A5024755000- Liver Disease Diagnosis and Treatment
- Diabetes and associated disorders
- Genomics and Chromatin Dynamics
- Alcohol Consumption and Health Effects
- RNA and protein synthesis mechanisms
- Computational Drug Discovery Methods
- Bioinformatics and Genomic Networks
- Hepatitis C virus research
- Genomics and Phylogenetic Studies
- Gene expression and cancer classification
- Epigenetics and DNA Methylation
- Liver Diseases and Immunity
- Ubiquitin and proteasome pathways
- RNA Research and Splicing
- Cancer Immunotherapy and Biomarkers
- COVID-19 diagnosis using AI
- Chemokine receptors and signaling
- Pancreatic function and diabetes
- Pancreatic and Hepatic Oncology Research
- Immune Cell Function and Interaction
- Drug-Induced Hepatotoxicity and Protection
- Global Cancer Incidence and Screening
- Extracellular vesicles in disease
- Cancer-related gene regulation
- Cytokine Signaling Pathways and Interactions
The Seventh Affiliated Hospital of Sun Yat-sen University
2021-2025
Sun Yat-sen University
2021-2025
University of South China
2025
Jiangsu University
2025
Soochow University
2025
Johns Hopkins University
2016-2024
Johns Hopkins Medicine
2016-2023
Harbin Engineering University
2022
Xi’an Children’s Hospital
2020
Huazhong University of Science and Technology
2012-2014
Enhancers are distal cis-regulatory elements that activate the transcription of their target genes. They regulate a wide range important biological functions and processes, including embryogenesis, development, homeostasis. As more large-scale technologies were developed for enhancer identification, comprehensive database is highly desirable annotation based on various genome-wide profiling datasets across different species. Here, we present an updated EnhancerAtlas 2.0...
Multiple high-throughput approaches have recently been developed and allowed the discovery of enhancers on a genome scale in single experiment. However, datasets generated from these are not fully utilized by research community due to technical challenges such as lack consensus enhancer annotation integrative analytic tools.We an interactive database, EnhancerAtlas, which contains atlas 2,534,123 for 105 cell/tissue types. A was obtained each cell summation independent experimental with...
We reported an integrated database of Compendium Protein Lysine Modifications (CPLM; http://cplm.biocuckoo.org) for protein lysine modifications (PLMs), which occur at active ε-amino groups specific residues in proteins and are critical orchestrating various biological processes. The CPLM was updated from our previously developed Acetylation (CPLA), contained 7151 acetylation sites 3311 proteins. Here, we manually collected experimentally identified substrates 12 types PLMs, including...
In this work, we developed a family-based database of UUCD (http://uucd.biocuckoo.org) for ubiquitin and ubiquitin-like conjugation, which is one the most important post-translational modifications responsible regulating variety cellular processes, through similar E1 (ubiquitin-activating enzyme)–E2 (ubiquitin-conjugating enzyme)–E3 (ubiquitin-protein ligase) enzyme thioester cascade. Although extensive experimental efforts have been taken, an integrative data resource still not available....
Abstract TNF receptor superfamily member 11a (TNFRSF11a, RANK) and its ligand 11 (TNFRSF11, RANKL) are overexpressed in many malignancies. However, the clinical importance of RANKL/RANK colorectal cancer (CRC) is mainly unknown. We examined CRC samples found that was elevated tissues compared with nearby normal tissues. A higher expression associated a worse survival rate. Furthermore, RANKL mostly produced by regulatory T cells (Tregs), which were able to promote advancement. Overexpression...
We present here EKPD (http://ekpd.biocuckoo.org), a hierarchical database of eukaryotic protein kinases (PKs) and phosphatases (PPs), the key molecules responsible for reversible phosphorylation proteins that are involved in almost all aspects biological processes. As extensive experimental computational efforts have been carried out to identify PKs PPs, an integrative resource with detailed classification annotation information would be great value both experimentalists biologists. In this...
Abstract Recent studies have indicated that different post-translational modifications (PTMs) synergistically orchestrate specific biological processes by crosstalks. However, the preference of crosstalk among PTMs and evolutionary constraint on PTM need further dissections. In this study, in situ at same positions three tyrosine including sulfation, nitration phosphorylation were systematically analyzed. The experimentally identified sites collected integrated with reliable predictions to...
Skin aging is the primary external manifestation of human aging, and long-term exposure to ultraviolet radiation leading cause photoaging, which can lead actinic keratosis skin cancer in severe cases. Traditional treatments may pose safety risks side effects. As an emerging research direction, plant-derived exosome-like nanoparticles (PDNPs) show promise combating aging. Aloe vera, known for its natural active ingredients that benefit skin, aloe-derived (ADNPs) have not yet been studied...
Abstract This study aims to develop an integrated workflow for a Deep Neural Network (DNN)-based reservoir simulator model hydraulic fracturing and production forecasts. Given the complex nonlinear characteristics of behaviors, our goal is implement scalable, automated capable addressing these challenges. consolidates data from varied sources, offering detailed perspective on dynamics which aids in real-time decision-making boosts operational efficiency. The utilizes extensive dataset...
Previous studies on enhancers and their target genes were largely based bulk samples that represent 'average' regulatory activities from a large population of millions cells, masking the heterogeneity important effects sub-populations. In recent years, single-cell sequencing technology has enabled profiling open chromatin accessibility at level (scATAC-seq), which can be used to annotate promoters in specific cell types. A comprehensive resource is highly desirable for exploring how regulate...
Long-range regulation by distal enhancers is crucial for many biological processes. The existing methods enhancer-target gene prediction often require genomic features. This makes them difficult to be applied cell types, in which the relevant datasets are not always available. Here, we design a tool EAGLE, an enhancer and learning ensemble method identification of Enhancer-Gene (EG) interactions. Unlike tools, EAGLE used only six features derived from expression datasets. Cross-validation...
Abstract Recently, a highly dangerous bird flu has infected over 130 patients in China and the outbreak was attributed to novel avian-origin H7N9 virus. Here, we performed systematic analysis of We clarified controversial viewpoint on neuraminidase (NA) origin confirmed it reassorted from Korean wild birds with higher confidence, whereas common ancestors pathogenic genes existed only one or two years ago. Further NA sequences suggested that most variations are not drug resistant current...
The pathogenesis of antibodies in severe alcoholic hepatitis (SAH) remains unknown. We analyzed immunoglobulins (Ig) explanted livers from SAH patients (n=45) undergoing liver transplantation and tissues corresponding healthy donors (HD, n=10) found massive deposition IgG IgA isotype associated with complement fragment C3d C4d staining ballooned hepatocytes livers. Ig extracted livers, but not patient serum exhibited hepatocyte killing efficacy. Employing human Escherichia coli K12 proteome...
Abstract Serious illnesses caused by viruses are becoming the world’s most critical public health issues and lead millions of deaths each year in world. Thousands studies confirmed that plant-derived medicines could play positive therapeutic effects on patients with viral diseases. Since thousands antiviral phytochemicals have been identified as lifesaving drugs medical research, a comprehensive database is highly desirable to integrate medicinal plants their different properties. Therefore,...
Cervical cancer is the fourth most common in women and poses a major threat to women's health, urgently requiring new treatment methods.This study first successfully extracted identified small extracellular vesicles secreted by human umbilical cord-derived mesenchymal stem cells. We studied effects of MSC-sEV on squamous differentiation levels cervical CaSki cells vitro, explored NOTCH pathway, growth, proliferation, migration abilities The roles were also verified keratinocyte HaCaT...
The pathogenesis of antibodies in severe alcoholic hepatitis (SAH) remains unknown. We analyzed immunoglobulins (Ig) explanted livers from SAH patients (n=45) undergoing liver transplantation and tissues corresponding healthy donors (HD, n=10) found massive deposition IgG IgA isotype associated with complement fragment C3d C4d staining ballooned hepatocytes livers. Ig extracted livers, but not patient serum exhibited hepatocyte killing efficacy. Employing human Escherichia coli K12 proteome...
The advancement of cancer research has been facilitated through freely available literature, databases, and tools. age genomics big data given rise to the need for cooperation sharing in order make efficient use this new information COVID-19 pandemic. Although there are many databases research, their access is not easy owing different ways processing managing data. There an absence a unified platform manage all them transparent more comprehensible way.In study, improved integrated database...
As a severe chronic metabolic disease and autoimmune disorder, type 1 diabetes (T1D) affects millions of people world-wide. Recent advances in antigen-based immunotherapy have provided great opportunity for further treating T1D with high degree selectivity. It is reported that MHC class II I-Ag7 the non-obese diabetic (NOD) mouse human HLA-DQ8 are strongly linked to susceptibility T1D. Thus, identification new epitopes would be help experimental biomedical manipulation efforts. In this...