Prolonging assembly through dissociation:A self assembly paradigm in microtubules

We study a one-dimensional model of microtubule assembly/disassembly in which GTP bound to tubulins within the microtubule undergoes stochastic hydrolysis. In contrast to models that only consider a cap of GTP-bound tubulin, stochastic hydrolysis allows GTP-bound tubulin remnants to exist within the microtubule. We find that these buried GTP remnants enable an alternative mechanism of recovery from shrinkage, and enhances fluctuations of filament lengths. Under conditions for which this alternative mechanism dominates, an increasing depolymerization rate leads to a decrease in dissociation rate and thus a net increase in assembly.Comment: accepted for publication in Physical Review

Why Do Cascade Sizes Follow a Power-Law?

We introduce random directed acyclic graph and use it to model the information diffusion network. Subsequently, we analyze the cascade generation model (CGM) introduced by Leskovec et al. [19]. Until now only empirical studies of this model were done. In this paper, we present the first theoretical proof that the sizes of cascades generated by the CGM follow the power-law distribution, which is consistent with multiple empirical analysis of the large social networks. We compared the assumptions of our model with the Twitter social network and tested the goodness of approximation.Comment: 8 pages, 7 figures, accepted to WWW 201

Novel steady state of a microtubule assembly in a confined geometry

We study the steady state of an assembly of microtubules in a confined volume, analogous to the situation inside a cell where the cell boundary forms a natural barrier to growth. We show that the dynamical equations for growing and shrinking microtubules predict the existence of two steady states, with either exponentially decaying or exponentially increasing distribution of microtubule lengths. We identify the regimes in parameter space corresponding to these steady states. In the latter case, the apparent catastrophe frequency near the boundary was found to be significantly larger than that in the interior. Both the exponential distribution of lengths and the increase in the catastrophe frequency near the cell margin is in excellent agreement with recent experimental observations.Comment: 8 pages, submitted to Phys. Rev.

Studies of the conformation of pyridine nucleotide coenzymes. 1 - Ord spectra and hypochromicity of NADH

Optical properties, fluorescence, and absorption spectra of reduced nicotinamide adenine dinucleotid

A continuous model for microtubule dynamics with catastrophe, rescue and nucleation processes

Microtubules are a major component of the cytoskeleton distinguished by highly dynamic behavior both in vitro and in vivo. We propose a general mathematical model that accounts for the growth, catastrophe, rescue and nucleation processes in the polymerization of microtubules from tubulin dimers. Our model is an extension of various mathematical models developed earlier formulated in order to capture and unify the various aspects of tubulin polymerization including the dynamic instability, growth of microtubules to saturation, time-localized periods of nucleation and depolymerization as well as synchronized oscillations exhibited by microtubules under various experimental conditions. Our model, while attempting to use a minimal number of adjustable parameters, covers a broad range of behaviors and has predictive features discussed in the paper. We have analyzed the resultant behaviors of the microtubules changing each of the parameter values at a time and observing the emergence of various dynamical regimes.Comment: 25 pages, 12 figure

Collaborative virtual 3D environment for internet-accessible physics experiments

Immersive 3D worlds have increasingly raised the interest of researchers and practitioners for various learning and training settings over the last decade. These virtual worlds can provide multiple communication channels betweeen users and improve presence and awareness in the learning process. Consequently virtual 3D environments facilitate collaborative learning and training scenarios. In this paper we focus on the integration of internet-accessible physics experiments (iLabs) combined with the TEALsim 3D simulation toolkit in project Wonderland, Sun's toolkit for creating collaborative 3D virtual worlds. Within such a collaborative environment these tools provide the opportunity for teachers and students to work together as avatars as they control actual equipment, visualize physical phenomenon generated by the experiment, and discuss the results. In particular we will outline the steps of integration, future goals, as well as the value of a collaboration space in Wonderland's virtual world

A systematic review of methods to predict weight trajectories in health economic models of behavioral weight management programs : the potential role of psychosocial factors

Objectives. There is limited evidence on the long-term effectiveness of behavioral weight management interventions, and thus, when conducting health economic modeling, assumptions are made about weight trajectories. The aims of this review were to examine these assumptions made about weight trajectories, the evidence sources used to justify them, and the impact of assumptions on estimated cost-effectiveness. Given the evidence that some psychosocial variables are associated with weight-loss trajectories, we also aimed to examine the extent to which psychosocial variables have been used to estimate weight trajectories and whether psychosocial variables were measured within cited evidence sources. Methods. A search of databases (Medline, PubMed, Cochrane, NHS Economic Evaluation, Embase, PSYCinfo, CINAHL, EconLit) was conducted using keywords related to overweight, weight management, and economic evaluation. Economic evaluations of weight management interventions that included modeling beyond trial data were included. Results. Within the 38 eligible articles, 6 types of assumptions were reported (weight loss maintained, weight loss regained immediately, linear weight regain, subgroup-specific trajectories, exponential decay of effect, maintenance followed by regain). Fifteen articles cited at least 1 evidence source to support the assumption reported. The assumption used affected the assessment of cost-effectiveness in 9 of the 19 studies that tested this in sensitivity analyses. None of the articles reported using psychosocial factors to estimate weight trajectories. However, psychosocial factors were measured in evidence sources cited by 11 health economic models. Conclusions. Given the range of weight trajectories reported and the potential impact on funding decisions, further research is warranted to investigate how psychosocial variables measured in trials can be used within health economic models to simulate heterogeneous weight trajectories and potentially improve the accuracy of cost-effectiveness estimates

A modified version of the Bayley Scales of Infant Development-II for cognitive matching of infants with and without Down syndrome

Background Many measures of infants' early cognitive development, including the BSID-II (The Bayley Scales of Infant Development), mix together test items that assess a number of different developmental domains including language, attention, motor functioning and social abilities, and some items contribute to the assessment of more than one domain. Consequently, the scales may lead to under- or over-estimates of cognitive abilities in some clinical samples and may not be the best measure to use for matching purposes. Method To address this issue we created a modified form of the BSID-II (the BSID-M) to provide a ‘purer’ assessment of the general cognitive capacities in infants with Down syndrome (DS) from 6 to 18 months of age. We excluded a number of items that implicated language, motor, attentional and social functioning from the original measure. This modified form was administered to 17 infants with Down syndrome when 6, 12 and 18 months old and to 41 typically developing infants at 4, 7 and 10 months old. Results The results suggested that the modified form continued to provide a meaningful and stable measure of cognitive functioning and revealed that DS infants may score marginally higher in terms of general cognitive abilities when using this modified form than they might when using the standard BSID-II scales. Conclusions This modified form may be useful for researchers who need a ‘purer’ measure with which to match infants with DS and other infants with intellectual disabilities on cognitive functioning

Does Medial Overhang of the Greater Trochanter Influence Femoral Stem Position During Cemented Hip Arthroplasty? A Retrospective Radiological Review

Purpose We investigate the effect that variation in the anatomy of the greater trochanter (GT), in particular the medial overhang, can have on femoral stem alignment in total hip arthroplasty (THA). Methods Pre- and post-operative anteroposterior pelvic radiographs of 576 consecutive patients undergoing THA were retrospectively analysed. Medial overhang of the GT relative to the lateral femur diaphysis was measured. The femoral morphology was classified according to Dorr classification. The alignment of the femoral stem axes on post-operative radiographs was recorded. Results Following exclusions, 500 THAs performed by six surgeons all using the same cemented polish tapered stems were analysed: 320 THAs were performed via the posterior-lateral approach and 180 via the direct-lateral approach. Mean stem varus was 0.53° (range: -7 to 7°). Mean medial overhang was 21 mm (range: 8-43 mm). An overhang of 30 mm had a mean varus of 2.33°. Those with an overhang of 30 mm. One-way analysis of variance comparison of these groups returned a p-value of <0.0001. Dorr type A femora had a mean varus of 0.52°, Dorr B had a mean varus of 0.54° and Dorr C had a mean varus of 0.46°. The posterior-lateral approach had a mean varus of 1.05° (range: -7 to 7°) compared to -0.40° (range: -5 to 5°) for direct-lateral approach. The t-test comparing approach was p < 0.0001. Discussion The extent of medial overhang of the GT can adversely affect the final stem position in THA, resulting in a statistically significant increase in mean stem varus. There is a linear relationship between stem position and GT overhang, with an increased chance of significant varus malposition (44.4% with >30 mm of overhang). Conclusions Scrutiny of pre-operative radiographs to determine high-risk patients is important, and we propose a classification system of GT anatomy to aid assessment