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Bioinformatics (Oxford, England)
Jun 13, 2022
MOTIVATION: The field of natural language processing (NLP) has recently seen a large change toward using pre-trained language models for solving almost any task. Despite showing great improvements in benchmark datasets for various tasks, these models...
Bioinformatics (Oxford, England)
May 26, 2022
MOTIVATION: A high-quality sequence alignment (SA) is the most important input feature for accurate protein structure prediction. For a protein sequence, there are many methods to generate a SA. However, when given a choice of more than one SA for a ...
Bioinformatics (Oxford, England)
May 13, 2022
MOTIVATION: Despite experimental and curation efforts, the extent of enzyme promiscuity on substrates continues to be largely unexplored and under documented. Providing computational tools for the exploration of the enzyme-substrate interaction space...
Bioinformatics (Oxford, England)
May 13, 2022
MOTIVATION: Evaluating the blood-brain barrier (BBB) permeability of drug molecules is a critical step in brain drug development. Traditional methods for the evaluation require complicated in vitro or in vivo testing. Alternatively, in silico predict...
Bioinformatics (Oxford, England)
May 13, 2022
MOTIVATION: Nucleus identification supports many quantitative analysis studies that rely on nuclei positions or categories. Contextual information in pathology images refers to information near the to-be-recognized cell, which can be very helpful for...
Bioinformatics (Oxford, England)
May 13, 2022
MOTIVATION: Predicting drug response is critical for precision medicine. Diverse methods have predicted drug responsiveness, as measured by the half-maximal drug inhibitory concentration (IC50), in cultured cells. Although IC50s are continuous, tradi...
Bioinformatics (Oxford, England)
May 13, 2022
MOTIVATION: Mass spectrometry-based untargeted lipidomics aims to globally characterize the lipids and lipid-like molecules in biological systems. Ion mobility increases coverage and confidence by offering an additional dimension of separation and a ...
Bioinformatics (Oxford, England)
May 13, 2022
MOTIVATION: In the process of discovery and optimization of lead compounds, it is difficult for non-expert pharmacologists to intuitively determine the contribution of substructure to a particular property of a molecule.
Bioinformatics (Oxford, England)
May 13, 2022
MOTIVATION: Recombination is one of the essential genetic processes for sexually reproducing organisms, which can happen more frequently in some regions, called recombination hotspots. Although several factors, such as PRDM9 binding motifs, are known...
Bioinformatics (Oxford, England)
Apr 28, 2022
MOTIVATION: Drug discovery has witnessed intensive exploration of predictive modeling of drug-target physical interactions over two decades. However, a critical knowledge gap needs to be filled for correlating drug-target interactions with clinical o...