Browse our latest Computational and Systems Biology articles

A framework for analyzing single-cell genomics data, in which geometrical properties are harnessed to obtain insights on cellular diversity, including precise clustering, clear visualizations, and intuitive diagnostics.

TrASPr+BOS enables accurate prediction and design of tissue-specific RNA splicing, even for tissues not trained on, uncovering unseen regulatory elements and guiding sequence edits that reshape splicing outcomes.

A Bayesian particle Gibbs framework enables unbiased spike time inference with millisecond resolution and jointly estimates uncertainties in both spike timing and model parameters from fast calcium imaging.

The Tapenade pipeline enables single-cell, whole-mount 3D quantification in dense multilayer organoids, linking spatial gene co-expression and nuclear deformation to emerging tissue-scale organization.

An evolution-guided framework is proposed to accelerate the discovery and therapeutic targeting of understudied dark channels by integrating sequence, structure, and functional data from diverse organisms.

A fully computationally designed SaCas9 variant expands PAM recognition to NNNRRT, achieving up to 116-fold higher editing at noncanonical sites while matching the performance of experimentally evolved variants.

The first all-atom models of the mycobacterial outer membrane reveal how lipid organization and asymmetry generate a structurally heterogeneous barrier that underlies its unique permeability properties.