A5025493439- RNA modifications and cancer
- Epigenetics and DNA Methylation
- RNA and protein synthesis mechanisms
- RNA Research and Splicing
- Cancer-related gene regulation
- Cancer-related molecular mechanisms research
- Animal Genetics and Reproduction
- Genomics and Phylogenetic Studies
- Renal and related cancers
- Renal cell carcinoma treatment
- Machine Learning in Bioinformatics
- Single-cell and spatial transcriptomics
- Plant tissue culture and regeneration
- Cancer Genomics and Diagnostics
- Genetic and phenotypic traits in livestock
- Cancer Cells and Metastasis
- Autophagy in Disease and Therapy
- Cancer-related Molecular Pathways
- Molecular Biology Techniques and Applications
- Biosensors and Analytical Detection
- Plant Molecular Biology Research
- Hepatocellular Carcinoma Treatment and Prognosis
- Algal biology and biofuel production
- Chromosomal and Genetic Variations
- Ubiquitin and proteasome pathways
Foshan University
2025
Qilu Hospital of Shandong University
2017-2025
Sichuan Agricultural University
2024-2025
Fudan University
2013-2025
Huadong Hospital
2013-2025
State Forestry and Grassland Administration
2024-2025
Southern University of Science and Technology
2018-2024
Central South University
2011-2024
Zhejiang University of Technology
2023-2024
Guangdong Pharmaceutical University
2024
Here we present the first diploid genome sequence of an Asian individual. The was sequenced to 36-fold average coverage using massively parallel sequencing technology. We aligned short reads onto NCBI human reference 99.97% coverage, and guided by genome, used uniquely mapped assemble a high-quality consensus for 92% individual’s genome. identified approximately 3 million single-nucleotide polymorphisms (SNPs) inside this region, which 13.6% were not in dbSNP database. Genotyping analysis...
Callus is a reprogrammed cell mass involved in plant regeneration and gene transformation crop engineering. Pluripotent callus cells develop into fertile shoots through shoot regeneration. The molecular basis of the process remains largely elusive. This study pioneers exploration spatial transcriptome tomato during findings reveal presence highly heterogeneous populations within callus, including epidermis, vascular tissue, primordia, inner outgrowth shoots. By characterizing spatially...
Abstract Wnt/β-catenin signaling is a highly conserved pathway essential for embryogenesis and tissue homeostasis. However, deregulation of this can initiate promote human malignancies, especially the colon head neck. Therefore, represents an attractive target cancer therapy. We performed high-throughput screening using AlphaScreen ELISA techniques to identify small molecules that disrupt critical interaction between β-catenin transcription factor TCF4 required signal transduction. found...
Subtropical evergreen broadleaved forests (EBLFs) inhabit large areas of East Asia. Although paleovegetation reconstructions have revealed that the subtropical EBLFs existed in Southwest China during Miocene, historical construction these remains poorly known. Here, we used tea family (Theaceae), a characteristic component EBLFs, to gain new insights into assembly this important biome. Using robust phylogenetic framework Theaceae based on plastome and nuclear ribosomal DNA sequence data,...
Mitophagy, the elimination of damaged mitochondria through autophagy, promotes neuronal survival in cerebral ischemia. Previous studies found deficient mitophagy ischemic neurons, but mechanisms are still largely unknown. We determined that BNIP3L/NIX, a receptor, was degraded by proteasomes, which led to deficiency both neurons and brains. BNIP3L exists as monomer homodimer mammalian cells, effects on unclear. Site-specific mutations transmembrane domain (S195A G203A) only formed failed...
Abstract Protein-RNA interaction plays important roles in post-transcriptional regulation. However, the task of predicting these interactions given a protein structure is difficult. Here we show that, by leveraging deep learning model NucleicNet, attributes such as binding preference RNA backbone constituents and different bases can be predicted from local physicochemical characteristics surface. On diverse set challenging RNA-binding proteins, including Fem-3-binding-factor 2, Argonaute 2...
Abstract The broad application of single-cell RNA profiling in plants has been hindered by the prerequisite protoplasting that requires digesting cell walls from different types plant tissues. Here, we present a protoplasting-free approach, flsnRNA-seq, for large-scale full-length at single-nucleus level using isolated nuclei. Combined with 10x Genomics and Nanopore long-read sequencing, validate robustness this approach Arabidopsis root cells developing endosperm. Sequencing results...
Abstract Human cancer cell lines have long served as tools for research and drug discovery, but the presence source of intra-cell-line heterogeneity remain elusive. Here, we perform single-cell RNA-sequencing ATAC-sequencing on 42 39 human lines, respectively, to illustrate both transcriptomic epigenetic within individual lines. Our data reveal that is frequently observed in different tissue origins, often driven by multiple common transcriptional programs. Copy number variation, well...
Acute respiratory distress syndrome (ARDS) is a fatal outcome of severe sepsis. Machine learning models are helpful for accurately predicting ARDS in patients with sepsis at an early stage.
Abstract Characterizing the complex composition of solid tumors is fundamental for understanding tumor initiation, progression and metastasis. While patient-derived samples provide valuable insight, they are heterogeneous on multiple molecular levels, often originate from advanced stages. Here, we use single-cell transcriptome epitope profiling together with pathway lineage analyses to study tumorigenesis a developmental perspective in mouse model salivary gland squamous cell carcinoma. We...
Abstract Epithelial–mesenchymal transition (EMT) is a fundamental cellular process frequently hijacked by cancer cells to promote tumor progression, especially metastasis. EMT orchestrated complex molecular network acting at different layers of gene regulation. In addition transcriptional regulation, posttranscriptional mechanisms may also play role in EMT. Here, we performed pooled CRISPR screen analyzing the influence 1,547 RNA-binding proteins on cell motility colon and identified...
One important challenge for global development is aging. China one of the world's countries with highest elderly population and most rapid aging; in 2022, percentage over 65 was 14.9%; by 2050, it expected to rise 26.1%. China's health security, care, healthcare services are facing serious challenges as a result this aging trend. With 80% provinces including medical care national basic public programs, has adopted proactive plan combat Moreover, geriatric departments have been established at...
Prognosis for patients with estrogen-receptor (ER)-negative basal breast cancer is poor, and chemotherapy currently the best therapeutic option. We have generated a compound-mutant mouse model combining activation of β-catenin HGF (Wnt-Met signaling), which produced rapidly growing mammary gland tumors. identified chemokine system CXCL12/CXCR4 as crucial driver Wnt-Met tumors, given that mice also deficient in CXCR4 gene were tumor resistant. expanded population cancer-propagating cells, two...
N6-methyladenosine (m6A) is an important epigenetic modification which plays various roles in mRNA metabolism and embryogenesis directly related to human diseases. To identify m6A a large scale, machine learning methods have been developed make predictions on sites. However, there are two main drawbacks of these methods. The first the inadequate imbalanced samples much less than non-m6A samples, by their balanced approaches. Second, features used not outstanding represent sequence...
Outer membrane vesicles (OMVs), released by variety of bacteria, are membrane-enclosed entities enriched in microbial components, toxins, and virulent factors. OMVs could deliver lipopolysaccharide (LPS) into the cytosol host cells subsequently activate caspase-11, which critically orchestrates immune responses mediates septic shock. Although it is known that caspase-11 activated intracellular LPS, how LPS remains largely unknown. Here we show activation toll-like receptor 4 (TLR4), a on...
Abstract Gene annotation is a critical resource in genomics research. Many computational approaches have been developed to assemble transcriptomes based on high-throughput short-read sequencing, however, only with limited accuracy. Here, we combine next-generation and third-generation sequencing reconstruct full-length transcriptome the rat hippocampus, which further validated using independent 5´ 3´-end profiling approaches. In total, detect 28,268 transcripts (FLTs), covering 6,380 RefSeq...
We previously identified TSC22D2 (transforming growth factor β-stimulated clone 22 domain family, member 2) as a novel cancer-associated gene in rare multi-cancer family. However, its role tumor development remains completely unknown. In this study, we found that was significantly downregulated colorectal cancer (CRC) and overexpression inhibited cell growth. Using co-immunoprecipitation (co-IP) assay combined with mass spectrometry analysis to identify TSC22D2-interacting proteins,...
MethBank (http://bigd.big.ac.cn/methbank) is a database that integrates high-quality DNA methylomes across variety of species and provides an interactive browser for visualization methylation data. Here, we present updated implementation (version 3.0) by incorporating more from multiple equipping with enhanced functionalities data annotation friendly web interfaces presentation, search visualization. 3.0 features large-scale integration methylomes, involving 34 consensus reference derived...