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- 1From: PLoS Computational Biology. (Vol. 7, Issue 2) Peer-ReviewedBiological systems evolved to be functionally robust in uncertain environments, but also highly adaptable. Such robustness is partly achieved by genetic redundancy, where the failure of a specific component through...
- 2From: PLoS Computational Biology. (Vol. 7, Issue 2) Peer-ReviewedPositional information in developing embryos is specified by spatial gradients of transcriptional regulators. One of the classic systems for studying this is the activation of the hunchback (hb) gene in early fruit fly...
- 3From: PLoS Computational Biology. (Vol. 7, Issue 2) Peer-ReviewedThe organization of muscle is the product of functional adaptation over several length scales spanning from the sarcomere to the muscle bundle. One possible strategy for solving this multiscale coupling problem is to...
- 4From: PLoS Computational Biology. (Vol. 7, Issue 2) Peer-ReviewedComparison of protein structures is important for revealing the evolutionary relationship among proteins, predicting protein functions and predicting protein structures. Many methods have been developed in the past to...
- 5From: PLoS Computational Biology. (Vol. 7, Issue 2) Peer-ReviewedDuring embryonic development, the positional information provided by concentration gradients of maternal factors directs pattern formation by providing spatially dependent cues for gene expression. In the fruit fly,...
- 6From: PLoS Computational Biology. (Vol. 7, Issue 2) Peer-ReviewedIf perturbing two genes together has a stronger or weaker effect than expected, they are said to genetically interact. Genetic interactions are important because they help map gene function, and functionally related...
- 7From: PLoS Computational Biology. (Vol. 7, Issue 2) Peer-ReviewedIn this paper we used a general stochastic processes framework to derive from first principles the incidence rate function that characterizes epidemic models. We investigate a particular case, the Liu-Hethcote-van den...
- 8From: PLoS Computational Biology. (Vol. 7, Issue 2) Peer-ReviewedRelatively little is known about the viral factors contributing to the lethality of the 1918 pandemic, although its unparalleled virulence was likely due in part to the newly discovered PB1-F2 protein. This protein,...
- 9From: PLoS Computational Biology. (Vol. 7, Issue 2) Peer-ReviewedDespite recent interest in reconstructing neuronal networks, complete wiring diagrams on the level of individual synapses remain scarce and the insights into function they can provide remain unclear. Even for...
- 10From: PLoS Computational Biology. (Vol. 7, Issue 2) Peer-ReviewedThe spontaneous dissociation of six small ligands from the active site of FKBP (the FK506 binding protein) is investigated by explicit water molecular dynamics simulations and network analysis. The ligands have between...
- 11From: PLoS Computational Biology. (Vol. 7, Issue 2) Peer-ReviewedA comprehensive spatio-temporal description of the tissue movements underlying organogenesis would be an extremely useful resource to developmental biology. Clonal analysis and fate mappings are popular experiments to...
- 12From: PLoS Computational Biology. (Vol. 7, Issue 2) Peer-ReviewedOncolytic adenoviruses, such as ONYX-015, have been tested in clinical trials for currently untreatable tumors, but have yet to demonstrate adequate therapeutic efficacy. The extent to which viruses infect targeted...
- 13From: PLoS Computational Biology. (Vol. 7, Issue 2) Peer-ReviewedDe novo computational design of synthetic gene circuits that achieve well-defined target functions is a hard task. Existing, brute-force approaches run optimization algorithms on the structure and on the kinetic...
- 14From: PLoS Computational Biology. (Vol. 7, Issue 2) Peer-ReviewedWe develop a unified model accounting simultaneously for the contrast invariance of the width of the orientation tuning curves (OT) and for the sigmoidal shape of the contrast response function (CRF) of neurons in the...
- 15From: PLoS Computational Biology. (Vol. 7, Issue 2) Peer-ReviewedAnimals must respond selectively to specific combinations of salient environmental stimuli in order to survive in complex environments. A task with these features, biconditional discrimination, requires responses to...
- 16From: PLoS Computational Biology. (Vol. 7, Issue 2) Peer-ReviewedViral production from infected cells can occur continuously or in a burst that generally kills the cell. For HIV infection, both modes of production have been suggested. Standard viral dynamic models formulated as sets...
- 17From: PLoS Computational Biology. (Vol. 7, Issue 2) Peer-ReviewedMitigation of a severe influenza pandemic can be achieved using a range of interventions to reduce transmission. Interventions can reduce the impact of an outbreak and buy time until vaccines are developed, but they may...
- 18From: PLoS Computational Biology. (Vol. 7, Issue 2) Peer-ReviewedThe displacement of the center-of-pressure (COP) during quiet stance has often been accounted for by the control of COP position dynamics. In this paper, we discuss the conclusions drawn from previous analyses of COP...
- 19From: PLoS Computational Biology. (Vol. 7, Issue 2) Peer-ReviewedPreamble The International Society for Computational Biology (ISCB) is dedicated to advancing human knowledge at the intersection of computation and life sciences. On behalf of the ISCB members, this public policy...
- 20From: PLoS Computational Biology. (Vol. 7, Issue 2) Peer-ReviewedThe current standard of care for hepatitis C virus (HCV) infection--combination therapy with pegylated interferon and ribavirin--elicits sustained responses in only ~50% of the patients treated. No alternatives exist...