Comprehensive review and assessment of computational methods for predicting RNA post-transcriptional modification sites from RNA sequences
RNA post-transcriptional modifications play a crucial role in a myriad of biological processes
and cellular functions. To date, more than 160 RNA modifications have been discovered; …
and cellular functions. To date, more than 160 RNA modifications have been discovered; …
The molecular structure of long non-coding RNAs: emerging patterns and functional implications
Long non-coding RNAs (lncRNAs) are recently-discovered transcripts that regulate vital
cellular processes and are crucially connected to diseases. Despite their unprecedented …
cellular processes and are crucially connected to diseases. Despite their unprecedented …
LncRNA LINRIS stabilizes IGF2BP2 and promotes the aerobic glycolysis in colorectal cancer
Y Wang, JH Lu, QN Wu, Y Jin, DS Wang, YX Chen… - Molecular cancer, 2019 - Springer
Abstract Background Long noncoding RNAs (lncRNAs) play nonnegligible roles in the
epigenetic regulation of cancer cells. This study aimed to identify a specific lncRNA that …
epigenetic regulation of cancer cells. This study aimed to identify a specific lncRNA that …
WHISTLE: a high-accuracy map of the human N6-methyladenosine (m6A) epitranscriptome predicted using a machine learning approach
Abstract N 6-methyladenosine (m6A) is the most prevalent post-transcriptional modification
in eukaryotes, and plays a pivotal role in various biological processes, such as splicing …
in eukaryotes, and plays a pivotal role in various biological processes, such as splicing …
R2DT is a framework for predicting and visualising RNA secondary structure using templates
Non-coding RNAs (ncRNA) are essential for all life, and their functions often depend on their
secondary (2D) and tertiary structure. Despite the abundance of software for the …
secondary (2D) and tertiary structure. Despite the abundance of software for the …
Deep learning of the regulatory grammar of yeast 5′ untranslated regions from 500,000 random sequences
Our ability to predict protein expression from DNA sequence alone remains poor, reflecting
our limited understanding of cis-regulatory grammar and hampering the design of …
our limited understanding of cis-regulatory grammar and hampering the design of …
The helicase Ded1p controls use of near-cognate translation initiation codons in 5′ UTRs
UP Guenther, DE Weinberg, MM Zubradt, FA Tedeschi… - Nature, 2018 - nature.com
The conserved and essential DEAD-box RNA helicase Ded1p from yeast and its
mammalian orthologue DDX3 are critical for the initiation of translation. Mutations in DDX3 …
mammalian orthologue DDX3 are critical for the initiation of translation. Mutations in DDX3 …
Characterization of SARS2 Nsp15 nuclease activity reveals it's mad about U
Nsp15 is a uridine specific endoribonuclease that coronaviruses employ to cleave viral RNA
and evade host immune defense systems. Previous structures of Nsp15 from across …
and evade host immune defense systems. Previous structures of Nsp15 from across …
Generation of high yielding and fragrant rice (Oryza sativa L.) lines by CRISPR/Cas9 targeted mutagenesis of three homoeologs of cytochrome P450 gene family and …
The significant increase in grain yield and quality are often antagonistic but a constant
demand for breeders and consumers. Some genes related to cytochrome P450 family are …
demand for breeders and consumers. Some genes related to cytochrome P450 family are …
Evolutionary conservation of RNA sequence and structure
E Rivas - Wiley Interdisciplinary Reviews: RNA, 2021 - Wiley Online Library
An RNA structure prediction from a single‐sequence RNA folding program is not evidence
for an RNA whose structure is important for function. Random sequences have plausible …
for an RNA whose structure is important for function. Random sequences have plausible …