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Bioinformatics (Oxford, England)
Nov 30, 2022
MOTIVATION: Class imbalance, or unequal sample sizes between classes, is an increasing concern in machine learning for metabolomic and lipidomic data mining, which can result in overfitting for the over-represented class. Numerous methods have been d...
Bioinformatics (Oxford, England)
Nov 30, 2022
MOTIVATION: Hypothesis generation (HG) refers to the discovery of meaningful implicit connections between disjoint scientific terms, which is of great significance for drug discovery, prediction of drug side effects and precision treatment. More rece...
Bioinformatics (Oxford, England)
Nov 15, 2022
MOTIVATION: Tumor mutational burden (TMB) is an indicator of the efficacy and prognosis of immune checkpoint therapy in colorectal cancer (CRC). In general, patients with higher TMB values are more likely to benefit from immunotherapy. Though whole-e...
Bioinformatics (Oxford, England)
Oct 31, 2022
MOTIVATION: Recognition of protein subcellular distribution patterns and identification of location biomarker proteins in cancer tissues are important for understanding protein functions and related diseases. Immunohistochemical (IHC) images enable v...
Bioinformatics (Oxford, England)
Oct 31, 2022
MOTIVATION: Cells respond to environments by regulating gene expression to exploit resources optimally. Recent advances in technologies allow for measuring the abundances of RNA, proteins, lipids and metabolites. These highly complex datasets reflect...
Bioinformatics (Oxford, England)
Oct 31, 2022
MOTIVATION: The capability to predict the potential drug binding affinity against a protein target has always been a fundamental challenge in silico drug discovery. The traditional experiments in vitro and in vivo are costly and time-consuming which ...
Bioinformatics (Oxford, England)
Oct 31, 2022
MOTIVATION: In multi-cohort machine learning studies, it is critical to differentiate between effects that are reproducible across cohorts and those that are cohort-specific. Multi-task learning (MTL) is a machine learning approach that facilitates t...
Bioinformatics (Oxford, England)
Oct 14, 2022
MOTIVATION: Analysis of whole-genome sequencing (WGS) for genetics is still a challenge due to the lack of accurate functional annotation of non-coding variants, especially the rare ones. As eQTLs have been extensively implicated in the genetics of h...
Bioinformatics (Oxford, England)
Oct 14, 2022
MOTIVATION: Current advances in omics technologies are paving the diagnosis of rare diseases proposing a complementary assay to identify the responsible gene. The use of transcriptomic data to identify aberrant gene expression (AGE) has demonstrated ...
Bioinformatics (Oxford, England)
Oct 14, 2022
UNLABELLED: In biomedical natural language processing, named entity recognition (NER) and named entity normalization (NEN) are key tasks that enable the automatic extraction of biomedical entities (e.g. diseases and drugs) from the ever-growing biome...