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Detecting genetic associations with brain imaging phenotypes in Alzheimer's disease via a novel structured KCCA approach

期刊: JOURNAL OF BIOINFORMATICS AND COMPUTATIONAL BIOLOGY, 2021; 19 (4)

Neuroimaging genetics has become an important research topic since it can reveal complex associations between genetic variants (i.e. single nucleotide......

DBP-GAPred: An intelligent method for prediction of DNA-binding proteins types by enhanced evolutionary profile features with ensemble learning

期刊: JOURNAL OF BIOINFORMATICS AND COMPUTATIONAL BIOLOGY, 2021; 19 (4)

DNA-binding proteins (DBPs) perform an influential role in diverse biological activities like DNA replication, slicing, repair, and transcription. Som......

Distance matrices for nitrogenous bases and amino acids of SARS-CoV-2 via structural metric

期刊: JOURNAL OF BIOINFORMATICS AND COMPUTATIONAL BIOLOGY, 2021; 19 (4)

COVID-19 pandemic has caused a global health crisis. Developing vaccines would need a good knowledge of genetic properties of SARS-CoV-2. The most fun......

An evaluation of combined strategies for improving the performance of molecular docking

期刊: JOURNAL OF BIOINFORMATICS AND COMPUTATIONAL BIOLOGY, 2021; 19 (2)

Molecular docking is a fast and efficient computational method for the prediction of the binding mode and binding affinity between a ligand and a targ......

Response of gene regulatory networks after infection of H3N2 virus

期刊: JOURNAL OF BIOINFORMATICS AND COMPUTATIONAL BIOLOGY, 2021; 19 (4)

Viral infection is a complicated dynamic process, in which viruses intrude into cells to duplicate themselves and trigger succeeding biological proces......

Identification of genes associated with cancer prognosis in glioma: In silico data analyses of Chinese Glioma Genome Atlas (CGGA) and The Cancer Genome Atlas (TCGA)

期刊: JOURNAL OF BIOINFORMATICS AND COMPUTATIONAL BIOLOGY, 2021; 19 (3)

Glioma is one particular type of brain malignancy which is highly complex and usually has a poor prognosis. Despite the limited diagnostic level of gl......

ReHiC: Enhancing Hi-C data resolution via residual convolutional network

期刊: JOURNAL OF BIOINFORMATICS AND COMPUTATIONAL BIOLOGY, 2021; 19 (2)

High-throughput chromosome conformation capture (Hi-C) is one of the most popular methods for studying the three-dimensional organization of genomes. ......

Sparse robust graph-regularized non-negative matrix factorization based on correntropy

期刊: JOURNAL OF BIOINFORMATICS AND COMPUTATIONAL BIOLOGY, 2021; 19 (1)

Non-negative Matrix Factorization (NMF) is a popular data dimension reduction method in recent years. The traditional NMF method has high sensitivity ......

Protein-protein interaction site prediction using random forest proximity distance

期刊: JOURNAL OF BIOINFORMATICS AND COMPUTATIONAL BIOLOGY, 2021; 19 (1)

A front-end method based on random forest proximity distance (PD) is used to screen the test set to improve protein-protein interaction site (PPIS) pr......

Single-cell RNA-seq data clustering: A survey with performance comparison study

期刊: JOURNAL OF BIOINFORMATICS AND COMPUTATIONAL BIOLOGY, 2020; 18 (4)

Clustering analysis has been widely applied to single-cell RNA-sequencing (scRNA-seq) data to discover cell types and cell states. Algorithms develope......

PROSPECT: A web server for predicting protein histidine phosphorylation sites

期刊: JOURNAL OF BIOINFORMATICS AND COMPUTATIONAL BIOLOGY, 2020; 18 (4)

Background: Phosphorylation of histidine residues plays crucial roles in signaling pathways and cell metabolism in prokaryotes such as bacteria. While......

Modeling and simulation of spatial-temporal calcium distribution in T lymphocyte cell by using a reaction-diffusion equation

期刊: JOURNAL OF BIOINFORMATICS AND COMPUTATIONAL BIOLOGY, 2020; 18 (2)

T lymphocytes are white blood cells that play a central role in cell-mediated immunity. Ca2+ has its major signaling function when it is elevated in t......

Pippin: A random forest-based method for identifying presynaptic and postsynaptic neurotoxins

期刊: JOURNAL OF BIOINFORMATICS AND COMPUTATIONAL BIOLOGY, 2020; 18 (2)

Presynaptic and postsynaptic neurotoxins are two types of neurotoxins from venomous animals and functionally important molecules in the neurosciences;......

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