A5103182015- Monoclonal and Polyclonal Antibodies Research
- vaccines and immunoinformatics approaches
- RNA and protein synthesis mechanisms
- Machine Learning in Bioinformatics
- Bacteriophages and microbial interactions
- Glycosylation and Glycoproteins Research
- CRISPR and Genetic Engineering
- SARS-CoV-2 and COVID-19 Research
- Influenza Virus Research Studies
- Estrogen and related hormone effects
- Advanced Biosensing Techniques and Applications
- Steroid Chemistry and Biochemistry
- Hormonal and reproductive studies
- Genomics and Phylogenetic Studies
- Receptor Mechanisms and Signaling
- Biochemical and Structural Characterization
- Antimicrobial Peptides and Activities
- Chemical Synthesis and Analysis
- Insect symbiosis and bacterial influences
- Protein purification and stability
- Bacterial Genetics and Biotechnology
- Protein Structure and Dynamics
- Plant Virus Research Studies
- Microbial Natural Products and Biosynthesis
- Cell Adhesion Molecules Research
Guizhou University
2019-2024
Guiyang Medical University
2021-2024
University of Electronic Science and Technology of China
2013-2021
University of Alberta
2018
The BDB database (http://immunet.cn/bdb) is an update of the MimoDB database, which was previously described in 2012 Nucleic Acids Research Database issue. rebranded name short for Biopanning Data Bank, aims to be a portal biopanning results combinatorial peptide library. Last updated July 2015, contains 2904 sets data collected from 1322 peer-reviewed papers. It 25 786 sequences, 1704 targets, 492 known templates, 447 libraries and 310 crystal structures target-template or target-peptide...
Polystyrene surface-binding peptides (PSBPs) are useful as affinity tags to build a highly effective ELISA system. However, they also quite common type of target-unrelated (TUPs) in the panning phage-displayed random peptide library. As TUP, PSBP will mislead analysis results if not identified. Therefore, it is necessary find way quickly and easily foretell likely be or not. In this paper, we describe PSBinder, predictor based on SVM. To our knowledge, first web server for predicting PSBP....
Streptavidin is sometimes used as the intended target to screen phage-displayed combinatorial peptide libraries for streptavidin-binding peptides (SBPs). More often in biopanning system, however, streptavidin just a commonly anchoring molecule that can efficiently capture biotinylated target. In this case, SBPs creeping into results are not desired binders but target-unrelated (TUP). Taking them may mislead subsequent studies. Therefore, it important find if likely be an SBP when either or...
Abstract Since 2019, the novel coronavirus (SARS-COV-2) disease (COVID-19) has caused a worldwide epidemic. Anti-coronavirus peptides (ACovPs), type of antimicrobial (AMPs), have demonstrated excellent inhibitory effects on coronaviruses. However, state-of-the-art AMP databases contain only small number ACovPs. Additionally, fields these are not uniform, and units or evaluation standards same field inconsistent. Most included target domains ACovPs description in vitro vivo assays to measure...
Blood-brain barrier (BBB) is a major to drug delivery into the brain in treatment of central nervous system (CNS) diseases. penetrating peptides (BBPs), class that can cross BBB through various mechanisms without damaging BBB, are effective candidates for CNS However, identification BBPs by experimental methods time-consuming and laborious. To discover more as drugs disease, it urgent develop computational quickly accurately identify non-BBPs. In present study, we created training dataset...
Diabetes mellitus (DM) is a chronic metabolic disease that has been major threat to human health globally, causing great economic and social adversities. The oral administration of anti-diabetic peptide drugs become novel route for diabetes therapy. Numerous bioactive peptides have demonstrated potential properties are promising as alternative treatment measures prevent manage diabetes. computational prediction can help promote peptide-based drug discovery in the process searching newly...
Abstract Understanding the composition of a genetically-encoded (GE) library is instrumental to success ligand discovery. In this manuscript, we investigate bias in GE-libraries linear, macrocyclic and chemically post-translationally modified (cPTM) tetrapeptides displayed on M13KE platform, which are produced via trinucleotide cassette synthesis (19 codons) NNK-randomized codon. Differential enrichment synthetic DNA { S }, ligated vector L } (extension ligation into vector), naïve libraries...
Abstract Vascular endothelial growth factor (VEGF), one of the most important angiogenic factors, plays an essential role in both physiological and pathological angiogenesis through binding to VEGF receptors (VEGFRs). Here we report a novel peptide designated HRHTKQRHTALH (peptide HRH), which was isolated from Ph.D. -12 phage display library using VEGFR-Fc fusion protein as bait. This found dose-dependently inhibit proliferation human umbilical vein cells stimulated by VEGF. The...
SAROTUP (Scanner And Reporter Of Target-Unrelated Peptides) 3.1 is a significant upgrade to the widely used web server for rapid identification of target-unrelated peptides (TUPs) in phage display data.At present, has gathered suite tools finding potential TUPs and other purposes.Besides TUPScan, motif-based tool, three based on BDB database, i.e., MimoScan, MimoSearch, MimoBlast, predictors support vector machine, PhD7Faster, SABinder PSBinder, are integrated into SAROTUP.The current...
The BDB database is available at http://immunet.cn/bdb.
Selection from phage display libraries empowers isolation of high-affinity ligands for various targets. However, this method also identifies propagation-related target-unrelated peptides (PrTUPs). These false positive hits appear because their amplification advantages. In report, we present PhD7Faster 2.0 predicting fast-propagating clones the Ph.D.-7 library, which was developed based on support vector machine. Feature selection performed against PseAAC and tripeptide composition using...
Metuximab is the generic name of Licartin, a new drug for radioimmunotherapy hepatocellular carcinoma. Although it known to be mouse monoclonal antibody against CD147, complete epitope mediating binding metuximab CD147 remains unknown. We panned Ph.D.-12 phage display peptide library and got six mimotopes. The following bioinformatics analysis based on mimotopes suggested that recognizes conformational composed more than 20 residues. residues its may include T28, V30, K36, L38, K57, F74,...
Clustered regularly interspaced short palindromic repeats (CRISPR) and their associated (Cas) proteins constitute the CRISPR-Cas systems, which play a key role in prokaryote adaptive immune system against invasive foreign elements. In recent years, systems have also been designed to facilitate target gene editing eukaryotic genomes. As one of important components system, Cas protein plays an irreplaceable role. The effector module composed is used distinguish type systems. Effective...
Peptibodies represent a new class of biological therapeutics with combination peptide activity and antibody-like properties.Previously, we discovered novel HRH that exhibited dose-dependent angiogenesis-suppressing effect by targeting vascular endothelial growth factor receptors (VEGFRs).Here, computationally designed an antiangiogenic peptibody, termed as PbHRH, fusing the to human IgG1 Fc fragment using first approved peptibody drug Romiplostim template.The biologically active is similar...
Abstract Clustered regularly interspaced short palindromic repeats (CRISPR) and associated proteins (Cas) constitute CRISPR–Cas systems, which are antiphage immune systems present in numerous bacterial most archaeal species. In recent years, have been developed into reliable powerful genome editing tools. Nevertheless, finding similar or better tools from bacteria archaea remains crucial. This requires the exploration of different CRISPR identification characterization new Cas proteins....
Monoclonal antibody drugs targeting the PD-1/PD-L1 pathway have showed efficacy in treatment of cancer patients, however, they many intrinsic limitations and inevitable drawbacks. Peptide inhibitors as alternatives might compensate for drawbacks current interaction blockers. Identifying PD-L1 binding peptides by random peptide library screening is a time-consuming labor-intensive process. Machine learning-based computational models enable rapid discovery candidates pathway. In this study, we...
Plant exclusive virus-derived small interfering RNAs (vsiRNAs) regulate various biological processes, especially important in antiviral immunity. The identification of plant vsiRNAs is for understanding the biogenesis and function mechanisms further developing anti-viral plants. In this study, we extracted vsiRNA sequences from PVsiRNAdb database. We then utilized deep convolutional neural network (CNN) to develop a learning algorithm predicting based on sequence composition, known as...