A5059916828- X-ray Diffraction in Crystallography
- Crystallization and Solubility Studies
- Cancer-related molecular mechanisms research
- RNA modifications and cancer
- Metal-Organic Frameworks: Synthesis and Applications
- Magnetism in coordination complexes
- MicroRNA in disease regulation
- RNA Research and Splicing
- RNA and protein synthesis mechanisms
- Circular RNAs in diseases
- Metal complexes synthesis and properties
- Trypanosoma species research and implications
- Crystallography and molecular interactions
- Parasitic Infections and Diagnostics
- Chromosomal and Genetic Variations
- Crystal structures of chemical compounds
- Toxoplasma gondii Research Studies
- Gene expression and cancer classification
- Advanced oxidation water treatment
- Advanced Photocatalysis Techniques
- Epigenetics and DNA Methylation
- Water Treatment and Disinfection
- Cytokine Signaling Pathways and Interactions
- Peptidase Inhibition and Analysis
- Plant Virus Research Studies
Sun Yat-sen University
2015-2025
Henan Agricultural University
2023-2025
Chinese Academy of Sciences
2013-2024
City University of Macau
2024
University of Macau
2024
Shengli Oilfield Central Hospital
2022-2024
Shenzhen Institutes of Advanced Technology
2024
Institute of Hydrobiology
2013-2023
Guangzhou Vocational College of Science and Technology
2013-2022
Nanchang University
2022
More than 100 distinct chemical modifications to RNA have been characterized so far.However, the prevalence, mechanisms and functions of various remain largely unknown.To provide transcriptome-wide landscapes modifications, we developed RMBase v2.0 (http:// rna.sysu.edu.cn/rmbase/), which is a comprehensive database that integrates epitranscriptome sequencing data for exploration post-transcriptional RNAs their relationships with miRNA binding events, disease-related singlenucleotide...
The abnormal transcriptional regulation of non-coding RNAs (ncRNAs) and protein-coding genes (PCGs) is contributed to various biological processes linked with human diseases, but the underlying mechanisms remain elusive. In this study, we developed ChIPBase v2.0 (http://rna.sysu.edu.cn/chipbase/) explore regulatory networks ncRNAs PCGs. has been expanded ∼10 200 curated ChIP-seq datasets, which represent about 20 times expansion when comparing previous released version. We identified...
Small non-coding RNAs (e.g. miRNAs) and long lincRNAs circRNAs) are emerging as key regulators of various cellular processes. However, only a very small fraction these enigmatic have been well functionally characterized. In this study, we describe deepBase v2.0 (http://biocenter.sysu.edu.cn/deepBase/), an updated platform, to decode evolution, expression patterns functions diverse ncRNAs across 19 species. has provide the most comprehensive collection ncRNA-derived generated from 588...
tRNA-derived small RNA fragments (tRFs) are one class of non-coding RNAs derived from transfer (tRNAs). tRFs play important roles in cellular processes and involved multiple cancers. High-throughput (sRNA) sequencing experiments can detect all the expressed sRNAs, including tRFs. However, distinguishing genuine generated by random degradation remains a major challenge. In this study, we developed an integrated web-based computing system, tRF2Cancer, to accurately identify sRNA...
Relapse is a major challenge in the successful treatment of childhood acute lymphoblastic leukemia (ALL).Despite intensive research efforts, mechanisms ALL relapse are still not fully understood.An understanding molecular underlying outcome, therapy response and biology required.In this study, we carried out genome-wide microRNA (miRNA) microarray analysis to determine miRNA expression profiles relapse-associated patterns panel matched diagnosis -relapse or -complete remission (CR) samples.A...
Skeletal muscle differentiation is controlled by multiple cell signaling pathways, however, the JNK/MAPK pathway dominating this process has not been fully elucidated. Here, we report that was significantly downregulated in late stages of myogenesis, and contrast to P38/MAPK pathway, it negatively regulated skeletal differentiation. Based on PAR-CLIP-seq analysis, identified six elevated miRNAs (miR-1a-3p, miR-133a-3p, miR-133b-3p, miR-206-3p, miR-128-3p, miR-351-5p), namely...
Abstract Although over 170 chemical modifications have been identified, their prevalence, mechanism and function remain largely unknown. To enable integrated analysis of diverse RNA modification profiles, we developed RMBase v3.0 (http://bioinformaticsscience.cn/rmbase/), a comprehensive platform consisting eight modules. These modules facilitate the exploration transcriptome-wide landscape, biogenesis, interactome functions modifications. By mining thousands epitranscriptome datasets with...
A non-parametric Bayesian factor model is proposed for joint analysis of multi-platform genomics data. The approach based on factorizing the latent space (feature space) into a shared component and data-specific with dimensionality these components (spaces) inferred via beta-Bernoulli process. demonstrated by jointly analyzing gene expression/copy number variations expression/methylation data ovarian cancer patients, showing that can potentially uncover key drivers related to cancer.The...
Long non-coding RNAs (lncRNAs) are emerging as important regulatory molecules in developmental, physiological, and pathological processes. However, the precise mechanism functions of most lncRNAs remain largely unknown. Recent advances high-throughput sequencing immunoprecipitated after cross-linking (CLIP-Seq) provide powerful ways to identify biologically relevant protein-lncRNA interactions. In this study, by analyzing millions RNA-binding protein (RBP) binding sites from 117 CLIP-Seq...
miR-372/373, a cluster of stem cell-specific microRNAs transactivated by the Wnt pathway, has been reported to be dysregulated in various cancers, particularly colorectal cancer (CRC); however, unique role these remains discovered. In present study, we characterized upregulation expression miR-372/373 CRC tissues from The Cancer Genome Atlas data, and then showed that overexpression enhanced stemness cells enriching CD26/CD24-positive cell population promoting self-renewal, chemotherapy...
tRNA-derived small RNA (tsRNA), a novel type of regulatory noncoding RNA, plays an important role in physiological and pathological processes. However, the understanding functional mechanism tsRNAs cells their occurrence development diseases is limited. Here, we integrated multiomics data such as transcriptome, epitranscriptome, targetome data, developed computer tools to establish tsRFun, comprehensive platform facilitate tsRNA research (http://rna.sysu.edu.cn/tsRFun/ or...
Abstract Non-coding RNAs (ncRNAs) are emerging as key regulators of various biological processes. Although thousands ncRNAs have been discovered, the transcriptional mechanisms and networks majority not fully investigated. In this study, we updated ChIPBase to version 3.0 (https://rnasysu.com/chipbase3/) provide most comprehensive regulation atlas protein-coding genes (PCGs). has identified ∼151 187 000 regulatory relationships between ∼171 600 ∼3000 by analyzing ∼55 ChIP-seq datasets, which...
The hydrothermal reaction of CoCl2·6H2O with cis,cis,cis,cis,cis-1,2,3,4,5,6-cyclohexane-hexacarboxylic acid (L) generates a unique three-dimensional metal−organic framework (MOF) [Co3(L-6H)(H2O)6]n (1). X-ray crystallography reveals that each L-6H ligand changes its conformation to trans,trans,trans,trans,trans form connect nine Co(II) atoms, and atom is connected three ligands, leading MOF structure high symmetry R3̄. coexistence planar chair-shaped cyclic water hexamers found in this MOF....
Although thousands of pseudogenes have been annotated in the human genome, their transcriptional regulation, expression profiles and functional mechanisms are largely unknown. In this study, we developed dreamBase (http://rna.sysu.edu.cn/dreamBase) to facilitate investigation DNA modification, RNA regulation protein binding potential expressed from multidimensional high-throughput sequencing data. Based on ∼5500 ChIP-seq DNase-seq datasets, identified genome-wide various...
Background: Nutrition is important for the fetal developmental programming. Nutritional deficiency in early life could increase susceptibility to many aging-related disorders including cognitive decline. Keywords: Famine, malnutrition, life, risk factor, mild impairment, dementia.
Eukaryotic genomes encode thousands of small and large non-coding RNAs (ncRNAs). However, the expression, functions evolution these ncRNAs are still largely unknown. In this study, we have updated deepBase to version 3.0 (deepBase v3.0, http://rna.sysu.edu.cn/deepbase3/index.html), an increasingly popular openly licensed resource that facilitates integrative interactive display analysis evolution, various by deeply mining high-throughput sequencing data from tissue, tumor exosome samples. We...
The incidence of papillary thyroid cancer (PTC) has been rapidly increasing in recent years. PTC is prone to lymph node metastasization, which further increases the recurrence rate and mortality cancer. However, underlying mechanisms this process remain elusive. Several reports have shown that microRNA miR-215 plays an important role metastasis. Here, we investigated, for first time, potential association between metastasis PTC. results qPCR analysis demonstrated was downregulated cell lines...
Abstract tRNA molecules contain dense, abundant modifications that affect structure, stability, mRNA decoding and tsRNA formation. related enzymes are responsive to environmental cues associated with a range of physiological pathological processes. However, there is lack resources can be used mine analyse these dynamically changing modifications. In this study, we established tModBase (https://www.tmodbase.com/) for deciphering the landscape modification profiles from epitranscriptome data....
InfoScan is a novel bioinformatics tool designed for the comprehensive analysis of full-length single-cell RNA sequencing (scRNA-seq) data. It enables identification unannotated transcripts and rare cell populations, providing powerful platform transcriptome characterization. In this study, was applied to glioblastoma multiforme (GBM), identifying "neoplastic-stemness" subpopulation exhibiting cancer stem cell-like features. Functional analyses suggested that tumor-associated macrophages...
Pseudogenes have been shown to acquire unique regulatory roles from more and organisms. We report the observation of a cluster siRNAs derived pseudogenes African Trypanosoma brucei using high through-put analysis. show that these pseudogene-derived suppress gene expression through RNA interference. The discovery may originate regulate in unicellular eukaryote provides insights into functional origin noncoding small RNAs.
Recent significant progress toward understanding the function of pseudogenes in protozoa (Trypanosoma brucei), metazoa (mouse) and plants, make it pertinent to provide a brief overview on what has been learned about this fascinating subject. We discuss regulatory mechanisms at post-transcriptional level advance new ideas evolution these, sometimes called "garbage genes" or "junk DNA," seeking stimulate interest scientists additional research hope point-of-view can be helpful working work...