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- Search Terms:ISSN: 1553734XAndISSN: 15537358AndVolume Number: 9AndIssue Number: 5AndStart Page: e1003042AndDate: 2013 Revise Search
- 1From: PLoS Computational Biology. (Vol. 9, Issue 5) Peer-ReviewedWe consider a world of nucleotide sequences and protocells. The sequences have the property of spontaneous selfreplication. Some sequences--so-called replicases--have enzymatic activity in the sense of enhancing the...
- 2From: PLoS Computational Biology. (Vol. 9, Issue 5) Peer-ReviewedTranscript degradation is a widespread and important mechanism for regulating protein abundance. Two major regulators of transcript degradation are RNA Binding Proteins (RBPs) and microRNAs (miRNAs). We computationally...
- 3From: PLoS Computational Biology. (Vol. 9, Issue 5) Peer-ReviewedBacterial whole genome sequencing offers the prospect of rapid and high precision investigation of infectious disease outbreaks. Close genetic relationships between microorganisms isolated from different infected cases...
- 4From: PLoS Computational Biology. (Vol. 9, Issue 5) Peer-ReviewedIt is acknowledged that some obesity trajectories are set early in life, and that rapid weight gain in infancy is a risk factor for later development of obesity. Identifying modifiable factors associated with early...
- 5From: PLoS Computational Biology. (Vol. 9, Issue 5) Peer-ReviewedDistinguishing the somatic mutations responsible for cancer (driver mutations) from random, passenger mutations is a key challenge in cancer genomics. Driver mutations generally target cellular signaling and regulatory...
- 6From: PLoS Computational Biology. (Vol. 9, Issue 5) Peer-ReviewedA central issue in developmental biology is to uncover the mechanisms by which stem cells maintain their capacity to regenerate, yet at the same time produce daughter cells that differentiate and attain their ultimate...
- 7From: PLoS Computational Biology. (Vol. 9, Issue 5) Peer-ReviewedThe ongoing functional annotation of proteins relies upon the work of curators to capture experimental findings from scientific literature and apply them to protein sequence and structure data. However, with the...
- 8From: PLoS Computational Biology. (Vol. 9, Issue 5) Peer-ReviewedVisual neuroscientists have discovered fundamental properties of neural representation through careful analysis of responses to controlled stimuli. Typically, different properties are studied and modeled separately. To...
- 9From: PLoS Computational Biology. (Vol. 9, Issue 5) Peer-ReviewedThe annual Rocky Mountain Conference on Bioinformatics, better known just as "Rocky," celebrated its tenth meeting in 2012. Rocky has a unique approach in bioinformatics, bringing attention to new scientists and working...
- 10From: PLoS Computational Biology. (Vol. 9, Issue 5) Peer-ReviewedSelective sweeps are at the core of adaptive evolution. We study how the shape of coalescent trees is affected by recent selective sweeps. To do so we define a coarse-grained measure of tree topology. This measure has...
- 11From: PLoS Computational Biology. (Vol. 9, Issue 5) Peer-ReviewedFor many infectious disease processes such as emerging zoonoses and vaccine-preventable diseases, 0< [R.sub.0] <1 and infections occur as self-limited stuttering transmission chains. A mechanistic understanding of...
- 12From: PLoS Computational Biology. (Vol. 9, Issue 5) Peer-ReviewedBird songs range in form from the simple notes of a Chipping Sparrow to the rich performance of the nightingale. Nonadjacent correlations can be found in the syntax of some birdsongs, indicating that the choice of what...
- 13From: PLoS Computational Biology. (Vol. 9, Issue 5) Peer-ReviewedMendelian disorders are often caused by mutations in genes that are not lethal but induce functional distortions leading to diseases. Here we study the extent of gene duplicates that might compensate genes causing...
- 14From: PLoS Computational Biology. (Vol. 9, Issue 5) Peer-ReviewedUsing molecular dynamics simulations, we show that the prion protein (PrP) exhibits a dual behavior, with two possible transition routes, upon protonation of H187 around pH 4.5, which mimics specific conditions...
- 15From: PLoS Computational Biology. (Vol. 9, Issue 5) Peer-ReviewedNitric oxide (NO *) is generated by the innate immune response to neutralize pathogens. NO * and its autoxidation products have an extensive biochemical reaction network that includes reactions with iron-sulfur...
- 16From: PLoS Computational Biology. (Vol. 9, Issue 5) Peer-ReviewedRiboswitches sense cellular concentrations of small molecules and use this information to adjust synthesis rates of related metabolites. Riboswitches include an aptamer domain to detect the ligand and an expression...
- 17From: PLoS Computational Biology. (Vol. 9, Issue 5) Peer-ReviewedThe HIV-1 envelope (Env) spike, which consists of a compact, heterodimeric trimer of the glycoproteins gp120 and gp41, is the target of neutralizing antibodies. However, the high mutation rate of HIV-1 and plasticity of...
- 18From: PLoS Computational Biology. (Vol. 9, Issue 5) Peer-ReviewedFocal degradation of extracellular matrix (ECM) is the first step in the invasion of cancer cells. MT1-MMP is a potent membrane proteinase employed by aggressive cancer cells. In our previous study, we reported that...
- 19From: PLoS Computational Biology. (Vol. 9, Issue 5) Peer-ReviewedThe mechanosensitive channel of large conductance (MscL) is capable of transducing mechanical stimuli such as membrane tension into an electrochemical response. MscL provides a widely-studied model system for...
- 20From: PLoS Computational Biology. (Vol. 9, Issue 5) Peer-ReviewedAlthough bubonic plague is an endemic zoonosis in many countries around the world, the factors responsible for the persistence of this highly virulent disease remain poorly known. Classically, the endemic persistence of...