More articles from Methods
Patient-specific analysis of co-expression to measure biological network rewiring in individualsCosinet has the potential to empower personalized treatment by accurately quantifying the degree of rewiring in individual samples compared with reference conditions using mechanism-related differential co-expression sub-networks.
CRISPR/Cas9 bioluminescence-based assay for monitoring CFTR trafficking to the plasma membraneA novel CRISPR/Cas9-based bioluminescence system to assess total and live-cell plasma membrane WT-CFTR levels offers a versatile platform for new screening systems in CFTR modulator discovery.
Automated staging of zebrafish embryos with deep learningIntroducing KimmelNet: A deep learning model that accurately stages populations of zebrafish embryos from 2D brightfield images, offering a rapid and objective alternative to manual observations.
Pathway-driven analysis of synthetic lethal interactions in cancer using perturbation screensThis study introduces a signaling pathway-informed computational approach to identify synthetic lethal (SL) interactions in various cancer types, uncovering potential targeted therapies for specific genetic alterations.
Assessing MAPPs assay as a tool to predict the immunogenicity potential of protein therapeuticsThis work highlights the use of streptavidin magnetic beads as a valuable approach for the immunoaffinity purification of mass spectrometry MHCII-eluted ligands (MAPPs) and their practical application in assessing the drug-induced immunogenicity risk of novel biotherapeutics.
High-resolution analysis of bound Ca2+ in neurons and synapsesThe amount of bound Ca2+ in neurons correlates significantly to the intensity of markers for GABAergic pre-synapse and glutamatergic post-synapses, and negatively to pre-synaptic activity.
scFseCluster: a feature selection-enhanced clustering for single-cell RNA-seq dataThis 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-seqA 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 transplantationCell-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 folliculogenesisQuantitative RNA-sequencing method for single cells isolated from alcohol- and formalin-fixed tissue sections discovers new relationships between histology and transcriptome during folliculogenesis.