5,075 research outputs found

    ChromatoShiny: an interactive R/Shiny App for plotting chromatography profiles [version 2; peer review: 2 approved]

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    BackgroundUnicorn‚ĄĘ software on √Ąkta liquid chromatography instruments outputs chromatography profiles of purified biological macromolecules. While the plots generated by the instrument software are very helpful to inspect basic chromatogram properties, they lack a range of useful annotation, customization and export options.MethodsWe use the R Shiny framework to build an interactive app that facilitates the interpretation of chromatograms and the generation of figures for publications.ResultsThe app allows users to fit a baseline, to highlight selected fractions and elution volumes inside or under the plot (e.g. those used for downstream biochemical/biophysical/structural analysis) and to zoom into the plot. The app is freely available at https://ChromatoShiny.bio.ed.ac.uk.ConclusionsIt requires no programming experience, so we anticipate that it will enable chromatography users to create informative, annotated chromatogram plots quickly and simply.FPLC instruments used to purify macromolecules output the UV intensity values over the elution volume. However, the software used with these instruments is not usually used to generate the figures for publication. To facilitate the analysis of chromatograms and generation of publication figures, we developed a web app which is possible to use without programming skills. The app is working on √Ąkta .txt files and is able to fit a baseline, to highlight fractions on and under the plot and to zoom into the plot. The app is designed for √Ąkta instruments, but the data from other softwares can be entered in the provided template and plotted accordingly. The app is well suited for plotting many similar plots. The plots can be downloaded in various formats. The app is equipped with instructions and has a user friendly interface. We hope that the app will become a helpful tool for displaying chromatograms from various FPLC softwares

    EWOCS-I: The catalog of X-ray sources in Westerlund 1 from the Extended Westerlund 1 and 2 Open Clusters Survey

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    International audienceContext. With a mass exceeding several 10^4 solar masses and a rich and dense population of massive stars, supermassive young star clusters represent the most massive star-forming environment that is dominated by the feedback from massive stars and gravitational interactions among stars. Aims. In this paper we present the "Extended Westerlund 1 and 2 Open Clusters Survey" (EWOCS) project, which aims to investigate the influence of the starburst environment on the formation of stars and planets, and on the evolution of both low and high mass stars. The primary targets of this project are Westerlund 1 and 2, the closest supermassive star clusters to the Sun. Methods. The project is based primarily on recent observations conducted with the Chandra and JWST observatories. Specifically, the Chandra survey of Westerlund 1 consists of 36 new ACIS-I observations, nearly co-pointed, for a total exposure time of 1 Msec. Additionally, we included 8 archival Chandra/ACIS-S observations. This paper presents the resulting catalog of X-ray sources within and around Westerlund 1. Sources were detected by combining various existing methods, and photon extraction and source validation were carried out using the ACIS-Extract software. Results. The EWOCS X-ray catalog comprises 5963 validated sources out of the 9420 initially provided to ACIS-Extract, reaching a photon flux threshold of approximately 2x10^-8 photons/cm^2/s. The X-ray sources exhibit a highly concentrated spatial distribution, with 1075 sources located within the central 1 arcminute. We have successfully detected X-ray emissions from 126 out of the 166 known massive stars of the cluster, and we have collected over 71000 photons from the magnetar CXO J164710.20-45521

    Search for diphoton resonances in the mass range from 150 to 850 GeV in pp collisions at root s=8 TeV

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    Results are presented of a search for heavy particles decaying into two photons. The analysis is based on a 19.7 fb(-1) sample of proton-proton collisions at root s = 8 TeV collected with the CMS detector at the CERN LHC. The diphoton mass spectrum from 150 to 850 GeV is used to search for an excess of events over the background. The search is extended to new resonances with natural widths of up to 10% of the mass value. No evidence for new particle production is observed and limits at 95% confidence level on the production cross section times branching fraction to diphotons are determined. These limits are interpreted in terms of two-Higgs-doublet model parameters. (C) 2015 CERN for the benefit of the CMS Collaboration. Published by Elsevier B.V

    Pectin-based aerogel particles for drug delivery: Effect of pectin composition on aerogel structure and release properties

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    In this work, nanostructured pectin aerogels were prepared via a sol-gel process and subsequent drying under supercritical conditions. To this end, three commercially available citrus pectins and an in-house produced and enzymatically modified watermelon rind pectin (WRP) were compared. Then, the effect of pectin's structure and composition on the aerogel properties were analysed and its potential application as a delivery system was explored by impregnating them with vanillin. Results showed that the molecular weight, degree of esterification and branching degree of the pectin samples played a main role in the production of hydrogels and subsequent aerogels. The developed aerogel particles showed high specific surface areas (468-584¬†m2/g) and low bulk density (0.025-0.10¬†g/cm3). The shrinkage effect during aerogel formation was significantly affected by the pectin concentration and structure, while vanillin loading in aerogels and its release profile was also seen to be influenced by the affinity between pectin and vanillin. Furthermore, the results highlight the interest of WRP as a carrier of active compounds which might have potential application in food and biomedical areas, among others.The projects RTI2018-094268-B-C22 and CEX2021-001189-S were funded by MCIN/AEI/10.13039/501100011033 and by ‚ÄúERDF A way of making Europe‚ÄĚ. Project INNEST/2021/27 was granted by Agencia Valenciana de Innovaci√≥n (AVI) and co-financed by the European Union through the Operative Programme of FEDER from Comunitat Valenciana 2014‚Äď2020.With funding from the Spanish government through the ‚ÄėSevero Ochoa Centre of Excellence‚Äô accreditation (CEX2021-001189-S)Peer reviewe

    Simultaneous Inhibition of Ceramide Hydrolysis and Glycosylation Synergizes to Corrupt Mitochondrial Respiration and Signal Caspase Driven Cell Death in Drug-Resistant Acute Myeloid Leukemia

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    Acute myelogenous leukemia (AML), the most prevalent acute and aggressive leukemia diagnosed in adults, often recurs as a difficult-to-treat, chemotherapy-resistant disease. Because chemotherapy resistance is a major obstacle to successful treatment, novel therapeutic intervention is needed. Upregulated ceramide clearance via accelerated hydrolysis and glycosylation has been shown to be an element in chemotherapy-resistant AML, a problem considering the crucial role ceramide plays in eliciting apoptosis. Herein we employed agents that block ceramide clearance to determine if such a "reset" would be of therapeutic benefit. SACLAC was utilized to limit ceramide hydrolysis, and D-threo-1-phenyl-2-decanoylamino-3-morpholino-1-propanol (D-threo-PDMP) was used to block the glycosylation route. The SACLAC D-threo-PDMP inhibitor combination was synergistically cytotoxic in drug-resistant, P-glycoprotein-expressing (P-gp) AML but not in wt, P-gp-poor cells. Interestingly, P-gp antagonists that can limit ceramide glycosylation via depression of glucosylceramide transit also synergized with SACLAC, suggesting a paradoxical role for P-gp in the implementation of cell death. Mechanistically, cell death was accompanied by a complete drop in ceramide glycosylation, concomitant, striking increases in all molecular species of ceramide, diminished sphingosine 1-phosphate levels, resounding declines in mitochondrial respiratory kinetics, altered Akt, pGSK-3ő≤, and Mcl-1 expression, and caspase activation. Although ceramide was generated in wt cells upon inhibitor exposure, mitochondrial respiration was not corrupted, suggestive of mitochondrial vulnerability in the drug-resistant phenotype, a potential therapeutic avenue. The inhibitor regimen showed efficacy in an in vivo model and in primary AML cells from patients. These results support the implementation of SL enzyme targeting to limit ceramide clearance as a therapeutic strategy in chemotherapy-resistant AML, inclusive of a novel indication for the use of P-gp antagonists.This work was supported by grants from the National Institutes of Health (National Cancer Institute NIH P01 CA171983 (T.P.L., M.K., M.C.C.), DOD-W81XWH-19-1-0213 (K.H.F.-W.), Spanish Ministry of Science and Innovation PID2020-113813RB-100 (G.F.), and the Brody Brothers Foundation (K.H.F.-W.), Kinston, NC.Peer reviewe

    Search for W ' decaying to tau lepton and neutrino in proton-proton collisions at root s=8 TeV