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Khabre desk
Recent reporting, analysis and explainers from the single-cell biology desk.
science
A bioRxiv preprint introduces SPECTRA, a graph-based model that predicts gene-expression responses to CRISPR perturbations by propagating signals through gene regulatory networks. The authors report improved recovery of sparse perturbation-related changes in a large-scale single-cell CRISPRi benchmark.
science
A bioRxiv preprint using data from 1,494 donors finds that many single-cell gene-expression studies may lack sufficient statistical power to detect small effects. Cell counts, gene-expression levels and sequencing depth strongly influenced which findings were detected and reproduced.
science
A bioRxiv preprint finds that randomly dividing single-cell data can leak information between training and test sets when related cells share labels. The authors propose eakcheck, a tool that estimates this leakage before a predictive model is trained.
science
A bioRxiv preprint introduces LucaCell, a foundation model that represents genes through mRNA sequence embeddings instead of fixed gene identifiers. The authors report applications spanning cross-species cell annotation, microbial analysis, chromatin accessibility and influenza infection states.
health
A medRxiv preprint combining genetic and single-cell analyses identifies bone-marrow macrophages as a possible link between aging and osteoporosis. It nominates TGFB1 and HNRNPUL1 as regulators in this relationship, based on observational, genetic and transcriptomic evidence.