24 papers · ranked by Valyu relevance
Matthew W. Faber, Tommy V. Vo, Luca Agnelli, Giovanni Malerba
As part of a complex network of genome control, long regulatory RNAs exert significant influences on chromatin dynamics. Understanding how this occurs could illuminate new avenues for disease treatment and lead to new hypotheses that would advance gene regulatory research. Recent studies using the model fission yeast…
Wenchao Li, Yang Yang Wang, Lifei Xiao, Jiangwei Ding + 3 more
'Feng Wang' 'Tao Sun'] Increasingly studies have shown that the formation mechanism of many human diseases is very complex, which is determined by environmental factors and genetic factors rather than fully following Mendel’s genetic law of inheritance. Long non-coding RNA (lncRNA) is a class of endogenous non-protein…
Saugata Dutta, Yin Zhu, Yohan Han, Sultan Almuntashiri + 3 more
'Xiaoyun Wang' 'Duo Zhang' 'Pierachille Santus'] Acute lung injury (ALI) and its severe form, acute respiratory distress syndrome (ARDS), represent an acute stage of lung inflammation where the alveolar epithelium loses its functionality. ALI has a devastating impact on the population as it not only has a high rate of…
Joseph L. Tsenum, Maria Poptsova
Long non-coding RNAs (lncRNAs) can perform their regulatory roles by forming triple helices through RNA-DNA interaction. Although this has been verified by few in vivo and in vitro methods, in silico approaches that seek to predict the potentials of lncRNAs and DNA sites becoming a triplex forming structure is…
Joseph L. Tsenum
Long non-coding RNAs (lncRNAs) can perform their regulatory roles by forming triple helices through RNA-DNA interaction. Although this has been verified by few in vivo and in vitro methods, in silico approaches that seek to predict the potentials of lncRNAs and DNA sites becoming a triplex forming structure is…
Musaffe Tuna, Gordon B Mills, Christopher I. Amos
The long non-coding RNAs (lncRNAs) are defined as RNA transcripts that are > 200 nucleotides in length [e.g., BC200 (Brain cytoplasmic 200 long-noncoding RNA, 200 nt in length), XIST (X inactive specific transcript, 19 kb in length)], with the vast majority not containing open reading frames (ORFs) and not having…
Kyle Palos, Li’ang Yu, Caylyn E Railey, Anna C Nelson Dittrich + 1 more
'Andrew D L Nelson'] Title: Abstract Long noncoding RNAs (lncRNAs) are a large and diverse class of genes in eukaryotic genomes that contribute to a variety of regulatory processes. Functionally characterized lncRNAs play critical roles in plants, ranging from regulating flowering to controlling lateral root formation.…
Patrick Connerty, Richard B. Lock
Long noncoding RNAs (lncRNAs) are traditionally defined as RNA transcripts longer than 200 nucleotides that have no protein coding potential. LncRNAs have been identified to be dysregulated in various types of cancer, including the deadly hematopoietic cancer-acute myeloid leukemia (AML). Currently, survival rates for…
Zixiu Li, Peng Zhou, Euijin Kwon, Katherine Fitzgerald + 2 more
Long noncoding RNAs (lncRNAs) play critical regulatory roles in human development and disease. However, many lncRNAs have yet to be annotated. The conventional approach to identifying novel lncRNAs from RNA sequencing (RNA-seq) data is to find transcripts without coding potential. This approach has a false discovery…
Qais Ahmad Naseer, Abdul Malik, Fengyuan Zhang, Shengxia Chen
Long noncoding RNAs (lncRNAs), which are more than 200 nucleotides in length and do not encode proteins, play crucial roles in governing gene expression at both the transcriptional and posttranscriptional levels. These molecules demonstrate specific expression patterns in various tissues and developmental stages…
Esra GÜZEL TANOĞLU, Seyfure ADIGÜZEL, Alpaslan TANOĞLU, Zehra Betül AYDIN + 2 more
'Zehra Betül AYDIN' 'Gülizar HOCAOĞLU' 'Samet EBİNÇ'] Long noncoding RNAs (lncRNAs) are noncoding RNA molecules with a heterogeneous structure consisting of 200 or more nucleotides. Because these noncoding RNAs are transcribed by RNA polymerase II, they have properties similar to messenger RNA (mRNA). Contrary to…
Alan Monziani, Juan Pablo Unfried, Todor Cvetanovic, Igor Ulitsky
Mammalian genomes are pervasively transcribed into long noncoding RNAs (lncRNAs), whose functions and modes of action remain poorly understood. EPB41L4A-AS1 is an evolutionary conserved, broadly and highly expressed lncRNA that produces the H/ACA snoRNA SNORA13 from one of its introns. We studied the consequences of…
Yu-Li He, Loh, Youshin
The emerging field of epigenetics has recently unveiled a dynamic landscape in which gene expression is not determined solely by genetic sequences but also by intricate regulatory mechanisms. This review examines the interactions between these regulatory mechanisms, including DNA methylation and non-coding RNAs…
Nicholas Jeon, Xiaoning Qian, Lamin SaidyKhan, Paul de Figueiredo + 1 more
Prediction of long non-coding RNAs Authors: ['Nicholas Jeon' 'Xiaoning Qian' 'Lamin SaidyKhan' 'Paul de Figueiredo' 'Byung-Jun Yoon'] Long non-coding RNAs (lncRNAs) serve as crucial regulators in numerous biological processes. Although they share sequence similarities with messenger RNAs (mRNAs), lncRNAs perform…
Isaac Adeyemi Babarinde, Andrew Paul Hutchins
Investigating the functions and activities of genes requires proper annotation of the transcribed units. However, transcript assembly efforts have produced a surprisingly large variation in the number of transcripts, and especially so for noncoding transcripts. The heterogeneity of the assembled transcript sets might…
Janet Sasso, Barbara Ambrose, Rumiana Tenchov, Ruchira Datta + 3 more
In the last decade, there has been a shift in research, clinical development, and commercial activity to exploit the many roles of RNA in physiology for use in medicine. With the rapid success in the development of lipid-RNA nanoparticles for mRNA vaccines against COVID-19 and with several approved RNA-based drugs, RNA…
Anyou Wang
The mechanisms underlying lifespan evolution in organisms have long been mysterious. However, recent studies have demonstrated that organisms evolutionarily gain noncoding RNAs (ncRNAs) that carry endogenous profound functions in higher organisms1,2, including lifespan3 . This study unveils ncRNAs as crucial drivers…
Paulo Amaral, Sílvia Carbonell Sala, Francisco M. De La Vega, Tiago Faial + 17 more
'Tiago Faial' 'Adam Frankish' 'T Gingeras' 'Roderic Guigó' 'Jennifer Harrow' 'Artemis G. Hatzigeorgiou' 'Rory Johnson' 'Terence D. Murphy' 'Mihaela Pertea' 'Kim D. Pruitt' 'Shashikant Pujar' 'Hazuki Takahashi' 'Igor Ulitsky' 'Ales Varabyou' 'Christine A. Wells' 'Mark Yandell' 'Piero Carninci' 'Steven L. Salzberg']…
Lauren Michelle Lui, Torben Nielsen
Functional annotation of microbial genomes is often biased toward protein-coding genes, leaving a vast, unexplored landscape of non-coding RNAs (ncRNAs) that are critical for regulating bacterial and archaeal physiology, stress response and metabolism. Identifying ncRNAs directly from genomic sequence is a paramount…
Authors not listed
Antisense oligonucleotides (ASOs) are a promising class of therapeutics designed to modulate gene expression. Both key mechanisms of action for ASOs operate in the nucleus: splice-switching ASOs modify pre-mRNA, processed in the nucleus, and mRNA-degrading ASOs require RNase H, an enzyme predominantly active in the…
Xiaomin Liu, Shimaa Soliman, Saeid Parast, Madhurima Das + 1 more
Latency: A Review Authors: ['Xiaomin Liu' 'Shimaa Soliman' 'Saeid Parast' 'Madhurima Das' 'Steven M. Wolinsky'] Abstract: The existence of latent cellular reservoirs is recognized as the major barrier to an HIV cure. Reactivating and eliminating "shock and kill" or permanently silencing "block and lock" the latent HIV…
Authors not listed
Targeting RNA with small molecules represents a promising yet relatively unexplored avenue for the design of new drugs. Nevertheless, challenges arise from the lack of computational models and techniques able to accurately model RNA systems, and predict their binding affinities to small molecules. Here, we tackle these…
Matthew Disney, Amirhossein Taghavi, Jared Baisden, Jessica Childs-Disney + 1 more
RNA G4C2 and C4G2 repeat expansions in the chromosome 9 open reading frame 72 gene (C9orf72) are the most common cause of genetically defined amyotrophic lateral sclerosis (ALS) and frontotemporal dementia (FTD), referred to as c9ALS/FTD. The gene is bidirectionally transcribed, producing G4C2 repeats, r(G4C2)exp, in…
Aarav Arora, Igor Tsigelny, Valentina Kouznetsova
Purpose Laryngeal cancer (LC) is the most common head and neck cancer, which often goes undiagnosed due to the expensiveness and inaccessible nature of current diagnosis methods. Many recent studies have shown that microRNAs (miRNAs) are crucial biomarkers for a variety of cancers. Methods In this study, we create a…