fairdataihub/poster-sentry-training-data huggingface dataset:
The growth-predation risk trade-off in bivalves and fish Daniel van Denderen, Jelle Zandveld, Joost van den Heuvel Introduction Bivalves and teleost fish produce offspring of a constant size. This implies that individuals at early life stages in each group share the same prey and predators, whereas mature individuals may vary in size and ecological niche. Previous work has shown that fish growth is largely invariable of adult size, whereas bivalves show a strong increase in somatic growth with adult size. The reason for this difference between species groups is unclear. In this study, we develop a generic life- history optimization model to examine how growth variation with adult size may originate. THE UNIVERSITY Of RHODE ISLAND GRADUATE SCHOOL OF OCEANOGEAPHY pdvd@aqua.dtu.dk Adapted from Denechere et al. 2022 Hypothesis The size- and feeding-dependent mortality risk of predation varies between teleost fish and bivalves. Large bivalve species will tend to prioritize growth to reach large sizes quickly and outgrow a high predation mortality. Consumption of prey Losses Growth (g) Reproduction (1-g) pEW0.75 – kW1 M = mb + mcWms ∙ p Background mortality Size-based mortality Scalar of energy acquisition Generic life-history optimization model. Using dynamic programming, we determine which allocation pattern and feeding rate maximizes lifetime reproduction. Parameter g and p are optimized. k, mc and ms are varied. E is set to 1. pE is equal to growth coefficient A [g1/4yr-1] Method Mortality Results The exponent that describes size-based predation shifts the relation between the growth coefficient A and adult size. The “red” strategy increases investments in feeding with adult size. The “blue” strategy keeps the investments in feeding more constant with adult size. Juvenile mortality is highest for the “blue” strategy. Conclusion The results confirm the hypothesis that size- and feeding- dependent mortality risk may be the driver of variation of growth coefficient A with adult size between fish and bivalves. Contrary to expectations, large bivalve species have less opportunity to outgrow predation mortality than fish.
Myriophyllum aquaticum Penița apei Familia Haloragaceae, Clasa Magnoliopsida Plantă perenă acvatică care formează mase dense de tulpini maronii (rizomi) împletite în apă. Rizomii funcționează ca o structură de sprijin pentru rădăcinile adventive și asigură ﬂotabilitate pentru creșterea emergentă din timpul verii. Tulpinile și frunzele emergente se extind de la câțiva zeci de centimetri deasupra suprafeței apelor. Tulpina are 40-90 cm lungime, ﬂexibilă, cilindrică, fără perișori și de culoare verde. Frunzele submerse sunt rotunjite la vârf, iar frunzele emergente sunt glauce și cu vârf scurt apiculat. Florile sunt situate în axilele frunzelor emergente superioare; sunt unisexuate. Florile bărbă- tești la început sunt sesile, iar în anteză au pediceli de până la 4 mm lungime; petalele sunt în număr de patru, de culoare galbenă, stamine în număr de 8. Florile femeiești au patru sepale albe, patru stile cu stigmate albe, dens ﬁmbriate și un ovar piriform (Arshid et al. 2016). De obicei, înﬂorește primăvara, dar unele plante pot înﬂori și toamna. Foto credit: https://www.web.forumacvarist.ro/myriophyllum-aquaticum/ ; https://garden.org/plants/view/77877/Parrot-Feather-Myriophyllum-aquaticum/ Flori Specie de interes pentru UE
Translational Advances in Stem Cells for Diabetes Symposium | Minaretein, Education City, Doha, Qatar | March 8-9, 2023 Uhrf1 regulates adipogenesis through GPNMB mediated TGFBeta axis Background: The increased prevalence of obesity has led to a concomitant increase in the incidence of type 2 diabetes (T2D). Obesity-linked inflammation is the major cause of insulin resistance, contributing to the onset of T2D. Therefore, understanding the cellular mechanisms responsible for adipogenesis, the conversion of preadipocytes to adipocytes, is critical for identifying anti-diabetic therapeutic targets. Uhrf1 is a key epigenetic regulator that coordinates DNA methylation and histone modifications; however, the function of Uhrf1 in metabolic diseases is not known. Objective: Therefore, here, we aimed to understand the role of Uhrf1 in adipogenesis by studying Uhrf1 loss of function cells. Methods: We performed CRISPR/ Cas9 and shRNA-mediated gene silencing in addition to whole transcriptomics analysis on Uhrf1 KO cells. Results: We identified altered molecular and cellular pathways indicating that Uhrf1 is a critical factor required for adipocyte metabolism, and in its absence, cells exhibit adipocyte dysfunctions with higher levels of inflammatory markers. Conclusion: Our results highlight the possibility of Uhrf1 and its targets to have clinical applications in obesity and T2D treatment. Muneera Vakayil1,2, Aisha Madani1, Yasser Majeed1, and Nayef Mazloum1 1. Weill Cornell Medicine-Qatar, Doha, Qatar; 2. Hamad Bin Khalifa University, Qatar Foundation, Doha, Qatar.
Genomics tools at your service Australian BioCommons provides bioinformatics tools that researchers ask for. We offer fully subsidised access to a range of services for Australian researchers. Galaxy Australia Genome Lab The simple web interface of Galaxy Australia opens up over 1,500 bioinformatics tools and 350 workflows to researchers - with no requirement for command line skills. Galaxy Australia’s Genome Lab provides quick access to ready-made workflows and powerful computation, and is complemented by the personalised support that you’d expect from a national service. Data preparation Genome assembly Genome annotation For more information about Galaxy Australia and the partnerships that make the Genome Lab possible, please visit usegalaxy.org.au
Expert Resources & Support for Data Management Planning Carly Strasser & Patricia Cruse carly.strasser@ucop.edu | patricia.cruse@ucop.edu In brief: Many funding agencies require data management plans (DMP) as part of grant proposals. The DMPTool helps institutions & researchers to create high-­‐quality DMPs that meet funder requirements. The DMPTool collaboration has two grant-­‐funded projects underway: 1. Support from the Alfred P. Sloan Foundation to expand functionality and release a second version of the tool 2. Support from the Institute of Museum and Library Services to provide librarians with information to better integrate the DMPTool into their services. What is the DMPTool? Coming soon: DMPTool2 Free step-­‐by-­‐step web application for creating data management plans for funders Founding partners: DataONE; Digital Curation Centre; Smithsonian Institution; UC Curation Center, California Digital Library; UCLA Library; UC San Diego Libraries; University of Illinois; University of Virginia Libraries General & institution-­‐ speciﬁc resources Funder-­‐provided information & plan outline Suggested answers & help text Space to answer questions Log in with institution credentials dmptool.org blog.dmptool.org bitbucket.org/dmptool/main @TheDMPTool For administrators: • Better plan template granularity (discipline, funder, question) • Better institution granularity (department, college, lab group, …) • Role-­‐based user authorization & access • Enhanced search and browse of plans • Access to metrics for reporting & follow-­‐up For plan creators: • DMP life cycle management • Collaborative plan creation • Role-­‐based user authorization & access • Better plan templates & resources Plus… • Institutional branding • Open API website blog resources twitter Learn More
DE German Reproducibility Network The German Reproducibility Network (GRN) What is it and why is it worth joining? What is the GRN? • Peer-led cross-disciplinary consortium, which aims to foster reproducibility, trustworthiness and openess of scientific research on a national level • Activities: – Promotion of training and education on open science practices – Bringing stakeholders together – Various exchange formats (e.g. virtual brainstorming events, workshops) • Founded on February 1, 2021 • 42 members (as of July 2023) – 33 local reproducibility initiatives – 5 research institutions – 2 academic societies Why is it worth joining? • Signal institutional commitment to open science and reproducible research • Initiate strategic discussion on open science and reproducibility of research at the institution. • Collaborate with local reproducibility initiatives • Support researchers from your own institution with materials from network partners • Take advantage of a wide range of exchange and networking opportunities How can we join the GRN? • Check conditions for membership • How to join – For reproducibility initiatives: Informal application – For research institutions: Development of a research improvement strategy & create a senior academic role with responsibility for promoting quality, robustness and transparency of research + Memorandum of Understanding – For academic societies: Memorandum of Understanding • More information: https://reproducibilitynetwork.de/join Keep in touch https://reproducibilitynetwork.de @GermanRepro@mastodon.world @GermanRepro info@reproducibilitynetwork.de Subscribe to our mailing list: grn@lists.lrz.de Antonia C. Schrader, Helmholtz Open Science Office https://orcid.org/0000-0001-7080-634X David Philip Morgan, University of Mannheim https://orcid.org/0000-0001-8213-451X Philipp Zumstein, University of Mannheim https://orcid.org/0000-0002-6485-9434 This work, excluding logos, is licensed under a Creative Commons Attribution 4.0 International. https://creativecommons.org/licenses/by/4.0/deed.de Bremen Lübeck Rostock Potsdam Münster Bochum Göttingen Leipzig Dresden Bayreuth Mannheim Tübingen Munich Landau in der Pfalz Frankfurt am Main Jena Bonn Berlin Kiel Würzburg
In the Wild Fast!! Real-time plotting + interactivity Pure python: Native Python data structures & NumPy arrays, no C++ required Extensive: Supports images, scatterplots, lines, 3D graphs, meshes, colormaps, parameter configs, custom graphics, and more Integratable: Seamlessly fits into any PyQt/PySide application Summary Legend • Non-linear transformations • Multiple vertical and horizontal scales/axes on the same plot • More CuPy & Numba integration • Support being a plot backend for Pandas Future Work PyQtGraph - High Performance Visualization for All Platforms Ognyan Moore, Nathan Jessurun, Martin Chase, Nils Nemitz, Luke Campagnola SciPy 2023 A – Antenna Array Analysis – https://github.com/rookiepeng/antenna-array-analysis B – argos – https://github.com/titusjan/argos C – ndscope – https://git.ligo.org/cds/software/ndscope D – iris – https://github.com/LaurentRDC/iris-ued E – barney – https://github.com/j9ac9k/barney F – SO2 – Alaska Volcano Observatory G – S3A – https://gitlab.com/s3a/s3a H – neurotic – https://neurotic.readthedocs.io I – xrayrecon – https://gitlab.com/ficsresearch/xrayrecon J – EnMAP-Box – https://enmap-box.readthedocs.io K – joulescope – www.joulescope.com/ L – ephyviewer – https://ephyviewer.readthedocs.io See more at https://github.com/pyqtgraph/pyqtgraph#used-by PyQtGraph is a plotting library that integrates NumPy and the Qt framework, allowing users to develop scientific applications where high performance, interactivity, and cross-platform compatibility are a given. It is:
SFB 1391 Andere Ästhetik Gastvortrag Dr. Grace Stafford (Universität Wien) Women’s Patronage and Visual Culture in Late Antiquity: From Honorific Statuary to Donor Portraits Mittwoch, 29. Mai 2024, 18 Uhr c.t. Ernst von Sieglin Hörsaal (Raum 165), Schloss Hohentübingen, Burgsteige 11, 72070 Tübingen Alle Interessierten sind herzlich willkommen! Der Vortrag findet statt im Rahmen des Teilprojekts A1: Ästhetik der Ämter: Repräsentation spätrömischer Reichsbeamter (4.–6. Jh.) Prof. Dr. Cristina Murer, Prof. Dr. Sebastian Schmidt-Hofner, PD Dr. Martin Kovacs
Seasonal prediction in northern Atlantic Ocean and Norwegian Seas Noel Keenlyside1,2,3, Sunil Pariyar1,3, Ingo Bethke1,3, Yiguo Wang2,3, and Francois Counillon2,3 1University of Bergen, Geophysical Institute, Bergen, Norway, 2Nansen Environmental and Remote Sensing Center, Bergen, Norway, 3Bjerknes Centre for Climate Research, Bergen, Norway 1. Main research question: What are the sources of seasonal SST prediction skill of NorCPM over the North Atlantic? 2. Model and data Norwegian Climate Prediction Model version 1 with Ensemble Kalman Filter data assimilation method  Historical simulation: 30 ensemble members  Hindcasts: decadal hindcast starting in 15 October (10 ensemble members)  NOAA OI-SST (1982-2018) 3. SST prediction skill 4. Contribution from low (>5-years) frequency variability 4. Contribution from external forcing and internal variability 5. Role of Ocean (Annual ocean heat budget) Fig. 1. Monthly anomaly correlation coefficients between NorCPM hindcasts and NOAA-OI SST from 1982 to 2018 Fig. 2. Monthly anomaly correlation coefficients between NorCPM hindcasts and NOAA-OI SST from 1982 to 2018 based on 5 years lowpass filtered data Fig. 4. Annual SST tendency variance explained (%) by column integrated heat divergence and net surface heat flux Fig. 3. Monthly anomaly correlation coefficients between NorCPM hindcasts and NOAA-OI SST from 1982 to 2018. The total skill is separated into internal variability (top panel) and external forcing (bottom panel).
Secure sharing of molecules and bioactivity data using mobile apps. The technologies already exist that enable the scientist to securely share molecule structures or structure-activity relationship (SAR) tables for multiple molecules with one or more other scientists (perhaps even a group). This can be done for a very small investment. We now describe how just 2 commercial cheminformatics apps can enable such sharing at very reasonable cost ($25). SAR Table: A specialized editor for building tables containing an homologous series of scaffolds and substituents, creating composite structures, and providing activity data. Can be used to prepare figures for manuscripts, or to recreate data from the literature. MolSync: A chemistry-aware client for remotely stored files hosted by Dropbox. Provides viewing and editing capabilities, as well as serving as an intermediary for sharing content with other apps. It can also be used to explicitly synchronize data with other apps. Molecules can be sketched in SAR Table and then shared via MolSync. MolSync enables files to be readily deposited in DropBox folders. This cloud-based storage facility provides a free capability to share (securely) limited amounts of data with selected individuals. This approach represents a very cost effective way to enable secure chemistry and bioactivity data sharing. When data is ready to be shared openly a third mobile app can be used. The Open Drug Discovery Teams (ODDT) project uses a free mobile app as the user entry point http://tinyurl.com/6l9qy4f. The app has a magazine-like interface, and server-side infrastructure for hosting chemistry-related data as well as value added services. The project is open to participation from anyone and provides the ability for users to make annotations and assertions, thereby contributing to the collective value of the data to the engaged community. The infrastructure for the app is currently based upon the Twitter API and uses Google Alerts RSS feeds as a useful proof of concept for a real time source of publicly generated content. Using Twitter, users can easily push data from SAR Table or MolSync into ODDT. Secure Sharing with Mobile Cheminformatics Apps Followed by Open Publication When Ready Sean Ekins1 and Alex M. Clark2 1 Collaborations in Chemistry, 5616 Hilltop Needmore Road, Fuquay Varina, NC 27526, U.S.A., 2 Molecular Materials Informatics, Montreal, Quebec, Canada H3J 2S1. B http://collabchem.com User tweets with #leishmaniasis The App Content from web Links to papers, blogs, websites Get ODDT here for free When ready for public sharing push to ODDT Showing molecule and bioactivity data export to Molsync Showing data in Dropbox and how its limited access Showing how when ready, a subset or all data can be tweeted to ODDT
1Biomedical Center, Department of Physiological Chemistry, Ludwig-Maximilians-Universität München, Munich, Germany; 2John Curtis School of Medical Research, Australian National University, Canberra, Australia.3Center for Integrated Protein Science Munich, Department of Chemistry, Munich, Germany Splicing factor Scaf6/CHERP regulates muscle development in Drosophila Shao-Yen Kao1, Keshika Ravichandran1, Rippei Hayashi2, and Maria Spletter1,3 2. Scaf6/DmCHERP is conserved among species D. melanogaster SCAF6 D. rerio CHERP M. musculus CHERP H. sapiens CHERP SWAP RPR RS domain G-parch 3. Scaf6 is expressed in ﬂy ﬂight muscle (IFM) and neuron nucleus 500 400 1000 1500 RC RA RE 30hr APF 72hr APF 1d Adult Age: Scaf6-PA Scaf6-PE Scaf6-PC RT-PCR in IFM Actin, DAPI, Myc-Scaf6 30hr APF 72hr APF 1d Adult RT-PCR in Neuron Elav, DAPI, Myc-Scaf6 Overexpression in neuron Overexpression in IFM 0 10 20 30 40 50 60 70 80 90 100 Survival Righting reflex Climbing Flight Grooming Performance percentage WT Scaf6 Mutant Mef2> Scaf6-IR Elav> Scaf6-IR Mef2, Elav>Scaf6-IR Actin5C>Scaf6-IR Tublin>Scaf6-IR 4. Tissue-type selectivity of Scaf6 function in ﬂy Lethal in pupa stage WT Scaf6 Mutant Mef2> scaf6-IR WT Scaf6 Mutant Mef2> scaf6-IR 0 1 2 3 4 Micron Sarcomere length 48hr APF 72hr APF WT Scaf6 MT Mef2> IR Flight muscle 48hr 72hr WT Scaf6 MT Mef2>IR *** p=0.06 5. Scaf6 is necessary for ﬂight muscle b. Scaf6 regulates myoﬁbril development a. Scaf6 knockdown in myoblast loss muscle ﬁbers (Nikonova and Kao, 2019) 1. RNA binding proteins in muscle 6. Scaf6 regulates splicing in IFM muscle Selected GO enrichments a. Scaf6 regulates alternative splicing Mhc Mhc WT Mutant Mef2> W- Mef2>scaf6-IR Zasp66 WT Mutant 0 36 73 110 146 Zasp66 Mef2> W- Mef2>scaf6-IR Intron retention Exon usage changes c. Selected target gene expression at protein level in Scaf6 mutant b. Spliced junction changes in Scaf6 mutant Novel spliced event Sls WT Mutant RT-PCR of veriﬁcation Sls novel event 500bp 100bp DNA control WT Scaf6 Mutant Thorax Thorax Head Head • Scaf6 plays functional roles in muscle and nervous system in selective perspectives • Scaf6 functions in myoblast and myofibril development • Scaf6 regulates RNA splicing dynamic in developing IFM and repress intron retention • Tell me know what your thought!! Contact me: shao-yen.kao@bmc.med.lmu.de Conclusion: 7. LOF of Scaf6 impaired developing muscle contraction WT Scaf6 Mutant 48hr APF time 0.0s time +1.2s no movement n=27 WT Scaf6 Mutant % Muscle twitch n=18 0 10 20 30 40 50 60 70 80 90 100 WT Scaf6 Mutant Mef2>IR 1151>IR Him>IR Salm>Scaf6-IR # of muscle ﬁber 6 5 4 3 (%) 1151, Him: Myoblast speciﬁc; Salm: after 24hr APF (Muscle driver) (Neuron driver) APF: After puparium formation Whole body (Muslce+Neuron?) Neuron Neuron Neuron>Muscle Muscle>Neuron
Public Health, Markets and Law Call for abstracts COMPHACRISIS is pleased to announce the Public Health, Markets and Law workshop, which will be held on Friday, 29 September 2023, at UCD Sutherland School of Law, Dublin. This workshop aims to bring together experts from different disciplines, including economics, law, marketing, political economy, public health and sociology, to discuss and share their perspectives and insights on public health, markets and law. Keynote: Ms Anna Vernet (EU Commission Head of Unit, Antitrust, Pharma and Health Services) Confirmed Speakers and Chairs: • Professor Susie Geiger (UCD College of Business) • Dr Łukasz Grzejdziak (University of Strathclyde) • Dr Cliona Kelly (UCD Sutherland School of Law) • Professor Cecily Kelleher (UCD College of Health and Agricultural Sciences) • Dr Mary Catherine Lucey (UCD Sutherland School of Law) • Professor Aisling McMahon (Maynooth University) • Dr Enrique Sanjuán y Muñoz (Court of Appeal of Málaga)) • Dr Carmen de Vivero de Porras (Universidad de Málaga) • Professor Helen Roche (UCD Vice President for Research, Innovation and Impact ) Organisers: Dr Mina Hosseini and Professor Imelda Maher We invite submissions that address the following themes: • Competition law and health markets • Exploring the EU pharmaceutical sector through a multidisciplinary lens • Intellectual property law and public health • Legal and regulatory responses to the COVID-19 Pandemic • Future of health markets • A multidisciplinary perspective on the pharmaceutical strategy for Europe or any other research issue in this area Papers should be original, not previously published or under consideration for publication elsewhere. We welcome abstracts from researchers at all stages of their careers, including early career researchers and PhD students.
What Came First: The Paper or the Data? Measuring data reuse and metadata re-curation is important for understanding and finding examples of repository behaviors. Comparing connected article and dataset publication dates may provide helpful measures and visualizations. These connection timelines are for repositories holding datasets that are connected to articles that acknowledge funding by NSF. They provide a limited view that may not be representative of the entire repository. Data retrieval and processing are described here. Reuse occurs when data exists before articles referencing it are published. In these cases the connection median difference (y-axis) is above 0. Curation occurs when data and articles are published at the same time. In these cases the connection median difference (y-axis) is 0. Re-Curation occurs when articles exist before the data they reference gets a DOI. In these cases the connection median difference (y-axis) is below 0. Data from CHORUS (https://www.chorusaccess.org) Funded by the U.S. National Science Foundation, award 2134956 Ted Habermann, Erin Robinson, Metadata Game Changers
Helping researchers get started with Patient Engagement (PE) Observation  Implementation Increases the quality, patient relevance and societal acceptance of research and its results Empowers patients and therefore impacts their well-being Potentially increases eligibility for a funding grant To help researchers get started with PE a special “Starter Pack” compiled One central place for all researchers’ PE needs Already existing information is curated and organised in an easy-to-find way Feedback from researchers is that it’s difficult to understand where to begin Multitude of resources out there is overwhelming and makes it complicated to navigate the subject Resources out there exist in silos and are fragmented patient-engagement.eu Ask a question Submit a resource Help us disseminate Watch video stories Patient Engagement Resource Centre (PERC) is developed with the funding from EATRIS-Plus Project (GA No 871096). It has been developed jointly between the European Infrastructure for Translational Medicine (EATRIS), the European Patients’ Forum (EPF) and the European AIDS Treatment Group (EATG). The PERC is intended as guidance and should be considered as advice only. Video Stories Get involved PE in basic science of lung fibrosis developed workshops to improve bilateral understanding PE in rare progressive liver disease (PSC) organised workshops on knowledge sharing & manuscript co- developed PE in rare ovarian tumours fundamental collaboration in bridging the gap in understanding and triggering scientific breakthroughs Why Patient Engagement? Resources This project has received funding from the European Union's Horizon 2020 research and innovation programme under grant agreement No 871096 Developed by