Quantitative Biology
Identifying the principles that determine neural population activity is paramount in the field of neuroscience. We propose the Principle of Isomorphism (PIso): population activity preserves the essential mathematical structures of the tasks…
Chronic stress is a risk factor for cognitive decline and illness, yet reliable individual markers remain limited. We tested whether two single channel high dynamic range EEG biomarkers, ST4 and T2, index stress responses by linking neural…
Living organisms exhibit remarkable adaptations across all scales, from molecules to ecosystems. We believe that many of these adaptations correspond to optimal solutions driven by evolution, training, and underlying physical and chemical…
Background Medical and life science research generates millions of publications, and it is a great challenge for researchers to utilize this information in full since its scale and complexity greatly surpasses human reading capabilities.…
The gold standard in the treatment of ischaemic stroke is set by evidence from randomized controlled trials, based on simple descriptions of presumptively homogeneous populations. Yet the manifest complexity of the brain's functional,…
Objective: Quantitative real-time PCR is widely used for gene expression analysis, yet inconsistencies in data storage and reporting limit reproducibility. While MIQE guidelines define the minimal information required for publication, they…
Phylogenetic trees capture evolutionary relationships among species and reflect the forces that shaped them. While many studies rely on branch length information, the topology of phylogenetic trees (particularly their degree of imbalance)…
The theta rhythm is important for many cognitive functions including spatial processing, memory encoding, and memory recall. The information processing underlying these functions is thought to rely on consistent, phase-specific spiking…
This independent research investigates methods to improve the precision of cyclic peptide generation targeting the HIV gp120 trimer using AlphaFold. The study explores proximity-based hotspot mapping at the CD4 binding site, centroid…
Encounters between individuals underlie key ecological processes such as predation, mating, and disease transmission, making encounter rates a direct link between individual movement behavior and population-level outcomes. We investigate…
High-resolution spatial transcriptomics (HR-ST) technologies offer unprecedented insights into tissue architecture but lack standardized frameworks for histological annotation. We present ST2HE, a cross-platform generative framework that…
Perceptual estimates exhibit a reversal in bias depending on uncertainty: they shift toward prior expectations under high stimulus noise, but away from them when sensory noise dominates. The normative framework of a Bayesian observer model…
Phylogenetic trees represent the evolutionary relationships between extant lineages, where extinct or non-sampled lineages are omitted. Extending the work of Stadler and collaborators, this paper focuses on the branch lengths in…
Replication of genetic material is an important process for all living organisms. Origins of replication initiate the copying of DNA at many points on a chromosome, and it is the distribution of these points that is relevant here, as it…
Mammalian tissue architecture is central to biological function, and its disruption is a hallmark of disease. Medical imaging techniques can generate large point cloud datasets that capture changes in the cellular composition of such…
Organoids offer a promising alternative in biomedical research and clinical medicine, with better feature recapitulation than 2D cultures. They also have more consistent responses with clinical results when compared to animal models.…
Sensory representation is typically understood through a hierarchical-causal framework where progressively abstract features are extracted sequentially. However, this causal view fails to explain misrepresentation, a phenomenon better…
Background: In the Nearest-Neighbor Thermodynamic Model, a standard approach for RNA secondary structure prediction, the energy of the multiloops is modeled using a linear entropic penalty governed by three branching parameters. Although…
Prostate cancer (PCa) remains a significant global health concern among men, particularly due to the lethality of its more aggressive variants. Despite therapeutic advancements that have enhanced survival for many patients, high grade PCa…
Characterizing interactions between brain areas is a fundamental goal of systems neuroscience. While such analyses are possible when areas are recorded simultaneously, it is rare to observe all combinations of areas of interest within a…