Transformer-based deep learning for predicting protein properties in the life sciences

A Chandra, L Tünnermann, T Löfstedt, R Gratz - Elife, 2023‏ - elifesciences.org
Recent developments in deep learning, coupled with an increasing number of sequenced
proteins, have led to a breakthrough in life science applications, in particular in protein …

Integrating multi-omics to unravel host-microbiome interactions in inflammatory bowel disease

Y Zhang, JP Thomas, T Korcsmaros, L Gul - Cell Reports Medicine, 2024‏ - cell.com
The gut microbiome is crucial for nutrient metabolism, immune regulation, and intestinal
homeostasis with changes in its composition linked to complex diseases like inflammatory …

Ensembl 2024

PW Harrison, MR Amode… - Nucleic acids …, 2024‏ - academic.oup.com
Abstract Ensembl (https://www. ensembl. org) is a freely available genomic resource that has
produced high-quality annotations, tools, and services for vertebrates and model organisms …

LSTM-PHV: prediction of human-virus protein–protein interactions by LSTM with word2vec

S Tsukiyama, MM Hasan, S Fujii… - Briefings in …, 2021‏ - academic.oup.com
Viral infection involves a large number of protein–protein interactions (PPIs) between human
and virus. The PPIs range from the initial binding of viral coat proteins to host membrane …

[HTML][HTML] Prediction of human-virus protein-protein interactions through a sequence embedding-based machine learning method

X Yang, S Yang, Q Li, S Wuchty, Z Zhang - Computational and structural …, 2020‏ - Elsevier
The identification of human-virus protein-protein interactions (PPIs) is an essential and
challenging research topic, potentially providing a mechanistic understanding of viral …

Viruses. STRING: a virus-host protein-protein interaction database

HV Cook, NT Doncheva, D Szklarczyk, C Von Mering… - Viruses, 2018‏ - mdpi.com
As viruses continue to pose risks to global health, having a better understanding of virus–
host protein–protein interactions aids in the development of treatments and vaccines. Here …

Protein–protein interactions in virus–host systems

AF Brito, JW Pinney - Frontiers in microbiology, 2017‏ - frontiersin.org
To study virus–host protein interactions, knowledge about viral and host protein
architectures and repertoires, their particular evolutionary mechanisms, and information on …

Medicinal chemistry strategies toward host targeting antiviral agents

X Ji, Z Li - Medicinal Research Reviews, 2020‏ - Wiley Online Library
Direct‐acting antiviral agents (DAAs) represent a class of drugs targeting viral proteins and
have been demonstrated to be very successful in combating viral infections in clinic …