Applications of deep learning for drug discovery systems with bigdata
Y Matsuzaka, R Yashiro - BioMedInformatics, 2022 - mdpi.com
The adoption of “artificial intelligence (AI) in drug discovery”, where AI is used in the process
of pharmaceutical research and development, is progressing. By using the ability to process …
of pharmaceutical research and development, is progressing. By using the ability to process …
[HTML][HTML] Waves, patterns, bifurcations: A tutorial review on the vertebrate segmentation clock
P François, V Mochulska - Physics Reports, 2024 - Elsevier
Proper vertebrae formation relies on a tissue-wide oscillator called the segmentation clock.
Individual cellular oscillators in the presomitic mesoderm are modulated by intercellular …
Individual cellular oscillators in the presomitic mesoderm are modulated by intercellular …
Scale invariance in early embryonic development
The expression of a few key genes determines the body plan of the fruit fly. We show that the
spatial expression patterns for several of these genes scale precisely with embryo size …
spatial expression patterns for several of these genes scale precisely with embryo size …
Deriving a genetic regulatory network from an optimization principle
Many biological systems operate near the physical limits to their performance, suggesting
that aspects of their behavior and underlying mechanisms could be derived from …
that aspects of their behavior and underlying mechanisms could be derived from …
Waddington landscape for prototype learning in generalized hopfield networks
NE Boukacem, A Leary, R Thériault, F Gottlieb… - Physical Review …, 2024 - APS
Networks in machine learning offer examples of complex high-dimensional dynamical
systems inspired by and reminiscent of biological systems. Here, we study the learning …
systems inspired by and reminiscent of biological systems. Here, we study the learning …
Functional analysis of the Drosophila eve locus in response to non-canonical combinations of gap gene expression levels
Transcription factor combinations play a key role in sha** cellular identity. However, the
precise relationship between specific combinations and downstream effects remains …
precise relationship between specific combinations and downstream effects remains …
Chemical waves in reaction-diffusion networks of small organic molecules
Chemical waves represent one of the fundamental behaviors that emerge in nonlinear, out-
of-equilibrium chemical systems. They also play a central role in regulating behaviors and …
of-equilibrium chemical systems. They also play a central role in regulating behaviors and …
A phase diagram structure determines the optimal sensitivity-precision trade-off in signaling systems
KK Kong, C Luo, F Liu - Communications Physics, 2024 - nature.com
Signal transduction is crucial for many biological functions. However, it is still unclear how
signaling systems function accurately under noisy situations. More specifically, such systems …
signaling systems function accurately under noisy situations. More specifically, such systems …
New wave theory
P François - Development, 2023 - journals.biologists.com
There is a long history of theory for biology, initially as a way to provide explanatory and
conceptual frameworks. For example, in evolution, natural selection offers an explanation for …
conceptual frameworks. For example, in evolution, natural selection offers an explanation for …
Stable developmental patterns of gene expression without morphogen gradients
M Majka, NB Becker, PR Ten Wolde… - PLOS Computational …, 2024 - journals.plos.org
Gene expression patterns in develo** organisms are established by groups of cross-
regulating target genes that are driven by morphogen gradients. As development …
regulating target genes that are driven by morphogen gradients. As development …