Computational simulation experiments increasingly inform modern biological research, and bring with them the need to provide ways to annotate, archive, share and reproduce the experiments performed. These simulations increasingly require extensive co...
Methods in molecular biology (Clifton, N.J.)
34251624
Single-cell RNAseq is an emerging technology that allows the quantification of gene expression in individual cells. In plants, single-cell sequencing technology has been applied to generate root cell expression maps under many experimental conditions...
Cell death experiments are routinely done in many labs around the world, these experiments are the backbone of many assays for drug development. Cell death detection is usually performed in many ways, and requires time and reagents. However, cell dea...
Statistical phylogenetic analysis currently relies on complex, dedicated software packages, making it difficult for evolutionary biologists to explore new models and inference strategies. Recent years have seen more generic solutions based on probabi...
Journal of chemical theory and computation
33904712
Self-assembling peptide nanostructures have been shown to be of great importance in nature and have presented many promising applications, for example, in medicine as drug-delivery vehicles, biosensors, and antivirals. Being very promising candidates...
Chronic disease prediction is a critical task in healthcare. Existing studies fulfil this requirement by employing machine learning techniques based on patient features, but they suffer from high dimensional data problems and a high level of bias. We...
IEEE/ACM transactions on computational biology and bioinformatics
34478378
Short-read DNA sequencing instruments can yield over 10 bases per run, typically composed of reads 150 bases long. Despite this high throughput, de novo assembly algorithms have difficulty reconstructing contiguous genome sequences using short reads ...
MOTIVATION: Tumor tile selection is a necessary prerequisite in patch-based cancer whole slide image analysis, which is labor-intensive and requires expertise. Whole slides are annotated as tumor or tumor free, but tiles within a tumor slide are not....
BACKGROUND: Software for nuclear magnetic resonance (NMR) spectrometers offer general functionality of instrument control and data processing; these applications are often developed with non-scripting languages. NMR users need to flexibly integrate r...
We present an open-source eigenmode expansion (EME) software package entirely implemented in the Python programming language. Eigenmode expansion Python (EMEPy) utilizes artificial neural networks to reproduce electromagnetic eigenmode field profiles...