A5101551965- RNA modifications and cancer
- Cancer-related molecular mechanisms research
- MicroRNA in disease regulation
- Genetic factors in colorectal cancer
- Neurobiology and Insect Physiology Research
- RNA Research and Splicing
- Epigenetics and DNA Methylation
- Silk-based biomaterials and applications
- Meat and Animal Product Quality
- Network Security and Intrusion Detection
- Insect Resistance and Genetics
- Invertebrate Immune Response Mechanisms
- Genomics and Chromatin Dynamics
- Toxic Organic Pollutants Impact
- RNA regulation and disease
- Pluripotent Stem Cells Research
- Probiotics and Fermented Foods
- TGF-β signaling in diseases
- Immune Response and Inflammation
- Genetic Associations and Epidemiology
- Machine Learning in Bioinformatics
- Plant Disease Resistance and Genetics
- Gut microbiota and health
- Microbial Metabolites in Food Biotechnology
- Hepatitis B Virus Studies
Southwest University
2010-2025
Guangzhou University of Chinese Medicine
2016-2025
Beijing Anzhen Hospital
2025
Capital Medical University
2025
Sichuan University
2010-2025
The University of Texas MD Anderson Cancer Center
2006-2025
Hunan University of Traditional Chinese Medicine
2025
Xi'an Jiaotong University
2025
West China Medical Center of Sichuan University
2025
Open University of China
2024
MicroRNAs (miRNAs) are studied as key regulators of gene expression involved in different diseases. Several single nucleotide polymorphisms (SNPs) miRNA genes or target sites (miRNA-related SNPs) have been proved to be associated with human diseases by affecting the miRNA-mediated regulatory function. To systematically analyze miRNA-related SNPs and their effects, we performed a genome-wide scan for pre-miRNAs, flanking regions, sites, designed pipeline predict effects them on miRNA-target...
Transcription factors (TFs) are proteins that bind to specific DNA sequences, thereby playing crucial roles in gene-expression regulation through controlling the transcription of genetic information from RNA. cofactors and chromatin remodeling also essential gene transcriptional regulation. Identifying annotating all TFs primary steps for illustrating their functions understanding In this study, based on manual literature reviews, we collected curated 72 TF families animals, which is...
Increasing evidence has demonstrated that small nucleolar RNAs (snoRNAs) play important roles in tumorigenesis. We systematically investigated the expression landscape and clinical relevance of snoRNAs >10,000 samples across 31 cancer types from The Cancer Genome Atlas. observed overall elevated their ribonucleoproteins multiple types. showed complex regulation snoRNA by host genes, copy number variation, DNA methylation. Unsupervised clustering revealed subtype is highly concordant with...
Long non-coding RNAs (lncRNAs) play key roles in various cellular contexts and diseases by diverse mechanisms. With the rapid growth of identified lncRNAs disease-associated single nucleotide polymorphisms (SNPs), there is a great demand to study SNPs lncRNAs. Aiming provide useful resource about lncRNA SNPs, we systematically analyzed their potential impacts on structure function. In total, 495,729 777,095 more than 30,000 transcripts human mouse, respectively. A large number were predicted...
Enhancer RNA (eRNA) is a type of noncoding transcribed from the enhancer. Although critical roles eRNA in gene transcription control have been increasingly realized, systemic landscape and potential function eRNAs cancer remains largely unexplored. Here, we report integration multi-omics pharmacogenomics data across large-scale patient samples cell lines. We observe cancer-/lineage-specificity eRNAs, which may be driven by tissue-specific TFs. are involved multiple signaling pathways through...
The putative tumor suppressor miR145 is transcriptionally regulated by TP53 and downregulated in many tumors; however, its role prostate cancer unknown. On the other hand, BCL2/adenovirus E1B 19-kDa interacting protein 3 (BNIP3) overexpressed various tumors, including cancer, may repress apoptosis-inducing factor (AIF) gene. Although BNIP3 transcription controlled hypoxia-inducible 1alpha (also elevated cancer), we postulated posttranscriptional regulation of through bioinformatics analysis,...
MicroRNAs (miRNAs) are key regulators of gene expression involved in a broad range biological processes. MiRNASNP aims to provide single nucleotide polymorphisms (SNPs) miRNAs and genes that may impact miRNA biogenesis and/or target binding. Advanced research provided abundant data about expression, validated targets related phenotypic variants. In miRNASNP v2.0, we have updated our previous database with several new features, including: (i) level correlation different tissues, (ii) linking...
T-cell acute lymphoblastic leukemia (T-ALL) is an aggressive hematological malignancy. The understanding of its gene expression regulation and molecular mechanisms still remains elusive. Started from experimentally verified T-ALL-related miRNAs genes, we obtained 120 feed-forward loops (FFLs) among TFs through combining target prediction. Afterwards, a T-ALL miRNA TF co-regulatory network was constructed, significance tested by statistical methods. Four in the miR-17-92 cluster four...
RNA editing is a widespread post-transcriptional mechanism that can make single base change on specific nucleotide sequence in an transcript. events result missense codon changes and modulation of alternative splicing mRNA, modification regulatory RNAs their binding sites noncoding RNAs. Recent computational studies accurately detected more than 2 million A-to-I from next-generation sequencing (NGS). However, the vast majority these have unknown functions are regions genome. To provide...
Blockchain is a point-to-point distributed ledger technology based on cryptographic algorithms. However, the open and transparent blockchain supplemented by statistical methods such as sociological mining data has caused users' privacy to face major threats. Therefore, protection become focus of current research. Ring signature commonly used encryption in field protection. this paper constructs scheme ring signature. This solution built storage protocol elliptic curve, complete anonymity...
As a disease caused by an impaired intestinal epithelial barrier, imbalanced flora, immune imbalance and genetic susceptibility, ulcerative colitis (UC) is becoming health threat for all ages. Lactobacillus acidophilus (L. acidophilus), attracting probiotic, has already been confirmed to improve dysfunction, stabilize microflora, combat gut disorders. However, no studies have focused on the effects of different forms L. UC, its mechanism involved in mitophagy/NLRP3 inflammasome pathway not...
MicroRNAs (miRNAs) play key regulatory roles in various biological processes and diseases. A comprehensive analysis of large scale small RNA sequencing data (smRNA-seq) will be very helpful to explore tissue or disease specific miRNA markers uncover variants. Here, we systematically analyzed 410 human smRNA-seq datasets, which samples are from 24 tissue/disease/cell lines. We tested the mapping strategies found that it was necessary make multiple-round mappings with different mismatch...
Emerging evidence indicates that microRNAs (miRNAs) are often dysregulated and play a fundamental role in hepatocellular carcinoma (HCC). However, the mechanism underlying miRNA dysregulation is still elusive. In present study, we adopted an integrated analysis strategy combining data from genome-wide methylated DNA immunoprecipitation chip expression microarray to study regulation of methylation on HCC. We first characterized 864 differentially regions (DMRs) located 236 between cancerous...
Genome-wide association studies (GWASs) have identified multiple susceptibility loci of colorectal cancer (CRC), however, causative polymorphisms not been fully elucidated. Long non-coding RNAs (lncRNAs) are a recently discovered class non-protein coding that involved in wide variety biological processes. We hypothesized single nucleotide (SNPs) lncRNA may associate with the CRC risk by influencing functions. To evaluate effects SNPs on Chinese populations, we first screened out all...
Increasing evidence in animal models has suggested that polybrominated diphenyl ethers (PBDEs), a class of brominated flame retardants, can cause retinotoxicity. However, data on the influence PBDE treatment human retinal development are scarce due to lack appropriate models. In present study, we report utilization embryonic stem cell-derived organoids (hESC-ROs) for toxicity assessment most common congener (BDE-47) during early stages development. Exposure BDE-47 decreased thickness and...
The silkworm Bombyx mori is a lepidopteran insect with four developmental stages: egg, larva (caterpillar), pupa, and adult. hemolymph of the in an open system that circulates among all organs, functions nutrient hormone transport, injury, immunity. To understand intricate mechanisms metamorphosis, from different stages, including 3rd day fifth instar, 6th pupation, 8th pupal stage first moth stage, was investigated by two-dimensional electrophoresis mass spectrometry.Two-dimensional...
Genome-wide association studies (GWASs) have identified multiple single nucleotide polymorphisms (SNPs) associated with colorectal cancer (CRC) susceptibility. However, the elucidation of causal SNPs and biological mechanisms behind are still limited. In this study, we initially performed systematic bioinformatics analyses on CRC GWAS-identified loci to seek for potential functional located at transcription factor binding sites (TFBSs), then a two-stage case-control study comprised 1353...
Elevated sphingosine 1-phosphate (S1P) is detrimental in Sickle Cell Disease (SCD), but the mechanistic basis remains obscure. Here, we report that increased erythrocyte S1P binds to deoxygenated sickle Hb (deoxyHbS), facilitates deoxyHbS anchoring membrane, induces release of membrane-bound glycolytic enzymes and turn switches glucose flux towards glycolysis relative pentose phosphate pathway (PPP). Suppressed PPP causes compromised glutathione homeostasis oxidative stress, while enhanced...
DNA methylation is an important epigenetic mechanism for regulating gene expression. Aberrant has been observed in various human diseases, including cancer. Single-nucleotide polymorphisms can contribute to tumor initiation, progression and prognosis by influencing methylation, quantitative trait loci (meQTL) have identified physiological pathological contexts. However, no database developed systematically analyze meQTLs across multiple cancer types. Here, we present Pancan-meQTL, a...
Protein post-translational modifications (PTMs), including phosphorylation, ubiquitination, methylation, acetylation, glycosylation et al, are very important biological processes. PTM changes in some critical genes, which may be induced by base-pair substitution, shown to affect the risk of diseases. Recently, large-scale exome-wide association studies found that missense single nucleotide polymorphisms (SNPs) play an role susceptibility for complex diseases or traits. One functional...