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biorecap: an R package for summarizing bioRxiv preprints with a local LLM
The establishment of bioRxiv facilitated the rapid adoption of preprints in the life sciences, accelerating the dissemination of new research findings. However, the sheer volume of preprints published daily can be overwhelming, ... Read More >
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What you saw is what you got? -- Correcting reported incidence data for testing ...
During the COVID-19 pandemic, different types of non-pharmaceutical interventions played an important role in the efforts to control outbreaks and to limit the spread of the SARS-CoV-2 virus. In certain countries, large-scale vo ... Read More >
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Comment on Miscalibration of the Honeybee Odometer
This is a point-by-point response to a non-peer-reviewed document titled The Miscalibration of the Honeybee Odometer [arXiv:2405.12998], authored by L. Luebbert and L. Pachter, that was published on arXiv on 8 May 2024 and subse ... Read More >
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Manifold Transform by Recurrent Cortical Circuit Enhances Robust Encoding of Fam ...
A ubiquitous phenomenon observed throughout the primate hierarchical visual system is the sparsification of the neural representation of visual stimuli as a result of familiarization by repeated exposure, manifested as the sharp ... Read More >
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A Wild Sheep Chase Through an Orchard
Orchards are a biologically relevant class of phylogenetic networks as they can describe treelike evolutionary histories augmented with horizontal transfer events. Moreover, the class has attractive mathematical characterization ... Read More >
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Mechanics promotes coherence in heterogeneous active media
Synchronization of activity among myocytes constituting vital organs, e.g., the heart, is crucial for physiological functions. Self-organized coordination in such heterogeneous ensemble of excitable and oscillatory cells is ther ... Read More >
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Prompt Your Brain: Scaffold Prompt Tuning for Efficient Adaptation of fMRI Pre-t ...
We introduce Scaffold Prompt Tuning (ScaPT), a novel prompt-based framework for adapting large-scale functional magnetic resonance imaging (fMRI) pre-trained models to downstream tasks, with high parameter efficiency and improve ... Read More >
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A reassessment of the "hard-steps" model for the evolution of intelligent life
According to the "hard-steps" model, the origin of humanity required "successful passage through a number of intermediate steps" (so-called "hard" or "critical" steps) that were intrinsically improbable with respect to the total ... Read More >
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Fragment and Geometry Aware Tokenization of Molecules for Structure-Based Drug D ...
Structure-based drug design (SBDD) is crucial for developing specific and effective therapeutics against protein targets but remains challenging due to complex protein-ligand interactions and vast chemical space. Although langua ... Read More >
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Circuit design in biology and machine learning. I. Random networks and dimension ...
A biological circuit is a neural or biochemical cascade, taking inputs and producing outputs. How have biological circuits learned to solve environmental challenges over the history of life? The answer certainly follows Dobzhans ... Read More >