2,497 research outputs found
Towards a comprehensive open source platform for management and analysis of High Content Screening data
As High Content Screening (HCS) has moved into the main stream for biological and pharmaceutical investigations, a lag of well integrated pipelines for automated acquisition, management and analysis of HCS results turns out to be a bottleneck for fully leveraging the wealth of information contained in a screen and moving to higher throughput. For many applications, monolithic pipelines can not deliver the flexibility and versatility needed. Laboratories and scientific service providers instead usually look into integrating components from both, the open source world and the commercial software world into best-of-breed data pipelines. In this article, we will present two open source components that can be used as flexible and powerful building blocks for such a pipeline
Patients' Post-/Long-COVID Symptoms, Vaccination and Functional Status-Findings from a State-Wide Online Screening Study.
(1) Background: Better understanding of post-/long-COVID and limitations in daily life due to the symptoms as well as the preventive potential of vaccinations is required. It is unclear whether the number of doses and timepoint interrelate with the trajectory of post-/long-COVID. Accordingly, we examined how many patients positively screened with post-/long-COVID were vaccinated and whether the vaccination status and the timepoint of vaccination in relation to the acute infection were related to post-/long-COVID symptom severity and patients' functional status (i.e., perceived symptom severity, social participation, workability, and life satisfaction) over time. (2) Methods: 235 patients suffering from post-/long-COVID were recruited into an online survey in Bavaria, Germany, and assessed at baseline (T1), after approximately three weeks (T2), and approximately four weeks (T3). (3) Results: 3.5% were not vaccinated, 2.3% were vaccinated once, 20% twice, and 53.3% three times. Overall, 20.9% did not indicate their vaccination status. The timepoint of vaccination was related to symptom severity at T1, and symptoms decreased significantly over time. Being vaccinated more often was associated with lower life satisfaction and workability at T2. (4) Conclusions: This study provides evidence to get vaccinated against SARS-CoV-2, as it has shown that symptom severity was lower in those patients who were vaccinated prior to the infection compared to those getting infected prior to or at the same time of the vaccination. However, the finding that being vaccinated against SARS-CoV-2 more often correlated with lower life satisfaction and workability requires more attention. There is still an urgent necessity for appropriate treatment for overcoming long-/post-COVID symptoms efficiently. Vaccination can be part of prevention measures, and there is still a need for a communication strategy providing objective information about the usefulness and risks of vaccinations
Dynamics of Annealed Systems under External Fields: CTRW and the Fractional Fokker-Planck Equations
We consider the linear response of a system modelled by continuous-time
random walks (CTRW) to an external field pulse of rectangular shape. We
calculate the corresponding response function explicitely and show that it
exhibits aging, i.e. that it is not translationally invariant in the
time-domain. This result differs from that of systems which behave according to
fractional Fokker-Planck equations
Diverse epigenetic mechanisms maintain parental imprints within the embryonic and extraembryonic lineages
Genomic imprinting and X chromosome inactivation (XCI) require epigenetic mechanisms to encode allele-specific expression, but how these specific tasks are accomplished at single loci or across chromosomal scales remains incompletely understood. Here, we systematically disrupt essential epigenetic pathways within polymorphic embryos in order to examine canonical and non-canonical genomic imprinting as well as XCI. We find that DNA methylation and Polycomb group repressors are indispensable for autosomal imprinting, albeit at distinct gene sets. Moreover, the extraembryonic ectoderm relies on a broader spectrum of imprinting mechanisms, including non-canonical targeting of maternal endogenous retrovirus (ERV)-driven promoters by the H3K9 methyltransferase G9a. We further identify Polycomb-dependent and -independent gene clusters on the imprinted X chromosome, which appear to reflect distinct domains of Xist-mediated suppression. From our data, we assemble a comprehensive inventory of the epigenetic pathways that maintain parent-specific imprinting in eutherian mammals, including an expanded view of the placental lineage
Screening and assessment for post-acute COVID-19 syndrome (PACS), guidance by personal pilots and support with individual digital trainings within intersectoral care: a study protocol of a randomized controlled trial.
BACKGROUND: Because the clinical patterns and symptoms that persist after a COVID-19 infection are diverse, a diagnosis of post-acute COVID-19 syndrome (PACS) is difficult to implement. The current research project therefore aims to evaluate the feasibility and the practicability of a comprehensive, interdisciplinary, and cross-sectoral treatment program consisting of a low-threshold online screening and holistic assessment for PACS. Furthermore, it aims to evaluate digital interventions and the use of so-called personal guides that may help to facilitate the recovery of PACS. METHODS: This German study consists of a low-threshold online screening for PACS where positively screened participants will be supported throughout by personal pilots. The personal pilots are aimed at empowering patients and helping them to navigate through the study and different treatment options. Patients will then be randomly assigned either to an intervention group (IG) or an active control group (ACG). The IG will receive a comprehensive assessment of physiological and psychological functioning to inform future treatment. The ACG does not receive the assessment but both groups will receive a treatment consisting of an individual digital treatment program (digital intervention platform and an intervention via a chatbot). This digital intervention is based on the needs identified during the assessment for participants in the IG. Compared to that, the ACG will receive a more common digital treatment program aiming to reduce PACS symptoms. Importantly, a third comparison group (CompG) will be recruited that does not receive any treatment. A propensity score matching will take place, ensuring comparability between the participants. Primary endpoints of the study are symptom reduction and return to work. Secondary outcomes comprise, for example, social participation and activities in daily life. Furthermore, the feasibility and applicability of the online screening tool, the holistic assessment, digital trainings, and personal pilots will be evaluated. DISCUSSION: This is one of the first large-scale studies to improve the diagnosis and the care of patients with PACS by means of empowerment. It is to be evaluated whether the methods utilized can be used for the German and international population. Trial registration ClinicalTrials.gov Identifier: NCT05238415; date of registration: February 14, 2022
Linear Response in Complex Systems: CTRW and the Fractional Fokker-Planck Equations
We consider the linear response of systems modelled by continuous-time random
walks (CTRW) and by fractional Fokker-Planck equations under the influence of
time-dependent external fields. We calculate the corresponding response
functions explicitely. The CTRW curve exhibits aging, i.e. it is not
translationally invariant in the time-domain. This is different from what
happens under fractional Fokker-Planck conditions
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In vivo Firre and Dxz4 deletion elucidates roles for autosomal gene regulation
Recent evidence has determined that the conserved X chromosome mega-structurescontrolled by theFirreandDxz4loci are not required for X chromosome inactivation (XCI) in celllines. Here, we examined the in vivo contribution of these loci by generating mice carrying a singleor double deletion ofFirreandDxz4. We found that these mutants are viable, fertile and show nodefect in random or imprinted XCI. However, the lack of these elements results in manydysregulated genes on autosomes in an organ-specific manner. By comparing the dysregulatedgenes between the single and double deletion, we identified superloop, megadomain, andFirrelocus-dependent gene sets. The largest transcriptional effect was observed in all strains lacking theFirrelocus, indicating that this locus is the main driver for these autosomal expression signatures.Collectively, these findings suggest that these X-linked loci are involved in autosomal generegulation rather than XCI biology
Anomalous diffusion, Localization, Aging and Sub-aging effects in trap models at very low temperature
We study in details the dynamics of the one dimensional symmetric trap model,
via a real-space renormalization procedure which becomes exact in the limit of
zero temperature. In this limit, the diffusion front in each sample consists in
two delta peaks, which are completely out of equilibrium with each other. The
statistics of the positions and weights of these delta peaks over the samples
allows to obtain explicit results for all observables in the limit .
We first compute disorder averages of one-time observables, such as the
diffusion front, the thermal width, the localization parameters, the
two-particle correlation function, and the generating function of thermal
cumulants of the position. We then study aging and sub-aging effects : our
approach reproduces very simply the two different aging exponents and yields
explicit forms for scaling functions of the various two-time correlations. We
also extend the RSRG method to include systematic corrections to the previous
zero temperature procedure via a series expansion in . We then consider the
generalized trap model with parameter and obtain that the
large scale effective model at low temperature does not depend on in
any dimension, so that the only observables sensitive to are those
that measure the `local persistence', such as the probability to remain exactly
in the same trap during a time interval. Finally, we extend our approach at a
scaling level for the trap model in and obtain the two relevant time
scales for aging properties.Comment: 33 pages, 3 eps figure
Fluctuation-dissipation relations in trap models
Trap models are intuitively appealing and often solvable models of glassy
dynamics. In particular, they have been used to study aging and the resulting
out-of-equilibrium fluctuation-dissipation relations between correlations and
response functions. In this note I show briefly that one such relation, first
given by Bouchaud and Dean, is valid for a general class of mean-field trap
models: it relies only on the way a perturbation affects the transition rates,
but is independent of the distribution of trap depths and the form of the
unperturbed transition rates, and holds for all observables that are
uncorrelated with the energy. The model with Glauber dynamics and an
exponential distribution of trap depths, as considered by Barrat and Mezard,
does not fall into this class if the perturbation is introduced in the standard
way by shifting all trap energies. I show that a similar relation between
response and correlation nevertheless holds for the out-of-equilibrium dynamics
at low temperatures. The results point to intriguing parallels between trap
models with energetic and entropic barriers.Comment: Extended introduction and discussion of relation to results of
cond-mat/0303445. 13 pages, 2 figures, IOP styl
Face the Music and Glance: How Nonverbal Behaviour Aids Human Robot Relationships Based in Music
It is our hypothesis that improvised musical interaction will be able to provide the extended engagement often failing others during long term Human Robot Interaction (HRI) trials. Our previous work found that simply framing sessions with their drumming robot Mortimer as social interactions increased both social presence and engagement, two factors we feel are crucial to developing and maintaining a positive and meaningful relationship between human and robot. For this study we investigate the inclusion of the additional social modalities, namely head pose and facial expression, as nonverbal behaviour has been shown to be an important conveyor of information in both social and musical contexts. Following a 6 week experimental study using automatic behavioural metrics, results demonstrate those subjected to nonverbal behaviours not only spent more time voluntarily with the robot, but actually increased the time they spent as the trial progressed. Further, that they interrupted the robot less during social interactions and played for longer uninterrupted. Conversely, they also looked at the robot less in both musical and social contexts. We take these results as support for open ended musical activity providing a solid grounding for human robot relationships and the improvement of this by the inclusion of appropriate nonverbal behaviours
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