Related papers: Synchronous replication initiation of multiple ori…
Classically, the tendency towards spontaneous synchronization is strongest if the natural frequencies of the self-oscillators are as close as possible. We show that this wisdom fails in the deep quantum regime, where the uncertainty of…
Shared upstream dynamical processes are frequently the source of common inputs in various physical and biological systems. However, due to finite signal transmission speeds and differences in the distance to the source, time shifts between…
In Escherichia coli (E. coli), entropic repulsion between the two daughter DNA ring polymers under cylindrical confinement is believed to be an important factor governing chromosomal segregation. The repulsion can be enhanced by topological…
Transcription factor proteins bind specific DNA sequences to control the expression of genes. They contain DNA binding domains which belong to several super-families, each with a specific mechanism of DNA binding. The total number of…
To maintain a constant cell size, dividing cells have to coordinate cell cycle events with cell growth. This coordination has for long been supposed to rely on the existence of size thresholds determining cell cycle progression [1]. In…
The production of sequence-specific copolymers using copolymer templates is fundamental to the synthesis of complex biological molecules and is a promising framework for the synthesis of synthetic chemical complexes. Unlike the…
Synchronous computation models simplify the design and the verification of fault-tolerant distributed systems. For efficiency reasons such systems are designed and implemented using an asynchronous semantics. In this paper, we bridge the…
Symmetry breaking, a central principle of physics, has been hailed as the driver of self-organization in biological systems in general and biogenesis of cellular organelles in particular, but the molecular mechanisms of symmetry breaking…
We introduce a simple model system to study synchronization theoretically in quantum oscillators that are not just in limit-cycle states, but rather display a more complex bistable dynamics. Our oscillator model is purely dissipative, with…
Ongoing sub-cellular oscillation of Min proteins is required to block minicelling in E. coli. Experimentally, Min oscillations are seen in newly divided cells and no minicells are produced. In model Min systems many daughter cells do not…
Locations of DNA replication initiation in prokaryotes, called "origins of replication", are well-characterized. However, a mechanistic understanding of the sequence-dependence of the local unzipping of double-stranded DNA, the first step…
Mutations can arise from the chance misincorporation of nucleotides during DNA replication or from DNA lesions that are not repaired correctly. We introduce a model that relates the source of mutations to their accumulation with cell…
The Slepian-Wolf (SW) coding system is a source coding system with two encoders and a decoder, where these encoders independently encode source sequences from two correlated sources into codewords, and the decoder reconstructs both source…
Occurrence of strong or mass synchronization of a large number of neuronal populations in the brain characterizes its pathological states. In order to establish an understanding of the mechanism underlying such pathological synchronization…
We study sequential coding of Markov sources under an error propagation constraint. An encoder sequentially compresses a sequence of vector-sources that are spatially i.i.d. but temporally correlated according to a first-order Markov…
Symbol synchronization refers to the estimation of the start of a symbol interval and is needed for reliable detection. In this paper, we develop a symbol synchronization framework for molecular communication (MC) systems where we consider…
Processing sequential inputs is a fundamental brain function, underlying tasks such as sensory perception, language, and motor control. A challenge in sequence processing is to represent not only the order of events, but also their precise…
It is a long-standing question in origin-of-life research whether the information content of replicating molecules can be maintained in the presence of replication errors. Extending standard quasispecies models of non-enzymatic replication,…
We present a multiplexed single photon source that re-synchronises heralded single photons generated by four-wave mixing in photonic crystal fibre using a fibre delay loop controlled by a single switch. By combining the probabilities of…
We present a calculation technique for modeling inhomogeneous DNA replication kinetics, where replication factors such as initiation rates or fork speeds can change with both position and time. We can use our model to simulate data sets…