[HTML][HTML] G-quadruplexes and their ligands: Biophysical methods to unravel G-quadruplex/ligand interactions
Progress in the design of G-quadruplex (G4) binding ligands relies on the availability of
approaches that assess the binding mode and nature of the interactions between G4 …
approaches that assess the binding mode and nature of the interactions between G4 …
An overview on nucleic-acid G-quadruplex prediction: from rule-based methods to deep neural networks
K Elimelech-Zohar, Y Orenstein - Briefings in Bioinformatics, 2023 - academic.oup.com
Nucleic-acid G-quadruplexes (G4s) play vital roles in many cellular processes. Due to their
importance, researchers have developed experimental assays to measure nucleic-acid G4s …
importance, researchers have developed experimental assays to measure nucleic-acid G4s …
[HTML][HTML] Genomic benchmarks: a collection of datasets for genomic sequence classification
Background Recently, deep neural networks have been successfully applied in many
biological fields. In 2020, a deep learning model AlphaFold won the protein folding …
biological fields. In 2020, a deep learning model AlphaFold won the protein folding …
[HTML][HTML] DeepG4: a deep learning approach to predict cell-type specific active G-quadruplex regions
V Rocher, M Genais, E Nassereddine… - PLOS Computational …, 2021 - journals.plos.org
DNA is a complex molecule carrying the instructions an organism needs to develop, live and
reproduce. In 1953, Watson and Crick discovered that DNA is composed of two chains …
reproduce. In 1953, Watson and Crick discovered that DNA is composed of two chains …
[HTML][HTML] Deep learning in RNA structure studies
Deep learning, or artificial neural networks, is a type of machine learning algorithm that can
decipher underlying relationships from large volumes of data and has been successfully …
decipher underlying relationships from large volumes of data and has been successfully …
[HTML][HTML] Ni+ 2 permease system of Helicobacter pylori contains highly conserved G-quadruplex motifs
The genome of a micro-organism contains all the information required for its survival inside
its host cells. The guanine rich regions of the genome can form stable G-quadruplex …
its host cells. The guanine rich regions of the genome can form stable G-quadruplex …
[HTML][HTML] Decoding regulatory associations of G-quadruplex with epigenetic and transcriptomic functional components
G-quadruplex (G4) has been previously observed to be associated with gene expression. In
this study, we performed integrative analysis on G4 multi-omics data from in-silicon …
this study, we performed integrative analysis on G4 multi-omics data from in-silicon …
[HTML][HTML] Pre-miRNA-149 G-quadruplex as a molecular agent to capture nucleolin
One of the most significant challenges in capturing and detecting biomarkers is the choice of
an appropriate biomolecular receptor. Recently, RNA G-quadruplexes emerged as plausible …
an appropriate biomolecular receptor. Recently, RNA G-quadruplexes emerged as plausible …
Genome-wide mapping of G-quadruplex DNA: a step-by-step guide to select the most effective method.
S Galli, G Flint, L Ruzicková, M Di Antonio - RSC Chemical Biology, 2024 - pubs.rsc.org
The development of methods that enabled genome-wide mapping of DNA G-quadruplex
structures in chromatin has played a critical role in providing evidence to support the …
structures in chromatin has played a critical role in providing evidence to support the …
G4-Attention: Deep Learning Model with Attention for predicting DNA G-Quadruplexes
S Mukherjee, P Pramanik, P Basuchowdhuri… - arXiv preprint arXiv …, 2024 - arxiv.org
G-Quadruplexes are the four-stranded non-canonical nucleic acid secondary structures,
formed by the stacking arrangement of the guanine tetramers. They are involved in a wide …
formed by the stacking arrangement of the guanine tetramers. They are involved in a wide …