Tape measure (TM) proteins are essential for the formation of long-tailed phages. TM protein assembly into tails requires the action of tail assembly chaperones (TACs). TACs (e.g. gpG and gpT of E. coli phage lambda) are usually produced in a short (...
Accurate identification of phage virion protein is not only a key step for understanding the function of the phage virion protein but also helpful for further understanding the lysis mechanism of the bacterial cell. Since traditional experimental met...
Biochimica et biophysica acta. Proteins and proteomics
32135196
Phage virion protein (PVP) identification plays key role in elucidating relationships between phages and hosts. Moreover, PVP identification can facilitate the design of related biochemical entities. Recently, several machine learning approaches have...
Journal of computer-aided molecular design
32557165
Phage virion protein (PVP) perforate the host cell membrane and eventually culminates in cell rupture thereby releasing replicated phages. The accurate identification of PVP is thus a crucial step towards improving our understanding of the biological...
Detailed analysis of secondary envelopment of the herpesvirus human cytomegalovirus (HCMV) by transmission electron microscopy (TEM) is crucial for understanding the formation of infectious virions. Here, we present a convolutional neural network (CN...
The ability to identify virus particles is important for research and clinical applications. Because of the optical diffraction limit, conventional optical microscopes are generally not suitable for virus particle detection, and higher resolution ins...
BACKGROUND: Many biological properties of phages are determined by phage virion proteins (PVPs), and the poor annotation of PVPs is a bottleneck for many areas of viral research, such as viral phylogenetic analysis, viral host identification, and ant...
Statistical applications in genetics and molecular biology
37658681
Proteins are the building blocks of all living things. Protein function must be ascertained if the molecular mechanism of life is to be understood. While CNN is good at capturing short-term relationships, GRU and LSTM can capture long-term dependenci...
An outstanding problem in the understanding of poxvirus biology is the molecular structure of the mature virion. Via deep learning methods combined with chemical cross-linking mass spectrometry, we have addressed the structure and assembly pathway of...
ViralZone (http://viralzone.expasy.org) is a knowledge repository for viruses that links biological knowledge and databases. It contains data on virion structure, genome, proteome, replication cycle and host-virus interactions. The new update provide...