Eine Analyse von Janos Borst, Manuel Burghardt, Vera Piontkowitz und Jannis Klähn, Computational Humanities. Kontakt: [nachname]@informatik.uni-leipzig.de Website: ch.uni-leipzig.de DHd-Konferenz – Postersession 26.02.2024 – 01.03.2024, Passau #Quo Vadis DH? 1. Jannidis, F., Kohle, H., & Rehbein, M. (Hrsg.). (2017). Digital Humanities: Eine Einführung. J.B. Metzler Verlag. 2. Blei, D. M., Ng, A. Y., & Jordan, M. I. (2003). Latent Dirichlet Allocation. Journal of Machine Learning Research, 993–1022. 3. McCallum, A. K. (2002). MALLET: A Machine Learning for Language Toolkit [Software]. http://www.cs.umass.edu/~mccallum/mallet 4. Rat für Informationsinfrastrukturen. (2016). Leistung aus Vielfalt: Empfehlungen zu Strukturen, Prozessen und Finanzierung des Forschungsdatenmanagements in Deutschland (S. 160). https://rfii.de/?p=1998 5. Sahle, P. (2013). Digitale Editionsformen. Zum Umgang mit der Überlieferung unter den Bedingungen des Medienwandels. Teil 1: Das typografische Erbe. [Finale Print-Fassung] (Bd. 7). BoD. 6. Wilkinson, M. D. et al. (2016). The FAIR Guiding Principles for scientific data management and stewardship. Scientific Data, 3(1), Article 1. 7. TEI Consortium. (2007). TEI P5: Guidelines for Electronic Text Encoding and Interchange. http://www.tei-c.org/Guidelines/P5/ 8. Moretti, F. (2011). Network Theory, Plot Analysis. Literary Lab Pamphlet, 2. Blei, D. M. (2011). Introduction to Probabilistic Topic Models. Communications of the ACM, 55. 9. Blei, D. M. (2011). Introduction to Probabilistic Topic Models. Communications of the ACM, 55. 10.Gius, E., & Jacke, J. (2017). The Hermeneutic Profit of Annotation: On Preventing and Fostering Disagreement in Literary Analysis. International Journal of Humanities and Arts Computing. DHD-TAGUNGEN 2014-2023 Wer mit wem? Ko-Autor:innenschafts-Netzwerk der Veröffentlichungen der DHd-Abstracts 2014 - 2023 2014 Passau 2015 Graz 2016 Leipzig 2017 Bern 2018 Köln 2019 Mainz/Frankfurt 2020 Paderborn 2021 vDHd 2022 Potsdam 2023 Luxemburg/Trier 2024 Passau 1 2 3 4 5 6 7 8 9 10 ! Die 10 meistzitierten Quellen in DHd-Abstracts (ausgenommen 2014 und 2015) 2014 fand die Tagung des Verbands „Digital Humanities im deutsch- sprachigen Raum“ (DHd) erstmals statt und hat sich seitdem zu einer aktiven Community entwickelt. Was genau in den letzten 10 Jahren passiert ist, fassen wir in dieser Informationsgrafik zusammen. Als Datengrundlage dienen 1.207 DHd- Abstracts aus den Jahren 2014 bis 2023 (mit Ausnahme von 2021). Die Daten wurden auf Basis folgender Forschungsfragen untersucht: • Wer sind zentrale Akteur:innen im Sinne von Publikationen, wer arbeitet mit wem zusammen? • Welche sind die großen DH- Standorte im deutschsprachigen Raum und wie haben sich diese im Laufe der Jahre entwickelt? Übersicht Berlin (155) Potsdam (58) Hamburg (68) Wolfenbüttel (30) Dresden (25) Leipzig (62) Paderborn (30) Köln (81) Trier (44) Mainz (47) FFM (33) Darmstadt (57) Würzburg (85) Erlangen (29) Regensburg (25) München (49) Stuttgart (62) Heidelberg (28) Göttingen (70) Wien (89) Graz (62) " # …und wo? Kartierung von DH-Standorten im deutschsprachigen Raum nach Publikationen auf DHd- Konferenzen $ ! " Anzahl der Publikationen der 10 DH-Standorte mit den meisten Veröffentlichungen bei der DHd zwischen 2014 und 2023


WSY HERBARIUM- OUR DIGITAL FUTURE Mrs Mandeep Matharu1, Mrs Lydia Walles1, Mrs Sian Tyrrell1 1Royal Horticultural Society Gardens, Surrey, United Kingdom In 2011 with a capacity of 60,000 specimens, a herb scan and one staff member, the Royal Horticultural Society’s herbarium (now known as The 1851 Royal Commission Herbarium, and with the official abbreviation WSY) started its digitisation journey with the goal of creating a ‘Virtual Herbarium’. In the Winter of 2020-2021, amidst a pandemic, the team moved the collection to a state of the art facility based in our new building ‘RHS Hilltop – The Home of Gardening Science’. The new facility includes a space for 400,000 herbarium specimens in a temperature and humidity controlled environment and a digitisation suite with a high spec camera. All rooms within the herbarium suite have windows through which our visitors can glimpse into our fascinating collections and the herbarium’s curation and research work. With around 90,000 (and growing) digitised specimens, thanks in part to sponsorship by the Society’s members, the 1851 Royal Commission, the Mellon Foundation and the National Lottery Heritage Fund, the herbarium is ready to share the world’s largest ornamental plant collection with a wider audience through the Libnova Open Access online portal. The RHS has adopted the Libsafe digital preservation platform for the long-term preservation and public sharing of its digital herbarium and library collections. This new platform will safeguard the digitised herbarium specimens and their metadata in a cloud based solution whilst allowing the team to share specially curated collections and themed sets with the public alongside items from the RHS’s botanical art, photography and library collection


High Throughout Assay Development with Raphidocelis subcapitata K. Bush1, M. Le1, E. Stacy1, D. Villeneuve2, K. Flynn2 1. Oak Ridge Institute for Science and Education, Great Lakes Toxicology and Ecology Division 2. US EPA, ORD, Center for Computational Toxicology & Exposure, Great Lakes Toxicology and Ecology Division Duluth, MN Background The U.S. Environmental Protection Agency (USEPA) is tasked with assessing the impacts of market chemicals on ecosystems using standardized tests across a diverse range of organisms. To support a new paradigm in toxicity testing, EPA has envisioned a tiered framework for hazard characterization that employs high throughput and high content assays as a first-tier screen, followed by successive progression to more targeted and resource intensive tests where warranted (Thomas et al. 2019 ). To date, assay development under this new testing paradigm has largely focused on human health, with limited or no capacity to detect hazards associated with compounds that are uniquely toxic of primary producers like plants and algae. The aim of the present study was to adapt traditional algal toxicity assays to a high throughput and high content (through the incorporation of transcriptomics-based endpoints) format could be incorporated into EPA’s next generation blueprint for computational toxicology. Objective Develop, optimize, and evaluate a high throughput, transcriptomics-based toxicity test with the green algae Raphidocelis subcapitata (RS), currently used in a standard test guideline (OSCPP 850.4500). The present poster reports on a 96-well plate 24-hour RS assay using lab automation that yields a large amount of data that can be used to determine multiple endpoints. Methods • 3, 1-mL, 96-well plates were loaded with algae from a 5.0x106 cells/mL stock • Plates were centrifuged to pellet algae • Plates were placed on the Biomek i5 liquid handling automated workstation to remove media and expose to 600 uL of exposure media  Each plate had 2 chemical exposures, 8 concentrations of each with 5 reps  30 mM and 9.5 mM CuSO4 were used as positive controls on each plate  Biomek programmed to avoid unbalanced treatment along edges using the following predetermined randomized layout: • Exposed algae were resuspended and left on a shaker under constant light for 24 hours • After 24 hours algae was pelleted as before • One plate was frozen for RNA extraction and exposure media sampled for chemical quantification • The 2nd plate was used for apical observations  Cell count, photopigments, and a fluorescence-based cytotoxicity assay all read using a fluorescence plate reader (BioTek Synergy Neo2) • The third plate was used as a backup • Apical observation data was run through the dose-response software BMDExpress2 to calculate an EC50 after being derandomized in Excel Results Growth The following results are based on three example chemical exposures across three chemical classes. EC50s were calculated based on growth data and compared to those reported in the ECOTOX database. *Computed EC50 larger than highest concentration **Studies were conducted 2+ days rather than 1 Resulting EC50s were higher than those reported for studies conducted over multiple days in different formats than 96 well plates. Cell count relative to time 0 (growth): The growth response data showed that BPA had little to no impact on growth, nonylphenol increased growth at higher concentrations, and sertraline decreased growth at higher concentrations. Going Forward • Chemical quantification Plate used for storing exposure media will be switch to glass containment to avoid chemical absorbing into plastic. Current exposures have resulted in concentrations being much lower than nominal. Efforts are ongoing to model chemical distribution to media, plate well walls, and/or algae • Increasing initial algal cell number in exposure plates might be necessary to obtain enough RNA for downstream transcriptomics Methods for RNA extraction are cu


BioSharing works to map the landscape of community developed content standards, ensuring they are registered, informative and discoverable, monitoring their: development, evolution and integration; implementation and use in databases; and adoption by data policies by funders and journals. Progressively, BioSharing will monitor the maturity of content standards, collecting metrics of usage, and the level of endorsement. BioSharing is also being further developed as content- provider for standards-driven metadata templates for data collection and curation. BioSharing works to serve those seeking information on existing standards and databases, and to identify areas where duplications or gaps in coverage exist, promoting harmonization to avoid wasteful reinvention. Team Funded By Philippe Rocca-Serra Eamonn Maguire Alejandra Gonzalez-Beltran Milo Thurston Susanna-Assunta Sansone STANDARDS & DATABASE DEVELOPERS & MAINTAINERS FUNDERS, JOURNAL EDITORS & LIBRARIANS RESEARCHERS, TOOL DEVELOPERS & CURATORS e.g. seek guidance to find data- bases that implement standards to deposit their data; or identify appropriate data standards to be implemented in an annotation tool e.g. gather enough infor- mation to make informed decisions on which content stand- ards should be funded, implemented or recom- mended in their policies A catalogue of data preservation, management and sharing policies from international funding agencies and regulators. Call for collaborators If you have catalogues you would like us to link to, contact us. A catalogue of reporting standards and organizations that develop these. Partly compiled by linking to A catalogue of databases, described according to the BioDBcore guidelines, along with the standards used within them. Partly compiled with the support of NAR Database Issue and DATABASE journals User profiles Faceted search Database Details Standard Details a web-based curated and searchable registry of content standards, databases and policies in the life sciences e.g. need a central place to register their work, claiming ownership and getting credit; make standards visible and re-usable Advisory Board and RDA working group members Jessica Tenenbaum (Duke University, USA), Co-Chair of the Advisory Board Melissa Haendel (OHSU, USA; Force 11; Monarch Initiative), Co-Chair of the Advisory Board Susanna-Assunta Sansone (University of Oxford, UK; NPG Scientiﬁc Data), Co-Chair of the RDA WG Simon Hodson (CODATA), Co-Chair of the RDA WG Rebecca Lawrence (F1000), Co-Chair of the RDA WG Michael Ball (BBSRC) Theo Bloom (BMJ) Jennifer Boyd (OUP) Scott Edmunds (GigaScience, BGI) Rafael Jimenez (ELIXIR) Amye Kenall (BMC) Varsha Khodiyar (NPG) Thomas Lemberger (EMBO Press) Jennifer Lin (PLoS) Jonathan Tedds (Ubiquity Press Open Health Data Journal, University of Leicester, UK) Todd Vision (UNC Chapel Hill & NESCent, USA) Michael Witt (re3data, Purdue University Libraries) Communities (see more on the website)


Increasing Open Source Collaboration for Better Scientific Code Open Source Collaboration in Python for CDF files - The Shared Attribute and Metadata Management Interface (SAMMI) Project Standards for open source Maxine Hartnett¹, Andrew Robbertz², Damian Barrous-Dume³, Matthew Bourque¹, Tenzin Choedon¹, Steven Christe⁴, Luisa Croakley¹, Sean Hoyt¹, Nat Kerman¹, Greg Lucas¹, Ana Manica¹, Tori Marbois¹, Veronica Martinez¹, Tim Plummer¹, Daralynn Rhode¹, Laura Sandoval¹ Contributions are made Contributions are made back into the open source project, as users ﬁnd bugs or develop new features Code is made open source Code is made publicly available, with documentation and other tools for easy use Code is used Projects ﬁnd open source code that addresses unsolved problems The Cycle of Open Source What is SAMMI? Why did this work? Design and Usage The Shared Attribute and Metadata Management Interface (SAMMI) is an open source Python library for managing ISTP (International Solar-Terrestrial Physics) CDF attributes. The tool uses YAML files to assign metadata to CDF variables, making it easy to track data attributes in version control software next to Python processing code. It also validates variables against the ISTP metadata standards. SAMMI is lightweight and extensible, making it usable for a variety of project needs. The YAML files are human and machine readable, so they’re easy to update and read for non-technical users. YAML also provides a tools for creating default values for attributes, reducing duplicated information. An example file for the global attributes of IMAP SAMMI solves a common problem for projects which are required to produce ISTP CDF files. These files all follow the same requirements and standards, but there wasn’t a publicly available way to manage attributes in version control software. Both the NASA Space Weather Science Operations Center (SWxSOC) and the IMAP Science Data Center (SDC) were independently developing similar systems for solving the problem when members from both teams attended the Workshop for Collaborative and Open Source Science Data Systems at LASP. Since SWxSOC had their code open source, it was easy to identify the shared piece of work. Both teams collaborated to take the initial iteration of the attribute management system and make it a separate library that was flexible enough for both projects to use. Today, both projects depend on the shared SAMMI repo and contribute new features. Code reviews, contribution guidelines, and automatic testing make contributing back easy. License, documentation, and consistent releases make code useable. Code style, good code design, and documentation make projects easier to modify. Standards for open source repositories help create tooling that can be widely used and modified. The most important and, luckily, the simplest, is the license on the code. Without a license attached to open source code, no one else is legally able to use it. Also key is documentation. Without documentation, people would need to read your code to learn how to use it and why. At minimum, projects should include a short description and some basic usage and installation instructions. However, the more documentation, the better. The best open source projects have extensive documentation and large communities that can teach new users about the tool. Finally, tools that ensure code quality are great to have in an open source repository. High quality code is more reliable, easier to modify, and therefore less risky to adopt. Some tools that we use in the SAMMI repo are: ●Required code reviews ●Automatic releases ●Automatic unit tests ●Pre-commit tools to enforce a consistent code style How do you create tools that other people can actually use? 1. Use a license 2. Make the tool easy to use through documentation and good design 3. Create a reliable tool through regular releases and code reviews Using an open source project introduces some unavoidable risk. As a developer, reducin


Ethan James1, Michael Ha1, Citlali Aguilera-Rico1, Anna Howell1, Karen Cusato1 and M. Natalia Vergara1,2,3 1CellSight Ocular Stem Cell and Regeneration Program, Sue Anschutz Rodgers Eye Center, University of Colorado School of Medicine, Aurora, CO 80045, 2Linda Crnic Institute for Down Syndrome, University of Colorado Anschutz Medical Campus, Aurora, CO 80045, 3University of Colorado Alzheimer's and Cognition Center, University of Colorado School of Medicine. Aurora, CO 80045 Alzheimer’s Disease Neuropathology in the Human Trisomy 21 Retina Introduction Methods Acknowledgements Conclusions We would like to thank the following benefactors whose support made our research possible: Contact: ethan.james@colorado.edu Results 1) Increased AD histopathology in donor retinas from individuals with DS 2) DS hiPSC can generate ROs with all major retinal cell types 3) DS ROs exhibit phosphorylated Tau pathology 4) DS ROs exhibit amyloid-β pathology 5) Fluorescence-based assay for the quantitative assessment of amyloid plaques in ROs • Down syndrome (DS) results from an extra copy of chromosome 21, causing genetic imbalance and affecting brain development, leading to intellectual disabilities. • Individuals with DS face a heightened risk of Alzheimer's disease (AD), resulting in accelerated formation of amyloid plaques and neurofibrillary tangles in the brain and retina. • Human induced pluripotent stem cell (iPSC)-derived retinal organoids (ROs) offer a promising avenue for studying AD- related changes specific to DS, providing insights into retinal pathology and potential biomarkers for early diagnosis and interventions. CTR D21 T21 AT8/DAPI T231/DAPI A B C D E F CTR D21 T21 4G8/DAPI NIAD/DAPI 4G8/NIAD/DAPI A B D E G H C F I *** * CTR DS 4G8/DAPI 6E10/DAPI A C E B D F T231/DAPI NIAD/DAPI G H E I J Figure 3: (A-H) Comparison of AT8 (A-C) and T231 staining (D-F) targeting different phosphorylation sites of pTau, (G) quantification of average relative stained area for pTau (n=5, p<0.001***), (H) protein quantification by Western blot for pTau in human DS retinas (n=2) and a control retina (p<0.05*), error bars show SEM Figure 4: (A-K) Comparison of 4G8 staining for Aβ (A-C), NIAD staining for amyloid plaques (D-F), and colocalization (G-I). (J) Quantification of average relative stained area for Aβ (n=5, p<0.001***). (K) Percent of 4G8 colocalized with NIAD, indicative of dense core plaques. CTR D21 RCV/DAPI Otx2/DAPI A C E B D F AP2α /DAPI PROX1/DAPI G H E HuC/D/DAPI I J Figure 2: (A-J) (A-B) Recoverin (RCV) staining for photoreceptor cells, (C-D) Otx2 staining for photoreceptor cells, (E-F) PROX1 staining for horizontal and amacrine cells, (G- H) AP2α staining for amacrine cells, (I-J) HuC/D staining for ganglion cells Figure 1: (A-H) (A-B) 4G8 staining for Aβ, (C-D) 6E10 staining for Aβ , (E-F) NIAD staining for amyloid plaques, (G- H), T231 staining for phosphorylated Tau (pTau) J K G H *** Figure 5: 3D Automated Reporter Quantification (Vergara et al., 2017) of NIAD-4-stained whole-mount 3D retinal organoids shows a statistically significant increase in NIAD-4 fluorescence in DS organoids compared to controls. Hoescht staining was used for size normalization. * p<0.05. *** *** • Our study confirms the presence of AD histopathology in the human retina of individuals with DS. • Development and characterization of the first RO model of human T21 provide a valuable tool for studying the relationship between DS and AD within the context of the retina, offering new avenues for therapeutic interventions and biomarker discovery. • Utilizing human iPSC-derived ROs allow us to recapitulate AD- related changes, including Aβ deposition and pTau, providing a platform for investigating the underlying molecular mechanisms and potential therapeutic targets. CB DS


Assisted Text Annotation Using Active Learning to Achieve High Quality with Little Effort Franziska Weeber∗, Felix Hamborg†, Karsten Donnay‡† and Bela Gipp§ ∗University of Konstanz, Germany, †Heidelberg Academy of Sciences and Humanities, Germany, ‡University of Zurich, Switzerland, §University of Wuppertal, Germany franziska.weeber@uni-konstanz.de Abstract—Large amounts of annotated data have become more important than ever, especially since the rise of deep learning techniques. However, manual annotations are costly. We propose a tool that enables researchers to create large, high-quality, annotated datasets with only a few manual annotations, thus strongly reducing annotation cost and effort. For this purpose, we combine an active learning (AL) approach with a pre- trained language model to semi-automatically identify annotation categories in the given text documents. To highlight our research direction’s potential, we evaluate the approach on the task of identifying frames in news articles. Our preliminary results show that employing AL strongly reduces the number of annotations for correct classiﬁcation of even these complex and subtle frames. On the framing dataset, the AL approach needs only 16.3% of the annotations to reach the same performance as a model trained on the full dataset. Index Terms—active learning, deep learning, Longformer, text classiﬁcation, data annotation I. INTRODUCTION AND RELATED WORK With the rise of machine learning and recently deep learn- ing, annotated data have become more important than ever before. While traditional machine learning relies mostly on handcrafted rules and features, recent approaches use large amounts of annotated data. Not only computer scientists rely on these extensive labeled corpora, they are also needed in other disciplines, e.g., for the large-scale analysis of media bias in political science, genome diagnostics in the medical and biological sciences, and other practical applications such as online customer support bots. Large amounts of unlabeled data are available for most tasks, but creating the annota- tions needed to use them as training sets is costly [4]. A solution is active learning (AL), where a classiﬁer is trained over multiple iterations by querying batches of only those instances for manual annotation from a large unlabeled pool that are considered most informative for the model [4]. AL can substantially reduce the number of labeled observations needed to classify the full pool, especially when classes are unbalanced because the minority class will be overrepresented in the queried training data [4], [6]. The AL process is structured into two phases: seed set se- lection and iterative query selection plus training. During seed set selection, the initial training set is chosen, e.g., randomly, manually, or based on other criteria such as seed words or cluster membership [6]. Humans label these instances, and then the model is trained on them. In query selection, each iteration entails: predicting the class probabilities for the data pool, querying new instances for labeling, and retraining the model. The ﬁrst task aims to determine which instances to query for labeling next using a measure of informativeness, e.g., the uncertainty of the prediction. Afterward, the classiﬁer is retrained on the updated labeled set until a performance threshold is reached or a predeﬁned number of texts have been annotated [6]. Previous work on semi-automated data annotation employ- ing AL suffers from the following shortcomings: (1) super- ﬁcial or poor results and (2) lack of easy-to-use annotation interfaces. First, prior methods using AL often use outdated methods, such as bag of word representations and SVMs [5], [6], not reaching the performance of language models such as BERT or its successors. Second, most approaches do not provide an interface for the annotation [5] or still require users to have programming experience [3]. Despite these shortcomings, the usefulness


U.S. Environmental Protection Agency Office of Research and Development EPA www.epa.gov Development of QSAR Models for Systemic Toxicity Points of Departure with Variability in Experimental Data Prachi Pradeep1,2 and Richard Judson2 1Oak Ridge Institute for Science and Education, Oak Ridge, Tennessee 2National Center for Computational Toxicology, Office of Research and Development, U.S. Environmental Protection Agency, Research Triangle Park, North Carolina INTRODUCTION TYPES OF MODELS DATA PREPARATION METHODS Prachi Pradeep l pradeep.prachi@epa.gov l ORCID iD: 0000-0002-9219-4249 l Phone: 919-541-5150 CONCLUSIONS Human health risk assessment associated with environmental chemical exposure is limited by the tens of thousands of chemicals with little or no experimental in vivo toxicity data. Data gap filling techniques, such as quantitative structure activity relationship (QSAR) models based on chemical structure information, are commonly used to predict hazard in the absence of experimental data. However, variability in the experimental data leads to uncertainty in QSAR model predictions and impacts model quality estimates. This study presents three sets of QSAR models developed for systemic toxicity in vivo points of departure (POD, the point on the dose-response that marks the beginning of a low-dose extrapolation). The in vivo data is taken from the EPA’s ToxValDB, a compilation of information on ~3000 chemicals from a variety of public data sources. The first set of QSAR models were developed and evaluated to predict point estimates of POD values using structural and physicochemical descriptors. The second set of models were built to account for skewness in the training data. The third set of models were built to account for the known lab to lab variability in experimental POD values. The QSAR models were also evaluated for enrichment of most potent chemicals. These models will inform chemical screening and prioritization efforts. • Point-estimate model results demonstrate that independent study type and species combinations did not result in significantly better models than combining the data for all the classes and species together. - The RMSE for the all the models are within the variance in the underlying POD data (Figures 2 and 6). - Enrichment analysis results demonstrate the utility of these models for chemical screening and prioritization efforts. • Point-estimate with balanced dataset model results show improvement in the training set results but did not show improved results on the external test sets. • Point-estimate with confidence interval models presented a technique to estimate uncertainty associated with model predictions. The results demonstrate the impact of variability in training data (experimental POD) on uncertainty associated with model results. Disclaimer: The views expressed are those of the authors and do not necessarily reflect the views or policies of the U.S. Environmental Protection Agency. 1. Point-estimate Models • A single POD value predicted for each chemical. • Experimental POD = Median POD value from all studies. 2. Point-estimate with Balanced Dataset Models • Training data re-constructed to reduce skewness. • A single POD value predicted for each chemical using the re-constructed data. The process was repeated 1000 times. • Experimental POD = Median POD value from all studies. 3. Point-estimate with Confidence Interval Models • A POD distribution was constructed for each chemical (µ = Median experimental POD value from all studies, σ = 0.5 log-units). • 1000 bootstrap models were built with random sampling of POD values for each chemical from the pre-generated POD distribution. • Predicted POD = mean of 1000 bootstrap predictions • Confidence interval of POD = ±1 standard deviation of 1000 bootstrap predictions Given the variability and skewness in the training dataset, 3 types of models were developed: Study Type Species Total number of POD values (studies) Number of unique chemicals


Integrating Fragmented Scientific Knowledge Prashant Gupta, Mark Gahegan and Gillian Dobbie Centre for eResearch, Department of Computer Science, University of Auckland {p.gupta, m.gahegan, g.dobbie}@auckland.ac.nz Making sense of disconected data, methods, models and workflows Key efforts to aggregate scientific knowledge, as shown below, focus on the reproducibility of a single experiment, whereas we focus on integrating science as an ongoing and evolving process. All of these systems integrate data and methods but ignore conceptual structures and thus provide a mechanistic view of science, rather than as a dynamic and cyclic process of evolution. Research Executable Workflow Linked Data/ Object [1] Paper [2] Systems [3] Science [4] Research Question: How do we restore the connections among scientific artifacts, that are often evident in the mind of a researcher, in our digital representations to present an integated view of scientific knowledge? Scientific knowledge which is usually well connected in a knowledge producer’s mind is often fragmented by various computational tools into individual artifacts - data, methods, code, schema and workflows - with no explicit connections. Reusing Carole’s experiment. Bill tried to use Carole’s work to compare land cover categories in NZ and Australia. He had a hard time making sense of her work because of the lack of details of the process and the decisions made. Knowledge consumer having a hard time understanding another researcher’s work. Carole’s experiment. Carole synthesized land cover categories (e.g. forest and water) and built a land cover map for NZ and published the map using an online mapping tool without any details of the process. Science digitization misplaces knowledge The state of knowledge integration in science 1. S. Bechhofer, D. De Roure, M. Gamble, C. Goble, and I. Buchan, “Research objects: Towards exchange and reuse of digital knowledge,” presented at The Future of the Web for Collaborative Science, NC, USA, 2010. 2. J. P. Mesirov, “Accessible reproducible research,” Science, vol. 327, pp. 415–416, Jan. 2010. 3. T. Kauppinen and G. M. Espindola, “Linked open science communicating, sharing and evaluating data, methods and results for executable papers,” presented at the Int. Conf. Computational Science, 2011, pp. 726–731. 4. E. Deelman, D. Gannon, M. Shields, and I. Taylor, “Workflows and e-Science: An overview of workflow system features and capabilities,” Future Generation Computer Systems, vol. 25, pp. 528–540, May 2009. In contrast, this work focuses both on data and conceptual structures, such as categories and models, and allows them, and the connections among them to change and evolve over time, making them dynamic and live. Integrated and live approach to science We propose a conceptual model (cloud in the figure below) to ensure that data, methods, categories and schemas stay connected and co-evolve during the conduct of research. We created a computational tool – AdvoCate – that implements this model and facilitates the modeling of scientific categories, integrates various artifacts (using semantic technologies - RDF), remembers their details and versions, and analyzes and mediates change information among them. Live connections that allow change information to mediate from one scientific artifact to another using semantic technologies (RDF) The model remembers the research that Carole performs by connecting various scientific artifacts - data, categories and map - and recording their details while the experiment is done. Bill can now explore these connections to make sense of Carole’s work, and use them to compare NZ and Australia land cover maps. Conclusion: This work supports an integrating and live approach towards scientific knowledge, connecting scientific artifacts of an experiment and synchronizing them with the practice of science, which supports a deeper and clearer understanding and communication of scientific research. References


Nitrogen fractionation across the Galaxy Observations of the 14N/15N ratio in a large sample of high-mass star-forming cores L. Colzi1,2, F. Fontani2, V. M. Rivilla2, A. Sánchez-Monge3, L. Testi2,4, M. T. Beltrán2, P. Caselli5 1 Università degli studi di Firenze, Dipartimento di Fisica e Astronomia, Via Sansone, 1 - 50019 Sesto Fiorentino (Italy); 2 INAF-Osservatorio Astrofisico di Arcetri, L.go E. Fermi 5, I-50125 Firenze (Italy); 3 I. Physikalisches Institut of the Universität zu Köln, D-50937 – Cologne (Germany); 4 European ALMA Programme Scientist - ESO, Karl Schwarzschild str. 2, D-85748 Garching (Germany); 5 Max-Planck-Institute for Extraterrestrial Physics, Giessenbachstrasse 1, D-85748 Garching (Germany) Introduction 15N is the less abundant stable isotope of nitrogen and is enriched in comets and carbonaceous chondrites with respect to the value measured in the Protosolar Nebula (PSN) (Marty et al., 2010), but we still do not understand if this enrichment is a heritage of the past chemical history. Because our Sun was born in a rich cluster, possibly including massive stars (e.g. Adams 2010), observations of massive, dense star forming cores in different evolutionary stages, and in a statistically significant sample, are needed. Sample and observations - LINES: HN13C, H13CN, HC15N, H15NC (J=1-0) with the IRAM- 30m Telescope; - SOURCES: 87 high-mass star forming cores: 27 of these sources belong to the three main evolutionary categories of the high-mass star formation process (Colzi et al., 2017). This sample has been recently increased with 60 massive dense cores and do not have an evolutionary classification yet (Colzi et al., in prep). 1) 15N-Fractionation - 14N/15N 180-555 from HNC - 14N/15N 115-810 from HCN - Asymmetric distributions peaked around values <440 2) Galactocentric gradient With linear fit: HCN/HC15N = 21±9 kpc−1 × DGC + 250±67 HNC/H15NC = 20±6 kpc−1 × DGC + 221± 42 Consistent with that found by Adande & Ziurys (2012). 3) Comparison with models Non-Parametric fit can not reproduce the flattening trend of the Galactic Chemical Evolution model made by Romano et al. (2017) for DGC > 8 kpc. NEEDED MORE OBSERVATIONS IN THE OUTER GALAXY… BASED ON A LARGE STATISTICS!! References: Adams 2010, ARA&A, 48, 74 Adande & Ziurys 2012, ApJ, 744,194 Colzi et al., 2017, arXiv:1709.04237 Marty et al.: Geochimica et Cosmochimica Acta74, 340-355, 2010 Romano et al. 2017, MNRAS, 470, 401


http://www.dialogycabddh.es/ © Dialogyca BDDH. ISBN 978-84-691-8286-4. Propiedad intelectual: M-000333/2010. Registro de marca: 2855599. Dialogyca BDDH es una base de datos y biblioteca digital que aporta los datos obtenidos del análisis literario y bibliográfico exhaustivo de obras escritas en diálogo. Esta información se distribuye en 6 áreas temáticas y 39 campos que facilitan su consulta. Mediante hiperlinks se contemplan sus variadas formas de difusión. Se parte del concepto de ‘obra’ para precisar a continuación diferentes aspectos útiles en su estudio. Además, se ofrece la digitalización de los testimonios -manuscritos o impresos- que se conocen, su descripción codicológica o tipobibliográfica y una bibliografía secundaria actualizada y descargable en PDF con indicación expresa del autor de cada documento. Dialogyca BDDH es el resultado de diez proyectos UCM/Santander-CAM (desde 2004) y seis proyectos de I+D financiados en convocatorias sucesivas desde 2007. En la actualidad, mantiene convenios o acuerdos con 48 bibliotecas en todo el mundo y sus registros analíticos se enlazan desde los OPAC de la Biblioteca Nacional de España, la Biblioteca Histórica Marqués de Valdecilla de la UCM, de la Biblioteca Menéndez Pelayo y de la Biblioteca de la Real Academia Española. Se integra, además, en ARACNE: Red de humanidades digitales y letras hispánicas (http://www.red-aracne.es/), que coordina los proyectos de once grupos de investigación y relaciona mediante un metabuscador común los resultados de 24 bases de datos o bibliotecas digitales especializadas. Su información se recupera desde Hispana y Europeana. I Workshop CLARIAH-CM: Humanidades Digitales y Tecnologías del Lenguaje, 30 y 31 de mayo de 2024 Dialogyca BDDH: Estructura, contenido y aplicaciones Biblioteca Digital de Diálogo Hispánico Equipo Directoras: Consolación Baranda Leturio y AnaVian Herrero. Comité de dirección y supervisión general: Consolación Baranda Leturio, María Casas del Álamo, Celia Faba Durán, Mercedes Fernández Valladares, Germán Redondo Pérez, AnaVian Herrero. Secretario: Germán Redondo Pérez. Gestores de la web: María Casas del Álamo, Germán Redondo Pérez. Conjunto de investigadores: Alejandro Alvarado Fernández, Consolación Baranda Leturio, Sara Bellido Sánchez, Emilio Blanco Gómez, Alejandro Cantarero de Salazar, María Casas del Álamo, Nicolas Correard, Paloma Cuenca Muñoz, Pierre Darnis, Celia Faba Durán, Carlos Fernández González, Mercedes Fernández Valladares, María Jesús Fraga Fernández Cuevas, Felice Gambin, Catalina García-Posada Rodríguez, Theodora Grigoriadou, Daniel Lozano Díez, Jerónimo Miguel, Sergio Montalvo Mareca, José Luis Ocasar Ariza, Fabrice Quero, Germán Redondo Pérez, Sergio Rodríguez Lorenzo, Julio Salvador Salvador, Lucía Sanz Gómez, AnaVian Herrero. Colaboradores: Amparo Alba Cecilia, Corinna Albert, Elvezio Canonica, Gabriel Andrés Renales, María Soledad Arredondo Sirodey, Eleonora Arrigoni, Sònia Boadas, Gonzalo Cantarero de Salazar, Roberto Carmo Antunes, Ernesto Javier Carrillo Barroso, Antonio Castro Díaz, Rosa Chenlo, Pedro Conde Parrado, Pedro Luis Críez Garcés, Roger Friedlein, Donatella Gagliardi, Javier Espejo Surós, Jesús Gallego Montero, Marcos García Pérez, Jesús Gómez, Luis Gómez Canseco, Guillermo Gómez Sánchez-Ferrer, Esther Gómez Sierra, María Cristina González Hernández, José Miguel González Soriano, Milagro Laín Martínez, Óscar Lilao Franca, Santiago López-Ríos Moreno, Amaruc Lucas Hernández, María Luisa Martín Murillo, Alejandro Martínez Berriochoa, Ángel Montero Herrero (en 2007-2008), Ana Moure Casas, Eva Nieto McAvoy, Virginia Oprisa, Erika Petersen O’Farrill, Rafael M. Pérez García, Laura Puerto Moro, Alberto del Río Nogueras, Guadalupe Rodríguez Domínguez, Doris Ruiz Otín, Carlos Sainz de la Maza Vicioso, Javier San José Lera, Raquel Suárez García, Esmeralda Sánchez Palacios, José Miguel Sardiñas Fernández, Selena Simonatti, Pilar Torres Vicente, Juan Miguel Valero Moreno, AurelioVargas Díaz-Toledo.


Anaplastic astrocytoma (AA) is a rare, malignant brain tumor that arises from astrocytes, the supportive cells in the nervous system. Anaplastic astrocytomas (grade III) may also be called a “grade III glioma” or “high-grade glioma.” Symptoms of anaplastic astrocytoma can result from an increase of pressure in the brain. This occurs as the tumor grows larger and takes up space, compressing healthy brain tissue within the fixed volume of the skull. If not diagnosed early, tumors can grow large enough to block the normal flow of cerebrospinal fluid in the brain [1]. In this study, the regulation of GPR45 gene and the effect of lncRNA-CYTOR on it in anaplastic astrocytoma were examined using bioinformatics databases. Methods Conclusions The 2nd International Conference on Biotechnology and Global Development Investigate the relation between GPR45 gene and lncRNA-CYTOR in anaplastic astrocytoma Elnaz Nasiriyan1, Negar Amidi, Ali Attaripour Isfahani1, Tahereh Sadeghian-Rizi2,* 1 Department of Biological Science and Technology, Najafabad Branch, Islamic Azad University, Najafabad, Iran 2,* Department of Biotechnology, Faculty of Biological Sciences and Technology, Shahid Ashrafi Esfahani University, Isfahan, Iran Bibliography First, this gene was structurally analyzed in GeneCards then GPR45-related single nucleotide polymorphisms (SNPs) and microRNAs were found in GWAS Catalog and NCBI databases. Ultimately, the LncRNADisease database (version 2.0) helped to find a long non-coding RNA (lncRNA) connected with the GPR45 gene signaling pathways. [1] M. Caccese, M. Padovan, D. D'Avella, F. Chioffi, M.P. Gardiman, F. Berti, F. Busato, L. Bellu, E. Bergo, M. Zoccarato, M. Fassan, V. Zagonel, G. Lombardi, Anaplastic Astrocytoma: State of the art and future directions, Crit. Rev. Oncol. Hematol, 153(2020), 103062. The GPR45 gene, which encodes a member of the G protein-coupled receptor (GPCR) family and is located on chromosomal position 2q12.1, mediate signaling processes to the interior of the cell via activation of heterotrimeric G proteins. According to findings from the GEPIA2 database, the GPR45 gene is highly expressed in astrocytoma. The analysis Indicated that the incidence of the SNP:rs2576789 can lead the cells to Anaplastic astrocytoma and outcome the involved miRNA- 4435-1 and lncRNA-CYTOR in this process. Through the process of this disease, the disease- associated SNP is located on the mRNA and the miRNA-4435-1 binds to 3’UTR of GPR45 mRNA as an activator. When lncRNA-CYTOR, binds to miRNA-4435-1, turns on miRNA- 4435-1 and the GPR45 gene is activated, finally intensifies the tumorigenesis of anaplastic astrocytoma. The present study inferred that, the interaction of lnc-CYTOR with rs2576789 could be useful biomarkers for the diagnosis of anaplastic astrocytoma. The miRNA-4435-1 proves also that GPR45 is an effective gene in anaplastic astrocytoma outbreak and its tumorigenesis, so there is hope for early diagnosis this malignant brain tumor. Introduction Results Anaplastic Astrocytoma Normal astrocytes Different parts of the brain tissue 0 1 2 3 4 5 6 Other brain diseases Anaplastic astrocytoma miR-4435-1 Up Regulated Down Regulated Figure1: Anaplastic Astrocytoma Diagram1: GPR45 gene expression level in different tissues of the human body. Diagram2: GPR45 gene expression level in anaplastic astrocytoma and other brain diseases. Figure2: The volcanic map of identification of significantly expressed miRNA in Anaplastic Atrocytoma. The red dots represent significantly up-regulated miRNAs and the green dots represent significantly down- regulated miRNAs. miRNA volcano


Distributed Text Services (DTS) A Community-driven Text Interoperability API Linked Pasts 6, University of London and British Library, December 2-16, 2020 DTS Community 46 Members Communication via Google Group list Technical exchanges: GH issues Minutes: meeting notes GH repo Want to join? Subscribe to the Google Group Why DTS? DTS provides a standard way for clients to interact with collections of TEI documents. A standard API allows users to access many text collections using the same client software. It also allows editors to publish text collections in a usable way that existing clients can use. What is DTS? Goal: enable machine-actionable operations across a wide variety of TEI texts. As DTS strives for genericity, it does not dictate: - how collections should be organized - type of persistent identiﬁers to use - what ontologies to use for metadata - how the texts are structured. Classes of objects in DTS Collections: - Hold metadata - Serve as a catalog - May be: - nested - readable - chunked into citable textual elements References: hold identiﬁers & metadata for subsections of documents Passages: hold textual content Endpoints & Operations Collections endpoint: - List available collections - Support for pagination & virtual collections - Navigate between nested collections Navigation endpoint: - List available text passages Documents endpoint: - Retrieve the text of a document Specs: w3id.org/dts Demo: web + notebooks FAQ page DTS-compliant resources APIs ENC Alpheios Perseids EDH Beta maṣāḥǝft A Generic Text API DTS supports: - Multi-level/competing text hierarchies - Any identiﬁer scheme (*) - Non-homogeneous text hierarchies Implementations TEI publisher client/server Perseids DTS API Nautilus + MyCapytain


Background Stereotyping among Football Fans: Terror Management Perspective Abdulkadir Kuzlak, MS & Nuray Sakallı-Uğurlu, PhD Middle East Technical University, Department of Psychology, Ankara, Turkey Method Results & Discussion Violence and stereotyping are common among Turkish football fans and these turn into harmful acts against property and most importantly human life. Terror Management Theory (TMT) states that the unique human awareness that each human will die one day not only make us plan ahead but also behave differently, mostly negatively, when reminded with our own death. When participants are primed with Mortality Salience (MS) they evaluate other group members more negatively (Greenberg et al., 1990) The main purpose of this study was to understand whether stereotyping among football fans is rooted on existential concerns. Presented stereotyping difference between MS and dental pain (DP) conditions partially explain stereotyping among football fans. Subjects. 186 students from Middle East technical University 122 females whereas 64 males with a mean age of 21.47 (SD = 2.3) from various departments. Materials. Self-Esteem Scale (Rosenberg, 1965) – Mortality Salience Manipulation – Positive and Negative Affect Schedule (Watson, Clark, & Tellegen, 1988) – Word Search Puzzle – Stereotypical Thinking about Football Fans Scale (Developed within this study) – Sport Spectator Identification Scale (Wann, & Branscombe, 1993) Design and Procedure. Between subjects experimental design with 6 conditions (3x2, affiliated teams x experimental conditions) Self-esteem measured – Primed with MS or DP – Stereotyping toward supported or opponent team fans are evaluated – Identification with supported team measured FB fans reported significantly more interpersonal relations stereotyping towards FB fans in MS than in DP condition, F(1, 38) = 4.79, p = .035. Although it was expected that negative stereotyping would be higher in MS than in DP conditions, a positive out-group stereotyping was found. GS fans reported more competence stereotyping toward FB fans in MS than in DP condition, F(1, 81) = 3.14, p = .080. Findings seemingly contradict the previous results of TMT studies which were negative evaluation toward out-group members. But TMT literature shows that participants try to justify their worldview, in this sense GS fans justify that they perceive FB fans as competent in MS condition and FB fans justify GS fans are less competent in MS condition. Positive in-group stereotyping also corresponds with TMT findings. Beside, for DV, a scale without pessage was used which is different from most of the TMT studies. A study using pessage-like-DV and using highly identified football fans would be better for future research. References Rosenberg, M. (1965). Society and the adolescent self-image. Princeton, NJ: Princeton University Press Wann, D. L., & Branscombe, N. R. (1993). Sport fans: Measuring degree of identification with their team. International Journal of Sport Psychology, 24 (1), 1 - 17 Watson, D., Clark, L. A. & Tellegen, A. (1988). Development and validation of a brief measure of positive and negative affect: The PANAS Scales. Journal of Personality and Social Psychology, 54 (6), 1063 - 1070. Doi: 10.1037/0022-3514.54.6.1063. Greenberg, J., Pyszczynski, T., Solomon, S., Rosenblatt, A., Veeder, M., Kirkland, S., & Lyon, D. (1990). Evidence for terror management theory II: The effects of mortality salience on reactions to those who threaten or bolster the cultural worldview. Journal of Personality and Social Psychology, 58 (2), 308 - 318. Doi: 10.1037/0022-3514.58.2.308. Insult Items: Contemptible – Loser – Turncoat – Liar – Worthless – Prick – Studpid – Coward – Feminine Competence Items: Successful – Strong – Talented – Skillful – Self- confident - Fast Interpersonal Relations Items: Familiarity – Pure-minded – Calm – Adaptive - Positive Higher interpersonal relations stereotyping was made toward supported team fans Higher compet


FUDGE-5G: Fully Disintegrated Private Networks for 5G Verticals David Gomez-Barquero*, Antonio Borges†, Andre S. Gomes†, Luis Cordeiro†, † Joao Hen- riques†, Kashif Mahmood‡, and Sebastian Robitzsch§ *Universitat Politécnica de Valencia, Valencia, Spain †OneSource, Coimbra, Portugal ‡Telenor Research, Fornebu, Norway §InterDigital Europe, Ltd., London, United Kingdom The NPN concept allows for designing, deploying, and interconnecting capabilities for the speciﬁc needs of the use cases, motivating the NPN deployment in the ﬁrst place. 3GPP studies two types of NPNs, falling under the categories of Standalone Non-Public Networks (S-NPNs) and Public Network Integrated NPNs (PNI-NPNs) PLATFORM ARCHITECTURE USE CASES NPN BENEFITS PROJECT COORDINATOR FUDGE-5G assumes: a uniﬁed access domain across all Access Networks as the shared communi- cation denominator; 1. utilising Software-deﬁned Networking (SDN) on both control and user planes is fully supported by the platform; 2. Network Function Virtualisation (NFV)-enabled infrastructure. 3. Both for control and user plane 5G services, FUDGE-5G offers a Service-based Architecture platform realization covering: • uniﬁed service routing; • orchestration; • monitoring capabilities. 5GC lists innovations around: • 5G IP and Opportunistic Multicast (OMC); • 5G Time Sensitive Networking (TSN); • 5G Local Area Network (5GLAN); and interconnected S-NPNs. Service routing at the control plane is based on Name-based Routing (NbR), one of the three official deployment options of a Service Communication Proxy (SCP). User plane service routing offers the integration of NbR, which is complemented by a novel resource scheduling. With NPNs, the network can be designed, optimised, dimensioned and customized to serve different needs of enterprise and industrial verticals. It allows for: • tight integration of UEs with the RAN and 5GC; • customised QoS traffic ﬂow support; • better coverage (optimized cell location); • high security (isolation); • adaptability and scalability; • greater ﬂexibility; • high efficiency; • lower latency overall. Cloud Solution providers from Advisory board Industry 4.0 Stakeholder 5G Virtual Office Stakeholder PPDR Stakeholder Concurrent Media Delivery Stakeholder Interconnected NPNs Stakeholder The use case aims to illustrate a typical remote production and media delivery scenario at the same time, but in this case using 5G technology. The main objective in this UC is to provision transparent mis- sion-critical services to the end-user independently of the under- lying telecommunication infrastructure. In this UC, innovations will allow hospital staff to be able to work more effectively and for medical knowledge and expertise to be distributed over a much wider area. This UC aims at demonstrating the applicability of S-NPNs and their integration with 5GLAN and TSN, replacing ﬁxed and wired alternatives for industrial communications with 5G. The main motivation of this UC is deployment of 5GLAN in case of federated 5G S-NPN and authentication and authorization of sub- scribers across multiple domains. Prof. David Gomez-Barquero Universitat Politecnica de Valencia iTEAM Research Institute Camino de Vera info@fudge-5g.eu /company/fudge-5g/ /fudge5geu This project has received funding from the European Union’s Horizon 2020 research and innovation programme under grant agreement No 957242 C M Y CM MY CY CMY K fudge-publication-poster_v2-1.pdf 2 18/05/2021 15:13:17


Very high broadsense heritability for the root angle in both species = 0,82. WEB LINK : HTTPS://WWW.SOLACE-EU.NET GENETIC VARIATION OF WHEAT SEEDLING ROOT ANGLE C. COLLET, B. MOTTOULLE, T. DAGBERT, G. LOBET AND X. DRAYE EARTH AND LIFE INSTITUTE, UNIVERSITÉ CATHOLIQUE DE LOUVAIN, BELGIUM. CONTACT: clothilde.collet@uclouvain.be Below-ground parts of plants play a significant role in water and nitrogen extraction, and adaptation to changing environments. BELOW-GROUND PARTS OF PLANTS, OUR KEY PLAYERS ! Seminal root angles of cereal seedlings are good predictors of top soil exploration during crop establishment. PHENOTYPING ROOT GROWTH DYNAMICS Seedlings growing at different matric potentials (height above the water level) displayed a significant root angle plasticity in the two panels, despite the very small amplitude of potential (25 cm). This plasticity is genetically variable only in bread wheat. à The mean seminal root angle is 96° à The mean seminal root angle is 125° ^^^^ Water ^^^^ Illustration of extreme bread wheat varieties SEMINAL ROOT ANGLE EXPERIMENT This research is part of the European project SolACE : • Two diversity panels (bread wheat panel and durum wheat panel) for association genetics. • Advanced phenotyping experiments in equipped fields and controlled conditions platforms. • Emphasis on a combined deficit of water and nitrogen. Knowing the variability and heritability of root angle is a preliminary step towards improvement of seedling root architecture. à 2 experiments presented here as part of SolACE project. Identification and tracking of root tips in image sequences : • Root growth rate. • Emergence. • Maximum length. • Apical diameter. RootPhAir : • Aeroponics. • High throughput phenotyping. • Time-lapse image sequences with 2h resolution. • Affordable and non- invasive technique. CONCLUSIONS & PERSPECTIVES Seminal root angle experiment : • The large heritability of root angle suggests QTLs will be detected. • Wheat seminal root angle responds to small differences of water deficit. • In bread wheat, this response is genotype-dependent and may lead to unexplored adaptation possibilities. Further analyses : • Characterisation of genetic determinism for the root traits. © Laure Beff Other data sources will be mobilised : • Aeroponics (RootPhAir) : dynamic root traits. • 4PMI platform (INRA Dijon). • Field data (Syngenta, Arvalis, INRA). Albidum Zitnica


Gaia DR3 determination of the Galactic bar pattern speed Romero-Gomez M1, Jiménez-Arranz, Ó4, Chemin L3, Hunt J5, Khanna S2, Drimmel R2, Poggio E2, Ramos P6, Andrae, R7 1 Institut de Ciències del Cosmos (ICCUB), Universitat de Barcelona (IEEC-UB), Barcelona, Spain 2 INAF - Osservatorio Astrofisico di Torino, Torino, Italy 3 Instituto de Astrofisica, Universidad Andres Bello, Santiago RM, Chile 4 Division of Astrophysics, Lund Observatory, Sweden 5 University of Surrey, United Kingdom 6 National Astronomical Observatory of Japan, Tokyo, Japan 7 Max-Planck-Institut fur Astronomie, Konigstuhl 17, D-69117 Heidelberg, Germany Previously, in Gaia Collaboration, Drimmel+2023... ●We selected RGB stars in the Galactic plane using Gaia gspphot astrophysical parameters. We used the 6D (positions and velocities) sample, including about 5.7M RGB stars towards the inner disc. ●3D velocity maps in cylindrical coordinates show the outstanding signature of the Galactic bar. ●Using a bisymmetric model of the tangential velocity component, we derive the position of the corotation radius of the bar, and from the tangential velocity curve, an estimate of the bar pattern speed. In the present study… ●We select RGB stars from Andrae, Rix & Chandra (2023) using XGBoost algorithm, which derives metallicities, effective temperatures and gravities trained using APOGEE stellar parameters and including CatWISE magnitudes. ●The catalogue now contains about 12M RGB stars in the Galactic plane. ●We make NEW 3D velocity maps in cylindrical coordinates, now taking into consideration the correlations between the astrometric variables and propagated to the galactocentric coordinates. ●New velocity correlation maps show vertex deviation of the local velocity elipsoid. In the present study… ●Alternatively to the experimental method used in the Gaia Collaboration, Drimmel+2023 paper, we use the Tremaine-Weinberg version of the code in Bovy+2019 to estimate the pattern speed of the Galactic bar from this new dataset. Results of the corotation radius and bar pattern speed are consistent with the ones found in the Gaia Collaboration paper. Note that… The estimated values of the pattern speed using the TW method show a strong dependence on the assumed angular orientation of the Galactic bar, and the maximum galactocentric radius defining the bar region. Some inherent to the method might not apply. Preliminary results ●A thorough analysis of the method when applied to simulated data shows a high sensitivity of the pattern speed with the estimation of the bar region or orientation angle. The hypothesis of a density gradient following an exponentially decreasing elliptical pattern might not be realistic.


24th International Conference on Evaluation and Assessment in Software Engineering 14-16 June, Oulu, Finland EASE welcomes papers addressing topics related to evaluating and assessing software products, processes, practices, tools & techniques including: • Defect and quality prediction • Estimation, decision-making, heuristics & biases in SE • Evaluation and comparison of software technologies (e.g. IoT, Context–Awareness, Cyber-physical) • Human factors and behavioral aspects of SE • Infrastructure and teachniques for conducting empirical studies • Inter- or multi-disciplinary studies intersecting SE • Modeling, measuring, and assessing product/ process quality, or SE success • Modeling, measuring, and assessing SE productivity and job performance • Software analysis, testing, verification, validation • SE analytics and metrics • Software project and knowledge management • Software technology transfer to the industry • Theory development and evaluation EASE also welcomes studies with negative findings or non-significant results. Similarly, EASE welcomes papers employing any of the following empirical methods: • Qualitative research including action research, case study, ethnomethodology, grounded theory, qualitative surveys (interviews) & qualitative simulation (e.g. protocol analysis) • Quantitative approaches including benchmarking, experiment, data science (i.e. AI or ML-based approaches), longitudinal studies (e.g. cohort studies), optimization studies, quantitative simulation, quasi-experiment, questionnaire surveys & repository mining. • Systematic literature review including case survey, critical review, meta-analysis, qualitative synthesis, & scoping review (systematic mapping) • Engineering research (also called “design as research” & “design science research”) • Mixed methods and multi-methodology • Replication studies • Meta-science (e.g. papers about research methods and methodological issues, whether empirical or conceptual). General Chairs Burak Turhan University of Oulu Sira Vegas Universidad Politécnica de Madrid Organization Chair Kari Liukkunen University of Oulu Program Chairs Maria Teresa Baldasarre University of Bari Paul Ralph Dalhousie University Vision and Emerging Results Chairs Aldeida Aleti Monash University Valentina Lenarduzzi University of Oulu Tentative dates Workshops proposals deadline December 2, 2022 Workshops proposals notifications December 19,2022 Full papers abstracts deadline January 13, 2023 Full papers deadline January 20, 2023 Full papers notifications March 6, 2023 Rest of tracks deadline March 10, 2023 Rest of tracks notifications April 16, 2023 Camera ready deadline April 28, 2023 The International Conference on Evaluation and Assessment in Software Engineering (EASE) is one of the premier conferences for research related to empirical software engineering. The EASE full research papers track seeks high quality submissions of technical research papers describing original and unpublished results. EASE 2023 Preliminary Call For Papers Image by David Mark from Pixabay REVIEW PROCESS Authors are encouraged to consult the ACM SIGSOFT Empirical Standards for Software Engineering Research at https://acmsigsoft.github.io/EmpiricalStandards/ when designing their studies and writing their manuscripts. EASE 2023 will employ a double-anonymous review process. Authors are also expected to comply with the SIGSOFT Open Science Policy (i.e., to properly archive data and artifacts to the extent ethically and practically possible, and include a links in a Data Availability section in their manuscripts). More details regarding the review process will be released closer to the submission deadline. CONFERENCE TRACKS AND SUBMISSIONS EASE 2023 features the following tracks: full papers, vision & emerging results, short papers & posters, industry and doctoral symposium. There will also be co-located events, including workshops and tutorials, and a track planned for journal-first presentations. All papers


POSTER SESSION THE PAPER IN BRIEF The paper aims to gain an understanding of the characteristics and requirements of the logistics pertaining to the reverse supply chain of circular sustainable floor coverings, as a crucial part of enabling circulation of the material, and to identify the regulations that affect the reverse logistics. The methodology includes a literature search and discussions with floor coverings sector stakeholders. The results show that there are special characteristics to consider pertaining to the logistics of the floor-coverings reverse supply chain, when increased circularity is aimed at, such as unpredictable supply, and several regulations affect logistics activities. The paper contributes to a better understanding of the logistics of reverse supply chains in the floor coverings sector. RESULTS • Major changes are needed to the current reverse supply chain if it is to become circular • Regulations affect circular floor coverings’ logistics. • The unpredictable supply of construction and demolition waste from various sources, posing challenges to e.g. to the collection and pretreatment. • In collection, contamination should be minimized for high quality of the collected material. Separate collection is the most efficient way to ensure the quality. • Streams from consumer sources are more scattered than those from commercial buildings. • Separate collection of all floor coverings together would require major material sorting before treatment. • Building centralized recycling facility to perform local pretreatment like separation and shredding would reduce the need for transportation capacity, carrying only material that will actually be recycled. • Planning of the material and installation of the floor coverings will set the direction of reverse supply chain activities and usability of the material after its initial use. • A need for new actors or role changes of current actors in the reverse supply chain to allow circulation of the materials. CHALLENGE The construction and demolition industry has significant potential for recycling and reuse due to its high volume of waste streams. One challenge, besides collecting the materials, is the location of related activities like sorting and pretreatment to avoid unnecessary transportation of not recyclable materials. Today, no widespread systems for collecting floor covering waste generated from e.g., demolished buildings or transport vehicles, or renewal activities. Some companies have developed their own systems, but a lack of logistics systems for collecting floor coverings and pretreating them locally has been identified as a major barrier to achieving circularity. CIRCULAR SUPPLY CHAIN MODEL The waste generation and collection phase of the value chain determines the fate of the waste and the recyclability of the waste and further the quality of the waste as a secondary raw material (SRM) and the continuity of supply ACKNOWLEDGEMENTS The authors wish to acknowledge the ‘CISUFLO’ (CIrcular SUstainable FLOor coverings) project, which has received funding from the European Union's Horizon 2020 research and innovation program under grant agreement ID 101003893. The content reflects solely the authors’ views, and the EU is not responsible for any use of the information it contains. Identifying reverse logistics and related regulations in the circular supply chain of sustainable floor coverings Rosa Palmgren, Elina Pohjalainen, Margareta Wahlström, Ville Hinkka, Ismo Ruohomäki Design & products •Material choices and recyclability Waste generation •On-site sorting, dismantling Waste collection •Collection systems Sorting & separation •Feedstock quality Recycling/processing •Production of SRMs SRM markets •Use in manufacturing, market demand FLOOR COVERINGS REVERSE SUPPLY CHAIN Currently, floor coverings are collected mainly as mixed waste from construction and demolition sites and incinerated or landfilled. Ideally, the circularity of floor coverings would star


Measuring Stellar Long Surface Rotation Periods by Combining Multi-Sector/Cycles Long Cadence Data from TESS D.B. PALAKKATHARAPPIL¹, M. GILLES¹ ², R.A. GARCÍA¹, A. HAMY³, A. PRIN³, S.N. BRETON⁴, S. MATHUR⁵ & A.R.G. SANTOS⁶ 1. Université Paris-Saclay, Université Paris Cité, CEA, CNRS, AIM, F-91191, Gif-sur-Yvette, France, 2. ESTACA Paris-Saclay, Montigny-le-Bretonneux 3. École Centrale-Supélec, Univesité Paris-Saclay 4. INAF - Osservatorio Astrofisico di Catania 5. IAC - Instituto de Astrofisica de Canarias and ULL 6. Instituto de Astrofísica e Ciências do Espaço, Universidade do Porto, CAUP Introduction The evolution of surface magnetic features on stars, such as spots and faculae, produce modulations in light curves. These modulations allow us to measure the surface rotation period, Prot, of stars from Main Sequence (e.g. McQuillan et al. 2014, Santos et al. 2019, 2021) to Red Giant stars (Ceillier et al. 2017). Nevertheless, the effectiveness of determining Prot heavily depends on the length of the observation period. Previously, apart from the long observation campaigns of TESS (Ricker et al. 2015), it was not possible to measure Prot longer than about 13 days, half of TESS's 27-day sector observation period. TESS has completed two all-sky observations; combining this multi-sector data allows us to probe rotation periods beyond the typical limit of around 13 days. Measuring the rotation period from combined multi-sector data is challenging due to inter-sector gaps (~13 days), sector gaps (over years), and phase shifts in the light curve while combining long-gapped data. In this work, we evaluate the limits of going up to ~20 days from at least two continuous sectors in multiple campaigns, minimum possible multi-sector/cycle configuration. We assess the best strategies to extract Prot and provide yields based on Kepler (Borucki et al. 2010) data observed as TESS cycles. Identification of bad Sectors & Background correction PYTADACS Calibration TESS QLP Light Curves The MIT Quick Look Pipeline (QLP, Huang et al., 2020) generates light curves for approximately 19 million stars from FFIs. The 'SAP_FLUX' data product from QLP provides normalized best aperture photometric flux that is corrected for background without detrending the signal, ensuring that periodic features are preserved for accurate rotational period analysis. Additionally, the availability of pre-processed light curves eliminates the need to download Full Frame Images (FFIs) and compute light curves from scratch. However, several calibration strategies should be done to obtain precise rotation periods, as explained below. In a single sector, signiﬁcant ﬂux ﬂuctuations can occur (Fig. 1, Sector 26), likely resulting from background calibration issues within the QLP. Such variations signiﬁcantly compromise the accuracy of the Prot calculations, whether using the Autocorrelation Function (ACF) or the Global Wavelet Power Spectrum. It is crucial to identify these aﬀected sectors and either remove or correct them for more reliable Prot estimation. The Fig. 2 on the right illustrates the estimation of an accurate period post- correction. Proper stitching of Light curves TESS data include inter-sector gaps of approximately 6 hours to 1 day around every ~13 days and sector gaps of 1-2 days. QLP flux is normalized by sector, which limits analysis to shorter rotation periods. To derive longer rotation periods, it is essential to properly stitch light curves across these gaps. As depicted in Fig. 3, without adequate stitching, the estimated rotation period will be biased. A stitching routine utilizing Bayesian inference, adapted from the TASOC pipeline (Handberg & Lund 2016, Handberg et al., 2021), has been implemented in PYTADACS (soon available through git, García et al. in prep.). This approach allows for the detection of longer periods, as illustrated in Fig. 4. Rotation Period Estimation After the correction of sectors and stitching of the light curve, a filter is appli


Hanle rotation signatures in Sr I 4607 Å Franziska Zeuner 1, Luca Belluzzi 1,2,3, Nuno Guerreiro1, Renzo Ramelli 1 and Michele Bianda1,3 1 IRSOL Istituto Ricerche Solari “Aldo e Cele Daccò”, Università della Svizzera Italiana (USI), CH-6605 Locarno-Monti, Switzerland 2 Leibniz-Institut für Sonnenphysik (KIS), D-79104 Freiburg i.Br., Germany 3 Euler Institute, Università della Svizzera Italiana (USI), CH-6900 Lugano, Switzerland Scattering polarization and Hanle rotation ●The limb of the Sun is linearly polarized due to scattering. ●Magnetic fields modify scattering polarization via the Hanle effect. ●One signature of the Hanle effect is a rotation of the polarization plane (e.g., observe Stokes U). ●One of the strongest linear polarization signals in the photosphere are found in the Sr I 4607 Å line. ●Hanle rotation signatures have been observed in many other lines, but they have not been detected yet in Sr I. ● observe the linear polarization in the Sr I 4607 Å line close to the limb, where zero Stokes U is expected ● We demonstrated the existence of Hanle rotation signatures in Sr I from weak longitudinal magnetic fields clearly for the first time. ●We used a new measurement technique for achieving high absolute accuracy. ● These signatures have an invaluable diagnostic potential. Contact: franziska.zeuner@irsol.usi.ch Link to Zeuner+ 2022, A&A 662, A46 Method U Q maximum zero Observation High-precision spectropolarimetry at the IRSOL observatory, Locarno: ● using a high-resolution spectrograph, slit perpendicular to the limb, +Q parallel to limb ● and ZIMPOL (fast modulating to suppress seeing- induced cross-talk) ● in combination with a new slow modulation technique (to achieve high zero level accuracy, see Zeuner et al. 2022 (SPIE Proc.)) Academic example of the linear polarization (Stokes Q and U) of the Sun’s limb from pure scattering. Polarization profiles at the limb (Stokes I and Q), and at one position with some magnetic activity (indicated by orange arrows in the previous figure showing the observed Stokes images). Profiles with suff- icient signal-to-noise are fitted with a Gaussian or the first derivative of a Gaussian (St- okes Q and V, respectively.) Low signal-to-noise profiles are spectrally averaged over a few pixel (orange shaded ar- eas). Sr I Stokes U profiles are clearly single lobed. Data reduction ● Applying ZIMPOL standard data reduction (dark frame and polarimetric calibration). ● Demodulating the slow modulation states to correct Stokes Q and U from systematic errors. ● Removing the mean of the Stokes V image (not corrected by slow modulation). ● Fitting the Stokes Q profiles in Sr I, Stokes V in Sr I and Fe I, and averaging Stokes U in a small spectral region within the core of both lines to asign each limb distance a polarization amplitude. Positive and negative Stokes U signals are visible in Sr I. Analysis limb Observed full St- okes images for 70 min integr- ation time at the limb, scattering polarization (St- okes Q) most prominently visi- ble in the Sr I line, not in the neighbouring Fe I line. Longitdinal Zeeman induced Stokes V is stro- nger in Fe I be- cause of its high- er Landé factor. The Stokes U amplitude is correlated with the Stokes V amplitude in Sr I. Therefore, cross-talk from Stokes Q to U can be ruled out as a source for Stokes U in Sr I. Such a correlation is not demonstrated in Fe I, therefore any cross- talk from Stokes V can be excluded as a source for Stokes U in Sr I. The transversal Zeeman effect can be excluded due to the single lobed shape of the Stokes U profiles. However, the correlation shows that longitudinal magnetic fields are a possible source for Stokes U and Stokes V. Correlation of the linear polarization amplitde in U (normalized to the maximum) with the cir- cular polarization ampli- tude V (normalized to the maximum), and fit- ted linear regressions. Conclusions


Three-dimensional mapping of organ geometry Laura Blackiea*, Pedro Gaspara, Lisa Gartnera, Hannah Beckwithb, Salem Moslehc, Lingjin Kongb, Yuhong Jina, Agata P. Zielinskaa, Todd Schoborgd, L. Mahadevane, John Thomasb, Ben Stattonb, Uday Patelf, Philip Lungf, Bernhard Kainzg, Irene Miguel-Aliagaa a Francis Crick Institute, London, UK; b Institute of Clinical Sciences, Faculty of Medicine, Imperial College London, London, UK; c Department of Natural Sciences, University of Maryland Eastern Shore, MD, USA; d Department of Molecular Biology, University of Wyoming, WY, USA; e School of Engineering and Applied Sciences, Harvard University, MA, USA; f London North West University Health Care NHS Trust; g Department of Computing, Imperial College London, London, UK *laura.blackie@crick.ac.uk References (1) Blackie, Gaspar et al (2024) The sex of organ genometry. Nature. (2) Masselink et al (2019) Broad applicability of a streamlined ethyl cinnamate-based clearing procedure. Development. (3) Schoborg et al (2019) Micro-computed tomography as a platform for exploring Drosophila development. Development. (4) Arshadi et al (2021) SNT: a unifying toolbox for quantification of neuronal anatomy. Nature Methods (5) Yushkevich et al (2006) User-guided 3D active contour segmentation of anatomical structures: Significantly improved efficiency and reliability. Neuroimage. Loss of 3D information Opaque cuticle and toxic, long protocols Hard to label multiple organs at once Low throughput Loss of organ relationships Aim: map 3D organ shape and relationships Imaging method Confocal Light sheet Requires dissection Dissected Drosophila gut stained with DAPI imaged by confocal microscopy MicroCT Analysis methods Proximity to organ (μm) 590 295 442.5 147.5 0 767 0.00 0.25 0.50 0.75 1.00 75 25 50 100 0 Position along whole gut length (%) Distance to ovaries (mm) Left ovary n=44 Right ovary n=44 Extending to the human gut Segmentations - organ proximity analysis The gut tube of flies and humans is longer than the body so must fold and coil in order to fit into the abdomen. Does the gut fold into a stereotypical defined shape or is it random? Gut length differs between male and female flies - does gut shape also differ? Is gut shape important for gut function? To answer these questions we developed 3D imaging methods and 3D image analysis techniques(1). We scaled up micro-Computed Tomography (microCT) scanning(3), an x-ray based technique, by improving mounting methods. We mount 10 flies in a p10 pipette tip and stack four tips to scan ~40 flies in one run. Coupled with an automated sample changer, this allows us to scan 100s of flies automatically. Fly with GFP labelled gut cleared by 2Eci(2) and scanned by lightsheet microscopy. (Left) autofluorescence gives overview of fly body, (right) coiled gut can be seen in situ. 3D info remains intact - no dissection Most variable Least variable Overall mean Female mean Male mean 0.00 0.05 0.10 0.15 0.20 0.25 R L Ovary volume (mm3) *** n=60 90O 81.8% 6.8% 11.4% n=44 We used the ITKsnap software(5) to segment visible organs including the gut, ovaries and central nervous system. We then developed a method to measure the proximity between these organs and along the length of the gut. We identified several interesting asymmetries in organ arrangement for example the stomach more often contacts the fly’s right ovary. The fly’s left ovary is on average bigger than the right (left). Secondly we noted the fly’s stomach most often joins the gut from the left-hand side but a minority of individuals demonstrated an inverted arrangement (right). Left, example heatmap displayed on segmentation of gut showing gut proximity to ovaries (red = near, blue = far). Right, graph showing distance between gut and ovaries plotted along the length of the gut. We extracted parameters from the centreline including curvature, torsion and radius and found that females have higher curvature of their central midgut loops than males. Centrelines


Jonathan D. Geiger Lisa Kolodzie Jascha Schmitz Mareike Schumacher RaDiHum20-Webseite Webseite der DHd2024 RaDiHum20 auf Spotify Wissenschaftskommunikation (WissKomm) ist ein breites Feld des Managements wissenschaftlicher Kommunikate. Es kann zwischen einer internen WissKomm und einer externen unterschieden werden. Die interne Spielart umfasst dabei die Kommunikation wissenschaftlicher Inhalte, Ergebnisse oder Nachrichten innerhalb einer Fachcommunity, eines wissenschaftlichen Verbandes, Netzwerks, Projekts oder einer Institution. Die externe WissKomm unterscheidet die Kommunikation über Dritte (Wissenschaftsjournalismus) oder die Eigenvermittlung an verschiedene Publika (Politik, Öffentlichkeit usw.) zu verschiedenen Themen, mit verschiedenen Mitteln und verschiedenen Intentionen. Der Begriff “Podcast” setzt sich zusammen aus “pod” (“playable on demand”) und “cast” (von Broadcasting) und bezeichnet Audio-Sendungen (ferner auch Video- Sendungen) im Internet, die (im Unterschied zum klassischen Radio) jederzeit abrufbar sind. Wesentlich zu ihrer Verbreitung beigetragen haben RSS-Feeds in den späten 00er Jahren. Große Popularität erlangten wissenschaftliche Podcasts in Deutschland während der Corona-Pandemie – Vorreiter war insbesondere der Corona-Podcast des Virologen Christian Drosten (erste Episode vom 26.02.2020). Auch die wissenschaftliche Erforschung von Podcasts nahm in den letzten Jahren zu. Ein anderer Ansatz besteht darin, Interview-Podcasts als empirische Grundlage für die Entwicklung wissenschaftlicher Felder zu nutzen. Diesen Versuch unternimmt RaDiHum20 für die Digital Humanities: Über die verschiedenen Staffeln und Episoden hinweg wurde die Frage nach der Zukunft der Digital Humanities immer wieder gestellt, sodass ein Panorama möglicher Zukunftsvisionen der Digital Humanities entstanden ist. RaDiHum20 (“Radio Digital Humanities”, die “20” verweist auf das Gründungsjahr und das monatliche Erscheinungsdatum) ist ein Wissenschaftspodcast speziell für die Digital Humanities und den DHd-Verband. Er wurde in der ersten Jahreshälfte 2020 geboren und beteiligt waren und sind Jonathan D. Geiger, Lisa Kolodzie und Mareike Schumacher; Patrick Toschka verließ das Hostteam 2022, Nachfolger wurde Jascha Schmitz. Unterstützt werden sie mittlerweile von Clara Helmig. Mittlerweile sind insgesamt mehr als 70 Folgen in sechs Staffeln erschienen. Inhaltlich begleitet der Podcast nun schon die zweite DHd-Konferenz, interviewt Convenor*innen der verschiedenen Arbeitsgruppen des Fachverbandes und beleuchtet unter anderem Themen aus dem Bereich Wissenschaftsmanagement, Open Science und Wissenschaftskommunikation. Technisch setzt er insbesondere auf Discord und Zoom für die Aufnahmen, Audacity und Auphonic für die Audiobearbeitung sowie Wordpress und Mittwald für die Webseite und Kommunikation. Der Mastodonaccount hat über 200 Follower. Seit Einführung des Podcasts am 01.07.2020 wurden die Folgen insgesamt über 13.500 Mal angehört. Im Durchschnitt wurde jede Folge 190 Mal angehört. Rund 100 Abonnent*innen folgen RaDiHum20 über den Hosting-Service Podcaster.de, etwas mehr Follower*innen verzeichnet Spotify und 56 hören regelmäßig über Apple Podcasts zu. “Damals hieß DH in Deutschland eigentlich TUSTEP.” – Peter Gietz, S1E9, 20.04.2021 “Dann gab es den dritten Paradigmenwechsel (...), dass man sich plötzlich als weltweite Community versteht. Das ist mit dem Begriff Digital Humanities zu coinen.” – Peter Gietz, S1E9, 20.04.2021 “Ein wichtiger Impuls für die Gründung des Verbands war die Erkenntnis, dass die Community so weit ist, dass sie eine Institutionalisierung braucht, dass sie diese auch tragen kann und dass sie davon auch profitieren wird.” – Christof Schöch, S3E5, 20.06.2022 “Viele der Prozeduren [der Organisation der DHd-Konferenz], die heute normal sind, waren damals noch überhaupt nicht formalisiert.” – Elisabeth Burr, S6E2, 19.02.2024 “Ich sehe den DHd-Verband als Humus, aus dem ganz viele schöne Sachen wachsen können und die v


A ﬁrst look into Gollum’s cave: Are we hoarding data because of legal uncertainties? Lea Sophie Singson (FIZ Karlsruhe), Jannes Uhlott (JKI), Constantin Bress (FIZ Karlsruhe), Sophie Boße (ZB MED), Anne Sennhenn (ATB Potsdam) We asked the agro science community a catalogue of questions regarding their experiences and reservations regarding the sharing of their data. Emphasis here was to gather insight from a legal perspective with questions surrounding the license landscape in institutions and familiarity of the community with licenses, the Good Scientiﬁc Practice and more. Here is what we know… We gathered that scientists are hesitant to publish research data, especially under a CC0 license or a public domain mark. One of the reasons for that seems to be the perceived risk of not being attributed by their peers. This was surprising, considering the participants also stated, that they are familiar with the Good Scientiﬁc Practice. It seems that although the name rings a bell, scientists do not know that the Good Scientiﬁc Practice forces attribution by other scientists. Also, the use of CC-BY licenses, which require citing, is widespread. In the survey, the scientists were asked if they had an understanding of what a CC-BY and a publication into the public domain legally means. The answers suggest that quite a few are conﬁdent in what the licenses do while many others either answered that they don’t know at all or that they are unsure. Those who answered “yes” or “I’m not sure” where then also asked to write down what exactly they think the licenses mean. Misunderstandings about the meaning of CC-BY seem to be common, however. Thus, training on data publication and licenses is required … and wanted! What do you think? Do you agree with this ﬁrst look? Would you answer differently? Take the Survey! Get the Poster!


RESEARCH POSTER PRESENTATION DESIGN © 2015 www.PosterPresentations.com The Metadata Encoding and Transmission Standard (METS) is a metadata standard for encoding descriptive, administrative, and structural metadata for objects found in a digital library or archive. METS Preservation workflows for research data The Data Documentation Initiative (DDI) is a metadata standard for statistical and numeric data description. It is primarily used to describe social science research. DDI Preservation Metadata: Implementation Strategies (PREMIS) is a useful vocabulary and set of defining attributes to describe preservation actions and events needed by preservation repositories and systems. PREMIS AIP Archival Information Package (AIP) is conceptual information package for digital objects in a Open Archival Information System (OAIS). BagIt is a standard developed by the Library of Congress used to represent an AIP. AIP Structure ├── data │ ├── logs [log files generated during processing] │ │ ├── fileFormatIdentification.log │ │ └── transfers │ │ └── NADDI2017a0f309a-d3ec-43ee-bb48-a868cd5ca85c │ │ └── logs │ │ ├── extractContents.log │ │ ├── fileFormatIdentification.log │ │ └── filenameCleanup.log │ ├── METS.dfb0b75d-6555-4e99-a8d8-95.xml [AIP METS file] │ ├── objects [a directory w/digital objects being preserved, + metadata] │ ├── NADDI2017.jpg [an original file from Dataverse] │ ├── NADDI2017.sav [an original file from Dataverse] │ ├── NADDI2017 [a bundle retrieved from Dataverse] │ │ ├── NADDI2017.xml [DDI XML] │ │ ├── NADDI2017.ris │ │ ├── NADDI2017.xml │ │ └── NADDI2017.tab [TAB derivative file generated by Dataverse] │ ├── metadata │ │ └── transfers │ │ └── NADDI2017a0f309a-d3ec-43ee-bb48-a868cd5ca85c │ │ ├── agents.json [data source agent in the AIP METS file] │ │ ├── dataset.json [full json file retrieved from Dataverse] │ │ └── METS.xml [METS file generated by Archivematica] │ └── submissionDocumentation │ └── transfer-58-1a0f309a-d3ec-43ee-bb48-a868cd5ca85c │ └── METS.xml [standard transfer METS file w/all contents] AIP structure adapted from: Archivematica Wiki. 2017. https://wiki.archivematica.org/Dataverse https://creativecommons.org/licenses/by-sa/3.0/ Ontario Library Research Cloud (OLRC) Amber Leahey | Data and GIS Librarian Scholars Portal | amber.leahey@utoronto.ca Data curation that follows best practices in digital preservation can ensure that research data are actively managed for reproducibility and reuse by others, well into the future. Metadata for Research Data Preservation in Libraries / Archives METS Structure Full Mid Basic Format Identification ü ü No Normalization ü No, basic checks performed No, basic checks performed Example JPEG to TIFF, storing original JPEG SPSS, SAS and ArcGIS files STATA and MATLAB files What does it do? • Creates archival information packages (AIP) using best practice standards such as LC BagIt, METS, and PREMIS • Performs file identification, validity checking, and normalization based on Format Policy Registry (FPR) • Manage processing and storage transfer of AIPS for long-term preservation. What doesn’t it do? • Provide a transfer interface for data and metadata from researchers • Provide working storage for researchers • Register DOIs or report holdings to data registries • Manage retention periods and policies • Generate statistics for usage / access Dataverse Metadata Data Provenance and Preservation Events <mets:mets xsi:schemaLocation=http://www.loc.gov/METS...> <metsHdr CREATEDATE=“2017-31-03T15:00:00" STATUS="Complete"> ßSection for descriptive metadataà <mets:dmdSec CREATED=“2017-31-03T15:00:00” ID=“dmdSec_859112” STATUS=“original” > <mets:mdWrap MDTYPE=“DDI”> <mets:xmlData> <ddi:codebookversion=“2.5” xsi:schemaLocation=“URL”> <ddi:stdyDscr> <ddi:citation> <ddi:titleStmt> <ddi:title>NADDI2017 Rocks!</ddi:title> <ddiIDNo agency=“doi”>10.5072/SP/OGHTIM</ddiIDNo> </ddi:titleStmt> </mets:xmlData> </mets:mdWrap> </mets:dmdSec> <mets:dmdSec CREATED=“2017-31-03T15:00:00” ID=“dmdSe


Flat galaxy rotation curves Flat galaxy rotation curves naturally follow from dark matter filaments naturally follow from dark matter filaments Felipe J. LlanesEstrada Felipe J. LlanesEstrada Dept. Física Teórica & IPARCOS Dept. Física Teórica & IPARCOS Univ. Complutense de Madrid Univ. Complutense de Madrid Abstract Spiralgalaxy v(r) rotation curves look flat (constant v) unlike Kepler's 3rd law in 3dim. They are however natural in 2 dimensions. In our world, this is achievable with cylindrical symmetry. If cosmological scale filaments extend to galactic scale, the velocity will be constant indefinitely; if instead there are dark matter haloes which are prolate, eventually v(r) should be observed to decrease with r. ✔ Further reading: preprint DOI: 10.13140/RG.2.2.35022.41289 ✔Work supported with funding by grant MINECO:FPA201675654C21P (Spain) & UCM under research group 910309 and its Institute for Particle and Cosmological Physics (IPARCOS) Want to listen to it? https://youtu.be/5nxy38gXEyQ Want to listen to it? https://youtu.be/HvZhCvnuJYY Spiral galaxy rotation curves Unlike Kepler's are flat 3rd planetary law Vera Rubin et al. Astron.J. 118 (1999) 236260 SPARC data 1 2 1 3 4 Presented at the virtual conference “Galaxy Formation and Evolution in the Era of the Nancy Grace Roman Space Telescope” October 5th9th 2020 based on preprint DOI: 10.13140/RG.2.2.35022.41289 One conventional explanation: spherical dark matter haloes Weber and de Boer, A&A 509, A25 (2010) Fits to simulations give profiles that only momentarily look isothermal (exponent = 2) Additionally, cuspcore problem isothermal profile v(r) = constant (sketch by CTA observatory) Dark matter remains hidden and not for lack of searching Want to listen to it? https://youtu.be/s0AtB0iSCfU 2nd conventional explanation: MOND (Modified Newtonian Dynamics) My two pence: v(r) is constant if the source is not spherical, but rather cylindrical (But how would uninteracting dark matter thermalize?) TullyFisher: unexpected correlation between luminosity (ordinary matter) & rotation velocity (dark matter) Baryonic TullyFisher relation: Want to listen to it? https://youtu.be/nNecI7RLes An exponent 4 is exactly predicted by MOND, that is constructed to explain rotation curves: by lowering the acceleration (taking its geometric mean with a constant) it is in effect lowering one dimension of r. A bit distasteful: Newton and Gauss's theory is very compelling and we have 3 dimensions, not 2. Additionally, MOND runs into largescale cosmological problems. F~1/r implies v= √(2Gλ)=constant (λ is the linear mass density) R Adding a sphere (normal matter) to the filament: Cylinder thickness? Compelling 0th order physics! 4 7 5 What if…? Observational consequences Want to listen to it? https://youtu.be/QcisEL6Eh70 Want to listen to it? https://youtu.be/NAOgvuOhkBg Want to listen to it? https://youtu.be/sK0rW1TF10 6 Prolate Prolate dark matter haloes also flatten v(r), but not indefinitely Finite dark matter cylinder |z|< a Y. Sofue arXiv: 1504.05368 Vega-Ferrero, Yepes, Gottlöber, arXiv:1603.02256 DM simulations yield more prolate than oblate haloes Observational question: Observational question: can one establish that can one establish that break for spiral galaxies break for spiral galaxies (prolate haloes) or is v(r) (prolate haloes) or is v(r) indefinitely flat (filaments)? indefinitely flat (filaments)? TullyFisher baryon relation DM: search @ high latitude Imaging with grav. lensing: stacking galaxy pairs shows DM filament between next neighboors (not otherwise) Epps, Hudson, MNRAS. 468 2017 Helicoidal motion along a cylinder *Synchrotron radiation is small for finite R *Galactic aurora (Fermi bubbles?) What if…? Observational consequences Precession of orbital plane of objects outside disk M. Pawlowski arxiv 1802.02579 Accretion along narrow filaments could explain Milky Way anisotropic satellite distribution Virial theorem for small galaxy clusters threaded by orie


Further Reading General Info ● Arbetarrörelsens Arkiv och Bibliotek - https://www.arbark.se/ ● Folkrörelsearkivet för Uppsala Län - https://www.fauppsala.se/ ● Archiv der sozialen Demokratie - https://www.fes.de/archiv-der-sozialen-demokratie ● International Institute of Social History - https://iisg.amsterdam/ ● Riksbankens Jubileumsfond - https://www.rj.se/ ● Grant Information - https://www.rj.se/en/grants/2020/labours-memory.-digitization-of-annual-and-financial -reports-of-blue-collar-worker-unions-1880-2020/ Technology ● International Image Interoperability Framework (IIIF) - https://iiif.io/ ● Omeka S - https://omeka.org/s/ ● Archival IIIF server - https://github.com/archival-IIIF/server ● Archivematica - https://www.archivematica.org/ ● Archival Resource Key (ARK) - https://arks.org/ ● handle - http://www.handle.net/ ● Named Entity Recognition: Crina Tudor and Eva Pettersson. 2024. People and Places of the Past - Named Entity Recognition in Swedish Labour Movement Documents from Historical Sources. In Proceedings of the 8th Joint SIGHUM Workshop on Computational Linguistics for Cultural Heritage, Social Sciences, Humanities and Literature (LaTeCH-CLfL 2024). https://aclanthology.org/2024.latechclfl-1.17 ● Handwritten Text Recognition: "Loghi" - https://github.com/knaw-huc/loghi


In conclusion, the most efficient AOP for the inactivation of the bacteria studied is the combined UV-Chlorine process. However, the degradation of chlorine during the photolysis processes has been measured, the final free chlorine concentration has always been higher than 0.02 ppm, taking into account that the concentration of toxic chlorine becomes visible for concentrations higher than this value for the health of the aquatic environment, an active carbon filter should be installed before introducing the regenerated water into the aquaponic system. INTRODUCTION METHODOLOGY RESULTS CONCLUSIONS Some of the most effective methods used are Advanced Oxidation Processes (AOP), where oxidants such as hydroxyl radicals are formed to oxidize organic contaminants and microorganisms. Among these methods, the combination of ultraviolet radiation (UVC) with oxidizing agents such as chlorine or hydrogen peroxide (H2O2) stands out. This study focuses on bacterial inactivation in water for reuse purposes using UVC/Cl and UVC/H2O2 AOPs, forming mainly hydroxyl free radicals and chlorine, in a small-scale reactor. The use of oxidizing agents is supposed to increase the efficacy of this process to be applied as a tertiary treatment in a sewage treatment plant. INACTIVATION OF E. COLI AND ANTIBIOTIC RESISTANCE BY UVC/CHLORINE FOR THE FEEDING OF AQUAPONIC SYSTEMS WITH REGENERATED WASTEWATER. Molina Ramírez, María Dolores; Pablos Carro, Cristina; Marugán, Javier Department of Chemical and Environmental Technology, ESCET, Universidad Rey Juan Carlos, C/Tulipán s/n, 28933 Móstoles, Madrid, Spain. E-mail: mariadolores.molina@urjc.es G Grupo de Ingeniería Química y Ambiental ACKNOWLEDGEMENTS: The authors are grateful for the financial support of the Ministry of Science and Innovation through the AquaEnAgri Project (2022/00305/017) and the Horizon Europe Framework Program (HORIZON-CL6-2022-FARM2FORK-01, through AWARE Project, GA N. 101084245. Recirculating aquaculture systems (RAS) involves the accumulation of waste products and microbial load. To maintain optimal growth of plants and fish in aquaponics, filtration and contaminant removal systems must be implemented. A RAS advantage is the reduction of water requirements compared to raceway or pond aquaculture systems.. To go further and for this purpose, this work has evaluated the efficacy of photolysis process in bacterial inactivation with the goal of being applied as a regenerated wastewater treatment to be reused in the aquaponics system. In the case of E. coli inactivation processes, the kinetic constant increases linearly with irradiance and chlorine concentration. However, in the non-irradiated chlorination processes during ARB (Van) inactivation, no further degradation is observed with increasing chlorine concentration. This shows that the use of UV-C radiation is necessary to degrade this type of contaminant. Residual free chlorine at the end of each experiment comprises values between 0.06 and 0.09 ppm, at an initial chlorine concentration of 0.1 ppm and values of 0.06 and 0.17 ppm for an initial concentration of 0.25 ppm, depending on the light conditions. In the case of UV-H2O2 processes, they have shown to be less effective resulting in lower and similar kinetic constants despite the increase in concentration of the compound. TESTS Pollutants • Escherichia coli • Resistant bacteria to the antibiotic Vancomycin (ARB-Van) Kinetic constants calculation (k) Log (CFU/mL) = k · t (min) Oxidizing compound (ppm) Free chlorine Hydrogen Peroxide 0.1 20 0.17 50 0.25 0.5 UVC (254 nm) Radiation (W/m2) 2.89 4.79 7.89 34.42 82.41 0 5 10 15 20 25 30 0 10 20 30 40 k (min-1) Rad (W/m2) E. coli, UV-Cl Process 0 ppm 0.1 ppm 0.25 ppm 0 1 2 3 4 5 6 0 10 20 30 40 k (min-1) Rad (W/m2) E. coli, UV-H2O2 Process 0 ppm 20 ppm 50 ppm 0 5 10 15 20 25 30 0 10 20 30 40 k (min-1) Rad (W/m2) ARB (Van), UV-Cl Process 0 ppm 0.1 ppm 0.25 ppm 0 1 2 3 4 5 6 7 8 0 10 20 30 40 k (min-1) Rad (W/m2) ARB (Van), UV-H2O2 Process 0


Do camel types exhibit geometric variation in torso shape? Insights from social media Randa Alaqeely, Hasan Alhaddad, and Bader H. Alhajeri Department of Biological Sciences, Kuwait University, Kuwait Introduction • Camels have unique morphological and behavioral adaptations to deserts that make them scientifically and culturally important. • There are different camel ‘types’, including groups bred for racing, others for milk production, as well as types bred for various other purposes. • Each camel type is characterized by certain features, such as a particular coat color and texture, unique hump position, as well as distinctive limb dimensions. • Few studies use detailed morphometric measurements to assess the extent and the direction of variation across camel types; to our knowledge, none use geometric morphometric data to assess this variation. • We obtained images of various camel types from various camel breeder social media accounts, which we use to quantify overall shape variation across types. • We assessed torso shape variation based on a sample of 2D landmarks— homologous anatomical loci—analyzed using geometric morphometrics. Objectives 1. Identify 12 landmarks that adequately capture overall torso shape. 2. Study shape variation across camel bodies using image-based geometric morphometrics—a method that generates size-independent shape variables that can be used to assess variation in camel types. Materials and Methods 5. Results Acknowledgments: This project would not have been possible without images posted by camel breeders on their social media accounts, including: ime1111, hjn_uae, alotaibi_654, smsrbywshr, djekv493hf, rashed1209, ahmedreshidi, aljhaam, 3lag_al7lal, camel.kw, theking2050, al_nahab, alsultan38, nsas669, zmool_alarab, o.77_, osaamah23, _a_qatar_9033, shr2222, swaihaan). • Camel images (n = 104) were acquired from publically available camel breeder social media accounts. Only photographs in which camels were positioned parallel to the camera plane were retained and analyzed. • The chosen camel photographs represent seven camel types (Onafi, Omani, Sudani, Mejaheem, Maghateer, Kenani, and Pakestani (Fig.1). • Six dorsal and six ventral torso landmarks were digitized in a standardized manner (Fig.2). • Landmark coordinates were then subjected to generalized procrustes analysis (GPA), in order to obtain size-independent shape variables (procrustes coordinates), that were used to compare camel type shapes. • Shape variation was then summarized to a smaller set of variables by performing principal component analysis on the procrustes coordinates. • The retained principal components (determined by the broken-stick criterion) were then visualized using a boxplot (PC1), with the individual camels divided based on type(Fig.3). • The magnitude of the differences in torso shape among the geometric mean of each camel type were visualized using the UPGMA clustering method (based on Euclidean distance) (Fig.4); the locations of the aforementioned differences were visualized using thin-plate spline deformation grids (Fig.5). Conclusion 1. We were successful in quantifying overall torso shape variation among camel types based on images extracted from social media. 2. While at this point we can conclude that overall torso shape among camel types does vary, the statistical significance of this variation needs to be assessed after the dataset sample size is increased. @jamalid_report jamalidreport@gmail.com @jamalidreport Fig.5: Thin-plate spline deformation grids. These grids depict the main shape differences between the consensus landmark configuration of each camel type vs. the consensus landmark configuration of the whole sample (all camel types combined, shown in the center). ONF KNN MJH SUD MGH PAK OMN Mezayen Racing Pakistani Kenani Majaheem Sudani Omani Onafi Omani Maghateer Fig.4: Phenograms resulting from the unweighted pair-group method with arithmetic mean (UPGMA) cluster analysis. UPGMA was performed