27 papers · ranked by Valyu relevance
Victor E. Nava, Pin-Yu Perera, Nirbhay Kumar, Maneesh Jain + 3 more
'Ramar Thangam' 'Ramasamy Paulmurugan' 'Heemin Kang'] Noncoding RNAs (ncRNAs) defy the central dogma by representing a family of RNA molecules that are not translated into protein but can convey information encoded in their DNA. Elucidating the exact function of ncRNA has been a focus of discovery in the last decade…
Kinga Plawgo, Katarzyna Dorota Raczynska, Nicholas Delihas
In recent functional genomics studies, a large number of non-coding RNAs have been identified. It has become increasingly apparent that noncoding RNAs are crucial players in a wide range of cellular and physiological functions. They have been shown to modulate gene expression on different levels, including…
Roman Beňačka, Daniela Szabóová, Zuzana Guľašová, Zdenka Hertelyová + 3 more
Non-coding RNAs (ncRNAs) are abundant single-stranded RNA molecules in human cells, involved in various cellular processes ranging from DNA replication and mRNA translation regulation to genome stability defense. MicroRNAs are multifunctional ncRNA molecules of 18-24 nt in length, involved in gene silencing through…
Murilo Montanini Breve, Matheus Henrique Pimenta-Zanon, Fabrício Martins Lopes
'Fabrício Martins Lopes'] Abstract—The discovery of nucleic acids and the structure of DNA have brought considerable advances in the understanding of life. The development of next-generation sequencing technologies has led to a large-scale generation of data, for which computational methods have become essential for…
William A. Haseltine, Roberto Patarca, Alfonso Baldi
Human genome projects in the 1990s identified about 20,000 protein-coding sequences. We are now in the RNA revolution, propelled by the realization that genes determine phenotype beyond the foundational central molecular biology dogma, stating that inherited linear pieces of DNA are transcribed to RNAs and translated…
Samuel Z. Desind, Samira K. Bell, Carol S. Lutz
Noncoding RNAs (ncRNAs) are a diverse and abundant class of molecules that play essential roles in gene regulation across eukaryotic organisms, including roles in human homeostasis and disease. Historically regarded as transcriptional artifacts or byproducts, ncRNAs are now recognized as essential regulators of…
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…
Éva Márton, Alexandra Varga, Dóra Domoszlai, Gergely Buglyó + 9 more
'Anita Balázs' 'András Penyige' 'István Balogh' 'Bálint Nagy' 'Melinda Szilágyi' 'Charles H. Lawrie' 'Margarete Odenthal' 'Sanjay Premi' 'Jyoti Srivastava'] Title: Simple Summary The field of non-coding RNAs has growing interest in cancer research since these molecules play a prominent role in the regulation of cancer…
David da Costa Correia, Francisco M. Couto, Hugo Martiniano
Non-coding RNAs (ncRNAs) represent the majority of human gene products, and are involved in various important biological processes, being considered relevant disease biomarkers and therapeutic agents. However, information about these biomolecules remains sparsely distributed, mostly in the form of scientific research…
Carlos Romero Díaz, María Teresa Hernández-Huerta, Laura Pérez-Campos Mayoral, Miriam Emily Avendaño Villegas + 14 more
'Laura Pérez-Campos Mayoral' 'Miriam Emily Avendaño Villegas' 'Edgar Zenteno' 'Margarito Martínez Cruz' 'Eduardo Pérez-Campos Mayoral' 'María del Socorro Pina Canseco' 'Gabriel Mayoral Andrade' 'Manuel Ángeles Castellanos' 'José Manuel Matías Salvador' 'Eli Cruz Parada' 'Alexis Martínez Barras' 'Jaydi Nora Cruz…
Amil Shah, Vincenzo Zappavigna
The discovery of oncogenes and tumor suppressor genes provided important insights into the molecular pathogenesis of cancer but also revealed some contradictions in the prevailing somatic mutation theory. The evidence that noncoding RNAs (ncRNAs) form an elaborate network that regulates the flow of genetic information…
Jill Ashey, Javier A. Rodriguez-Casariego, Kathleen M. Durkin, Zachary Bengtsson + 6 more
Non-coding RNAs (ncRNAs) play critical regulatory roles in gene expression regulation that influences diverse biological processes in response to environmental change. Yet their characterization in non-model organisms, particularly sessile, benthic ecosystem engineers such as reef-building corals that are sensitive to…
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…
Nair Sreejith, Singh Deepshikha, Saha Aditi, Datta Bhaskar + 1 more
Long non-coding RNAs (lncRNAs) account for a major proportion of the transcriptional output in complex organismal genomes. Their emergence as auxiliary regulators of gene expression as well as their roles in metastasis and cancer progression has put them in the limelight. LncRNAs perform multitudes of functions and…
Sarangdhar Nayak, Pawan K. Dhar
The dark genome comprising of non-expressing, non-translating, and extinct DNA sequences has remained a largely unexplored genomic space. Using computational and experimental approaches, novel insights into the dark matter genome have recently been gained, revealing the presence of a vast and unexplored resource.…
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…
Emanuele Cavalleri, Alberto Cabri, Mauricio Soto, Sara Bonfitto + 8 more
'Paolo Perlasca' 'Jessica Gliozzo' 'Tiffany J Callahan' 'Justin Reese' 'Peter N. Robinson' 'Elena Casiraghi' 'Giorgio Valentini' 'Marco Mesiti'] The "RNA world" represents a novel frontier for the study of fundamental biological processes and human diseases and is paving the way for the development of new drugs…
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']…
Christopher Klapproth, Siegfried Zöztsche, Felix Kühnl, Jörg Fallmann + 2 more
The in silico prediction of non-coding and protein-coding genetic loci is an area of research that has gathered large attention in the field of comparative genomics. In the last decade, much effort has been made to investigate numerous properties of nucleotide sequences that hint at their biological role in the cell.…
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…
Fernando Antoneli, Martin Golubitsky, Jiaxin Jin, Ian Stewart
Gene regulatory networks lie at the heart of many important intracellular signal transduction processes. A Gene Regulatory Network (GRN) is abstractly defined as a directed graph, where the nodes represent genes and the edges represent the causal regulatory interactions between genes. It can be used to construct…
Reza Rahmanzadeh
First, mutations leading to genetic novelties in a given species during evolution should be guided by the environment surrounding that species. Second, environment and germline are connected with each other via soma-germline messengers e.g., non-coding RNAs (ncRNAs). Third, based on the information that germline…
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…
Hirotake Udono, Minzhi Fan, Yoko Saito, Hirohisa Ohno + 4 more
Programmable droplets, artificial liquid-like condensates of nucleic acids, are intelligent out-of-equilibrium systems that allow the critical aspects of their biological counterparts to be harnessed programmably, such as molecular sensing and phase-state change. While DNA has been central to the previous efforts, less…
Authors not listed
One aim of the international Human Proteome Organization (HUPO) Human Proteome Project (HPP) is to obtain high-confidence translation evidence for every human protein-coding gene established in its target list of 19433 entries based on the protein-coding genes from Ensembl-GENCODE. However, 76 are annotated in…
HANIYEH ABDOLLAHZADEH, Tonya Peeples, Mohammad Shahcheraghi
DNA-based nanomaterials have shown great potential in numerous applications, thanks to their unique properties including DNA's various molecular interactions, programmability, and versatility with biological modules. Meanwhile, the DNA origami platforms have shown promise in the creation of drug carriers. This…
Authors not listed
RNA molecules fold into complex three-dimensional structures that determine their function. A wide range of mathematical frameworks, such as chord diagrams, fatgraphs, and context-free grammars, have been used to represent these structures; however, these models have largely been developed from mathematical motivations…