
Haitao Luo ◽  
Furong Li

This study aimed to identify the association of protein coding and long non coding RNA genes with immunotherapy response in melanoma. Based on RNA sequencing data of melanoma specimens, the expression levels of protein coding and long non coding RNA genes were calculated using the Kallisto RNA-seq quantification method, and differently expressed genes were detected using the DESeq2 method. Cox proportional hazards regression was used to evaluate the effects of gene expression on survival. According to the clinical data of 14 patients with drug response and 11 patients without drug response, 18 protein coding genes and 14 long non coding RNAs showed differential expressions (multiple of difference > 2 and P < 0.01 after correction), among which the coding genes of differential expression were significantly enriched through the process of cell adhesion (P < 0.01). The results of survival analysis showed that 18 coding genes and 14 long non coding RNA genes had significant effects on patient survival (P < 0.01). In this study, magnetic nanoparticles can be used to extract genomic DNA and total RNA due to their paramagnetism and biocompatibility, then transcriptome high-throughput sequencing was performed. The method has the advantages of removing dangerous reagents such as phenol and chloroform, replacing inorganic coating such as silica with organic oil, and shortening reaction time. Protein coding and long non coding RNA genes as well as magnetic nanoparticles may serve as potential cancer immune biomarker targets for developing future oncological treatments.


2016 ◽  
pp. gkw883 ◽  
Author(s):  
Ashish Goyal ◽  
Ksenia Myacheva ◽  
Matthias Groß ◽  
Marcel Klingenberg ◽  
Berta Duran Arqué ◽  
...  

Tumor Biology ◽  
2016 ◽  
Vol 37 (7) ◽  
pp. 9875-9886 ◽  
Author(s):  
Bo Liu ◽  
Er-Dong Shen ◽  
Ming-Mei Liao ◽  
Yong-Bin Hu ◽  
Kai Wu ◽  
...  

Epigenomes ◽  
2019 ◽  
Vol 3 (3) ◽  
pp. 14 ◽  
Author(s):  
Alessandro Fiorenzano ◽  
Emilia Pascale ◽  
Eduardo Jorge Patriarca ◽  
Gabriella Minchiotti ◽  
Annalisa Fico

The power of embryonic stem cells (ESCs) lies in their ability to self-renew and differentiate. Behind these two unique capabilities is a fine-tuned molecular network that shapes the genetic, epigenetic, and epitranscriptomic ESC plasticity. Although RNA has been shown to be functionally important in only a small minority of long non-coding RNA genes, a growing body of evidence has highlighted the pivotal and intricate role of lncRNAs in chromatin remodeling. Due to their multifaceted nature, lncRNAs interact with DNA, RNA, and proteins, and are emerging as new modulators of extensive gene expression programs through their participation in ESC-specific regulatory circuitries. Here, we review the tight cooperation between lncRNAs and Polycomb repressive complex 2 (PRC2), which is intimately involved in determining and maintaining the ESC epigenetic landscape. The lncRNA-PRC2 partnership is fundamental in securing the fully pluripotent state of ESCs, which must be primed to differentiate properly. We also reflect on the advantages brought to this field of research by the advent of single-cell analysis.


Cell Reports ◽  
2020 ◽  
Vol 33 (4) ◽  
pp. 108307
Author(s):  
Hamid Alinejad-Rokny ◽  
Julian I.T. Heng ◽  
Alistair R.R. Forrest

2013 ◽  
Vol 42 (D1) ◽  
pp. D98-D103 ◽  
Author(s):  
Chaoyong Xie ◽  
Jiao Yuan ◽  
Hui Li ◽  
Ming Li ◽  
Guoguang Zhao ◽  
...  

2021 ◽  
Vol 11 (1) ◽  
Author(s):  
Karim Rahimi ◽  
Annette Christine Füchtbauer ◽  
Fardin Fathi ◽  
Seyed Javad Mowla ◽  
Ernst-Martin Füchtbauer

AbstractMicroRNAs are important regulators of cellular functions. MiR-302/367 is a polycistronic miRNA cluster that can induce and maintain pluripotency. Here we investigate the transcriptional control and the processing of the miR-302 host-gene in mice. Our results indicate that the mmu-miR-302 host-gene is alternatively spliced, polyadenylated and exported from the nucleus. The regulatory sequences extend at least 2 kb upstream of the transcription start site and contain several conserved binding sites for both transcriptional activators and repressors. The gene structure and regulatory elements are highly conserved between mouse and human. So far, regulating miR-302 expression is the only known function of the miR-302 host-gene. Even though we here only provide one example, regulation of microRNA transcription might be a so far little recognized function of long non-coding RNA genes.


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