Statistics of Earthquakes in Simple Models of Heterogeneous Faults

Simple models for ruptures along a heterogeneous earthquake fault zone are studied, focussing on the interplay between the roles of disorder and dynamical effects. A class of models are found to operate naturally at a critical point whose properties yield power law scaling of earthquake statistics. Various dynamical effects can change the behavior to a distribution of small events combined with characteristic system size events. The studies employ various analytic methods as well as simulations.Comment: 4 pages, RevTex, 3 figures (eps-files), uses eps

Introduction of plasmid DNA into Sneathia vaginalis; the first step to genetic manipulation

Many bacterial pathogens are capable of secreting one or more toxins, all of which can be categorized based on their function, target, or mechanism of action. Pore-forming toxins, for instance, are characterized based on their ability to perforate the host membrane. This may result in the delivery of bacterial substances into the host cell, release of compounds from the host cell, and/or death of the host cell. Research from our lab has demonstrated that Sneathia vaginalis, a gram-negative anaerobic bacterial species that is associated with bacterial vaginosis and preterm birth, produces a pore-forming toxin referred to as cytopathogenic toxin A. CptA is capable of lysing human red blood cells and permeabilizing chorionic trophoblasts and other epithelial cells. CptA appears to contribute to the traversal of Sneathia vaginalis across fetal membranes and may therefore contribute towards preterm birth and bacterial vaginosis. In order to confirm its role in fetal membrane traversal, an isogenic mutant of Sneathia vaginalis, in which the cptA gene has been functionally deleted, is needed. To accomplish this, we tested both plasmids and linear PCR products for the ability to insertionally inactivate the cptA gene. If the mutant is no longer able to traverse fetal membranes, then this will confirm that CptA is necessary for the virulence of Sneathia vaginalis.https://scholarscompass.vcu.edu/uresposters/1405/thumbnail.jp

Integrated analysis of genomic and epigenomic instability for CHO cell line engineering

Stability is an important factor in the development of cell lines for therapeutic protein production. In culture, the chromosome number and structure of Chinese Hamster Ovary (CHO) cells undergo rapid change. Over the course of cultivation, selection, and adaptation, chromosomal aberrations such as mutations, deletions, duplications, and other structural variants can accumulate. Some genomic regions may be more prone to such instability than others. When introducing exogenous genes for product formation or for engineering cell characteristics, it is critical to integrate into a stable region. A deeper understanding of the relationship between structure and stability is important for cell culture engineering. We investigated the genome stability of CHO cell lines at the macroscopic and microscopic levels, as well as from the epigenetic and genetic perspective. At the macroscopic level, we examined chromosomal and karyotypic variation, observing that the progenies of single cell clones quickly developed widely distributed variants with different numbers and types of chromosomes. However, at the population level the karyotype and chromosomal number distribution remained in a similar range. Stability at the microscopic level was analyzed using a gene-coding region focused comparative genomic hybridization (CGH) microarray, allowing us to determine genomic variations in gene copy number. With CGH data for many parent-daughter relationships, including subclones and relationships between host and producing cell lines, we identified genome segment changes that happen commonly during cell line development and subcloning. To further examine variation at the microscopic and genetic level, whole genome sequencing data of multiple CHO cell lines was used to identify structural variants, such as deletions, inversions, and duplications using the tools DELLY2 and LUMPY. Heterogeneity was present within each cell line and visible in the form of genome mosaicism. The effect of epigenetic modifications on the CHO genome was explored using the Assay for Transposase Accessible Chromatin Sequencing (ATAC-seq), which examines chromatin accessibility. ATAC-seq information was incorporated with transcriptional activity data using RNA-seq from multiple cell lines to identify inaccessible regions of the genome. This integrated systems approach combining chromosome number, karyotyping, CGH, genome sequencing, ATAC-seq, and RNA-seq gives us insight into the heterogeneity and instability of CHO cells, allowing us to identify desirable and undesirable regions for gene integration. With this data, we can select sites ideal for targeted integration of transgenes as well as screen out potentially unstable cell lines developed using random integration

Optimized Model Simulation of a Capacitated Vehicle Routing problem based on Firefly Algorithm

This paper presents an optimized solution to a capacitated vehicle routing (CVRP) model using firefly algorithm (FFA). The main objective of a CVRP is to obtain the minimum possible total travelled distance across a search space. The conventional model is a formal description involving mathematical equations formulated to simplify a more complex structure of logistic problems. These logistic problems are generalized as the vehicle routing problem (VRP). When the capacity of the vehicle is considered, the resulting formulation is termed the capacitated vehicle routing problem (CVRP). In a practical scenario, the complexity of CVRP increases when the number of pickup or drop-off points increase making it difficult to solve using exact methods. Thus, this paper employed the intelligent behavior of FFA for solving the CVRP model. Two instances of solid waste management and supply chain problems is used to evaluate the performance of the FFA approach. In comparison with particle swarm optimization and few other ascribed metaheuristic techniques for CVRP, results showed that this approach is very efficient in solving a CVRP model

On the Propagation of Slip Fronts at Frictional Interfaces

The dynamic initiation of sliding at planar interfaces between deformable and rigid solids is studied with particular focus on the speed of the slip front. Recent experimental results showed a close relation between this speed and the local ratio of shear to normal stress measured before slip occurs (static stress ratio). Using a two-dimensional finite element model, we demonstrate, however, that fronts propagating in different directions do not have the same dynamics under similar stress conditions. A lack of correlation is also observed between accelerating and decelerating slip fronts. These effects cannot be entirely associated with static local stresses but call for a dynamic description. Considering a dynamic stress ratio (measured in front of the slip tip) instead of a static one reduces the above-mentioned inconsistencies. However, the effects of the direction and acceleration are still present. To overcome this we propose an energetic criterion that uniquely associates, independently on the direction of propagation and its acceleration, the slip front velocity with the relative rise of the energy density at the slip tip.Comment: 15 pages, 6 figure

Recalibrating vision-for-action requires years after sight restoration from congenital cataracts

Being able to perform adept goal-directed actions requires predictive, feed-forward control, including a mapping between the visually estimated target locations and the motor commands reaching for them. When the mapping is perturbed, e.g., due to muscle fatigue or optical distortions, we are quickly able to recalibrate the sensorimotor system to update this mapping. Here we investigated whether early visual and visuomotor experience is essential for developing sensorimotor recalibration. To this end, we assessed young individuals deprived from pattern vision due to dense congenital bilateral cataracts, who were surgically treated for sight restoration only years after birth. We compared their recalibration performance to such distortion to that of age-matched sighted controls. Their sensorimotor recalibration performance was impaired right after surgery. This finding cannot be explained by their still lower visual acuity alone, since blurring vision in controls to a matching degree did not lead to comparable behavior. Nevertheless, the recalibration ability of cataract-treated participants gradually improved with time after surgery. Thus, the lack of early pattern vision affects visuomotor recalibration. However, this ability is not lost but slowly develops after sight restoration, highlighting the importance of sensorimotor experience gained late in life

Detection of freeze injury in oranges using magnetic resonance imaging under motion conditions

Magnetic resonance imaging (MRI) is applied for on-line inspection of fruits. The aim of this work is to address the applicability of MRI for freeze injury detection in oranges directly on a distribution chain. Undamaged and damaged oranges are conveyed at 50 and 100 mm/s by a specially designed conveyor within a 4.7 T spectrometer obtaining fast low-angle shot images. An automatic segmentation algorithm is proposed that allows the discrimination between undamaged and damaged orange

Biomolecular Ultrasound and Sonogenetics

Visualizing and modulating molecular and cellular processes occurring deep within living organisms is fundamental to our study of basic biology and disease. Currently, the most sophisticated tools available to dynamically monitor and control cellular events rely on light-responsive proteins, which are difficult to use outside of optically transparent model systems, cultured cells, or surgically accessed regions owing to strong scattering of light by biological tissue. In contrast, ultrasound is a widely used medical imaging and therapeutic modality that enables the observation and perturbation of internal anatomy and physiology but has historically had limited ability to monitor and control specific cellular processes. Recent advances are beginning to address this limitation through the development of biomolecular tools that allow ultrasound to connect directly to cellular functions such as gene expression. Driven by the discovery and engineering of new contrast agents, reporter genes, and bioswitches, the nascent field of biomolecular ultrasound carries a wave of exciting opportunities

Dark Matter in SuperGUT Unification Models

After a brief update on the prospects for dark matter in the constrained version of the MSSM (CMSSM) and its differences with models based on minimal supergravity (mSUGRA), I will consider the effects of unifying the supersymmetry-breaking parameters at a scale above M_{GUT}. One of the consequences of superGUT unification, is the ability to take vanishing scalar masses at the unification scale with a neutralino LSP dark matter candidate. This allows one to resurrect no-scale supergravity as a viable phenomenological model.Comment: 12 pages, 16 figures, To be published in the Proceedings of the 6th DSU Conference, Leon, Mexico, ed. D. Delepin

#CDCGrandRounds and #VitalSigns : A Twitter Analysis

BACKGROUND: The CDC hosts monthly panel presentations titled 'Public Health Grand Rounds' and publishes monthly reports known as Vital Signs. Hashtags #CDCGrandRounds and #VitalSigns were used to promote them on Twitter. Objectives: This study quantified the effect of hashtag count, mention count, and URL count and attaching visual cues to #CDCGrandRounds or #VitalSigns tweets on their retweet frequency. METHODS: Through Twitter Search Application Programming Interface, original tweets containing the hashtag #CDCGrandRounds (n = 6,966; April 21, 2011-October 25, 2016) and the hashtag #VitalSigns (n = 15,015; March 19, 2013-October 31, 2016) were retrieved respectively. Negative binomial regression models were applied to each corpus to estimate the associations between retweet frequency and three predictors (hashtag count, mention count, and URL link count). Each corpus was sub-set into cycles (#CDCGrandRounds: n = 58, #VitalSigns: n = 42). We manually coded the 30 tweets with the highest number of retweets for each cycle, whether it contained visual cues (images or videos). Univariable negative binomial regression models were applied to compute the prevalence ratio (PR) of retweet frequency for each cycle, between tweets with and without visual cues. FINDINGS: URL links increased retweet frequency in both corpora; effects of hashtag count and mention count differed between the two corpora. Of the 58 #CDCGrandRounds cycles, 29 were found to have statistically significantly different retweet frequencies between tweets with and without visual cues. Of these 29 cycles, one had a PR estimate < 1; twenty-four, PR > 1 but < 3; and four, PR > 3. Of the 42 #VitalSigns cycles, 19 were statistically significant. Of these 19 cycles, six were PR > 1 and < 3; and thirteen, PR > 3. Conclusions: The increase of retweet frequency through attaching visual cues varied across cycles for original tweets with #CDCGrandRounds and #VitalSigns. Future research is needed to determine the optimal choice of visual cues to maximize the influence of public health tweets