The availability of public genomic resources can greatly assist biodiversity assessment,
conservation, and restoration efforts by providing evidence for scientifically informed …

Pre-mRNA alternative splicing is a prevalent mechanism for diversifying eukaryotic
transcriptomes and proteomes. Regulated alternative splicing plays a role in many …

Diabetic foot ulcers and other chronic wounds with impaired healing can be treated with
bioengineered skin or with growth factors. However, most patients do not benefit from these …

The growing number of multi-omics studies demands clear conceptual workflows coupled
with easy-to-use software tools to facilitate data analysis and interpretation. This protocol …

Pretrained language models have shown promise in analysing nucleotide sequences, yet a
versatile model excelling across diverse tasks with a single pretrained weight set remains …

Background In order to correctly decode phenotypic information from RNA-sequencing
(RNA-seq) data, careful selection of the RNA-seq quantification measure is critical for inter …

Cell–cell interactions orchestrate organismal development, homeostasis and single-cell
functions. When cells do not properly interact or improperly decode molecular messages …

Motivation The advent of long-read sequencing technologies has increased demand for the
visualization and interpretation of transcripts. However, tools that perform such visualizations …

Background Bladder cancer (BLCA) is the most common malignancy of the urinary tract. On
the other hand, disulfidptosis, a mechanism of disulfide stress-induced cell death, is closely …

We describe a workflow for preprocessing of single-cell RNA-sequencing data that balances
efficiency and accuracy. Our workflow is based on the kallisto and bustools programs, and is …