The 2022 Nucleic Acids Research database issue and the online molecular biology database collection

DJ Rigden, XM Fernández - Nucleic acids research, 2022 - academic.oup.com
Abstract The 2022 Nucleic Acids Research Database Issue contains 185 papers, including
87 papers reporting on new databases and 85 updates from resources previously published …

Exploring the role of m7G modification in Cancer: Mechanisms, regulatory proteins, and biomarker potential

Y Zhang, W Xu, C Peng, S Ren, SM Hidig, C Zhang - Cellular Signalling, 2024 - Elsevier
Abstract The dysregulation of N (7)-methylguanosine (m7G) modification is increasingly
recognized as a key factor in the pathogenesis of cancers. Aberrant expression of these …

Moss-m7G: A Motif-Based Interpretable Deep Learning Method for RNA N7-Methlguanosine Site Prediction

Y Zhao, J Jin, W Gao, J Qiao, L Wei - Journal of Chemical …, 2024 - ACS Publications
N-7methylguanosine (m7G) modification plays a crucial role in various biological processes
and is closely associated with the development and progression of many cancers. Accurate …

Sci-ModoM: a quantitative database of transcriptome-wide high-throughput RNA modification sites

E Boileau, H Wilhelmi, A Busch… - Nucleic Acids …, 2025 - academic.oup.com
Abstract We present Sci-ModoM, the first next-generation RNome database offering a
holistic view of the epitranscriptomic landscape. Sci-ModoM has a simple yet powerful …

A review on the role of RNA methylation in aging-related diseases

H Wei, Y Xu, L Lin, Y Li, X Zhu - International Journal of Biological …, 2024 - Elsevier
Senescence is the underlying mechanism of organism aging and is robustly regulated at the
post-transcriptional level. This regulation involves the chemical modifications, of which the …

RPS 2.0: an updated database of RNAs involved in liquid–liquid phase separation

Y He, X Bao, T Chen, Q Jiang, L Zhang… - Nucleic Acids …, 2025 - academic.oup.com
Liquid–liquid phase separation (LLPS) is a crucial process for the formation of biomolecular
condensates such as coacervate droplets, P-bodies and stress granules, which play critical …

Interpretable deep cross networks unveiled common signatures of dysregulated epitranscriptomes across 12 cancer types

R Xia, X Yin, J Huang, K Chen, J Ma, Z Wei, J Su… - … Therapy Nucleic Acids, 2024 - cell.com
Cancer is a complex and multifaceted group of diseases characterized by uncontrolled cell
growth that leads to the formation of malignant tumors. Recent studies suggest that N6 …

[HTML][HTML] Regulatory role of m6A epitranscriptomic modifications in normal development and congenital malformations during embryogenesis

Y Yao, P Liu, Y Li, W Wang, H Jia, Y Bai, Z Yuan… - Biomedicine & …, 2024 - Elsevier
The discovery of N6-methyladenosine (m 6 A) methylation and its role in translation has led
to the emergence of a new field of research. Despite accumulating evidence suggesting that …

Tissue-specific RNA methylation prediction from gene expression data using sparse regression models

J Jiang, B Song, J Meng, J Zhou - Computers in Biology and Medicine, 2024 - Elsevier
Abstract N6-methyladenosine (m 6 A) is a highly prevalent and conserved post-
transcriptional modification observed in mRNA and long non-coding RNA (lncRNA) …

[HTML][HTML] Domain-knowledge enabled ensemble learning of 5-formylcytosine (f5C) modification sites

J Huang, X Wang, R Xia, D Yang, J Liu, Q Lv… - Computational and …, 2024 - Elsevier
formylcytidine (f 5 C) is a unique post-transcriptional RNA modification found in mRNA and
tRNA at the wobble site, playing a crucial role in mitochondrial protein synthesis and …