Quantitative Biology
The ability to quantify the directional flow of information is vital to understanding natural systems and designing engineered information-processing systems. A widely used measure to quantify this information flow is the transfer entropy.…
The vertebrate hippocampus is believed to use recurrent connectivity in area CA3 to support episodic memory recall from partial cues. This brain area also contains place cells, whose location-selective firing fields implement maps…
Cooperation arises in nature at every scale, from within cells to entire ecosystems. In the framework of evolutionary game theory, public goods games (PGGs) are used to analyse scenarios where individuals can cooperate or defect, and can…
Genetic mutations are footprints of tumour growth. While mutation data in bulk samples has been used to infer evolutionary parameters hard to measure in vivo, the advent of single-cell data has led to strong interest in the mutational…
The ability to characterize proteins at sequence-level resolution is vital to biological research. Currently, the leading method for protein sequencing is by liquid chromatography mass spectrometry (LC-MS) whereas proteins are reduced to…
The mitotic spindle partitions chromosomes during cell division by connecting the poles to kinetochores through microtubules (MTs). Their plus-ends, facing the chromosomes, exhibit dynamic instability, which is critical for proper…
Melanoma is an aggressive and highly metastatic cancer that exhibits stubborn resistance to conventional therapies, highlighting the need for novel treatments. Existing therapeutic strategies often suffer from systemic toxicity, poor…
Objective: To investigate the association between serum 25-hydroxyvitamin D [25(OH)D] concentration and mental health, measured using the Kessler Psychological Distress Scale 5 (K5), among Aboriginal and Torres Strait Islander Peoples.…
While pathology foundation models have transformed cancer image analysis, they often lack integration with molecular data at single-cell resolution, limiting their utility for precision oncology. Here, we present PAST, a pan-cancer…
Quantifying organism-level phenotypes, such as growth dynamics and biomass accumulation, is fundamental to understanding agronomic traits and optimizing crop production. However, quality growing data of plants at scale is difficult to…
Computational quantum chemistry plays a critical role in drug discovery, chemical synthesis, and materials science. While first-principles methods, such as density functional theory (DFT), provide high accuracy in modeling electronic…
The propagation of noise through parallel regulatory pathways is a characteristic feature of feed-forward loops in genetic networks. Although the contributions of the direct and indirect regulatory pathways of feed-forward loops to output…
Climate change is a major threat to crop potential and is characterized by both long-term shifts in temperature and precipitation patterns as well as increased occurrence of extreme weather events, these extreme weather events are the most…
Phylogenetic profiles - presence-absence patterns of genes across taxa - are rich information sources for inferring the evolutionary history of genes and gene families. When aggregated across many genes, these profiles can reveal…
Repetitive DNA sequences underpin genome architecture and evolutionary processes, yet they remain challenging to classify accurately. Terrier is a deep learning model designed to overcome these challenges by classifying repetitive DNA…
We incorporate local ventilation effects into a spatially dependent generalisation of the Wells--Riley model for airborne disease transmission. Aerosol production and removal through ventilation, biological deactivation, and gravitational…
Brain function emerges from coordinated activity across anatomically connected regions, where structural connectivity (SC) -- the network of white matter pathways - provides the physical substrate for functional connectivity (FC) -- the…
Non-invasive stimulation of small, variably shaped brain sub-regions is crucial for advancing our understanding of brain functions. Current ultrasound neuromodulation faces two significant trade-offs when targeting brain sub-regions:…
We develop a microscopic model of perception of an interoceptive sensation in which spin-like variables encode an organism's internal evaluation of embodied vital norms associated with the sensation. Spins can take positive, negative, or…
In the traditional understanding of the neocortex, sensory information flows up a hierarchy of regions, with each level processing increasingly complex features. Information also flows down the hierarchy via a different set of connections.…