A5100398043- RNA modifications and cancer
- Cancer-related molecular mechanisms research
- RNA and protein synthesis mechanisms
- Cancer-related gene regulation
- Genomics and Phylogenetic Studies
- Epigenetics and DNA Methylation
- Nanopore and Nanochannel Transport Studies
- Chromosomal and Genetic Variations
- Hormonal Regulation and Hypertension
- RNA Research and Splicing
- Adrenal Hormones and Disorders
- Hormonal and reproductive studies
- HVDC Systems and Fault Protection
Xi’an Jiaotong-Liverpool University
2020-2024
University of Liverpool
2023-2024
The Affiliated Hospital to Changchun University of Chinese Medicine
2024
Fujian Medical University
2022-2023
Wisdom Health (United States)
2023
China University of Mining and Technology
2023
Institute for Integrative Systems Biology
2022
Jiangnan University
2021
Hunan Normal University
2021
Abstract 5-Methylcytosine (m5C) is one of the most prevalent covalent modifications on RNA. It known to regulate a broad variety RNA functions, including nuclear export, stability and translation. Here, we present m5C-Atlas, database for comprehensive collection annotation 5-methylcytosine. The contains 166 540 m5C sites in 13 species identified from 5 base-resolution epitranscriptome profiling technologies. Moreover, condition-specific methylation levels are quantified 351 bisulfite...
Abstract With advanced technologies to map RNA modifications, our understanding of them has been revolutionized, and they are seen be far more widespread important than previously thought. Current next-generation sequencing (NGS)-based modification profiling methods blind modifications thus require selective chemical treatment or antibody immunoprecipitation for particular types. They also face the problem short read length, isoform ambiguities, biases artifacts. Direct (DRS) technologies,...
N 6-Methyladenosine (m6A) is one of the most abundant internal chemical modifications on eukaryote mRNA and involved in numerous essential molecular functions biological processes. To facilitate study this important post-transcriptional modification, we present here m6A-Atlas v2.0, an updated version m6A-Atlas. It was expanded to include a total 797 091 reliable m6A sites from 13 high-resolution technologies two single-cell profiles. Additionally, three methods (exomePeaks2, MACS2 TRESS)...
Abstract With recent progress in mapping N7-methylguanosine (m7G) RNA methylation sites, tens of thousands experimentally validated m7G sites have been discovered various species, shedding light on the significant role modification regulating numerous biological processes including disease pathogenesis. An integrated resource that enables sharing, annotation and customized analysis data will greatly facilitate studies under physiological contexts. We previously developed m7GHub database to...
As the most pervasive epigenetic marker present on mRNAs and long non-coding RNAs (lncRNAs), N
N6-methyladenosine (m6A) is the most abundant post-transcriptional modification in mRNA, and regulates critical biological functions via m6A reader proteins that bind to m6A-containing transcripts. There exist multiple human genome, but their respective binding specificity functional relevance under different contexts are not yet fully understood due limitation of experimental approaches. An silico study was devised unveil target regulatory readers. We established a support vector...
Abstract As the most pervasive epigenetic marker present on mRNA and lncRNA, N 6 -methyladenosine (m A) RNA methylation has been shown to participate in essential biological processes. Recent studies revealed distinct patterns of m A methylome across human tissues, a major challenge remains elucidating tissue-specific presence circuitry methylation. We here comprehensive online platform m6A-TSHub for unveiling context-specific genetic mutations that potentially regulate mark. consists four...
Chemically modified therapeutic mRNAs have gained momentum recently. In addition to commonly used modifications (
Background: 2’-O-Methylation (2’-O-Me) is a post-transcriptional RNA modification that occurs in the ribose sugar moiety of all four nucleotides and abundant both coding non-coding RNAs. Accurate prediction each subtype 2’-O-Me (Am, Cm, Gm, Um) helps understand their role metabolism function. Objective: This study aims to build models can predict from sequence nanopore signals exploit model interpretability for motif mining. Methods: We first propose novel deep learning DeepNm better capture...
<title>Abstract</title> Background Chemically modified therapeutic mRNAs have gained its momentum recently. In addition to commonly used modifications (e.g., pseudouridine), 5moU is considered a promising substitution of uridine in mRNAs. Accurate identification 5-Methoxyuridine (5moU) would be crucial for the study and quality control relevant IVT However, current methods exhibit deficiencies providing comprehensive methodologies detecting such modification. By taking advantage Oxford...
Abstract Background: Autotetraploid fish (4n = 200, RRRR) (abbreviated as 4nRR) are derived from whole genome duplication of red crucian carp (2n 100, RR) RCC). rDNA is often used to study molecular evolution repeated sequences because it has high copy rate and special conserved coding regions in genomes. In this study, we determined the (5S, ITS1-5.8S-ITS2 region), structure, methylation level (NTS IGS), expression (5S 18S) 5S 45S rRNA genes 4nRR RCC order elucidate effects...
N6-methyladenosine (m6A) is a dynamic modification regulated by the m6A enzymes prevalent on mRNA. The Mettl3 and mettl14 are two subunits of methyltransferase. Different studies have shown that knockout METL3 MTEL14 genes has potential to change methylation levels. We therefore undertaken meta-analysis study assess quality quantity available evidence. focus research would effects mRNA level after depletion METTL3 or METTL14. R package "Metafor" was applied output model random effect,...
N6-methyladenosine (m6A), one of the most common post-transcriptional mRNA modifications, has been proved to correlate with multiple biological functions through process binding specific m6A reader proteins. Various readers exist among genome human beings, however, owing scarce wet experiments related this topic, specificity proteins was not elucidated. Therefore, a deep learning approach combined CNN and RNN frameworks generated predict epitranscriptome-wide targets six (YTHDF1-3, YTHDC1-2,...