Methods & Resources
An extended DNA-free intranuclear compartment organizes centrosome microtubules in malaria parasitesMalaria arises during the proliferation of Plasmodium spp. in human blood, whereas the underlying atypical cell division mechanisms remain poorly understood. This study uses advanced imaging to dissect dynamics and organization of the centrosome, a key division regulator.
Statistical guidelines for quality control of next-generation sequencing techniquesCondition-specific statistical guidelines and accurate classification trees for quality control of functional genomics NGS files (RNA-seq, ChIP-seq and DNase-seq) have been generated using thousands of reference files from the ENCODE project and made available to the community.
Dissection-independent production of Plasmodium sporozoites from whole mosquitoesOvercoming limitations of traditional dissection-dependent methods for malarial sporozoite isolation from mosquitoes, a new dissection-free method is presented that yields pure, infective sporozoites.
CellMixS: quantifying and visualizing batch effects in single-cell RNA-seq dataA systematic comparison of batch effect metrics for single cell data is performed. The new cell-specific mixing score from the R/Bioconductor CellMixS package performs well across various tasks.
Harnessing reaction-based probes to preferentially target pancreatic β-cells and β-like cellsThe study uses a reaction probe to target insulin-expressing pancreatic β-cells and β-like cells derived from pluripotent stem cells by harnessing high intracellular Zn(II) concentration.
A FIJI macro for quantifying pattern in extracellular matrixThis work provides a quantitative tool for the analysis of fibrillar patterns in biology. We demonstrates its utility on in vitro generated extracellular matrices, mouse tissues, and patient samples. The tool is already publicly available to the research community.
FIREWORKS: a bottom-up approach to integrative coessentiality network analysisA tool to create bias-adjusted coessentiality networks reveals functional relationships between genes, context-specific rewiring of genetic networks, determinants of essentiality, and therapeutic targets for challenging proteins.
ESI mutagenesis: a one-step method for introducing mutations into bacterial artificial chromosomesA simple and efficient recombineering-based method for introducing point mutations into bacterial artificial chromosomes using an artificial intron cassette.
Predicting gene regulatory networks from cell atlasesIntegrated single-cell gene regulatory network from three mouse cell atlases captures global and cell type–specific regulatory modules and crosstalk, important for cellular identity.
Profiles of histidine-rich glycoprotein associate with age and risk of all-cause mortalityAffinity-based proteomics assays identify particular profiles of the circulating histidine-rich glycoprotein to increase with age and elevated levels to indicate a higher risk of all-cause mortality.