A5040766788- Bioinformatics and Genomic Networks
- Inflammatory mediators and NSAID effects
- Computational Drug Discovery Methods
- RNA modifications and cancer
- Protein Structure and Dynamics
- Osteoarthritis Treatment and Mechanisms
- Bone Metabolism and Diseases
- Epigenetics and DNA Methylation
- Zebrafish Biomedical Research Applications
- Genomics and Phylogenetic Studies
- Machine Learning in Bioinformatics
- Single-cell and spatial transcriptomics
- Sarcoma Diagnosis and Treatment
- ATP Synthase and ATPases Research
- 14-3-3 protein interactions
- RNA and protein synthesis mechanisms
- Galectins and Cancer Biology
- Congenital heart defects research
- Biochemical and Structural Characterization
- Peptidase Inhibition and Analysis
- Genetic factors in colorectal cancer
- Plant Molecular Biology Research
- Advanced Neural Network Applications
- Cancer-related gene regulation
- Ferroptosis and cancer prognosis
Shanghai First People's Hospital
2024-2025
Shanghai Jiao Tong University
2024
Zhejiang University
2019-2024
Hangzhou Medical College
2022-2024
Zhejiang Provincial People's Hospital
2022-2024
Blood Center of Zhejiang Province
2024
Qingdao University
2022
Shenzhen Second People's Hospital
2019-2021
Yantaishan Hospital
2021
Anhui Medical University
2021
Abstract Motivation Protein–protein interaction (PPI), as a relative property, is determined by two binding proteins, which brings great challenge to design an expert model with unbiased learning architecture and superior generalization performance. Additionally, few efforts have been made allow PPI predictors discriminate between properties intrinsic properties. Results We present sequence-based approach, DeepTrio, for prediction using mask multiple parallel convolutional neural networks....
Many pathogenic bacteria use type IV secretion systems (T4SSs) to deliver effectors (T4SEs) into the cytoplasm of eukaryotic cells, causing diseases. The identification is a crucial step in understanding mechanisms bacterial pathogenicity, but this remains major challenge. In study, we used full-length embedding features generated by six pre-trained protein language models train classifiers predicting T4SEs and compared their performance. We integrated three modules model called T4SEpp....
This paper proposes a UAV platform that autonomously detects, hunts, and takes down other small UAVs in GPS-denied environments. The tracks, follows another drone within its sensor range using pre-trained machine learning model. We collect generate 58,647-image dataset use it to train Tiny YOLO detection algorithm. algorithm combined with simple visual-servoing approach was validated on physical platform. Our able successfully track follow target at an estimated speed of 1.5 m/s. Performance...
Abstract Background The endothelial-to-hematopoietic transition (EHT) process during definitive hematopoiesis is highly conserved in vertebrates. Stage-specific expression of transposable elements (TEs) has been detected zebrafish EHT and may promote hematopoietic stem cell (HSC) formation by activating inflammatory signaling. However, little known about how TEs contribute to the human mouse. Results We reconstructed single-cell trajectories mouse resolved dynamic patterns EHT. Most...
Abstract Motivation Quantifying the similarity of human diseases provides guiding insights to discovery micro-scope mechanisms from a macro scale. Previous work demonstrated that better performance can be gained by integrating multiview data sources or applying machine learning techniques. However, designing an efficient framework extract and incorporate information different biological using deep models remains unexplored. Results We present CoGO, Contrastive predict disease based on Gene...
Osteoarthritis (OA) is one of the most common degenerative diseases worldwide. Many researchers are studying pathogenesis OA, however, it still unclear.Screening and validation OA relevant hub genes an important part exploring their potential molecular mechanism. Therefore, this study aims to explore verify mechanisms in by bioinformatics, qPCR, fluorescence propidium iodide staining.Microarray datasets GSE43923, GSE55457 GSE12021 were collected Gene Expression Omnibus (GEO), including 45...
Abstract Objectives Head and neck squamous cell carcinoma present challenges in effective treatment, with 50%–60% of cases exhibiting recurrence or metastasis, often resistant to surgery alone. Immunotherapy, a promising approach, does not guarantee benefits for all patients. Thus, the imperative lies identifying reliable biomarkers predicting immunotherapy efficacy. FAM3D, protein‐coding gene known its potent chemotactic activity human peripheral blood monocytes neutrophils, plays crucial...
Whole transcriptome analysis was conducted to identify differentially expressed RNAs and regulatory networks associated with papillary thyroid carcinoma (PTC).A weighted gene co-expression network based on high-throughput sequencing data for six pairs of PTC adjacent tissue samples understand the biological functions involving long non-coding (lncRNAs), circular (circRNAs), microRNAs (miRNAs), messenger (mRNAs).We detected 131, 338, 31, 556 circRNAs, lncRNAs, miRNAs, mRNAs, respectively. We...
BACKGROUND Recently, ClC-3 chloride channel expression has been noted to be high in some tumors. In chondrosarcoma, which is a malignant tumor with incidence the bone, there no previous literature regarding expression. Here we evaluated of chondrosarcoma and explored its clinical significance. MATERIAL AND METHODS this study, 75 5 normal cartilage tissues were collected. Thereafter, tissue microarray was performed. Immunohistochemistry also used observe level between tissues. RESULTS Results...
Osteoarthritis (OA) is one of the most common causes disability and its development associated with numerous factors. A major challenge in treatment OA lack early diagnosis. In present study, a bioinformatics method was employed to filter key genes that may be responsible for pathogenesis OA. From Gene Expression Omnibus database, datasets GSE55457, GSE12021 GSE55325 were downloaded, which comprised 59 samples. Of these, 30 samples from patients diagnosed osteoarthritis 29 normal....
To explore the relationship between fut3 gene polymorphism and colonic polyps.Two hundred patients with polyps 200 healthy people in our hospital recent 3 years were taken as research objects, disease group control group, respectively. The was divided into cancerous (n = 50) non-cancerous 150). peripheral blood nucleated cells of subjects collected isolated. obtained by sequencing analyzed combined expression level tumor markers.The frequency allele C at rs2561796 locus significantly higher...
Mitochondria harbor the oxidative phosphorylation (OXPHOS) system to sustain cellular respiration. However, transcriptional regulation of OXPHOS remains largely unexplored. Through cancer genome atlas (TCGA) transcriptome analysis, transcription factor THAP domain‐containing 3 (THAP3) was found be strongly associated with gene expression. Mechanistically, THAP3 recruited histone methyltransferase SET and MYND protein (SMYD3) upregulate H3K4me3 promote The levels SMYD3 were altered by...
The COVID-19 pandemic has been a major public health event since 2020. Multiple variant strains of SARS-CoV-2, the causative agent COVID-19, were detected based on mutation sites in their sequences. These sequence mutations may lead to changes protein structures and affect binding states SARS-CoV-2 human proteins. Experimental research accumulated large amount structural data protein-protein interactions (PPIs), but studies SARS-CoV-2-human PPI networks lack integration physical associations...
Abstract Background The endothelial-to-hematopoietic transition (EHT) process during definitive hematopoiesis in vertebrate is highly conserved. Stage-specific expression of transposable elements (TEs) has been detected zebrafish EHT and may promote hematopoietic stem cell formation by activating inflammatory signaling. However, little known about how TEs contribute to the human mouse. Results We reconstructed single-cell trajectories mouse, resolved dynamic patterns EHT. Most presented a...
Abstract Many pathogenic bacteria use type IV secretion systems(T4SSs) to deliver effectors (T4SEs) into the cytoplasm of eukaryotic cells, causeing diseases. The identification is a crucial step in understanding mechanisms bacterial pathogenicity, but this remains major challenge. In study, we used full-length embedding features generated by six pre-trained protein language models train classifiers predicting T4SEs, and compared their performance. An integrated model T4SEpp was assembled...