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Bioinformatics (Oxford, England)
Sep 2, 2022
MOTIVATION: In this article, we consider how to evaluate survival distribution predictions with measures of discrimination. This is non-trivial as discrimination measures are the most commonly used in survival analysis and yet there is no clear metho...
Bioinformatics (Oxford, England)
Sep 2, 2022
MOTIVATION: Histone modifications are epigenetic markers that impact gene expression by altering the chromatin structure or recruiting histone modifiers. Their accurate identification is key to unraveling the mechanisms by which they regulate gene ex...
Bioinformatics (Oxford, England)
Sep 2, 2022
MOTIVATION: Identifying drug-target interactions is a crucial step for drug discovery and design. Traditional biochemical experiments are credible to accurately validate drug-target interactions. However, they are also extremely laborious, time-consu...
Bioinformatics (Oxford, England)
Sep 2, 2022
MOTIVATION: The molecular subtyping of gastric cancer (adenocarcinoma) into four main subtypes based on integrated multiomics profiles, as proposed by The Cancer Genome Atlas (TCGA) initiative, represents an effective strategy for patient stratificat...
Bioinformatics (Oxford, England)
Sep 2, 2022
MOTIVATION: Accurate annotation of different genomic signals and regions (GSRs) from DNA sequences is fundamentally important for understanding gene structure, regulation and function. Numerous efforts have been made to develop machine learning-based...
Bioinformatics (Oxford, England)
Aug 10, 2022
MOTIVATION: Disease diagnosis-oriented dialog system models the interactive consultation procedure as the Markov decision process, and reinforcement learning algorithms are used to solve the problem. Existing approaches usually employ a flat policy s...
Bioinformatics (Oxford, England)
Aug 10, 2022
MOTIVATION: Characterization of protein subcellular localization has become an important and long-standing task in bioinformatics and computational biology, which provides valuable information for elucidating various cellular functions of proteins an...
Bioinformatics (Oxford, England)
Aug 10, 2022
MOTIVATION: Computational methods for the prediction of protein-protein interactions (PPIs), while important tools for researchers, are plagued by challenges in generalizing to unseen proteins. Datasets used for modelling protein-protein predictions ...
Bioinformatics (Oxford, England)
Aug 10, 2022
MOTIVATION: Recently, AlphaFold2 achieved high experimental accuracy for the majority of proteins in Critical Assessment of Structure Prediction (CASP 14). This raises the hope that one day, we may achieve the same feat for RNA structure prediction f...
Bioinformatics (Oxford, England)
Aug 10, 2022
MOTIVATION: The secondary structure of RNA is of importance to its function. Over the last few years, several papers attempted to use machine learning to improve de novo RNA secondary structure prediction. Many of these papers report impressive resul...