Optical Methods

Equilibrium optical melting curves are used in this unit to determine thermodynamic parameters of nucleic acid complex formation. This section contains all of the relevant equations and a discussion of which are most appropriate to a given situation. Additionally, procedures are given for making preliminary determinations of molar extinction coefficients and for determining the number of oligonucleotides in a complex. The section on extinction coefficients is particularly essential to anyone needing to know solution concentrations.Peer Reviewedhttps://deepblue.lib.umich.edu/bitstream/2027.42/143743/1/cpnc0703.pd

Vlasov versus N-body: the H\'enon sphere

We perform a detailed comparison of the phase-space density traced by the particle distribution in Gadget simulations to the result obtained with a spherical Vlasov solver using the splitting algorithm. The systems considered are apodized H\'enon spheres with two values of the virial ratio, R ~ 0.1 and 0.5. After checking that spherical symmetry is well preserved by the N-body simulations, visual and quantitative comparisons are performed. In particular we introduce new statistics, correlators and entropic estimators, based on the likelihood of whether N-body simulations actually trace randomly the Vlasov phase-space density. When taking into account the limits of both the N-body and the Vlasov codes, namely collective effects due to the particle shot noise in the first case and diffusion and possible nonlinear instabilities due to finite resolution of the phase-space grid in the second case, we find a spectacular agreement between both methods, even in regions of phase-space where nontrivial physical instabilities develop. However, in the colder case, R=0.1, it was not possible to prove actual numerical convergence of the N-body results after a number of dynamical times, even with N=10$^8$ particles.Comment: 19 pages, 11 figures, MNRAS, in pres

Nonlinear Elasticity of Single Collapsed Polyelectrolytes

Nonlinear elastic responses of short and stiff polyelectrolytes are investigated by dynamic simulations on a single molecule level. When a polyelectrolyte condensate undergoes a mechanical unfolding, two types of force-extension curves, i.e., a force plateau and a stick-release pattern, are observed depending on the strength of the electrostatic interaction. We provide a physical interpretation of such force-extension behavior in terms of intramolecular structures of the condensates. We also describe a charge distribution of condensed counterions onto a highly stretched polyelectrolyte, which clarifies a formation of one-dimensional strongly correlated liquid at large Coulomb coupling regime where a stick-release pattern is observed. These findings may provide significant insights into the relationship between a molecular elasticity and a molecular mechanism of like-charge attractions observed in a wide range of charged biopolymer systems.Comment: 5pages, 5figure

Fate of the H-NS-Repressed bgl Operon in Evolution of Escherichia coli

In the enterobacterial species Escherichia coli and Salmonella enterica, expression of horizontally acquired genes with a higher than average AT content is repressed by the nucleoid-associated protein H-NS. A classical example of an H-NS-repressed locus is the bgl (aryl-beta,D-glucoside) operon of E. coli. This locus is "cryptic,'' as no laboratory growth conditions are known to relieve repression of bgl by H-NS in E. coli K12. However, repression can be relieved by spontaneous mutations. Here, we investigated the phylogeny of the bgl operon. Typing of bgl in a representative collection of E. coli demonstrated that it evolved clonally and that it is present in strains of the phylogenetic groups A, B1, and B2, while it is presumably replaced by a cluster of ORFans in the phylogenetic group D. Interestingly, the bgl operon is mutated in 20% of the strains of phylogenetic groups A and B1, suggesting erosion of bgl in these groups. However, bgl is functional in almost all B2 isolates and, in approximately 50% of them, it is weakly expressed at laboratory growth conditions. Homologs of bgl genes exist in Klebsiella, Enterobacter, and Erwinia species and also in low GC-content Gram-positive bacteria, while absent in E. albertii and Salmonella sp. This suggests horizontal transfer of bgl genes to an ancestral Enterobacterium. Conservation and weak expression of bgl in isolates of phylogenetic group B2 may indicate a functional role of bgl in extraintestinal pathogenic E. coli

2-methylene-(20S,25S)-19,27-dinor-(22E)-vitamin D analogs

This invention discloses 2-methylene-(20S,25S)-19,27-dinor-(22E)-vitamin D analogs, and specifically 2-methylene-(20S,25S)-19,27-dinor-(22E)-1.alpha.,25-dihydroxyvitamin D.sub.3, and pharmaceutical uses therefor. This compound exhibits pronounced activity in arresting the proliferation of undifferentiated cells and inducing their differentiation to the monocyte thus evidencing use as an anti-cancer agent and for the treatment of skin diseases such as psoriasis as well as skin conditions such as wrinkles, slack skin, dry skin and insufficient sebum secretion. This compound also has little, if any, calcemic activity and therefore may be used to treat autoimmune disorders or inflammatory diseases in humans as well as renal osteodystrophy. This compound may also be used for the treatment or prevention of obesity

Fetal Environment and Schizophrenia

Schizophrenia and related disorders are adult-onset illnesses with no definitively established risk factors. Several studies report that exposures to infection and nutritional deprivation during early development may elevate the risk of later developing schizophrenia, specifically during the prenatal period. Preliminary evidence implicates lead exposure as well, suggesting that chemical exposures during early development may constitute a new class of risk factors for schizophrenia that has not been adequately investigated. Exposure to lead is given as an example of a chemical agent for which some effects have been described throughout the life course on both general neurodevelopmental outcomes and now on a specific psychiatric diagnosis. Findings from prospectively collected birth cohorts are offered as examples of both innovations in methodology and opportunities for future generations of investigators

Rationale and Development of a Security Assurance Index with Application toward the Development of a World Risk Index

Assurance categories were previously developed to support the Department of Homeland Security’s efforts in the mitigation of Cyber Control System events. Defined according to the risk of life and economic loss, the minimum range is designated by policy, whereas the maximum limit seems to be constrained only by limits and interdependencies of the event. Use of this life / assets scale has proven to be helpful in managing risk due to the scale's ease of use, communication, and understanding. Suggestions have been made that this scale could be applied to all events of terror, disaster, and calamity of an international scale, with equally good results. This paper presents the history of some existing scales of disaster and assurance, the rationale behind the development of the original Security Assurance Index, and our proposed scale of disaster and calamity as a World Risk Index