More articles from Methods
- scFseCluster: a feature selection-enhanced clustering for single-cell RNA-seq data
This study presents a novel computational framework scFseCluster for scRNA-seq clustering analysis. Particularly, an excellent feature selection algorithm FSQSSA was encapsulated in the scFseCluster platform, which achieves optimal gene sets for clustering tasks.
- Cost-effective DNA methylation profiling by FML-seq
A low-cost, high-throughput method for genome-wide DNA methylation profiling based on methylation-specific restriction digestion and sequencing.
- Cell-free chromatin immunoprecipitation to detect molecular pathways in heart transplantation
Cell-free DNA chromatin immunoprecipitation detects molecular pathways and profiles the sources of tissue injury in heart transplant patients.
- High-quality single-cell transcriptomics from ovarian histological sections during folliculogenesis
Quantitative RNA-sequencing method for single cells isolated from alcohol- and formalin-fixed tissue sections discovers new relationships between histology and transcriptome during folliculogenesis.
- A targeted sequencing extension for transcript genotyping in single-cell transcriptomics
We describe the targeted sequencing extension and provide two proof-of-concept examples of how it can assist with understanding the impact of genetic variants.
- Refining the genetic risk of breast cancer with rare haplotypes and pattern mining
A closed-pattern mining algorithm helps identify rare, noncontiguous haplotypes underlying breast cancer risk in British women in the UK Biobank.
- PASCAR: a multiscale framework to explore the design space of constitutive and inducible CAR T cells
An experimentally validated protein abundance structured population dynamic model for CAR T cells (PASCAR) that integrates processes from molecules to single cells to cell populations and systematically explores the design space of constitutive and tunable CAR T cells.
- A network embedding approach to identify active modules in biological interaction networks
This study proposes the AMINE method as a flexible and efficient approach to identify active modules from a data embedding combining gene expression and interaction data.
- An immune-based tool platform for in vivo cell clearance
A tool platform that allows the exploration of immune-mediated cytotoxic therapies to target pathological cells in diseases beyond cancer.
- Estimation of crossbridge-state during cardiomyocyte beating using second harmonic generation
This article describes a new method to evaluate the actomyosin activity in living cardiomyocytes during beating based on nonlinear scattering microscopy, which will be useful for elucidating cardiomyopathy mechanisms, efficacy of an intervention, and others.