Methods & Resources
- Assessing MAPPs assay as a tool to predict the immunogenicity potential of protein therapeutics
This 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.
- 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.
- 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.
- Comparative membrane proteomics reveals diverse cell regulators concentrated at the nuclear envelope
A cohort of low-abundance transmembrane proteins concentrated at the nuclear envelope has been identified, predicting diverse new functions for this membrane system.
- Time-resolved proteomic analyses of senescence highlight metabolic rewiring of mitochondria
Time-resolved proteomic analyses of senescent fibroblasts reveal that nearly 40% of the analyzed mitochondrial proteome have changed upon induction of senescence. Our study highlights the rewiring of mitochondrial metabolism as a central feature among all changes in mitochondrial pathways of senescent cells.
- 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.
- BiFCo: visualizing cohesin assembly/disassembly cycle in living cells
A novel strategy developed in fission yeast to visualise only-assembled cohesin complex loading/unloading cycles in eukaryotic chromosomes in living cells.
- Gapless provides combined scaffolding, gap filling, and assembly correction with long reads
gapless is a new tool for combined execution of correction, scaffolding and gap filling using PacBio or Oxford Nanopore reads.