Gene-specific repeat instability is responsible for >36 human diseases. Active instability varies in a tissue-, developmental stage- and locus-specific manner and occurs in both proliferative and non-proliferative cells. In proliferative cells, DNA replication can contribute to repeat instability either by switching the direction of replication, which changes the repeat sequence that serves as ...

Collapsed DNA replication forks must be reactivated through origin-independent reloading of the replication machinery (replisome) to ensure complete duplication of cellular genomes. In E. coli, the PriA-dependent pathway is the major replication restart mechanism and requires primosome proteins PriA, PriB, and DnaT for replisome reloading. However, the molecular mechanisms that regulate origin-...

Distributed search structures are useful for parallel databases and in maintaining distributed storage systems. In this paper we discuss some issues in the design and implementation of distributed B-trees, such as methods for low-overhead synchronization of tree restructuring, node mobility and replication strategies. We have implemented a distributed B-tree that replicates the index and also p...

We propose a dynamic model of DNA opening for replication and transcription. Numerical simulations on this model strongly indicate a phase transition mechanism of DNA opening.

We prove correctness of a Byzantine-fault-tolerant replication algorithm for a read/write atomic memory that supports a dynamic replica set.

In this paper we investigate how shared memory clusters can take advantage of replication to tolerate single system failures. We start from a shared virtual memory protocol (GeNIMA) that has been optimized for low-latency, highbandwidth system area networks. We propose a set of extensions that maintain shared data consistent in the presence of failures and support SMP nodes. Our scheme uses dyn...

In higher eukaryotic interphase nuclei, the 100- to >1,000-fold linear compaction of chromatin is difficult to reconcile with its function as a template for transcription, replication, and repair. It is challenging to imagine how DNA and RNA polymerases with their associated molecular machinery would move along the DNA template without transient decondensation of observed large-scale chromatin ...

This paper presents a new multivariate mapping strategy for the recently introduced Modulus Replication Residue Number System (MRRNS). This mapping allows computation over a large dynamic range using replications of extremely small rings. The technique maintains the useful features of the MRRNS, namely: the ease of input coding; the absence of a Chinese Remainder Theorem inverse mapping across ...

although the genome is defined by its primary sequence, its functional properties, are determined by far more complex mechanisms and depend on multiple layers of nuclear organization. the architecture of the nucleus includes two overlapping structures: the chromatin and a framework structure named the nuclear matrix. ultra-structural studies reveal that the nuclear matrix is a network consistin...

In order to increase availability and reliability of stateful applications, redundancy as provided by replication in cluster solutions is a wellknown and frequently utilized approach. For mobile services in dynamic ad-hoc networks, such replication mechanisms have to be adapted to deal with the frequently higher communication delays and with the intermittent connectivity. Dynamic clustering str...