Contributors: Florian Thiery
... Geodäten leben bereits im Jahr 2019 in einer globalen, digitalen und vernetzten Welt: der Cloud. Wir erleben das Arbeiten 4.0 in einer Industrie 4.0 mit dem Einsatz von cyber-physischen Systemen und der Vernetzung von Maschinen, Geräten, Sensoren, Menschen und Daten. 80% aller Daten besitzen einen Raumbezug, somit sind Geodaten der Treibstoff der digitalen Gesellschaft. Darüber hinaus werden Bestandteile des OOO-Modells immer wichtiger: Open Source Software, Open (Geo-) Data und Open Access. Zur Bereitstellung von offenen und freien (Geo-) Daten in interoperablen Formaten eigenen sich insbesondere Techniken des Web 3.0, sogenannte Linked Open Data (LOD), bzw. Linked Open Geodata. Durch die Bereitstellung von LO(Geo-)D entsteht eine riesige vernetzte Linked Data Cloud verschiedenster Disziplinen (Geodäsie / Geisteswissenschaften / Naturwissenschaften), in der amtliche Geodaten als Bindeglied dienen, um neues Wissen für die Gesellschaft zu erzeugen.
Contributors: Poulin B.
... This storyline aims at making the best use of remote-sensing tools to document the evolution in the state of wetlands and the services they can deliver within a context of global changes, integrating feedback processes occurring at local scale through stakeholder management.
Make your digital research more sustainable and visible: Data Sharing and Data Management Techniques & Tools for Digital Medievalists
Contributors: Wuttke, Ulrike
... Slides for a 60 min. Training Session (exp. Level of RDM-Knowledge of Participants: Mixed) Occasion: CARMEN ANNUAL MEETING http://www.carmen-medieval.net/cz/carmen-annual-meeting-prague-september-4-5-2019-1404041655.html Text of Workshop Announcement: Make your digital research more sustainable and visible: Data Sharing and Data Management Techniques & Tools for Digital Medievalists Due to the digital transformation of research practices, for Medievalists, activities and issues around planning, organizing, storing, and sharing data and other research results and products (e.g. digitized source materials, analysis results, web applications) play an increasing role. Knowledge and skills acquired in this workshop, will support the participants in the production of reusable, machine-readable data, a key prerequisite for conducting effective and sustainable projects adhering the FAIR (Findable, Reusable, Interoperable, and Reusable) principles as promoted by the European Commission and national funding agencies within the framework of Open Science/Open Scholarship. There will be also to discuss barriers and needs and how to overcome them. The summarized (anonymous) results of this workshop will be reported back to relevant infrastructures and made public for funders e.g. in a blogpost, project deliverable etc. Workshop Topics: Theoretical reflections on the role of data within humanities research, Opportunities and challenges of digital practices within the Arts and Humanities, Implementation of the FAIR principles and relevant standards, Basics of Research Data Management Planning & tools (e.g. RDMO – Research Data Management Organizer, https://rdmorganiser.github.io/) and further information resources, Discussion of needs and next steps. Participants should bring their own laptop. No special previous knowledge or programming skills are required. Ulrike Wuttke (Doctor of Literature, Universiteit Gent 2012, email@example.com, Twitter @UWuttke) is a medievalist and textual scholar by training. Her professional activities focus on training and personal counselling on data management, open science and Digital Humanities. In 2017 she started working at the University of Applied Sciences Potsdam, Department of Information Sciences, she joined the RDMO-Team in March 2019.
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Contributors: Gibson, Sarah L.
... Sarah Gibson's workshop on building a BinderHub and The Turing Way at RSE Con UK 2019.
Contributors: Whitaker, Kirstie
... Kirstie's slides for her talk at the MQ Mental Health Data Science Meeting in Edinburgh on 9 September 2019. Abstract: Reproducible research is necessary to ensure that scientific work can be trusted. Funders and publishers are beginning to require that publications include access to the underlying data and the analysis code. The goal is to ensure that all results can be independently verified and built upon in future work. This is sometimes easier said than done! Sharing these research outputs means understanding data management, library sciences, software development, and continuous integration techniques: skills that are not widely taught or expected of academic researchers. The Turing Way is a handbook to support students, their supervisors, funders and journal editors in ensuring that reproducible research is "too easy not to do". It includes training material on version control, analysis testing, and open and transparent communication with future users, and includes case studies and common "gotchas" for researchers to avoid. This project is openly developed and any and all questions, comments and recommendations are welcome at our GitHub repository: https://github.com/alan-turing-institute/the-turing-way. In this talk, Kirstie Whitaker, lead developer of The Turing Way, will take you on a whirlwind tour of the chapters that already exist, the interactive demonstrations you can use and re-use for your own research, and the directions in which we're continuing to develop. All participants will leave the talk knowing that "Every Little Helps" when making their work reproducible, even in situations where data can not be made publicly available, where to ask for help as they start or continue their open research journey, and how they can contribute to improve The Turing Way for future readers. Bio: Kirstie Whitaker is a research fellow at the Alan Turing Institute (London, UK) and senior research associate in the Department of Psychiatry at the University of Cambridge. Her work covers a broad range of interests and methods, but the driving principle is to improve the lives of neurodivergent people and people with mental health conditions. Dr Whitaker uses magnetic resonance imaging to study child and adolescent brain development and participatory citizen science to educate non-autistic people about how they can better support autistic friends and colleagues. She is the lead developer of The Turing Way, an openly developed educational resource to enable more reproducible data science. Kirstie is a passionate advocate for making science "open for all" by promoting equity and inclusion for people from diverse backgrounds, and by changing the academic incentive structure to reward collaborative working. She is the chair of the Turing Institute's Ethics Advisory Group, a Fulbright scholarship alumna and was a 2016/17 Mozilla Fellow for Science. Kirstie was named, with her collaborator Petra Vertes, as a 2016 Global Thinker by Foreign Policy magazine. You can find more information at her lab website: whitakerlab.github.io. Useful links The book: https://the-turing-way.netlify.com Github repository: https://github.com/alan-turing-institute/the-turing-way Contributing guidelines: https://github.com/alan-turing-institute/the-turing-way/blob/master/CONTRIBUTING.md Online Collaboration Cafe outline and schedule: https://github.com/alan-turing-institute/the-turing-way/blob/master/project_management/online-collaboration-cafe.md Gitter chat room: https://gitter.im/alan-turing-institute/the-turing-way Mailing list: https://tinyletter.com/TuringWay
Contributors: Esther Plomp, Yan Wang, J.S. Love
... Data Stewards at TU Delft promote digital preservation by incorporating actions in everyday research practice. Typical activities include requirement scoping, tool selection and policy drafting, all of which are tailored to a specific group, project or faculty. Here we discuss the situation of the Data Stewards within the university and examples of preservation work, including the creation of data repositories and a trial of Webrecorder.
Contributors: Whitaker, Kirstie Jane
... Kirstie's talk for the Living With Machines team at the British Library on 5 September 2019.
Contributors: Connie Clare
... A presentation delivered at the Data Steward meeting on 29-8-19 to share my experience of writing articles about the Data Champions during my internship at TU Delft.
Contributors: Connie Clare
... A presentation delivered at the 'Data Chamoion get together' meeting on 3-9-19 to share my experience and highlights of interviewing and writing articles to reward and recognise the efforts and achievements of Data Champions at TU Delft.
Contributors: Riebensahm, Carlotta, Joosse, Simon A., Mohme, Malte, Hanssen, Annkathrin, Matschke, Jakob, Goy, Yvonne, Witzel, Isabell, Lamszus, Katrin, Kropidlowski, Jolanthe, Petersen, Cordula
... Background: The incidence of brain metastases in breast cancer (BCBM) patients is increasing. These patients have a very poor prognosis, and therefore, identification of blood-based biomarkers, such as circulating tumor cells (CTCs), and understanding the genomic heterogeneity could help to personalize treatment options.Methods: Both EpCAM-dependent (CellSearch® System) and EpCAM-independent Ficoll-based density centrifugation methods were used to detect CTCs from 57 BCBM patients. DNA from individual CTCs and corresponding primary tumors and brain metastases were analyzed by next-generation sequencing (NGS) in order to evaluate copy number aberrations and single nucleotide variations (SNVs).Results: CTCs were detected after EpCAM-dependent enrichment in 47.7% of the patients (≥ 5 CTCs/7.5 ml blood in 20.5%). The CTC count was associated with ERBB2 status (p = 0.029) of the primary tumor as well as with the prevalence of bone metastases (p = 0.021). EpCAM-independent enrichment revealed CTCs in 32.6% of the patients, especially among triple-negative breast cancer (TNBC) patients (70.0%). A positive CTC status after enrichment of either method was significantly associated with decreased overall survival time (p < 0.05). Combining the results of both enrichment methods, 63.6% of the patients were classified as CTC positive. In three patients, the matched tumor tissue and single CTCs were analyzed by NGS showing chromosomal aberrations with a high genomic clonality and mutations in pathways potentially important in brain metastasis formation.Conclusion: The detection of CTCs, regardless of the enrichment method, is of prognostic relevance in BCBM patients and in combination with molecular analysis of CTCs can help defining patients with higher risk of early relapse and suitability for targeted treatment.