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Bioinformatics (Oxford, England)
Sep 1, 2024
SUMMARY: Single-neuron morphology, the study of the structure, form, and shape of a group of specialized cells in the nervous system, is of vital importance to define the type of neurons, assess changes in neuronal development and aging and determine...
Bioinformatics (Oxford, England)
Sep 1, 2024
MOTIVATION: Cancer is a very heterogeneous disease that can be difficult to treat without addressing the specific mechanisms driving tumour progression in a given patient. High-throughput screening and sequencing data from cancer cell-lines has drive...
Bioinformatics (Oxford, England)
Sep 1, 2024
MOTIVATION: Selective sweeps can successfully be distinguished from neutral genetic data using summary statistics and likelihood-based methods that analyze single nucleotide polymorphisms (SNPs). However, these methods are sensitive to confounding fa...
Bioinformatics (Oxford, England)
Sep 1, 2024
MOTIVATION: Analysis of the omics data with the help of machine learning (ML) methods is limited by small sample sizes and a large number of variables. One possible approach to deal with such data is using algorithms for feature selection and reducin...
Bioinformatics (Oxford, England)
Aug 2, 2024
MOTIVATION: A key challenge in metabolomics is annotating measured spectra from a biological sample with chemical identities. Currently, only a small fraction of measurements can be assigned identities. Two complementary computational approaches have...
Bioinformatics (Oxford, England)
Aug 2, 2024
MOTIVATION: The asymmetrical distribution of expressed mRNAs tightly controls the precise synthesis of proteins within human cells. This non-uniform distribution, a cornerstone of developmental biology, plays a pivotal role in numerous cellular proce...
Bioinformatics (Oxford, England)
Aug 2, 2024
MOTIVATION: Transcription factors are pivotal in the regulation of gene expression, and accurate identification of transcription factor binding sites (TFBSs) at high resolution is crucial for understanding the mechanisms underlying gene regulation. T...
Bioinformatics (Oxford, England)
Aug 2, 2024
MOTIVATION: Protein-protein interaction (PPI) networks provide valuable insights into the function of biological systems. Aligning multiple PPI networks may expose relationships beyond those observable by pairwise comparisons. However, assessing the ...
Bioinformatics (Oxford, England)
Aug 2, 2024
MOTIVATION: CRISPR/Cas9 technology has been revolutionizing the field of gene editing. Guide RNAs (gRNAs) enable Cas9 proteins to target specific genomic loci for editing. However, editing efficiency varies between gRNAs and so computational methods ...
Bioinformatics (Oxford, England)
Aug 2, 2024
MOTIVATION: Biomedical entity linking (BEL) is the task of grounding entity mentions to a given knowledge base (KB). Recently, neural name-based methods, system identifying the most appropriate name in the KB for a given mention using neural network ...