fairdataihub/poster-sentry-training-data huggingface dataset:
Phinch: An interactive, exploratory data visualization framework for metagenomic datasets! Raw data Formatted data structured for visualization User Interface for setting filters for data parsing Start by building 2 - 4 visualizations. Can add more later. Each visualization will have it’s own controls to adjust presets. This can then be shared or saved as PNG to embed in research papers. Project Schematic! The sheer volume of data produced from environmental sequencing approaches (rRNA marker genes, metagenomes) requires fundamentally different approaches and new paradigms for effective data analysis. Scientiﬁc visualization represents an innovative method towards tackling current bottlenecks; in addition to giving researchers a unique approach for exploring large datasets, it stands to empower biologists with the ability to conduct powerful analyses without requiring a deep level of computational knowledge. ! ! Here we present Phinch, an interactive, browser-based visualization framework that can be used to explore and analyze biological patterns in high-throughput environmental datasets. Leveraging a close collaboration between UC Davis and Pitch Interactive (a data visualization studio in Berkeley, CA), this project takes advantage of standard ﬁle formats from computational pipelines in order to bridge the gap between biological software (e.g. QIIME) and existing data visualization capabilities (harnessing the ﬂexibility and scalability of WebGL and HTML5, and visualization-speciﬁc programming language such as Processing and D3).! ! Taxonomy Bar Bubble Chart Sankey Diagram Donut Partition Attributes Column Chart Bubble Chart By OTU http://phinch.org!
Effect of acorn feeding on quality and aromatic profile of dry sausages produced from Turopolje pigs D. Karolyi1, N. Marušić Radovčić2, H. Medić2, Z. Luković+, U. Tomažin3, M. Škrlep3 and M. Čandek Potokar3 1University of Zagreb, Faculty of Agriculture, Svetošimunska 25, 10000 Zagreb, Croatia, 2University of Zagreb, Faculty of Food Technology and Biotechnology, Pierottijeva 6, 10000 Zagreb, Croatia, 3Agricultural institute of Slovenia, Hacquetova ulica 17, 1000 Ljubljana, Slovenia; dkarolyi@agr.hr Turopolje pig (TP) is an endangered Croatian autochthonous breed typically reared in an outdoor production system linked to local oak forests and marsh meadows in Turopolje region in Central Croatia. To self-sustain TP breed the utilization of meat products with added value has recently been proposed in TREASURE project. So far little information is available on the quality attributes of TP meat products, including the effect of locally available feeding resources. Hence present study aimed to examine the quality and aromatic profile of dry-fermented sausages of TP that were reared in similar conditions but fed either conventional (CF) or acorn supplemented (AF) finishing diet. The quality of end product, pH and aw values, moisture, fat and protein content, fatty acid (FA) profile, oxidative stability, texture profile analysis (TPA), sensory evaluation and aromatic profile were determined. Data were analysed by TTEST or NPAR1WAY (for sensory data) procedure at an alpha level of 0.05. Compared to CF, AF sausages tended (P<0.1) to have higher moisture content and TPA chewiness, but generally had similar physicochemical, rheological and sensorial traits and FA composition, except for higher share of C14:0. Lipid oxidation, measured as 2-thiobarbituric acid-reactive substances, was more pronounced in AF than CF sausages. Aromagram showed terpenes as the most abundant volatiles (around 52% of the total area) in both types of sausages, followed by aldehydes (11-14%), aromatic hydrocarbons (6-10%), phenols (6-7%), alcohols (5-6%), acids (4-6%), Sulphur compounds (2- 5%), ketones (around 3%), esters (less than 2%) and aliphatic hydrocarbons (less than 1%). Compared to CF, AF sausages had less aromatic and aliphatic hydrocarbons and sulphur compounds, and more esters. These results suggest that acorn feeding may affect some properties of TP dry-fermented sausages but more research is needed. Funded by European Union’s H2020 RIA program (grant agreement no. 634476).
Introduction The feral population of primitive Soay sheep on the remote island of St Kilda, in the North Atlantic Ocean, provides a unique research resource where scientists have been studying related evolutionary genetics and population dynamics for decades. The island is covered in vegetation typical of many upland areas along the west coast of Britain. Research & Aim This study is specifically addressing unanswered questions associated with plant - herbivore interactions. The aim is to further validate the the application of faecal DNA metabarcoding to fully determine diet composition in herbivores. Further decision making & development of predictive models used for ecosystem conservation management. Support optimal grazing regimes within extensive sheep systems. Support reducing the need for anthelmintic drugs whilst improving animal nutrition via grazing management. Provide knowledge to avoiding over- exploitation and depletion of habitat resources. Knowledge gained will improve: Diet studies have not previously been undertaken on the island due to the challenges associated with determining diet composition by free ranging animals. However, as there are no competitors nor predators the population is naturally regulated and co-dependent on the availability of resources such as food availability and nutritional quality, providing an ideal system to study plant-herbivore interactions. Project Outputs Provide insight into how dietary preference of sheep differ at e.g. different ages and times of the year. This information will increase our understanding of interactions between diet choice, immunity, gut bacteria and parasite burden in both wild and domesticated herbivore populations. How can studying Soay sheep on St Kilda help conservation and farming in the Welsh uplands? H.E.Vallin* (a), M.D.Fraser, H.Hipperson (b) (a) Pwllpeiran Upland Research Centre, Aberystwyth University. (b) Department of Animal and Plant Sciences, University of Sheffield. Question: Can faecal DNA metabarcoding determine the quantitative composition of herbivore diets down to species classification? *hev1@aber.ac.uk Pwllpeiran Upland Research Centre, Aberystwyth University, Cwymystwyth, Aberystwyth, SY23 4AB, UK This project is funded by NERC Methods Regular non-invasive faecal sampling from known individuals for DNA meta-barcoding to determine botanical composition of consumed diet.
Improving Data Stewardship with the DMPTool: Helping Libraries Promote Data Management Dan Phipps & Carly Strasser | daniel.phipps@ucop.edu | carly.strasser@ucop.edu This project is sponsored by With a little help from our friends: In brief: We received funds from the IMLS to build resources around the DMPTool for librarians. We want to equip librarians to provide data management services for their institution’s researchers and other stakeholders Project Goals: • Centralize existing resources • Provide outreach materials around the DMPTool • Build a community of sharing ideas & resources Why librarians? • Long-­‐standing tradition of service & preservation • Opportunity to ﬁll data education void, provide valuable research support What is the DMPTool? Coming soon: DMPTool2 Deliverables Webinars & Course Certiﬁcate Outreach Kit Web Content 28 May Introduc/on to the DMPTool 4 June Learning about data management: Resources, tools, materials 18 June Customizing the DMPTool for your ins/tu/on 25 June Environmental Scan: Who's important at your campus 9 July Promo/ng ins/tu/onal services; EZID Outreach Made Simple! 16 July Health Sciences & DMPTool -­‐ Lisa Federer, UCLA 23 July Digital humani/es and the DMPTool -­‐ Miriam Posner, UCLA 13 Aug Data cura/on proﬁles and the DMPTool – Jake Carlson, Purdue How to give the data management sales pitch to various audiences Other tools and resources that work with/complement the DMPTool Beyond funder requirements: more extensive DMPs Case studies 1 – How librarians have successfully used the tool Case studies 2 – How librarians have successfully used the tool Outreach Kit Introduc/on Cer/ﬁca/on program introduc/on CERTIFICATION COURSE 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 Learn more at dmptool.org bitbucket.org/dmptool/main blog.dmptool.org dmptool.org For administrators: • Beber plan template granularity (discipline, funder, ques/on) • Beber ins/tu/on granularity (department, college, lab group, …) • Role-­‐based user authoriza/on & access • Enhanced search and browse of plans • Access to metrics for repor/ng & follow-­‐up For plan creators: • DMP life cycle management • Collabora/ve plan crea/on • Role-­‐based user authoriza/on & access • Beber plan templates & resources Plus… • Ins/tu/onal branding • Open API DMPTool2: Responding to the Community Promotional Materials Presentation Templates Customizable LibGuides
This work is licensed under a Creative Commons Attribution 4.0 International License. © 2019 Department for International Development Institutions Institutions A comparative assessment of Ethiopia, Ghana, Kenya, Nigeria, Rwanda, Tanzania and Uganda Research environment The number of universities is booming to satisfy demand for higher education but the eﬀects on research are limited. No country meets the African Union goal of 1% GDP invested in research and development.¹ Governments see research as part of the broader science, technology and innovation agenda: only two countries have a research policy, but six have an STI policy. In many countries there is an opportunity to create stronger national research institutions: four countries have neither a research ministry nor a national research funder. Foreign R&D contributions play a large role in many African countries, but evidence on their economic impact is limited.¹ Most African countries have relatively few researchers: there is a need to make research a more attractive career option.¹ This data comes from a needs assessment study of the research systems in seven African countries, produced for the UK Department for International Development. The full set of infographics and the underlying analysis is available at http://bit.ly/SRIA2020 National research policy National STI policy 2/7countries 6/7 countries National research/STI funder Ministry/dep’t for research 3/7countries 3/7countries 0.0% 1.0% Ethiopia Ghana Kenya Nigeria Rwanda Tanzania Uganda 0% 70% Ethiopia Ghana Kenya Nigeria Rwanda Tanzania Uganda R&D Funding 0 S. Afr. 2.5 Ethiopia Ghana Kenya Nigeria Rwanda Tanzania Uganda No. Universities R&D Int’l Funding 0 600 Ethiopia Ghana Kenya Nigeria Rwanda Tanzania Uganda S. Afr. No. Researchers 1 UNESCO, “UIS Statistics,” 2019: http://data.uis.unesco.org Researchers/million inhabitants Universities/million inhabitants % of total R&D funding % of GDP
A flare is visible in Transit 1 and may contaminate any planetary signal that would otherwise have been observable. Integrated AU Mic b, or not AU Mic b: the question of the young exoplanet's escaping atmosphere Do young Hot Neptunes exhibit atmospheric escape in Lyman-alpha spectra? There are a handful of detections of Hot Neptune transits with Lyman-alpha, as well as non-detections. Detections indicate the presence of escaping neutral hydrogen. We expect low density, close-in planets to be losing some or all of their atmospheres due to their irradiation. K2-25b is a young, close-in, Neptune-sized planet that did not indicate the presence of escaping neutral hydrogen (Rockcliffe, et al., 2021). Keighley Rockcliffe, Elisabeth Newton, Allison Youngblood, Peter Gao, Peter Plavchan, Eric Lopez HST/STIS Lyman-alpha transits of AU Mic b AU Mic b is another young, close-in planet that can provide more insight into atmospheric escape. Transit 1 of HST shows no significant transit of an escaping neutral hydrogen atmosphere, similar to K2-25b. keigh.rockcliffe@gmail.com kerockcliffe.com Transit 2 of HST complicates the picture, showing a potential planetary or stellar signature. The timescale of this steady increase in Lyman-alpha flux is too long to be attributed to the documented "breathing" effect. The increase is also offset in time from where an escaping neutral hydrogen tail is expected (after mid- transit). Scan for more info The timescale for AU Mic to photoionize any neutral hydrogen escaping AU Mic b is about 0.7 hours. K2- 25b has a similarly short timescale of about 2.5 hours. It may be that these planets have ionized hydrogen outflows that would not be observable at Lyman-alpha (Owen, et al., 2021). This work was done at Dartmouth College, which resides on unceded Abenaki land. ISM ISM
Flanders Bio Imaging – towards efficient centralized research data management and analysis of bioimaging data Sebastian Munck1,2,9, Christopher Cawthorne1,3,9, Tatiana Woller1,2,4,9, Benjamin Pavie1,2,9,10, Alexander Botzki4,5,9, Frank Vernaillen6, Raf De Coster7,9, Paul Borgermans8,9, Ingrid Barcena Roig 8,9, , Mariana Montes8,9 To make modern data management and analysis that is committed to FAIR principles and improved reproducibility a reality, Flanders BioImaging in a team effort with the Flemish supercomputing center (Vlaams Supercomputer Centrum, VSC) and KU Leuven’s central IT infrastructure, is exploring new models for data management, metadata handling, and image analysis. Research data management (RDM) Versatile HPC for users with distinct needs Due to the diversity in microscopes, biological images are heterogenous, leading to a plethora of distinct analyses. Hence, image analysts require a flexible and powerful environment to carry out their work. In the OnDemand server at the VSC, users can select virtual desktops with dedicated software (Band, Neurodesk), cluster desktop or web-based interactive environments (Jupyter Lab, R Studio server)… Conclusion and prospects Thanks to this collaboration, we aim at: 1. FAIR RDM and analysis by design 2. Single point of access to enhance reproducible analysis 3. A platform for collaboration on bioimage analysis Affiliations 1.Flanders Bio Imaging 2.Bioimaging core, VIB 3.Molecular Small Animal Imaging Center, KU Leuven 4.Elixir Belgium 5. Technology training core, VIB 6. Spatial Catalyst, VIB 7. Center for Brain and Diseases Research, VIB 8. Flemish supercomputer center (VSC) 9. KU Leuven 10. UGent Globus Data deposition Automatic extraction metadata Automatic transfer from instruments Use of ontologies with schemas Policies, automation, data discovery Bio -Formats REMBI MITI MIAPE ISO Schema manager In general, RDM is often postponed until it becomes crucial. However, there is an increasing number of editors and funding agencies requiring open or findable accessible interoperable reusable (FAIR) data. While going through the data-lifecycle, we attempted to find a golden mean between FAIR data and the time invested by researchers to achieve FAIR data. Hence, we automatized each step, where possible, of the data lifecycle. With ManGO data is stored and annotated, with metadata to contextualize and make it findable. Data workflows are automated helping to reduce manual work and mistakes. All this via different user interfaces making ManGO accessible for everybody and from everywhere. Rstudio server Jupyter Lab Bioimage analysis desktop HPC Institutional repositories Neurodesk
WOMEN INCLUSION IN HUMAN CAPACITY DEVELOPMENT; THE SUB-SAHARAN NUCLEAR INDUSTRY Keziah Garba, Ahmadu Bello University, Nigeria Research Question To what extent can human capacity development improve gender equality in the sub-Saharan nuclear industry? Background • Gender equality is pivotal to creating a thriving work environment. • However, women comprise barely 25% of the global nuclear workforce. • In sub-Saharan Africa, the challenges women face in the nuclear sector has affected their workforce participation and ability to access key decision- making positions. • Without initiatives in place to tackle these issues, they threaten the potential of the nuclear industry growth in sub- Saharan Africa Why Sub-Saharan Africa? • Sub-Saharan women experience the highest levels of inequality globally. The main challenges include: • Socio-cultural barriers • Lack of funding • Restricted educational opportunities • Lack of advocacy Methodology • Case studies based on successful initiatives implemented on similar challenges in STEM fields. • Analysis of the specific challenges. • Particular focus on the impact of capacity development. Conclusion • Given the history of economic and social injustices excluding sub-Saharan women from contributing to the nuclear field, human capacity development is essential to improving their competencies. • Governments and international nuclear organizations can play key roles in capacity development through: • Education • Mentorship • By empowering Sub-Saharan women in the nuclear industry, we can foster a more inclusive and gender-balanced sector, enhancing prowess within the field. Recommendations • International nuclear organizations and governments should implement capacity development initiatives tailored toward improving the gender pipeline in the sub- Saharan nuclear sector. • Scholarships for women studying nuclear and related fields at the university. • Encourage the participation of women in nuclear fields through advocacy and empowerment. • Provide capacity building opportunities such as trainings and workshops. Case studies • Regional Scholarship and Innovation Fund (est. 2015) 103343% of total Female PhD Scholars so far • Sciences et Technologies au féminin (Kenya, 2023) • Africa Centre for Excellence (est. 2014) Scan to Connect
 Baboons can compensate for foraging costs of low rank  BUT only in low competition environments Rank influences foraging performance? vs   Social bonds mediate rank- related foraging aggression? vs low contribution to social bonds = circles and solid lines, high contribution = squares and dotted lines   2 x environments LOW vs HIGH Foraging Competition Social effects on individual foraging behaviour and performance depend on local environmental conditions Harry H. Marshall1,2,5, Alecia J. Carter1,3,4, Alexandra Ashford1,2, J. Marcus Rowcliffe1 & Guy Cowlishaw1 1Institute of Zoology, Zoological Society of London, U.K. 2 Division of Ecology and Evolution, Imperial College London, U.K. 3The Fenner School of Environment and Society, The Australian National University, Australia 4Current address: Department of Zoology, University of Cambridge, U.K. 5Correspondence address: Centre for Ecology and Conservation, University of Exeter, U.K. h.marshall@exeter.ac.uk Funding: Natural Environment Research Council (NERC) CASE Studentship, Fenner School of Environment and Society Studentship, Leakey Foundation, Animal Behavior Society (USA), International Primatological Society, and The Explorers Club
OPEN ACCESS UniGe supports green and gold Open Access through the IRIS UniGe institutional archive, the “Policy on open access to the scientific literature”, the activity of Genova University Press and the 7 transformative agreements signed by the University Library System since July 2020. OPEN CONNECTIONS transformative actions forward Open Science at Genoa University Anna Maria Pastorini on behalf of UniGe Open Science Group OPEN DATA OPENSCIENCE.UNIGE.IT GENOA WEEK OPEN SCIENCE GROUP It is the newborn project in UniGe! The Open data repository will be unveiled during next GenOA week 2021. The UniGe Open Science Group is preparing the right environment for the FAIR handling of research data and to support UniGe researchers in the data management plan. The purpose of the openscience.unige.it project is to become a vehicle for collaborative learning and so all academic actors - teachers, researchers, support staff, students and librarians - are involved. It was designed by analyzing the Open Science topics and matching them with the UniGe skills and activities. GenOA week, now in its 3. edition, is an event to support the challenges of Open Science. Organized by the UniGe Open Science Group, it gathers all the Open Science advocacy initiatives of the Ligurian scientific institutions (northwestern Italy). The UniGe Open Science Group represents the synergy between the University Library System and the Research Area staff. Created to promote Open Access, now it deals with the support, and advocacy of all the Open Science topics. CITE AS: AM Pastorini, Open connections: transformative actions forward Open Science at Genoa University, B15 Conference 2021 , doi: 10.5281/zenodo.5497421 REFERENCES - AM Pastorini, GenOA week 2020: i bibliotecari e la sfida dell’ accesso aperto, 2020 [CC-BY] - M Rognoni, AM Pastorini, Islands and bridges: academic librarians towards Open Innovation and the Internet of Things, 2019 [CC-BY]
References: Conclusions: Results: Methods: Introduction: Worrying changes in adolescent e-cigarette use 2014-2019: A secondary analysis of five Irish health datasets J Hanafin, S Sunday, S Keogan, L Clancy TobaccoFree Research Institute Ireland Irish Thoracic Society ASM Virtual 3-4 Dec 2020 • E-cigarette use is increasing worldwide. Concerns about adolescent use include harms (known and unknown), nicotine addiction, and as a “gateway” drug. • Secondary analysis was carried out on five Irish health datasets, with questions on adolescent e-cigarette, all stratified random samples in school-based settings: ECIGS- TFRI 2014 (N=817), ESPAD-TFRI 2015 (N=1508), SILNE-R-TFRI 2016 (N=2051), GUI 2017 (N=6216), ESPAD-TFRI 2019 (N=3556). We report on 16 and 17 year olds. • Descriptive statistical techniques were used to estimate changes in prevalence, reasons for trying e-cigarettes, and relationship with tobacco at first use. Prevalence of ever-use increased from 23% in 2014 to 39% in 2019, representing a rapid increase, particularly since 2016. Curiosity (66%) and friends (29%) are now the two main reasons adolescents use e-cigarettes. Those saying they had never used tobacco when they first tried e- cigarettes increased from 32% in 2015 to 68% in 2019. E-cigarette use has risen rapidly among adolescents in Ireland since 2014. E-cigarettes are not used by adolescents for smoking cessation. Majority of adolescents who use e- cigarettes were not smokers when they started using e-cigarettes, pointing to a worrying new route into nicotine addiction. Current tobacco control regulations for young people should be extended to include e-cigarettes. • Electronic cigarette use among Irish youth: A cross sectional study of prevalence and associated factors. Babineau K, Taylor K, Clancy L (2015). PLoS ONE 10(5): e0126419. doi: 10.1371/journal.pone.0126419 • E-cigarettes: effective cessation tools or public health threat? Clancy L and Babineau K (2016). QJM: An International Journal of Medicine, 109(2): Funding: RCDHT Grant No. 184 Next