Related papers: Pervasive variation of transcription factor orthol…
In recent years, charge transport in metal-organic frameworks (MOFs) has shifted into the focus of scientific research. In this context, systems with efficient through-space charge transport pathways resulting from pi-stacked conjugated…
Multiway datasets are commonly analyzed using unsupervised matrix and tensor factorization methods to reveal underlying patterns. Frequently, such datasets include timestamps and could correspond to, for example, health-related measurements…
We modelled and calibrated the distributions of the seven-stripe patterns of Even-skipped (\textit{Eve}) and Fushi-tarazu (\textit{Ftz}) pair-rule proteins along the anteroposterior axis of the \textit{Drosphila} embryo, established during…
By integrating heterogeneous functional genomic datasets, we have developed a new framework for detecting combinatorial control of gene expression, which includes estimating transcription factor activities using a singular value…
A central question in developmental biology is how size and position are determined. The genetic code carries instructions on how to control these properties in order to regulate the pattern and morphology of structures in the developing…
Rhizomes play fundamental roles in plant evolution, persistence, and environmental adaptation by enabling clonal propagation, resource storage, and stress resilience. Despite their ecological and agronomic importance across diverse plant…
Ontologies such as taxonomies, product catalogs or web directories are heavily used and hence evolve frequently to meet new requirements or to better reflect the current instance data of a domain. To effectively manage the evolution of…
The prevalence of neutral mutations implies that biological systems typically have many more genotypes than phenotypes. But can the way that genotypes are distributed over phenotypes determine evolutionary outcomes? Answering such questions…
Like a rocket being propelled into space, evolution has engineered flies to launch into adulthood via multiple stages. Flies develop and deploy two distinct bodies, linked by the transformative process of metamorphosis. The fly larva is a…
We develop a theoretical framework on the mechanism of combinatorial binding of transcription factors (TFs) with their specific binding sites on DNA. We consider three possible mechanisms viz. monomer, hetero-oligomer and coordinated…
BACKGROUND. Signal recognition and information processing is a fundamental cellular function, which in part involves comprehensive transcriptional regulatory (TR) mechanisms carried out in response to complex environmental signals in the…
Robustness to mutations and noise has been shown to evolve through stabilizing selection for optimal phenotypes in model gene regulatory networks. The ability to evolve robust mutants is known to depend on the network architecture. How do…
Accurate and reliable identification of the relative transfer functions (RTFs) between microphones with respect to a desired source is an essential component in the design of microphone array beamformers, specifically when applying the…
We consider a stochastic model of transcription factor (TF)-regulated gene expression. The model describes two genes: Gene A and Gene B which synthesize the TFs and the target gene proteins respectively. We show through analytic…
Copy number alterations (CNAs) are thought to account for 85% of the variation in gene expression observed among breast tumours. The expression of cis-associated genes is impacted by CNAs occurring at proximal loci of these genes, whereas…
A great part of the effort in the study of coarse grained models of transcription networks is directed to the analysis of their dynamical features. In this letter, we consider the \emph{equilibrium} properties of such systems, showing that…
In our first paper [2] we explained why the Zak-OTFS input-output (I/O) relation is predictable and non-fading when the delay and Doppler periods are greater than the effective channel delay and Doppler spreads, a condition which we refer…
Multicellular organisms contain a wide variety of highly specialized cell types. The consistency and robustness of developmental trajectories suggest that complex gene regulatory networks effectively act as low-dimensional cell fate…
In recent years, Discriminative Correlation Filter (DCF) based methods have significantly advanced the state-of-the-art in tracking. However, in the pursuit of ever increasing tracking performance, their characteristic speed and real-time…
Radio Frequency Fingerprinting (RFF) offers a unique method for identifying devices at the physical (PHY) layer based on their RF emissions due to intrinsic hardware differences. Nevertheless, RFF techniques depend on the ability to extract…