Related papers: Qualitatively Distinct Signaling in Cells: The Inf…
While measurement advances now allow extensive surveys of gene activity (large numbers of genes across many samples), interpretation of these data is often confounded by noise -- expression counts can differ strongly across samples due to…
Music is a structured and perceptually rich sequence of sounds in time, whose perception is shaped by the interplay of expectation and uncertainty about what comes next. Yet the uncertainty we infer from music depends on how the musical…
Biological signaling is imagined as a combination of activation and transport. The former is triggered by local molecular interactions and the latter is the result of molecular diffusion. However, other fundamental physical principles of…
Living cells must control the reading out or "expression" of information encoded in their genomes, and this regulation often is mediated by transcription factors--proteins that bind to DNA and either enhance or repress the expression of…
How cells reliably infer information about their environment is a fundamentally important question. While sensing and signaling generally start with cell-surface receptors, the degree of accuracy with which a cell can measure external…
We study a stochastic model proposed recently in the genetic literature to explain the heterogeneity of cell populations or of gene products. Cells are located in two colonies, whose sizes fluctuate as birth and migration processes in…
Expectations aid and bias our perception. In speech, expected words are easier to recognise than unexpected words, particularly in noisy environments, and incorrect expectations can make us misunderstand our conversational partner.…
In multi-cellular organisms, cells differentiate into multiple types as they divide. States of these cell types, as well as their numbers, are known to be robust to external perturbations; as conceptualized by Waddington's epigenetic…
Frequency estimation, a cornerstone of basic and applied sciences, has been significantly enhanced by quantum sensing strategies. Despite breakthroughs in quantum-enhanced frequency estimation, key challenges remain: static probes limit…
Positional encodings have enabled recent works to train a single adversarial network that can generate images of different scales. However, these approaches are either limited to a set of discrete scales or struggle to maintain good…
Token representation strategies within large-scale neural architectures often rely on contextually refined embeddings, yet conventional approaches seldom encode structured relationships explicitly within token interactions. Self-attention…
Posttranslational modification of proteins is key in transmission of signals in cells. Many signaling pathways contain several layers of modification cycles that mediate and change the signal through the pathway. Here, we study a simple…
Living cells deploy many resources to sense their environments, including receptors, downstream signaling molecules, time and fuel. However, it is not known which resources fundamentally limit the precision of sensing, like weak links in a…
A large body of recent work targets semantically conditioned image generation. Most such methods focus on the narrower task of pose transfer and ignore the more challenging task of subject transfer that consists in not only transferring the…
The inherent stochasticity of cellular processes leads to significant cell-to-cell variation in protein abundance. Although this noise has already been characterized and modeled, its broader implications and significance remain unclear. In…
In recent years it is increasingly being recognized that biochemical signals are not necessarily constant in time and that the temporal dynamics of a signal can be the information carrier. Moreover, it is now well established that…
Proteins are responsible for the most diverse set of functions in biology. The ability to extract information from protein sequences and to predict the effects of mutations is extremely valuable in many domains of biology and medicine.…
Noise aids the encoding of continuous signals into pulse sequences by way of stochastic resonance and endows the encoding device with a preferred frequency. We study encoding by a threshold device based on the Ornstein-Uhlenbeck process,…
Metabolic oscillations in single cells underlie the mechanisms behind cell synchronization and cell-cell communication. For example, glycolytic oscillations mediated by biochemical communication between cells may synchronize the pulsatile…
We address binary phase-shift-keyed communication channels based on Gaussian states and prove that squeezing improves state discrimination at fixed energy of the channel, also in the presence of phase diffusion. We then assess performances…