Emma Osbiston, Diamond Light Source, Harwell Science and Innovation Campus, Didcot, Oxon OX11 0DE R03: A Raspberry Pi Tomography Beamline controlled through Twitter In order to conduct experiments at Diamond Light Source, all of the beamlines utilise Diamond’s “Generic Data Acquisiton” software, GDA. This software allows the control of the experimental environment, by updating parameters such as the sample position, and collection of experimental data for analysis. In 2016 it was proven that GDA could run on a Raspberry Pi, a popular single-board computer the size of a credit card. This allowed the Raspberry Pi to conduct scans at the same software level as any other beamline at Diamond Light Source. For more information please visit www.diamond.ac.uk, www.twitter.com/diamondrpi or contact james.mudd@diamond.ac.uk 1. Introduction 5. Hardware & Scannables 6. Beamline Process 4. The API 3. Tomography Acknowledgments • An application programming interface (API) is a way of controlling communications between different softwares within a system – to the user, it will only accept specific inputs, and can return appropriate outputs. • To create the API used to control all of the devices and processes on the beamline, I used a development tool called Node-RED, which is a Raspberry Pi optimised visual interface for Node.js, an asynchronous, event-driven runtime for Javascript. The use of Node-RED required me to write functions in Javascript but greatly simplified the process compared with if I had used Node.js alone. Flows are stored in JSON format meaning to best view them Node-RED is needed (see the Github link below). Once a scan is requested via Twitter, Node-RED can then either choose to store or work with this information in Javascript; sample number is found through parsing the tweet string. This information is then passed through a flow of processes which can be seen in section six of this poster, with Node-RED controlling all of the communication between the processes. the outputs are 3D models, but with no internal features visible, as the light was not able to penetrate through the material to view it. The turntable is used to rotate the sample to different orientations, and these orientations are all captured as 2D images by the camera. Savu is the part of the process that takes these 2D images and converts them into a 3D tomogram. (Image by Dtrx used under Creative Commons Attribution-Share Alike 3.0 Germany License) Tomography is an imaging method that uses 2D images to build up a 3D model of a sample. By taking images of a sample using a penetrating light source (X-rays at Diamond) at different orientations, these can be spliced together using a mathematical procedure called tomographic reconstruction to give a 3D rendering of both the interior and exterior structure of the sample. As R03 uses visible light, the beam cannot penetrate the samples, meaning that the reconstructions are more of a demonstration of tomography than real tomography – 7. Conclusions • I would like to thank my supervisor James Mudd, as well as Peter Holloway, Mark Basham and Jacob Filik and the rest of the Data Acquisition Team for all their help and invaluable contributions. • Thanks to Ben Seeley, who wrote the initial configuration for GDA for RPi in 2016 and provided the starting point for this project. • Thanks also to Sam Elford, for creating custom parts for the project. • Finally I’d like to say thank you to everyone at Diamond Light Source who helped me with this project in numerous different ways. • The R03 beamline successfully demonstrates some of the processes used to conduct experiments on beamlines at Diamond Light Source • It is able to run beamline software from the main branch that aptly demonstrates the flexibility of the software, particularly GDA, which controls the hardware. • The Twitter interface works as an effective outreach tool. • It may be beneficial to split the processing across multiple Raspberry Pis as processes su


C. Snodgrass1, J. Skottfelt2, C. Mackay3, M. Dominik4 and the GravityCam Consortium 1 Institute for Astronomy, University of Edinburgh, UK. csn@roe.ac.uk 2 Centre for Electronic Imaging, The Open University, Milton Keynes, UK, 3 Institute for Astronomy, University of Cambridge, UK, 4 Centre for Exoplanet Science, SUPA School of Physics & Astronomy, University of St Andrews, UK GravityCam: A wide-field high-resolution imager for the NTT Other scientific applications 1. Einstein, A., “Erklarung der perihelbewegung des merkur aus der allgemeinen relativitatstheorie“, Sitzungsber. Kgl. Preuss. Akad. Wiss. , 831{839 (1915). 2. Paczynski, B., “Gravitational microlensing by the galactic halo”, ApJ 304, 1{5 (May 1986). 3. Bennett, D. P. and Rhie, S. H., “Simulation of a Space-based Microlensing Survey for Terrestrial Extrasolar Planets”, ApJ 574, 985{1003 (Aug. 2002). 4. OGLE-IV http://ogle.astrouw.edu.pl 5. Beaulieu, J. P. et al. , “Discovery of a cool planet of 5.5 Earth masses through gravitational microlensing”, Nature 439, 437{440 (Jan. 2006). 6. Ivezic, Z. et al., “LSST: from Science Drivers to Reference Design and Anticipated Data Products”, ArXiv e-prints (May 2008). 7. Baldwin, J. E. et al., “Difraction limited 800 nm imaging with the 2.56 m Nordic Optical Telescope”, A&A 368, L1-L4 (Mar. 2001). 8. Mackay, C. D. et al., “Subelectron read noise at MHz pixel rates”, Proc. SPIE 4306, 289{298 (May 2001). Abstract With its high frame-rate and wide-field, GravityCam can: • Provide a unique database for optical variability • stellar variability and asteroseismology • sub-second variability from accretion onto compact objects • Explore galactic star clusters • detection of tight binaries and their eclipse features • proper motion measurements for kinematic studies • Trace Dark Matter in the Universe through weak gravitational lensing • Study Solar System objects • resolve the orbits of binary asteroids • discovery of small bodies in the Kuiper Belt and Oort Cloud. We have developed a new concept for a ground-based imaging instrument called GravityCam, capable of delivering significantly sharper images from the ground than is normally possible without adaptive optics. Images recorded at high speed can be aligned before combination and can yield a 2-3 fold improvement in image resolution, or be used separately for high-cadence photometry. Very wide survey fields are possible with wide-field telescope optics. GravityCam is proposed to be installed at the NTT, where it will enable detection of Earth sized planets by gravitational microlensing and weak shear studies of dark matter distribution in distant clusters of galaxies, produce a vast dataset for asteroseismology and stellar variability, and help us understand the population of the Kuiper belt and the Oort cloud via stellar occultations. Lucky Imaging Next steps Gravitational microlensing1,2 is the only way to obtain population statistics of cool low-mass exoplanets and exomoons. A GravityCam microlensing survey will provide sensitivity down to Lunar mass, a territory widely considered to be reserved for space missions like WFIRST3. High spatial resolution means that it will be sensitive to fainter source stars and thereby be able to detect planets 100 less massive than what is possible with the current state-of-the-art survey OGLE-IV4. Detecting lunar-mass exoplanets GravityCam will detect planets that are virtually undetectable by other methods. This figure shows the planets detected to date where we see that for planets of Earth-mass and below detections are very few though we expect there are vast numbers of them. Lucky Imaging6,7 takes images rapidly (10-30 Hz) and aligns them, almost completely eliminating the tip-tilt distortions caused by atmospheric turbulence, improving the median seeing by a factor between 2.5 and 3. If we use a small fraction of the images and add the sharpest ones together we find that image resolution is improved further to a total of a factor of 4 wit


Application of Exopolymeric Substances and Biosurfactants in removal of heavy metals in Qatari soil and water Najla Alkorbi, Zulfa Al Disi, Mohammad AlGhouti and Nabil Zouari Environmental Science Program, Department of Biological and Environmental Sciences, College of Arts Sciences, Qatar University, P.O. Box 2713, Doha, Qatar Heavy metals are economically important for industrial applications, but they are significant pollutants for the environment. The pollution with heavy metals causes serious threats to all living organisms in any ecosystem, due to their toxicity at low concentrations, their bioaccumulation and non-biodegradability in the environment. Advancements in biotechnology led to huge developments in the bioremediation approaches. In this study the effectiveness of biosurfactant’s and extracellular substance EPS of three selected strains, isolated from sabkha and soils in Qatar and characterized in our laboratory, in the removal of heavy metals from highly weathered oil- contaminated soils were investigated. One Mineral forming strains Virgibacillus martsimiure (DF112) and two hydrocarbon-degrading bacterial strains Pseudomonas aeruginosa (SH1) and Bacillus subtilis (SA28) were used to produce EPS and biosurfactants. The FTIR analysis confirmed alterations in the functional groups’ compositions after soil washing. Moreover, the ICP-OEC confirmed variable removal efficiencies of heavy metals. The best heavy metal removal efficiency (%) was obtained when washing with 10% of the biosurfactant produced by Pseudomonas aeruginosa (SH1). These results would help in the application of EPS and biosurfactants for the removal of heavy metals through washing of contaminated soils. Keywords: Sabkha, Biosurfactants, EPS, Heavy metals, weathered contaminated soils.


Comparative Analysis of Inclusion Criteria of Journal Blacklists and Whitelists Michaela Strinzel, Anna Severin, Matthias Egger und Katrin Milzow Swiss National Science Foundation Background •Journal Blacklists (BL) and Whitelists (WL) aim to capture the legitimacy, quality and transparency of scientific journals[1]. •With the emergence of Predatory Journals BL and WL are increasingly conculted by scholars in their search for publication outlets [2]. •While there is doubt over the objectivity, reliability and transparency of BL and WL [3], these lists and their inclusion criteria have not yet been analysed systematically. Aim Systematic comparison of inclusion criteria and contents (journals and publishers) of journal BL and WL •Aim: Identify and understand indicators of legitimacy, quality and transparency in scholarly publishing •Aim: Point out the scientific community's expectations towards legitimacy, quality and transparency Methods Qualitative coding and comparative analysis of 198 inclusion criteria of 2 BL (Beall's List and Cabell's International) and 2 WL (DOAJ and Cabell's International) on 3 levels: •Subject Matter: To what aspect of a scientific journal does the inlcusion criterion relate? •Informative Function: Does the criterion relate to (1) Quality, (2) Transparency, (3) Legitimacy, or (4) Establishing Stage of a scientific journal? • Verifiability: How easy is it to verify a criterion? Comparison of BL and WL in terms of their contents (e.g. journals and publishers) making use of the Jaro-Winkler Distance. Illustration of overlaps with Venn diagrams. Results Image 1: Subject Matter Image 1: Informative function Image 3: Overlaps between the BL Beall’s List of Publishers and the WL DOAJ Lists Transparency Quality Degree of Establishment Legitimacy BL 3 2.4 2.5 2.1 WL 3 2.4 2 1.7 Tabelle 1: Verifiability of inclusion criteria by informative function in average. (Rated on a scale from 1=hard bis 3=easy) Contact Information •Swiss National Science Foundation: http://www.snf.ch •E-Mail: michaela.strinzel@snf.ch; anna.severin@snf.ch Explanation of Results •Subject Matter BL put focus on Business Practices and Quality Control of journals, while WL stress Quality Control and Policies •Informative Function BL: Most inclusion criteria give information regarding Integrity and Legitimacy of a journal or publisher. WL: Most inclusion criteria provide information on Transparency. • Verifiability Overall, inclusion criteria can be said to be verifiable. There are, however, significant differences in verifiability across inclusion criteria of different informative functions. • Comparison of BL and WL contents Content overlaps between BL and WL (here: publisher in Beall’s List and in DOAJ) is relatively small. Conclusions Methdologically, it proved feasible to classify and systematically compare inclusion criteria and contents of BL and WL. In terms of their subject matter and informative function, BL and WL seem to complement one another. As such, BL and WL serve different purposes. This is reflected in the small content overlaps between the two types of journal lists. Our systematic classification and comparison of inclusion criteria can help to develop a more holistic understanding of quality, legitimacy and transparency in scholarly publishing. References [1] Vence, T. (2017). On Blacklists and Whitelists. The Scientist. [2] Swauger, S. (2017). Open access, power, and privilege: A response to ’What I learned from predatory publishing.’ College & Research Libraries 78:11. [3] Olivarez et al. (2018). Format Aside: Applying Beall’s Criteria to Assess the Predatory Nature of both OA and Non-OA Library and Information Science Journals. College & Research Libraries, 79:1. This work is accessible and can be shared and adapted under the Creative Commons (CC) license (CC BY 4.0).


In silico toxicology services for nanoparticle risk assessment C. Helma, D. Gebele, M. Rautenberg in silico toxicology gmbh, Basel, Switzerland Contact: support@in-silico.ch. Information: www.in-silico.ch in silico toxicology gmbh - Rastatterstrasse 41 - CH-4057 Basel, Switzerland http://enanomapper.net This project has received funding from the European Union’s Sev- enth Framework Programme for research, tech- nological development and demonstration under grant agreement no 604134. Abstract During the eNanoMapper project in silico toxicologies (IST) public server infrastructure was adapted to the requirements of the eNanoMapper project and augmented with new developments. This poster gives a comprehensive overview of all IST resources developed within eNanoMapper. Each service is presented with a brief description and links to the public interface, source code, documentation and download links for self-contained docker images. lazar lazar[1] is a framework for read-across predictions. Within eNanoMapper lazar was extended with interfaces for the eNanoMapper infrastructure and capabilities to predict nanomaterial toxicities. ▶lazar source code [2] https://github.com/opentox/lazar ▶lazar Ruby gem library https://rubygems.org/gems/lazar ▶lazar issue tracker https://github.com/opentox/lazar/issues ▶lazar methodology and validation https://github.com/enanomapper/ nano-lazar-paper/blob/master/nano-lazar.pdf ▶lazar tutorial https://github.com/opentox/lazar/blob/master/README.md ▶lazar API documentation http://www.rubydoc.info/gems/lazar nano-lazar The nano-lazar GUI provides a public webinterface for nano-lazar models. ▶nano-lazar public webinterface [3] https://nano-lazar.in-silico.ch ▶nano-lazar source code https://github.com/eNanoMapper/nano-lazar ▶nano-lazar Ruby gem library https://rubygems.org/gems/nano-lazar ▶nano-lazar issue tracker https://github.com/eNanoMapper/nano-lazar/issues ▶nano-lazar API documentation http://www.rubydoc.info/gems/nano-lazar ▶nano-lazar dockerized service on Docker Hub https://hub.docker.com/u/insilicotox/nano-lazar nano-lazar-paper Detailed description of nano-lazar methods and validation results [4]. Results can be reproduced by external researchers with the accompanying docker image. ▶Source code for nano-lazar publication (and oral presentations). https://github.com/enanomapper/nano-lazar-paper ▶Manuscript submitted to Frontiers in Pharmacology https://github.com/ enanomapper/nano-lazar-paper/blob/master/nano-lazar.pdf ▶Tutorial for repeating nano-lazar validation experiments https: //github.com/enanomapper/nano-lazar-paper/blob/master/README.md ▶Docker image for inspection and reproduction of validation experiments https://hub.docker.com/r/insilicotox/nano-lazar-paper/ lazar-rest lazar-rest provides an eNanoMapper compatible REST API for the nano-lazar read-across framework. ▶lazar-rest Swagger UI documentation for API visualization and interaction [5] https://enm.in-silico.ch ▶lazar-rest Swagger API deﬁnition ﬁle https://enm.in-silico.ch/api/api.json ▶lazar-rest source code https://github.com/opentox/lazar-rest ▶lazar-rest Ruby gem library https://rubygems.org/gems/lazar-rest ▶lazar-rest issue tracker https://github.com/opentox/lazar-rest/issues ▶lazar-rest API documentation http://www.rubydoc.info/gems/lazar-rest SPARQL endpoint for eNM ontology and data SPARQL query interface for eNanoMapper data and ontologies ▶SPARQL endpoint https://sparql.enanomapper.net/ ▶Documentation http://enanomapper.net/deliverables/d3/20160420_ eNanoMapper_D3.2_Data_Management_System_with_extended_search_ capabilities_FINAL.pdf ▶Docker image https://hub.docker.com/r/insilicotox/ist-enm-virtuoso/ eNM ontology viewer The eNanoMapper ontology viewer visualizes SPARQL query results from eNM ontologies and data. ▶eNanoMapper ontology viewer [6] https://query.enanomapper.net/ ▶eNanoMapper ontology viewer source code https://github.com/enanomapper/enm-ontoviewer ▶eNanoMapper ontology viewer issue tracker https://github.co


SEARCHING FOR A SECOND OCCULTATION IN EPIC 204376071 Roi Alonso1,2, Hans J. Deeg1,2, Saul Rappaport3 1 Instituto de Astrofísica de Canarias, Spain 2 Dpto. de Astrofísica, U. La Laguna, Spain 3 Department of Physics, and Kavli Institute for Astrophysics and Space Research, M.I.T., USA EPIC 204376071 is a young (~10 Myr) M star (estimated mass ~0.16 M☉, and radius 0.63 R☉), probable member of the Upper Sco association, that exhibited an 80% drop in flux lasting one day, in the course of one campaign of the K2 mission (Rappaport et al. 2019). Different scenarios have been proposed to explain this feature, some of them requiring a periodic behaviour of these events. With only one event observed, it becomes challenging to obtain further observations to investigate further the origin of the abrupt flux drops, and start confirming/rejecting possible scenarios. We have obtained new photometric observations, and analysed archival photometry, with the goal to identify additional flux drops on this star, and get the ephemeris, should these events be periodic. New data : LCOGT 0.4 m telescopes: located at Teide, Hawaii, Australia, South Africa, Chile, Texas. Semesters 2019B, 2020AB, 2021AB, 2022A Archival data: K2, ATLAS Fig. 1: The light curve of EPIC 204376071 for three analysed data sets: K2 in blue, ATLAS in green, and our LCOGT observing runs in orange. No additional deep events were detected. Fig. 2: The detectability window for different assumed periods of the events, from 70 to 1200 days, constructed from the time vector of the observations. We have significantly improved the coverage of periods in this range, and excluded all potential periods below ~120 days. BLUE: using only K2 data. ORANGE: Adding our LCOGT observations We did not detect any convincing additional event in our observations. Assuming a periodic nature of the events, these observations exclude possible periods of deep flux drops. With only K2 data, ~80% of the periods between 70 and 1200 days would have been missed. With the new data, this fraction drops to ~40%. If the occultation event observed by K2 is periodic, it is thus of a relatively long period. This object is not observed nor planned to be observed by TESS (Years 1-6), and thus ground- based observations with LCOGT and ATLAS as the ones presented here constitute our best chances to detect additional occultation events on this fascinating object. Rappaport et al. 2019, “Deep long asymmetric occultation in EPIC 204376071” MNRAS, 2019, 485, 2681R Read more about EPIC 204376061:


Qualification of OLCI products from S3 for turbid lakes: results from the Lake Trasimeno M. Bresciani1, C. Giardino1, A. Hommersom2, G. Luciani1, V. Della Bella3, A. Cingolani3 This project has received funding from the European Union’s Horizon 2020 research and innovation programme under grant agreement n° 730066 Co-funded by the European Union Lake Trasimeno is a turbid, meso-eutrophic, unstratified shallow lake (average depth 4.5 m, max depth 6 m) with a size of 124 km2. It has three small islands and an open bay colonised by aquatic vegetation with exceptional value for biodiversity. Tourism, agriculture and livestock breeding are the most important activities in its area. 3. Materials and methods The WISPStation is a fixed position spectrometer system for measuring Rrs from 350 to 900 nm at 3 nm resolution. The Trasimeno WISPStation (nearby Polvese island) it has been running from 24 April to 3 October 2018, collecting Rrs spectra every 15 min. By using appropriate bio-optical models and algorithms, this system provides data on the intra and inter daily variability on concentrations of water quality parameters 2. Study area 1. Aims Remote sensing reflectance (Rrs, in sr-1) of Lake Trasimeno waters for different yet typical conditions during the season; the peak near 700 nm is always present from mid-July until the end of September; diatoms in spring and cyanobacteria in summer- autumn. The waters are belonging to Optical Water Type (OWT) classes #8 and #12. Concentrations of Chl-a and TSM measured from corresponding water samples are given as reference The aim of this work is to evaluate Sentinel-3 OLCI in lake waters to map chlorophyll-a concentrations (Chl-a) and to provide spatial and temporal information on phytoplankton dynamics to support the EU Water Framework Directive (EC/2000/60). The panel below show Rrs spectra as derived from WISPStation and from Sentinel 3, both OLCI-L2 and Level 1, the latter corrected with 6S, Polymer and C2RCC. Overall all processors are close to WISPStation data; a larger deviation is given by C2RCC and OLCI-L2 when the peak around 700 nm is appearing due to the growth of phytoplankton. Based on the best match, 6S and Polymer were finally adeptly selected to process all 2018 images. Sentinel 3A and 3B OLCI L1 images acquired in 2018 were converted into Rrs with three atmospheric correction codes: 6S vector version (6S), Polymer and C2RCC. Sentinel 3A and 3B OLCI L2 EUMETSAT images (OLCI-L2) were also included in this study. The OLCI-derived spectra were evaluated thanks to the comparison with continuous in situ hyperspectral Rrs data acquired by a WISPStation. The OLCI-derived Rrs products were then converted into Chl-a maps with the bio- optical model, implemented in BOMBER, parametrized with optical properties of Lake Trasimeno. 4. Results Fitting of Rrs between OLCI products and WISPStation data (± 15min), in terms of r Person correlation coefficient and relative root mean square error Chl-a maps of 2018; the products were provided to the regional water authority (ARPA Umbria) responsible for supporting Lake Trasimeno management and the WFD reporting 5. Conclusions • OLCI is confirmed to be the prime satellite radiometer for observing water quality in lakes. • It provides accurate, timely and frequent information to support EU directives. • This study is supporting the contents of a White Paper on ‘Satellite-based Earth observation water quality monitoring, reporting and management for the Water Framework Directive’ (to be published by the end of May). Chl-a (mg/m3) 0 4,4 8 14,6 26,7 50 m winter spring spring- summer transition summer summer- autumn transition autumn WFD classes – Chl-a (mg/m3) average The panel below show some examples of OLCI-derived Chl-a products for the needs of the water authority responsible for WFD reporting. Aggregation based on WFD periods and classes Time series of Chl-a obtained from WISPStation, OLCI and in situ water sampling for Polvese island station W


Coopera've Community Opportuni'es and the ADS Donna Thompson and Carolyn Grant ADS/Smithsonian Astrophysical Observatory The ADS is used daily by the astronomy community and beneﬁts from the coopera've nature of our contributors. In this poster we will outline some of the ways that the library community can con'nue to contribute to this resource. While most of what we receive is veCed before it gets to us, we some'mes ﬁnd ourselves in the posi'on of having to determine whether or not an ar'cle, proceeding or other submission is refereed. ADS has guidelines on how we determine this but some'mes the lines are not so clear. . . and some'mes the arguments on both sides are compelling. The process that we follow will be outlined and we would appreciate feedback on this topic. As online publishing trends con'nues to evolve, conference proceedings and presenta'ons, PhD theses and other digital ar'facts are being deposited to research data repositories such as Zenodo or Dataverse. We will describe the process that ADS follows to include relevant collec'ons from such repositories when properly curated by librarians or researchers. This paper is refereed. This should be in ADS. You can contribute to the ADS! Send your ques'ons and contribu'ons to ads@cfa.harvard.edu. We look forward to hearing from you! Occasionally we receive an email from a user sta'ng that his/her paper is refereed and why isn’t it that way in ADS? ADS considers ar'cles refereed when they appear in journals that par'cipate in peer review. ADS does not consider materials that are veriﬁed only by an editor as refereed. We consult the website of the journal, conference or publisher and check industry trade standards. ADS seeks comprehensive, but not all- inclusive, coverage of the ﬁeld of astronomy. We receive regular feeds from publishers and Crossref and seek out conferences on the web. If you are aware of a conference or journal that is not included in the ADS, please let us know. We are par'cularly interested in non-US PhD theses. We download records from a select list of Zenodo collec'ons on a weekly basis and welcome your sugges'ons for communi'es and topics to add to the content harvested by ADS. I maintain a bibliography for my Ins'tu'on. ADS is used by many librarians to curate their ins'tu'onal bibliographies. The API available through ADS beta can help to streamline the process (see poster “Managing Ins'tu'onal Bibliographies using the ADS API: A new workﬂow using Google Sheets” for an example.) ADS can incorporate your curated bibliography into our holdings and add a ﬁlter for your ins'tu'on. This will make it easier for ADS users to correctly iden'fy researchers at each ins'tu'on. ADS has partnered with ORCID to allow one to claim papers and associate the papers with an author’s ORCID. (ADS is planning to integrate ORCID mappings curated by librarians into its database to complement data provided by publishers and claimed by users. A trial using data from the Harvard-Smithsonian Center for Astrophysics is planned for later this year.)


Elements: Morpho-Cyberinfrastructure for scientists and engineers studying shape change Chaitanya Joshi, Daniel Goldstein, Anca Andrei, James Adler and Timothy J. Atherton PIs: Timothy J. Atherton, James Adler Award Number: 2003820 • The first ever Morpho workshop with participants from 5 different institutions took place on July 11th-12th 2022. • Participants were trained in the basic features of the Morpho language, as well as some advanced post- processing and graphics abilities. • Participants learnt how to set up shape and field minimization problems in Morpho from their own scientific domain, thus setting up multiple collaborative efforts and increasing the user-base of Morpho. 5. Morpho workshop • Morpho aims to solve problems in this general form: Minimize arbitrary functionals defined on a manifold C subject to global (integral) constraints, and local constraints , with respect to a set of field quantities q defined on it and the shape of the manifold. • Morpho uses auxiliary functionals to regularize under- constrained problems Modeling swelling hydrogels under confinement using tetrahedral meshes and level-set constraints. The red colored outline shows the swelling in the absence of confinement whereas the black lines show the mesh boundary expanding in the proximity of a stationary impenetrable plane and a superellipsoid. Confinements / obstacles are shown in light gray. 3A. Example: Swelling hydrogels Liquid crystal tactoids in 3D under various conditions. For 𝜅≪1, the surface tension holds the droplet in a spherical shape; as 𝜅≥1, the droplet elongates to form a spindle shape. The director field also undergoes a transition: for small 𝜔, elasticity overcomes anchoring leading to a homogenous directory field; for a large 𝜔, the director aligns with the surface producing a bipolar configuration. 3B. Example: Liquid crystal tactoids 1. Introduction Minimizing surface area for a fixed volume. The unregularized solution not only takes longer, but also converges to the incorrect solution. Taking advantage of the degeneracy of the solution, we regularize the elements, making the solution both fast and accurate. 2. The Morpho Language • Complete programming language, with a Python-like syntax. • Extensible: Users can write their own modules in the Morpho language. • Fully open-source, extensively unit-tested. • A Slack community provides a supportive and a collaborative environment. 4. Improvements • Continuous Integration with over 500 unit-tests. • New mesh generation suite. • Support for VTK I/O. • Support for M1 Macs • Prototypical GPU acceleration • New optimization algorithm based on Sequential Quadratic Programming coming soon. 6. Use by independent researchers 𝜅~ Elasticity 𝜔~ Anchoring Tom Powers and Bob Pelcovits’ group from Brown University to use Morpho to model colloidal membranes. (A) A saddle-shaped colloidal membrane formed from filamentous viruses. Scale bar, 2 μm. Adapted from Khanra et al. 2022 (arXiv: 2203.07133). (B) Modeling a colloidal membrane on an Enneper minimal surface in Morpho.


PRELIMINARY STUDY ON THE EFFECT OF LED LIGHT AND CYTOKININE ON THE GROWTH OF PEAR PLANTS IN VITRO Nataliya Dimitrova1*, Lilyana Nacheva1, Yulia Kyoseva2, Małgorzata Berova2 1 - Fruit Growing Institute, 12 Ostromila Str., 4004 Plovdiv, BULGARIA 2 - Agricultural University, 12 Mendeleev Str., 4000 Plovdiv, BULGARIA *Corresponding author: natali.dimitrova@yahoo.com Material and Methods Plant material and experimental conditions The experiment was carried out on pear rootstock (Pyrus communis L. ‘Old Home’ x ‘Farmingdale’ 333). Briefly, shoots were grown in microboxes with green filter (SacO2, Belgium) on a modified MS (Murashige and Skoog, 1962) solid medium with ½ concentration of NH4NO3 and CaCl2 and 1000 mg L-1 Ca(NO3)2, supplemented with 2.5 µM 6-benzylaminopurine (BAP), 0.05 μM IBA, 30 g L-1 sucrose, 6.5 g L-1 Phyto agar (Duchefa, The Netherlands). The cultures were incubated in the growth room at an air temperature of 22±2C with 16/8 h hours photoperiod supplied by cool-white fluorescent lamps (OSRAM 40W; 50 µmol m-2s-1 PPFD). For the purpose of the present experiment the plantlets were cultivated in vitro on above mentioned basal nutrient medium, supplemented with 2.5 µM 6-benzylaminopurine (BAP) or 2.5 µM meta-Topolin (mT) at 22±2°C using an illumination system based on Philips GreenPower LED research module (16-h photoperiod with 80-95 µmol m-2 s-1 PPFD). Three groups of LEDs emitting in white (W), blue (B), mixed (BR) (W:B:red:far-red = 1:1:1:1) lights) were applied. Data on fresh (FW) and dry (DW) mass, number and length of shoots, the length and width of the first fully developed leaf, content of photosynthetic pigments was evaluated in six passages of three weeks of culture on the corresponding light regime. For each light treatment three replications, each containing ten shoots was tested and the experiment was repeated three times. Statistical analysis of physiological parameters was performed using a one-way ANOVA using the Tukey test to validate the different significance at P ≤0.05. Fig. 2. Gas-exchange filters of the polypropylene containers allows air flow, but blocks contamination. Fig. 3. The size of the first fully developed leaf of pear plantlets, grown with BAP or mT in the nutrient medium at different light treatments. W white LEDs, B – blue LEDs, BR – mixed LEDs. Results Fig. 1. The appearance of pear plantlets, grown with BAP or mT in the nutrient medium at different light treatments.W white LEDs, B – blue LEDs, BR – mixed LEDs. Table 1. Growth indices measured in pear plantlets grown with BAP or mT in the nutrient medium at different light treatments. W white LEDs, B – blue LEDs, BR – mixed LEDs. For each column, different letters indicate significant differences at p≤0.05. LED Light Cytokinin Length of Shoot /mm/ Number of Shoots Number of Leaves FW /g/ DW /g/ White BAP mT 20.76 a 15.96 b 1.2 a 1.0 a 7.3 ab 9.2 ab 1.20 a 1.55 a 0.34 ab 0.47 a BR BAP mT 11.98 c 20.58 a 1.6 a 1.0 a 10.4 a 7.5 ab 0.67 a 0.98 a 0.15 b 0.18 b Blue BAP mT 21.96 a 15.90 b 1.6 a 1.1 a 9.1 ab 5.7 b 1.17 a 1.28 a 0.29 ab 0.34 ab Table 2. The content of photosynthetic pigments (mg g-1 FW) in the pear plantlets cultivated with BAP or mT in the nutrient medium at different light treatments. W white LEDs, B – blue LEDs, BR – mixed LEDs. For each column, different letters indicate significant differences at p≤0.05. LED Light Cytokinin Chl a Chl b Chl (a+b) Car Chl a/b Chl(a+b)/Car White BAP mT 0.52 a 0.26 cd 0.17 a 0.09 bc 0.69 a 0.35 c 0.23 a 0.14 b 3.05 ab 2.96 b 2.95 b 2.58 c BR BAP mT 0.25 cd 0.21 d 0.09 bc 0.08 c 0.34 c 0.30 c 0.15 b 0.11 b 2.58 c 2.61 c 2.31 d 2.74 bc Blue BAP mT 0.39 b 0.32 bc 0.12 b 0.10 bc 0.51 b 0.42 bc 0.16 b 0.16 b 3.15 ab 3.29 a 3.26 a 2.63 b Fig. 4. Effect of the light and cytokinin on the net photosynthetic rate (μmol CO2 m-2 s-1) and transpiration intensity (E, mmol H2O m-2 s-1) of pear plantlets; Different letters within column indicated difference at (Р<0.05). Conclusions Plantlets grown on the nu


DR Analysis How variation in Cochlear Implant performance relates to differences in MAP parameters Enrico Migliorini12, Bas van Dijk1, Birgit Philips1, Emmanuel Mylanus2, Wendy Huinck2 1) Cochlear CTCB, Mechelen, Belgium 2) Radboud university medical center, Nijmegen, The Netherlands In this project we investigated T (threshold) and C (comfort) levels of 298 CI recipients at the Radboud university medical center. The recipients were all postlingually deaf adults, and all tests were NVA CVC tests in quiet, at a presentation level of 65 dB SPL. The first step performed was conducting Principal Component Analysis to turn the 44-dimensional dataset to a 4-dimensional one. Figure 1: Explanations of the four PCA components. Figure 1a correlates strongly with the average T- and C-level, 1b with Electrical Dynamic Range (EDR), 1c with tilt and 1d with curvature. Figure 2: Distributions of the PCA parameters in the two populations We then separated the top and bottom tertiles of performance from the population: the former containing 100 recipients scoring higher than 69% estimated Word Score, and the latter containing 101 recipients scoring lower than 45%. The only component for which a Mann-Whitney-Wilcoxon test showed a significant difference between the populations is the second one (p=0.001, see Figure 2b). From Figure 1b we can see that this component mainly described the Electrical Dynamic Range (C-T level). The next step was to repeat the analysis on the same populations, this time precisely defining the aggregate values we were considering: T-levels, C-levels, EDR, and the tilt of T- and C-levels. The Mann-Whitney-Wilcoxon test confirmed the significant difference in EDR between the two populations (Top and bottom tertile). Figure 3: Distributions of dynamic range in the two populations An association between EDR and Speech Audiometry scores has been shown before by both Kim1 and de Graaff2. Further investigation may shed light on the causal relation between the two values: does better DR help some recipients, or are higher- scoring recipients able to make use of a wider DR? 1. Kim SY, Jeon SK, Oh SH, Lee JH, Suh MW, Lee SY, Lim HJ, Park MK. Electrical dynamic range is only weakly associated with auditory performance and speech recognition in long-term users of cochlear implants. Int J Pediatr Otorhinolaryngol. 2018 Aug;111:170-173 2. de Graaff F, Lissenberg-Witte BI, Kaandorp MW, Merkus P, Goverts ST, Kramer SE, Smits C. Relationship Between Speech Recognition in Quiet and Noise and Fitting Parameters, Impedances and ECAP Thresholds in Adult Cochlear Implant Users. Ear Hear. 2020 Jul/Aug;41(4):935-947 Figure 4: Average MAPs for the two populations Figure 5: Dynamic range correlation with scores An analysis of the histogram and its Kernel Density Estimation curve appears to suggest that the top tertile population may be composed of two subgroups: one group showing a dynamic range of approx. 40 to 50 Current Levels (CL) and one showing a dynamic range of approx. 60 to 80 CL. There is also the possibility of confounders, such as neural health or native language, which may influence both DR and speech understanding. This possibility must not be ignored. Conclusions PCA Analysis Higher speech audiometry scores appear associated with wider Dynamic Range 1a 1b 1c 1d 2a 2b 2c 2d Additional research question: Does increased Dynamic Range improve the speech understanding of some CI recipients?


Assessment of genetic diversity of white lupin (Lupinus albus L.) accessions based on agro-morphological traits Sofia Petrova Institute of Plant Genetic Resources “Konstantin Malkov”- Sadovo corresponding author: soniapetrova123@abv.bg Introduction Lupinus is a relatively large genus and one of the most geographically widespread with a rich diversity of species. Lupin is an annual or perennial legume belonging to legume family, Fabaceae, one of the oldest crops. In our country lupin is not a traditional crop, but it has been used for a long time as a green manure source. The conservation and preservation of the white lupin genetic resources are of crucial importance for the breeding programs aiming the cultivar improvement. The aim of this study was to assess the genetic diversity of ten white lupin accessions regarding components of productivity and biological traits. Material and Methods Ten white lupin genotypes were used for this study. At maturity was measured following morphological traits: plant height, height to the first pod, number of productive branches, number of pods per plant, number of grains per plant, number of grains per pod, mass of grains per plant and mass of 100 grains. The phenological traits were assessment by coefficient of earliness. For ultra early varieties the value of this coefficient was from 1.00 to 1.17, for the early varieties from 1.17 to 1.33, for middle-early ones from 1.34 to 1.66 and for the late varieties was greater than 1.66. The studied agro-morphological traits were processed mathematically by analysis of variance. To investigate the genetic diversity between the studied lupin accessions was used Cluster analysis. Results and discusion The clustering of the lupin accessions based on their morphological traits is presenting on Fig. 1. The traits data are given on Table 1. The accessions were divided into two main groups (clusters). Only the accession BGR3080 was included in the first cluster. This genotype had large grains, big mass of grains per plant and big number of grains per pod. The second claster was divided into two sub-clusters. The first sub-cluster included three genotypes, with tall plants, big number of productive branches and big mass of grains per plant. The BGR 3086 genotype differed significantly by plant height. This accession also had a high number of grains per plant and the shortest vegetation period. The accession BGR6341 had significant differences by plant height, number of productive branches, number of grains per plant and mass of grains per plant. This accession characterized also by high values of number of pods per plant and number of grains per pod. The BGR 3085 accession had significant differences by mass of grains per plant. The second sub-cluster included six accessions possessing medium-high to short stem and medium-large to large grains. The data showed that within this sub-cluster significant genetic distance was observed between the genotypes. The clustering of the agro-morphological traits of the lupin accessions is presented on Fig. 2. From the clustering of the traits we could concluded that they were combined into two main clusters. Only vegitation period was included in the first cluster. The second cluster was divided into two sub-clusters: the first sub-cluster included the following traits: plant height, number of grains per plant, germination-beginning of flowering, mass of 100 grains and height to the first pod united by the close value of the Euclidean distance. The remaining four were combined into the second sub-cluster. Accession Plant height, сm Height to the first pod, cm Number of productiv branches Number of pods per plant Number of grains per plant Number of grains per pod Mass of grains per plant, g 100 grains mass, g BGR 3083 53.29 28.00 2.14* 8.71 35.00 4.49 13.23 37.80 BGR 6339 51.57* 23.43* 3.14 10.14 40.29 4.77 14.84 37.05 BGR 6337 55.43 22.57** 3.57 11.57 45.43 4.80 14.43 32.45 BGR 3080 63.86 28.14 3.14 12.14 47.43 4.90


C • Neutrino detector located 2 km underground at SNOLAB, in Canada • Acrylic vessel filled with 780 tonnes of liquid scintillator • Ionising radiation generates scintillation light • The light is recorded by the 9362 PMTs • The muon rate is ~3 per hour Physics goals include the search for neutrinoless double beta decay from tellurium-130 and measurements of the reactor, solar, supernovae and, geo neutrinos CC on Carbon-13 𝑒! Prompt Event Delayed Event • Data-driven background rates • The fiducial volume, ΔR, ΔT and delayed energy window were jointly optimised • The annihilation produces two gammas which are detected • A positron with energy: [1.0 to 2.2] MeV • Imposing a 5 MeV cut removes most background, for example, the Thallium-208 decay (Q = 5 MeV) 𝟖𝑩 𝟖𝑩𝒆+ 𝒗𝒆+ 𝒆# Likelihood Analysis 𝑣! &'𝐶 &'𝑁 𝑣! &'𝐶 𝑒( 𝑒! 𝛾 𝛾 𝑡$ % ≈10 𝑚𝑖𝑛 Using PDFs of the delayed energy (1 to 2.2 MeV), ΔT (0.01 to 60 min), and ΔR (<1 m), the Likelihood ratio can be constructed A predetermined cut that maximise significance gives an expected background number of 0.17 and a signal of 1.79 Two events observed, giving a background fluctuation probability of 1% The successfully validated background model gives confidence in the extrapolation of sensitivity Cuts-Based Analysis • The remaining prompt background is 8B Elastic scattering These cuts give an expected background number of 0.31 and a signal of 1.83 Two events observed • Electron with energy = 𝐸(𝜈!) −2.2 𝑀𝑒𝑉 [2] T. Suzuki, A. B. Balantekin, and T. Kajino, Neutrino capture on 13C Phys. Rev. C 86, 015502, 2012 Analysis is being continued on an expanded data set Backgrounds [1] Borexino Collaboration, M. Agostini et al., Comprehensive measurement of pp-chain solar neutrinos, Nature 562, 2018 Gulliver Milton on behalf of the SNO+ collaboration SNO+ experiment Φ "# = 5.20 $%.' (%.' × 10) 𝑐𝑚$*𝑠$' [1] FV < 5.3 m ΔR < 0.36 m 0.01 < ΔT (min) < 24 1.14 < 𝐸!! (MeV) < 2.2 [3] P. A. Zyla et al, (Particle Data Group), Review of Particle Physics, Prog. Theor, Exp. Phys, 083C01, 2020 Livetime: 170 days (pre-cuts), 150 days (post-cuts) • This is obtained by integrating over the theoretical cross- section [2] and SSM 8B neutrino flux [1], assuming the globally fit neutrino oscillations parameters [3] • The dominant background is from accidental coincidences Predetermined cuts First Indications of CC Solar Neutrino Interactions on Carbon-13 Signal • The fraction of events resulting in fake coincidences allows the random coincidence rate to be determined • The cross-section of the interaction is orders of magnitude larger than the electron ES process [2] • In SNO+ there are expected 22 ev/yr/kT 8B neutrino CC interactions with 13C • Given the low muon flux at SNO+, modest muon followers cuts reduce the cosmogenic background (11Be prompt + 11C delayed) to a negligible 7.0×10-4 ev/yr/kT • Spurious prompt events were used to produce “fake coincidences” with data events satisfying delayed event cuts • The 1.1% natural abundance of 13C in the organic scintillator can undergo a charged current interaction with neutrinos • The CC reaction on 13C has a threshold of 2.2 MeV and produces a 13N, which then decays • The coincidence nature of the event significantly reduces the background • Solar neutrinos produced in 8B decays from the pp chain in the Sun arrive at Earth with a flux of:


The effects of disinfection on Clavibacter michigansensis subsp. sepedonicus and other bacterial pathogens of potato in Europe Funding Non-competitive funding mechanism. Each funder only pays for the participation of their own national researchers. Total funding € 353,000 Picture 1 Picture 1 Picture 1 Goals The project aims to investigate the efficacy of disinfectants on Clavibacter michiganensis subsp. sepedonicus (ringrot) and other bacterial pathogens of potato and their optimal application techniques. The main focus will be on disinfection of materials (in particular wooden boxes used for potato storage). Research consortium NL-EL&I, LT-MoA, UK-SASA Contact information Project coordinator: Leon Tjou-Tam-Sin n.n.a.tjou-tam-sin@nvwa.nl Key outputs and results • A Report describing the experiments and results in which efficacy of disinfectants is tested • A disinfection protocol to effectively disinfect materials (in particular wooden boxes used for potato storage) Objectives • Assessment of the efficacy of selected disinfection methods and disinfectants • Selection of a suitable methodology to effectively disinfect materials (in particular wooden boxes) 04/2013-12/2015


Fast and Powerful Multiple Testing Inference in Family- Based Heritability Studies Habib Ganjgahi1, Anderson Winkler2, Peter Kochunov3, David C. Glahn4 ,John Blangero5, Thomas E. Nichols1. 1Department of Statistics, University of Warwick, Coventry, UK; 2 FMRIB, University of Oxford, UK; 3Maryland Psychiatric Research Center, Department of Psychiatry, University of Maryland School of Medicine, Baltimore, MD, USA; 4Olin Neuropsychiatry Research Center in the Institute of Living, Yale University School of Medicine, New Haven, CT, USA 5AT&T Genomics Computing Center, Texas Biomedical Research Institute., Texas, United States. Introduction Estimation of heritability is essential in imaging genetic studies. Voxel-wise heritability for traits like cortical thickness, fractional anisotropy and BOLD activations have been made practical by genetic analysis tools optimized for imaging research, such as the SOLAR/SOLAReclipse (Kochunov2013). The mass-univariate nature of voxel-wise analyses, however, presents a severe multiple testing problem. In this work we present a fast and powerful permutation test for general pedigree studies that provide traditional, spatial inferences for images, including familywise error corrected voxel- and cluster- level inference. Methods Voxel-wise Heritability Estimation: Heritability estimation is performed using variance component models. In this approach, the phenotype covariance matrix is decomposed into two components, one for the additive genetic effect and one for the combination of individual-specific environmental effects and measurement error Σ = 2𝜎𝐴 2Φ + 𝜎𝐸 2𝐼. The parameters are estimated by maximizing the likelihood function under a multivariate normal assumption. An orthogonal transformation (based on the eigenvectors of the kinship matrix) is used to accelerate computation. Hypothesis testing is performed with a likelihood ratio test (LRT). Permutation Procedures We propose two permutation tests for heritability inference. The first method is based on the permuting the rows and columns of the kinship covariance matrix, and repeatedly fitting the model and computing the LRT; this provides uncorrected p-values at each voxel and, via the maximum LRT (or maximum cluster-size, based on thresholded LRT images) FWE-corrected p-values. Note that this method requires the iterative optimization of the likelihood function for each permutation, which is computationally intensive. The second method is based on constructing an auxiliary regression model on squared residuals and the kinship covariance matrix eigenvalues. After orthogonal transformation of the data, the second moment of residuals has a linear relationship with the additive genetic effect and the kinship matrix eigenvalues: 𝐸𝑒𝑖 2 = ℎ2 𝜆𝑔𝑖−1 + 1, where 𝑒 and 𝜆𝑔are transformed residuals and the kinship matrix eigenvalues respectively (w.l.o.g. we assume data is scaled to unit variance). Based on this expression we fit a regression model, where there is only one unknown parameter (ℎ2), and the usual regression sum of squares provides a test- statistic. Simulation Monte Carlo simulation was used to validate the permutation tests cluster size inference for multiple testing error correction in imaging heritability studies. We simulated smooth images of size 64 by 64 containing a circular region of true heritability for two pedigrees, of total 138 subjects. Heritability was varied, ℎ2 = {0, 0.2, 0.4, 0.6}. 500 permutations were used, and the entire simulation was repeated with 1000 realized datasets. Results See figures. Conclusions We have developed permutation-based heritability methods for general family data, providing spatial inferences that are useful for brain-imaging. Cluster wise inference based on constructing the auxiliary regression model provides exact control over FWE and has power comparable with LRT. References Blangero et al (2013). A kernel of truth: statistical advances in polygenic variance component models for complex human pedi


On this captivating journey of question-solving and coding challenges, you will test your knowledge on microplastics, discover the research carried out in Imptox and help NanoNinja catch PlastikPunk and free the world from plastic trash. Don’t hesitate and sign up for the advenuture! A VIDEO GAME TO DISCOVER THE HIDDEN WORLD OF MICROPLASTICS Imptox has received funding from the EUs H2020 framework programme for research and innovation under grant agreement n. 965173. This project is part of CUSP, the European research cluster to understand the health impacts of micro- and nanoplastics (MNPs). MICROPLASTIC M A D N E S S CATCHING PLASTIKPUNK PLAY NOW


P128 An Approach to Control Purity of the Drug Substance for Non-Clinical Study T. HASHIMOTO1, Y. KOBAYASHI1, Y. OKUBO*1 1 Res. Lab., Toyama Chemical Co., Ltd., Toyama, JAPAN Synthetic Route of API (Compound 12) *Corresponding author: Yusuke Okubo, Mailing address: Research Laboratories, TOYAMA CHEMICAL CO., LTD. 2-4-1 Shimookui Toyama 930-8508, JAPAN, E-mail: YUSUKE_OKUBO@toyama-chemical.co.jp Tel: +81 (0)76-431-8267 Fax: +81 (0)76-431-8208 Background: Purity of drug substance (API) used for clinical study must be the same or higher than that of API used for non-clinical study (NCAPI). It is important to allow flexibility in developing manufacturing process to design and control the purity of NCAPI. There are various ways to optimize the purity on purpose, such as addition of individual impurities on use of harsh chemical reactions. In the present study, we established a method to ensure the desired purity of NCAPI by adding a separate set of API containing various species of impurities (IMAPI). Methods: Firstly, the target purity of NCAPI was determined by the purity of API used for a two-week repeated dose toxicity study in the dog. Secondly, IMAPI was prepared in lab, and lab experiments were conducted to determine how much IMAPI needed to achieve the target purity of NCAPI at large-scale manufacturing. Thirdly, we conducted large- scale manufacturing by addition of IMAPI and confirmed whether the purity of NCAPI was within the desired one. Results: The purity of API used in the dog toxicity study was 97.8%, so we set the target purity at 98%. IMAPI was synthesized with the purity of 82.2%, and added to the reaction mixture in large-scale production. Crystallization and filtration gave 37.4 kg of NCAPI with the purity of 99%, which is slightly higher than the target purity. Conclusions: These results indicate that this method is useful for purity design of NCAPI. Abstract Introduction Methods 1. Target purity and impurity profile determination API for a two-week repeated dose toxicity study in the dog was synthesized. Target purity and impurity profile of NCAPI were determined. 2. Preparation of IMAPI IMAPI was prepared by adding the residue of the filtrates, process intermediates, and degradate, which were prepared separately. 3. IMAPI spike tests Reaction mixture in the final manufacturing step was spiked IMAPI to determine where the appropriate process to add and how much IMAPI needed to optimize the purity and the target impurity profile of NCAPI at large-scale manufacturing. 4. Manufacturing NCAPI NCAPI was manufactured by adding IMAPI to the reaction process of the final manufacturing step. Result 2: Preparation of IMAPI Result 1: Synthesis of the API for a two-week repeated dose toxicity study in the dog Summary of results 1. The purity of API used in the dog toxicity study was 97.8%. Therefore, the target purity of NCAPI was set at 98%. Major impurities in this API were identified to determine the target impurity profile. 2. IMAPI was synthesized with the purity of 82.2% and major impurities were included. 3. Spike tests showed that adding 1.0 wt% IMAPI to the reaction process produced API with the purity of 98.0%, achieving the target purity profile. Adding IMAPI to the crystallization process did not affect the purity of the API. 4. NCAPI was manufactured by IMAPI. Adding IMAPI to the reaction process afforded 37.4 kg of NCAPI with the purity of 99.0%, which is slightly higher than the target purity. Impurities presented in NCAPI were as we anticipated. Conclusion Alkylation Reaction 75% yield Pd-Coupling Reaction 90% yield Ring-Closing Reaction Reaction with Hydroxylamine 80% yield 95% yield Coupling Reaction 90% yield APIs intermediates filtrates byproducts degradates + = IMAPI Result 3: Spike tests of IMAPI Result 4: Manufacturing NCAPI Ring-Closing Reaction Work-up Crystallization Filtration Compd. 11 Crude Compd. 12 Filtrate Dissolution Crystallization Filtration and Wash Filtrate Compd. 12 450 g (two lots)


www.coastalwarming.com/cctbon www.instagram.com/ruiseabra twitter.com/fpslima MONITORING TEMPERATURE IN HARSH ENVIRONMENTS Whether on temperate, tropical, or polar coastlines, recording temperatures every hour for very long periods of time and with minimal maintenance requires unique tools and methodologies. We used our decade-long experience in the monitoring of intertidal temperatures to develop the EnvLogger T7.3 temperature logger (size: 27x11mm; www.electricblue.eu/envolggers). The T7.3 can collect up to 15 years of hourly temperature readings without the need for any maintenance, opening up the possibility of monitoring even the remotest locations. The device is also fully encased in resin, making it extremely rugged and safe for the environment. 10.1126/science.adl6580 The tiny temperature loggers are deployed snugly inside shallow holes drilled on the rock using a 30mm drill bit (just 3mm wider than the loggers). Loggers are then glued using a two-part epoxy (Splash Zone A-788) that hardens even underwater, creating a very tight and long-lasting bond. Sitting ﬂush with the rock’s surface and protected from nearly all sides, they can withstand even the harshest wave impacts and still be accessible for downloading the recorded data. Out of the more than one thousand loggers we have already deployed, the recorded yearly failure rate remains under 0.1%, and we’ve never encountered a leaking battery. Still, if a logger must be removed or replaced, a hammer and a chisel can be used to chip away the epoxy shell and safely pry out the electronics without compromising the integrity of the battery. We always collect all components and pieces of resin. If monitoring is being discontinued, we also smooth out the holes. Even just one year after deployment, loggers often become colonized by the local biodiversity, such as limpets, barnacles, algae, and others, rendering them very inconspicuous in the environment and ensuring that their aesthetic impact in the wilderness is negligible. Our team uses several strategies to document each logger’s positions so that they can be found later on. Recorded data is downloaded using iOS/Android smartphones equipped with NFC (Near Field Communication) by simply tapping the logger’s exposed surface. A total of 10 temperature loggers are deployed in each shore: 5 exposed to the sun and 5 in shaded rock faces. This allows us to characterise each shore’s thermal envelope - the highest and lowest temperatures available at any moment. Since the loggers are always deployed at the mid-shore level, some of the temperatures are recorded while the loggers are underwater, exactly as experienced by intertidal organisms. These data will allow the study of the impact of Global Warming on coastal biodiversity with unprecedented detail. #3 - data download #3 - data download #5 - data analysis #5 - data analysis 2 1 3 4 5 6 #1 - the device #1 - the device #2 - deployment #2 - deployment #4 - removal #4 - removal 10.1126/science.adl6580 R Seabra is a National Geographic Explorer Lindblad Expeditions - National Geographic Fund Hot loggers are deployed in rocks with maximum exposure to the sun Cold loggers are usually deployed in cracks or under overhangs C1 H5 + H4 H3 H2 H1 H4 H5 C2 C3 C4 C5 H2 H3 H1 C1 C2 C3 C4 C5


KIT – The Research University in the Helmholtz Association h Introduction to the KATRIN Rear Wall (RW) e- Analyzing RW Systematic via Measuring the Rate and Spectrum from RW − Events Non- Mitigated RW Surface(s) How Can We Model the RW Contaminant? Gold RW Surface Conclusions and Further Studies: The spectral shape near the endpoint is analyzed to determine the neutrino mass signature. − Spectrum Endpoint Region KATRIN measures the energy spectrum of the - near the endpoint. Molecular Tritium Decay Products Gaseous tritium undergoes - decay. Molecular Tritium KArlsruhe TRItium Neutrino Experiment (KATRIN) Direct Measurement of the Neutrino Mass KNM1-5 Uncertainties m< 0.8 eV/c2 (90% C.L.) The Rear Wall (RW) Mitigated RW Surface Au Au During KATRIN operatations, electrons bombard the unknown CnHm, breaking the -bonds and the CnHm. Example hydrocarbon chain (CnHm) pre-existing on RW CnHm with -bond opened by electron bombardment Tritium bonds to the newly opened - bonds resulting in amorphous structure. Newly created tritiated amorphous hydrocarbon (aCnTm) on RW − from T decay of aCnTm have a different spectrum than − from source A Possible Origin for the RW Systematic Evolution of the RW rate Evolution of the RW spectrum & Nat. Phys. 18, 160- 166 (2022) ❖We divide our RW data into epochs between surface cleanings with UV and ozone. ❖Integral flow is the total tritium circulated through the source since a given time. RW rate measurements are performed whenever there is no tritium in the gaseous source (e.g., between KATRIN Neutrino Mass Campaign “KNM” etc). For these measurements, we count the rate above a fixed retarding energy threshold. From these measurements, we found the RW rate has a predictable growth during epochs. ❖ ❖ ❖ RW spectrum measurements are performed by varying the retarding energy threshold to scan the RW −spectrum and then fitting a model to that RW −spectrum. Our goal is to find a minimal set of parameters for the RW spectrum model. The RW spectrum parameters are signal, endpoint, and FSD shape. The FSD shape compares the Final State Distribution (FSD) of the RW substance to that of T2. ❖ ❖ ❖ ❖ The RW rate and signal have consistent behavior across epoch 1 and 2. In epoch 3, the RW signal and rate are lower and more stable than in epochs 1 and 2. The RW endpoint and FSD shape have -0.96 correlation coefficient. Further Studies: We plan to next determine the RW uncertainty for KATRIN datasets post KNM1-5. The RW tritium spectrum has a systematic effect on the neutrino mass which can be addressed by including the RW spectrum in neutrino mass fits. This systematic effect has been successfully mitigated. Conclusion: ❖ ❖ ❖ Tritium bonds to the open pi bonds in the CnHm creating aCnTm. UV and ozone cleaning removes the chemisorbed tritium and some of the aCnTm beneath (Fusion Science and Technology 80.3-4 (2024): 303-310.). The aCnTm has been almost removed. We see that there is limited accumulation of tritium activity (T adsorbs poorly on Au). Possible Model: A big, initial CnHm layer that later saturates with tritium. ❖ 1. 2. 3. T T e- e- T + + He Detector Main Spectrometer Gaseous Source Magnetic fields guide - from the source to the detector A bias voltage is applied to the RW to help to control the starting potential of electrons in the gaseous source. CnHm becomes tritiated aCnTm is cleaned from RW Initial CnHm layer on RW Au C H H H H C We acknowledge the support of Helmholtz Association (HGF), Ministry for Education and Research BMBF, the doctoral school KSETA at KIT, Helmholtz Initiative and Networking Fund, Max Planck Research Group, and DFG in Germany; Ministry of Education, Youth and Sport in the Czech Republic; INFN in Italy; the National Science, Research and Innovation Fund via the Program Management Unit for Human Resources & Institutional Development, Research and Innovation in Thailand; and the DOE Office of Science, Nuclear Physics in the United States. This project has received fu


0 20 40 60 80 100 Open Closed Glasses Eyes Score of recognition (max: 100) *** *** 0 20 40 60 80 100 Open Closed Glasses Eyes Score of recognition (max: 100) Emotion Anger Fear Happiness Neutral 0 20 40 60 80 100 Open Closed Glasses Eyes Score of recognition (max: 100) Emotion Anger Fear Happiness Neutral 0 20 40 60 80 100 Open Closed Glasses Eyes Score of recognition (max: 100) Emotion Anger Fear Happiness Neutral 0 20 40 60 80 100 Open Closed Glasses Eyes Score of recognition (max: 100) Emotion Anger Fear Happiness Neutral *** *** *** *** *** *** *** *


Global Grant IDs in Europe PMC Michael Parkin, Maria Levchenko, Jo McEntyre Europe PMC, EMBL-EBI European Bioinformatics Institute Summary Europe PMC, a database of life science research literature, incorporates the ﬁrst open, global grant IDs into its workﬂows. In a collaborative eﬀort between Crossref, Wellcome (one of the Europe PMC funders), and Europe PMC, the ﬁrst global grant IDs have been registered for Well- come grants. Wellcome recently joined Crossref through a new type of membership developed speciﬁcally for this purpose. Europe PMC regis- ters global grant IDs for Wellcome-funded awards with Crossref on behalf of the funding agency, and provides the necessary metadata based on the information in its grant database. The grant IDs resolve to the corresponding grant record on the Europe PMC website. The aim of this development is to make it easier to unambiguously and eﬀectively track the impact of research funding, ensure transparency of the funding in- formation and simplify linking to research outputs, such as research publications. Linking research objects The adoption of global grant IDs allows us to link publications and grants hosted in Europe PMC, supporting better tracking of the re- search funding impact and providing greater transparency for the funding information. In a pilot eﬀort, the journal PLOS ONE has coordinated with Well- come-funded authors to include newly registered global grant IDs in the metadata of the publication. As the grant ID links to the grant record on Europe PMC’s website, the readers can now readily exam- ine the support provided by Wellcome for this study. doi.org/10.35/1077 GRANT How to get involved We hope that global grant IDs will simplify researchers’ work- ﬂows, with grant data collected on submission by publishers and repositories and automatically fed into assessment platforms. If you would like to incorporate global grant IDs into your own workﬂows or retrieve grant metadata, get in touch via helpdesk@europepmc.org. Future plans The ﬁrst two Wellcome grant IDs have been registered as a proof-of-concept. Our next step is to launch an automated pipe- line to register IDs for Wellcome grants from 2019. Following is retrospective grant ID assignment for nearly 13,500 Wellcome grants from earlier years in Europe PMC. This may also be extended to other interested Europe PMC funders. Collaborative eﬀort Global grant ID Grant record Grant metadata Wellcome, as one of the Europe PMC funders, provides grant data to Europe PMC, which is displayed on the website and accessible via an open API To register a global grant ID, Europe PMC provides grant metadata to Crossref. Crossref registers a global grant ID in the form of a DOI. The DOI resolves to the grant record in the Europe PMC grant database. Grant DOI suﬃx


Showcase #2 EPDraCor 󰏅 ●from the Early Print Library (~850 items, earlyprint.org) ●automated pipeline for importing texts and removing linguistic markup ●manual speaker disambiguation through a dedicated web service ●sneak preview: staging.dracor.org/ep Showcase #1 UDraCor 󰑒 ●from a curated list of canonical Ukrainian drama (~150 items) ●plain texts fetched from non-scholarly online libraries ●ezdrama markup applied by a group of volunteers ●sneak preview: staging.dracor.org/u Onboard onto DraCor! Prototyping Workﬂows to Homogenize Drama Corpora Ingo Börner x Frank Fischer x Luca Giovannini Christopher Lu x Carsten Milling x Daniil Skorinkin Henny Sluyter-Gäthje x Peer Trilcke Project homepage: dracor.org 🦜 Texts with no markup (e.g. TXTs from OCRed PDFs) Matrosen. Wie? Kommt ihr denn nicht selbst an Bord? Python scripts ad-hoc transformation pipelines XSLT (or Python scripts) ezdrama a simple, markdown-like language for conversion to XML DraCor-ready TEI-XML Texts with basic markup (e.g. HTMLs) <i>Matrosen.<i> Wie? Kommt ihr denn nicht selbst an Bord? Texts with advanced markup (e.g. XMLs) <sp who="#matrosen"> <speaker>Matrosen. </speaker> <l>Wie? Kommt ihr denn nicht selbst an Bord?</l> </sp>


Ted Laderas1,Nicole Vasilevsky1,2, Melissa Haendel1,2 , Shannon McWeeney1, David A. Dorr1,3 1Department of Medical Informatics and Clinical Epidemiology, 2Library, 3Department of Medicine, Oregon Health & Science University, Portland, OR ACKNOWLEDGEMENTS: This work is supported by NIH Grant 1R25EB020379-01 Get real: A synthetic dataset illustrating clinical and genetic covariates Goals Decision Trees for Generating Realistic Data Scenario Discussion Questions Next Steps Sample Datasets and the generation script will be made open-access and open-source on GitHub. We encourage collaboration to improve this idea. www.ohsu.edu/bd2k v Decision Trees provide framework for integrating clinical and genetic datatypes, but they are overly simplistic. v How difficult do we make the problem? v Tradeoffs between learning and difficulty v How can we incorporate other techniques such as natural language processing (NLP) into this task? v What are other scenarios we can model? v What extra covariates should we include for clinical and genetic data? v Should they be extraneous or collinear with other variables? v Develop a script to generate realistic synthetic datasets for hands-on learning in BD2K workshops v Learn the difficulties and challenges of working with both clinical data and genetic data v Learn the strengths/weaknesses of machine learning algorithms for classification in a “safe context” v Highlight known issues with integrating clinical and genetic data Learning Objectives Use predetermined decision tree structure to define structure of dataset Decision Tree Structure defines what risk groups exist in dataset Frequencies of risk groups derived from real patient data Risk group frequencies determine sampling probability of that risk group in synthetic dataset Tuning Difficulty Level Difficulty of problem can be tuned by adjusting conditional probabilities of CVD risk association for each risk group Variable Importance/level Age 1 BMI 2 Hypertension 2 Type 2 Diabetes 3 Race 4 Cholesterol 5 Gender 6 SNPs 6 v Task is a classification problem, where students predict (low or high) cardiovascular risk (< or =>7.5%/10 years), given the following data: v Clinical Data derived from Electronic Health Record systems (EHRs) v Lab Values (LOINC) v Medications (RxNorm) v Genetic data modeled as SNPs v Task structure is to train a model using initial set, then test algorithm on (hidden) set v To synthesize data, we use variable ‘importance’, defined as population affected and predictive impact determines level in decision tree Reference Parameters The Look AHEAD Research Group. Prospective association of a genetic risk score and lifestyle intervention with cardiovascular morbidity and mortality among individuals with type 2 diabetes: the Look AHEAD randomised controlled trial. Diabetologia. 2015;58(8):1803-1813. doi:10.1007/s00125-015-3610-z. For More Information AGE > 50 Hypertension = Y BMI > 25 T2D = Yes Smoking = Yes SNP1variant = GG,GA Cholesterol Treat = Y Race = Caucasian Cholesterol = High Race = Caucasian 1 T F T F 2 3 4 5 6 7 8 9 10 11 T F Genetic Data modeled as “surprise” risk groups Decision Tree branches define restrictions on sampling space for covariates Risk Group Group Definition Frequency P(CVD=High) 1 Age >50,Hyp=Y,Race=C 0.310 0.81 2 Age >50,Hyp=Y,Race=NC, Chol=H, CholTreat=Y 0.001 0.10 3 Age >50,Hyp=Y,Race=NC, Chol=H, CholTreat =N 0.001 0.20 4 Age>50,Hyp=Y,Race=NC, Chol=Low 0.010 0.70 5 Age>50, Hyp=N 0.280 0.08 6 Age<50, BMI>25, T2D=Y 0.166 0.78 7 Age<50, BMI>25, T2D=N 0.220 0.20 8 Age<50, BMI<25, Smoking = Y 0.010 0.60 9 Age<50, BMI<25,Race=C 0.010 0.01 10 Age < 50, BMI<25, Race=NC, SNP1=GG,GA 0.001 0.20 11 Age<50, BMI<25, SNP1=AA 0.001 0.05 T F T F T F T F T F T F T F v Difficulty of problem can be refined using iterative testing framework v Can refine probabilities, estimate difficulty from ROC curves, and recalculate dataset until desired difficulty reached


It’s not limited to Archaea – on methane emissions in the world of fungi Tomasz Grzyb1 Lenhart et al. (2012) and Schroll et al. (2020) proved aerobic methane production in 8 Basidiomycota species: • Pleurotus sapidus • Laetiporus sulphureus • Lentinula edodes • Hypholoma fasciculare • Pycnoporus sanguineus • Phanerochaete chrysosporium • Pleurotus ostreatus • Trametes versicolor Huang et al. (2022) proved that facultatively anaerobic Schizophyllum commune 20R-7-F01, isolated from ~20-million-year-old deep subseafloor coal-bearing sediments, can anaerobically degrade and convert lignite, lignin, phenol and benzoic acid too CH4 via a newly described halomethane-dependent pathway. Methane – a potent greenhouse gas } Methane (CH4) is a powerful greenhouse gas, second only too carbon dioxide (CO2) in driving climate change during industrial times. It is a short-lived climate pollutant 28 times more powerful than CO2 over a 100-year timescale, the atmospheric amount of which has more than doubled since the pre-industrial era. The amounts of methane in the atmosphere have changed drastically in the past 40 years. Moreover, methane contributes too the formation of ground-level ozone (O3), a dangerous air pollutant with detrimental effects on people, ecosystems and crops. Methane sources can be broadly classified as biogenic, thermogenic and pyrogenic. A review Until recently, biogenic sources of atmospheric methane were attributed exclusively too anaerobic methanogenesis performed by methanogenic Archaea. There are three main methanogenic pathways: hydrogenotrophic, methylotrophic and acetoclastic (however, new ones are discovered). All methanogenic Archaea strictly rely on those processes for energy conservation and growth. Methanogenesis plays a quantitatively important role in global methane emissions. Fungi govern the decomposition of organic material, which is critical for the global carbon cycle. They can enhance archaeal methanogenesis e.g., by initiation of organic matter degradation – fungi release reduced substrates that may be channelled too methanogenesis. On the other hand, fungi may control methanogenic archaeal populations and/or biodegradate methane themselves. Those types of interactions were mainly described for: rumen microbiota wetlands anaerobic water treatment In 1977 a peak of CH4 in the oxygen -saturated water was discovered; it was already well-known that archaeal methanogenesis is inhibited by oxygen . Since that time, methane oversaturation in oxic aquatic environments is often observed ; this phenomenon is known as the „methane paradox”. There are at least a few possible explanations for those observations ; one of them is that other organisms can produce methane and they perform this in oxic environments. Nowadays, increasing evidence has confirmed that several groups of organisms can produce methane in processes other than methanogenesis: Methane (CH4) is responsible for ~30% of the rise of global temperature during the industrial era. The atmospheric concentration of CH4 is increasing faster now than at any time since the 1980s. CH4 is emitted both from natural and anthropogenic sources. There is growing evidence that biogenic methane production is not limited too archaeal methanogenesis and that other microorganisms produce methane, mostly aerobically. The knowledge of sources and sinks of CH4 is crucial too face the challenge of global climate change. It remains an open question whether those non-methanogenesis biogenic processes could be an important contributor too the global methane budget as we still lack estimates of CH4 emissions for various groups, fungi included. Methanogenesis Fungi interact with methanogenic Archaea Fungi produce methane Methane paradox aerobically anaerobically Stable carbon isotope labelling experiments revealed methionine as a methane precursor in fungi Fungi could produce CH4 via degrading various metabolites (such as methionine) as a stress response postulated reaction s


BESIII Drift Chamber Tracking with Machine Learning 24th International Conference on Computing in High Energy and Nuclear Physics in Adelaide Yao Zhang*1, Ye Yuan1, Ting Zhou2, Karimi Khozani Hosein1, Liqing Qin2 , Qiumei Ma1, * zhangyao@ihep.ac.cn 1. Institute of High Energy Physics, CAS, Beijing, China 2. Guangxi Normal University, Guilin, China The Beijing Spectrometer III ( BESIII, Fig.1) has been running at the Beijing Electron Positron Collider II (BEPCII) for Tau-Charm physics since 2008. The tracking detector of BESIII is a Multilayer Drift Chamber (MDC). The tracking efficiency for high transverse momentum (pT) is high for charged particles but lower when (pT) < 120MeV/c as shown in Fig. 2. Some of the curling tracks with multi turn (|cosq|<0.2) have bad tracking efficiency and quality as Fig. 3 shows. For multi-turn tracks, the hits from different turns will close to each other and even overlap as Fig. 4 shows. The tracking efficiency is low due to effect of non-first turn’s hits. Network model U-Net is a convolutional networks for pixel level semantic segmentation. (https://arxiv.org/abs/1505.04597) Following is the U-Net model used in this work. Conv 3*3+RelU Max-pool Up-conv 3*3 Copy&concatentate Input event Output mask turn ID To learn the behavior of multi-turn tracks, the training sample should have multi-turn curling tracks which are at small dip angle and various transverse momentum. The particle used for this work are single m- and m+ . The track with transverse momentum less than 120MeV/c will curling in the MDC. Only track of more than one turn have been selected for the training and validation and testing. The momentum, angle and turn number distribution of data set show in the Fig. 6. Data sample The feature set to be the raw time of each hit after correction with the event start time. The cell without hits were set with a default time of 2000ns. The truth turn number from Monte-Carlo simulation used as target. The hits from the first turn were marked as 1. The hits from other turns and cells without hit were set to be the default value of 0. Dummy elements in the matrix were set to be the default values. Prepare for the input data The loss function used in this work is a binary cross entropy(BCE) plus a dice coefficient loss. Where 𝐵𝐶𝐸= −[𝑌log𝑓𝑋+ 1 −𝑌log(1 −𝑓(𝑋)]. Dice coefficient loss as a deep learning loss function for highly unbalanced segmentations. It was chosen because of the unbalanced number of element between 1st turn and non-1st turn. (https://arxiv.org/abs/1707.03237) Dice coefficient = 2|𝑋∩𝑌| 𝑋+|𝑌|, loss=1-(Dice coefficient)+BCE. Where, X is the target matrix and Y is the prediction matrix. So in this work,|X| and |Y| are approximately equal with the number of true first turn’s hits and predicted first turn’s hits respectively,|𝑋| ∩ |𝑌| is approximately equal with the number of hits marked as first turn hits and predicted as first turn hits. Loss function A sample of 10 thousands track have been used for training. The data set was separated into 7500 tracks for training and 2500 tracks for validation. The batch size was 64 and the epoch number was 50. Following are the training loss and model accuracy v.s. epoch number. The training has converged after about 15 epochs for validation data set. Training The efficiency and purity have been evaluated for single m- track with validation sample. The definition of efficiency and purity show as following: Efficiency = 𝑇𝑃 𝑃, Purity= 𝑇𝑃 𝑃′. Where TP is the number of predicted first turn and marked as first by Monte-Carlo truth, P is the number of true first turn hits and P’ is the number of hits predicted as first turn. The ROC curve of the average hit efficiency and purity (Fig. 10) shows that at the threshold of about 0.85 the prediction gives the efficiency and purity are about 91%. Fig.11 shows more than half of the events have efficiency and purity greater than 95%. From the event display (Fig.12) we can see that the efficiency of the hits from


Results Parameter estimation Introduction Animal movement patterns can yield information about foraging behavior and prey abundance and distribution. These are important components of understanding breeding behavior, individual survival, and ultimately population dynamics. Over time, sensor technology for measuring movement patterns have changed and improved. These changes render old technologies obsolete, but the older data are still valuable, especially if new and old data can be compared to check if behaviors have changed over time. However, technologies that have aggregated measurements at different temporal scales make comparisons challenging, and it is unclear to which extent this impacts conclusions that can be drawn from data. Changing measurements of changing movements? Detecting movement patterns across multiple generations of tracking technology Leah R Johnson1, Philipp H Boersch-Supan1,2, Sadie J Ryan2 & Richard A Phillips3 1Integrative Biology, University of South Florida, Tampa, FL, 2Geography & Emerging Pathogens Institute, University of Florida, Gainesville, FL, 3British Antarctic Survey, Cambridge, UK Data sources Devices: immersion loggers were attached to albatrosses, creating series of trip data, which represent dry periods (flights) between wet periods (water landings). Data were aggregated by the devices using a fixed time interval, which was dictated by logger design and deployment duration. We use data collected a decade apart[3,4]. A selection of sampling characteristics are given below. Study species Our models focus on two species of albatross that breed on Bird Island, South Georgia, in the South Atlantic. With a wingspan of up to 3.7m, the wandering albatross is the largest of all seabirds. Wanderers feed on squid, fish and carrion, and some birds follow fishing vessels to feed on bait and offal. The black-browed albatross is an annual breeder. It has a wing span of c. 2.3m and nests in dense hillside colonies. Chicks are fed a diet dominated by krill. Both species have a circumpolar distribution breeding on a number of subantarctic islands. The tracking data for This study come from colonies on South Georgia in the South Atlantic,which have been studied since the 1950’s. Some of the first bio-logging devices were deployed here[2,3]. References [1] Edwards AM, Phillips RA, Watkins NW, et al. 2007 Nature 449, 1044-1048 [2] Prince PA & Francis MD 1984, The Condor 86, 297-300 [3] Afanasyev V & Prince PA 1993 Ornis Scandinavica 24, 243-246 [4] Phalan B, Phillips RA et al. 2007 Marine Ecology Progress Series 340, 271-286 Follow our project: http://leah.johnson-gramacy.com/albatross Contact lrjohnson0@gmail.com pboesu@gmail.com @pboesu Acknowledgements This project is funded by an NSF grant (PLR-1341649) to LRJ and SJR. The British Antarctic Survey developed and deployed the immersion loggers. We thank Andrew Edwards for sharing his MLE code. Interested in Bayesian inference for differential equation models? Come to our talk about the R package deBInfer Friday 1.30pm HUB250. More info at https://github.com/pboesu/debinfer Approach Wandering albatross Diomedea exulans ©Jamie Coleman Black-browed albatross Thalassarche melanophris ©British Antarctic Survey Foraging tracks of wandering albatrosses breeding on South Georgia. A 1990’s-type immersion sensor is deployed on an albatross. ©British Antarctic Survey Conclusions Our approach allows us to: 1) examine the impact of the nature of the observational method on scientific conclusions 2) make suggestions for comparing and combining disparate data sets, to maximize their value. We were not able to identify the process model underlying the earliest observations. Thus, they can not be used as baseline data to address whether this particular aspect of the birds’ foraging strategy has changed over the past two decades. We combine a simulation study with an analysis of two suites of data on water landings collected a decade apart in 1992-1993 and 2002-2004, resp


Comparative analysis of cytogenetic effects of the neonicotinoid insecticides Nuprid 200 SL and Calypso 480 SC on Allium cepaL cells. Ivan Y. Stoyanov *, Penka L. Vasileva, Teodora A. Staykova, Magdalena L. Simidareva, Petya I. Rusinova, Iliyana I. Ilieva, Evgeniya N. Ivanova University of Plovdiv ”Paisii Hilendarski”, Faculty of Biology, Department of Developmental Biology, Section of Genetics, 24 Tsar Asen Str., Plovdiv 4000. Corresponding author: ivan100yanov@abv.bg Introduction Material and methods Results Table 1. Mitotic indices (in %) in Allium cepa, treated with different concentrations of Nuprid 200 SL and Calypso 480 SC. Samples Mitotic index Samples Mitotic index Control 51.58 ±1.50 Control 51.58 ±1.50 Nuprid 25 25 mg.l-1 imidacloprid 47.32 ±7.82 Calypso 25 24 mg.l-1 thiacloprid 49.85 ±6.56 Nuprid 50 50 mg.l-1 imidacloprid 45.71 ±4.05*** Calypso 50 48 mg.l-1 thiacloprid 49.04 ±10.79 Nuprid 75 75 mg.l-1 imidacloprid 46.54 ±1.83*** Calypso 75 72 mg.l-1 thiacloprid 48.16 ±4.39 Nuprid BS 100 mg.l-1 imidacloprid 46.55 ±2.46*** Calypso BS 96 mg.l-1 thiacloprid 46.60 ±4.35* Samples Total frequency of chromosomal aberrations CAI (%) Frequency of chromosomal aberrations among dividing cells (%) Control 0.27 ±0.24 0.53 ±0.29 Nuprid 25 25 mg.l-1 imidacloprid 0.45 ±0.15 0.97 ±0.27* Nuprid 50 50 mg.l-1 imidacloprid 0.48 ±0.20 1.05 ±0.41* Nuprid 75 75 mg.l-1 imidacloprid 0.65 ±0.27* 1.41 ±0.60** Nuprid BS 100 mg.l-1 imidacloprid 0.70 ±0.41*** 1.49 ±0.84*** Calypso 25 24 mg.l-1 thiacloprid 0.48 ±0.29 0.92 ±0.49 Calypso 50 48 mg.l-1 thiacloprid 0.54 ±0.19* 1.17 ±0.47* Calypso 75 72 mg.l-1 thiacloprid 0.55 ±0.21* 1.12 ±0.41* Calypso BS 96 mg.l-1 thiacloprid 1.07 ±0.38*** 2.29 ±0.77*** p < 0.05*; p < 0.01**; p < 0.001*** p < 0.05*; p < 0.01**; p < 0.001*** Neonicotinoids are a major class of insecticides developed over the last 30 years that are used to increase crop yields. Their use is associated with a number of adverse environmental effects. The potential genetic risk of neonicotinoids requires extensive study of their genotoxicity, using a variety of approaches and test systems. In this study, we evaluated the cytostatic and mutagenic effects of the neonicotinoid insecticides Nuprid 200 SL (with the active substance imidacloprid) and Calypso 480 SC (with the active substance thiacloprid) on the cells of the root meristem of Allium cepa L. Table 2. Frequency of chromosome aberrations analyzed by the Allium test For the purposes of our study, bulbs from Allium cepa, provided by the Maritsa Institute of Vegetable Crops - Plovdiv, were used. From the tested pesticides, stockworking solutions (BS) were prepared according to the instructions of the producers in a concentration that is recommended for use in agricultural practice. Working solutions with lower concentration - 75%, 50% and 25% of the experimental solutions for each pesticide were prepared from the stock solutions. The use of the Allium test system (according to Fiskesjö, 1985) allows for a combined approach in cytotoxicity and mutagenicity studies by applying genetic methods. The cytostatic action of pesticide solutions in different concentrations was determined by calculating the total mitotic index and phase indices. Genotoxicity was assessed by determining the frequency of chromosomal aberrations in Allium cepa meristem cells using an anaphase method and a micronucleus test. Data from the present study indicate that the insecticides Nuprid 200 SL and Calypso 480 SC have a cytostatic effect by inhibiting cell division from the root apical meristem of Allium cepa. The value of the mitotic index is lower than the control variant at all tested pesticide concentrations (Table 1). The comparative analysis of the mutagenic action of the studied pesticides shows a higher genotoxic potential of Calypso 480 SC. Stock solutions of both pesticides induced chromosomal abnormalities in Allium cepa cells with a much higher frequency than the control, but the chromosomal aberration i


Researcher Manager Researcher Researcher Researcher Consultant Service lab Service lab PI lab wiDB Distributed CI (DataONE, EarthCube) Waterisotopes.org Portal Community IsoMAP.org wiSamples App wiLabs App wiDB API Compressing the data lifecycle: Can laboratories be a bridge to open data in the stable isotope research community? Gabriel J. Bowen, Geology & Geophysics, University of Utah; gabe.bowen@utah.edu, @bumbanian Stakeholder: Data-Producing Isotope Scientist Challenges: Workload of data management plan; organizing and securing data for large projects; in- formation loss throughout project lifetime; needs control of data and credit for effort Solutions: wiSamples App streamlines collection and storage of robust, standardized metadata from project start; integration with wi information infrastructure supports data security and removes burden of end-of-project archival; community portals create exposure for project while allowing scientist-contributors to control data from their projects Archival and sharing of data is increasingly emphasized as a critical com- ponent of the science endeavor and lies at the heart of the ‘big data’ revolu- tion. As traditionally structured, however, this process is arduous and pro- tracted. The data lifecycle begins with project conception and extends through data collection, analysis, and publication prior to archival. In this model, archival becomes an afterthought and added workload on the re- searcher, and the archived products are often incomplete or poorly struc- tured, reflecting the outcomes of a specific research project rather than the nature of the samples and observations themselves. Widespread reliance on centralized laboratories and a limited suite of ana- lytical equipment in fields such as stable isotope biogeoscience offers po- tential to ‘compress’ the data lifecycle. All laboratories utilize some type of formal or informal data management system. Data generated in the lab are formatted and organized during the analysis and post-analysis data reduc- tion process, offering the ability to ‘capture’ data in a standardized format at this early lifecycle stage. Early capture ensures that data are preserved with minimal information loss and reduces workload in later stages of re- search. It maximizes data security and can support a variety of models for open data and open science, depending on investigator preference. We describe a model system developed for direct capture and distribution of water isotope data from analytical laboratories, and how the implemen- tation of the system provides benefits to multiple stakeholders. We note cultural and technical challenges related to the development and adoption of such a system, and describe design decisions made in order to address these. We argue that the potential benefits of such an approach in stable isotope biogeosciences are significant, stimulate discussion of future ef- forts in this domain, and solicit partners who are interested in exploring the potential of a lab-centric model to condense the data lifecycle and sup- port the growth of open science in our field. Organize sample collec- tion by projects to coordi- nate sampling teams or standardize metadata for individual sampling bouts. Online and offline modes obtain and display existing collection sites, allowing collector to associate new samples with existing sites. Sample properties are set leveraging mobile device data (e.g., location, date and time) to reduce collector’s workload. Sample lists can be creat- ed on-the-go using custom or standardized, auto-gen- erated IDs. Stakeholder: Laboratory Manager Challenges: Establishing and main- taining data management system sup- porting QA/QC activities, data reduc- tion and reporting, and secure data storage, often with little to no support; key piece of data pipeline but not in- volved in traditional data preservation efforts Solutions: wiLabs App provides tools supporting lab data management de- mands and ‘plugs in’ to d


Yahoo! #1 MS-DOS English, 1994 - 1995 Demozine with built-in database about the demoscene and its history Floppy Disk Magazines Floppy Disk Magazines Preserving Forgotten Digital Heritage Preserving Forgotten Digital Heritage Optron #16 ZX Spectrum Russian, 1997 - 2001 Ukrainian non-commercial disk magazine, developed and published by various creators from Lviv Bad Mag #2 Amstrad/Schneider CPC English/German, 1992 - 1993 Bilingual German-British-Irish zine of the international democoder scene and the only diskmag on 3“ disk Project Progress 1. Data collection • Prehistory: a number of fan databases and collections of diskmags and related information • Next step: applying data scraping techniques to gather data and references • Outcome: ﬁ ve comprehensive datasets with 2,000+ unique magazine titles and references to 20,000+ issues 2. Data preparation • Measure 1: design a cohesive structure for the available datasets • Measure 2: data cleaning and standardization with OpenReﬁ ne • Measure 3: transformation of single datasets into object relational data model 4. Further steps • Next project stage: create a text corpus of German diskmags • Extract text from binary disk images (requires decompression and unicodiﬁ cation) • Collect and digitize images of printed material (covers, disks, manuals) • Study the collection and the corpus with computational methods 3. Data publication • Conﬁ gure a Semantic MediaWiki instance and open it to members of the diskmags community to create and edit records • Conﬁ gure a FactGrid instance to generate authority records for diskmag titles and related entities • Include binary data of original disks where legally and technically possible Coming soon! Project Homepage: http://diskmags.de Project Manager: Dr. phil. Torsten Roeder • torsten.roeder@uni-wuerzburg.de Participants: Johannes Leitgeb, Madlin Marenec, Tomash Shtohryn, Yannik Herbst Center for Philology and Digitality at University of Würzburg • https://www.uni-wuerzburg.de/zpd Disk Magazine publications across systems Magic Disk #1 Commodore 64 German, 1987 - 1993 Popular commercial diskmag on hardware and software, especially for gamers and hobby programmers Digital Talk #113 Commodore 64 English/German, 1993 - now Active fanzine of the retrocomputing community, still published on original ﬂ oppy disks About Diskmags were born-digital journals published on electronic media in the 1980s and 1990s. Some were commercial products, many of them were created by young enthusiasts for communication in the home computer scene. Today, they give insight to a highly creative, early digital and multi-medial culture in the ﬁ rst decades of microcomputing. But the state of preservation is poor, as neither libraries nor archives did collect diskmags systematically. This one-year project, funded in 2023, aims at preserving this valuable cultural heritage by creating a scientiﬁ c collection and a digital text corpus for further research. Maggie #20 ATARI ST English, 1990 - 2016 Multimedia diskmag which also contained poetry and other literary forms... and a poem about diskmags! Warp #2 ATARI ST English, 1995 - 1996 Star Trek fanzine with a fascinating menu Softdisk #2 APPLE II English, 1981 - 1995 The ﬁ rst magazine published on 5.25“ ﬂ oppy disk Le Petit Amiga Illustre #8 Amiga French, 1992 - 1996 Francophone diskmag with a wide variety of scene contents and a colorful menu system DOI DOI 10.5281/zenodo.8158532 10.5281/zenodo.8158532


(1) Department of Ocean Sciences, Rosenstiel School of Marine and Atmospheric Science, University of Miami, Miami, Florida, USA (2) Jet Propulsion Laboratory, NASA, Pasadena, California, USA Yang Liu(1), Toshio Chin(2), Peter Minnett(1) The Parameterization of Sampling Errors in Infrared Sea Surface Temperatures Clouds and inter-swath gaps are the primary reasons for incomplete coverage of satellite infrared (IR) measurements of the Earth’s surface, and yield sampling errors in averaged IR Sea-surface Temperature (SST) fields. In a recent paper (Liu & Minnett. 2016; hereafter referred to as LM16) we found that the MODIS (Moderate Resolution Imaging Spectroradiometer (Esaias et al. 1998)) monthly SST sampling error referenced to MUR SSTs (Multi-scale Ultrahigh Resolution (Chin et al. 2010), is up to O(1 K), which far exceeds the error threshold needed for climate research. The next question to ask is, can the sampling errors be predicted? In reality, when assessing sampling errors in satellite-derived IR SST fields we do not have an appropriate reference field at the various temporal and spatial averaging intervals. However, we do have access to a number of relevant variables that can be used with the results of LM16 to estimate the sampling errors, for example in terms of the local SST difference from a reference, gap fraction, cloud persistence (the number of consecutive days during which a location is detected to be cloudy), or season and region. Introduction Figure 3. Global seasonal sampling errors quantified using MUR SSTs (red) and MUR SST anomalies (blue). Figure 2. Sampling errors generated using OISST climatology. Upper: temporal averaging of [0.25º, mon]; lower: spatial averaging of [5, 1d]. Boreal seasons are denoted on the Asian continent. As a preliminary exploration, we assume the error function can take the form: 𝜀𝜀𝑚𝑚= 𝛼𝛼0𝜀𝜀𝑐𝑐𝑐𝑐𝑐𝑐𝑐𝑐+ (𝛼𝛼1𝑓𝑓𝑎𝑎2 + 𝛼𝛼3 ො𝑝𝑝𝑎𝑎4)𝜎𝜎+ 𝛼𝛼5 where 𝛼𝛼0, 𝛼𝛼1, 𝛼𝛼2, 𝛼𝛼3, 𝛼𝛼4, 𝛼𝛼5, are coefficients found by a Levenberg-Marquardt algorithm to reach a non-linear least squares fit; 𝛼𝛼3 = 0 in spatial sampling error estimates, 𝑓𝑓is the gap fraction (0 < 𝑓𝑓< 1), ො𝑝𝑝is the normalized cloud persistence (0 < ො𝑝𝑝< 1), and 𝜎𝜎is the standard deviation of the SSTs in the averaging grid cell from MUR (𝜎𝜎𝑀𝑀𝑀𝑀𝑀𝑀). We also test the model using SST standard deviation of the climatology (𝜎𝜎𝑐𝑐𝑐𝑐𝑐𝑐𝑐𝑐). When 𝜎𝜎𝑐𝑐𝑐𝑐𝑐𝑐𝑐𝑐is applied, the model computes the sampling error estimates 𝜀𝜀𝑚𝑚′ without any inputs from a Level 4 reference field and thus is predictive. Error Parameterization Figure 1. Sampling errors generated using MUR SST. Upper: temporal averaging of [0.25, mon]; lower: spatial averaging of [5, 1d]. Boreal seasons are denoted on the Asian continent. The sampling errors quantified using MUR SST anomalies calculated using the OISST climatology (Banzon et al, 2014) as the reference are smaller, especially in spatial averages that both mean error and RMSE are substantially (>90% mean ERR and >50% RMSE) reduced after the seasonal signals are removed. However, the RMSE and the mean error barely change magnitudes after the removal of the climatology. Banzon, V.F., Reynolds, R.W., Stokes, D., & Xue, Y. (2014). A 1/4°-Spatial-Resolution Daily Sea Surface Temperature Climatology Based on a Blended Satellite and in situ Analysis. Journal of Climate, 27, 8221- 8228 Chin, T.M., Jorge, V., & Armstrong, E. (2010). Algorithm Theoretic Basis Document: Multi-scale, motion- compensated analysis of sea surface temperature Version 1.1. Liu, Y., & Minnett, P.J. (2016). Sampling errors in satellite-derived infrared sea-surface temperatures. Part I: Global and regional MODIS fields. Remote Sensing of Environment, 177, 48-64 SST Sampling Errors The Climatology Component Figure 4. The 60ºN-80ºN summer month error estimates using 𝜀𝜀𝑐𝑐𝑐𝑐𝑐𝑐𝑐𝑐 (first column), 𝜀𝜀𝑚𝑚′ (second column), and 𝜀𝜀𝑚𝑚(third column). r denotes the correlation coefficients; N is the total number of grids at the resolution [0.25º, mon]; RMSE and the fitting line are de