Drug discovery is impeded by the difficulty of translating targets from preclinical models to patients. Here, we present TwinCell, a Large Causal Cell Model (LCCM) capable of generalising from in vitro cell lines to patient-derived cell types while p... read more
Large-scale pharmacogenomic screens provide extensive measurements of drug response across diverse cancer cell lines; however, most computational approaches emphasize point-wise sensitivity prediction or static ranking, which are poorly aligned with ... read more
Motivation: Multi-omics datasets capture complementary aspects of biological systems and are central to modern machine learning applications in biology and medicine. Existing graph-based integration methods typically construct separate graphs for eac... read more
In vitro modeling of neuronal disorders using transfected primary neurons is one of the fundamental approaches for studying disease mechanisms and therapeutic screening. Assessing neuronal viability is an everyday yet critical task in such experiment... read more
The effects of perturbation on a biological system can be readily measured in terms of transcriptional changes. However, despite a wealth of transcriptional perturbation response data, there are currently few methods to draw equivalence between the m... read more
Foundation models aim to learn useful representations of biological sequences. However, the applicability of these representations for a wide range of tasks, including phenotype prediction and variant discovery, is still in question, in large part du... read more
The genetic regulation of the plasma N-glycome variation in human populations is not fully characterized, partly due to the limited sample size in glyco-genetics studies. Here, we aimed to demonstrate that protein-specific N-glycan profiles, like tho... read more
Epigenetic mechanisms regulate gene-expression by altering the structure of the chromatin without modifying the underlying DNA sequence. Histone post-translational modifications (PTMs) are critical epigenetic signals that influence transcriptional ac... read more
To understand neural processes such as learning or memory, we need to track the activity of populations of neurons at the level of single spikes and across days. Here, we leverage deep neural networks to build DeepUnitMatch, a software that reliably ... read more
Oral microemulsions are one drug delivery system often implemented to improve intestinal permeability and oral bioavailability of poorly-water soluble drugs. They also present several practical advantages including high patient compliance and simplif... read more
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