Open Research Data Projects
Projects funded in the framework of the ORD Program
The joint ORD program of ETH Zurich, EPFL and the four research institutes of the ETH Domain has financially supported more than 60 research projects in the period 2020–2023. Funding supports researchers engaging in, or developing, ORD practices with and for their community and assists these researchers in becoming Open Research Data leaders in their field.
This page provides an overview of these projects. It highlights how researchers in the ETH Domain are currently applying ORD in exemplary ways. Some of the projects have already been completed, others are still in progress. The projects have been divided into three categories.
“Establish” projects help link existing ORD practices to a research agenda to establish them on a broader basis. They contribute to a shared and comprehensive understanding of ORD practices that can then become de facto standards.
“Explore” projects are the most extensive ventures in the program and are designed to explore and test early-stage ORD practices. The goal is to map processes of what an ORD practice might look like and develop prototypes. Through these projects, new teams form across disciplines and institutions.
“Contribute” projects help scientists integrate their research data into existing, often international, infrastructures. By standardizing the processes and making them generally accessible, the data are validated, and their potential is considerably expanded.
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Abstract
Stone masonry is an eco-friendly construction material, but its use has declined due to its vulnerability to earthquakes, mainly because of the poor arrangement of its microstructure. The microstructure includes the shape, size, and arrangement of stone units, which vary based on geographic, temporal, and material factors. Current building codes cannot fully account for this variability, and experimental studies are costly and impractical due to the diversity of masonry typologies. Numerical studies offer a solution, but creating realistic microstructures for modeling irregular stone masonry is complex and time-consuming. As a result, simplified microstructures are often used in simulations, which fail to capture the complexities of irregular masonry walls. To address this challenge, we have developed a 3D masonry microstructures database ready to use in numerical simulations. To enhance accessibility and usability, this project aims to create a web-based platform hosting this curated database of 3D microstructures and their geometric indices. The proposed web-based platform will also feature a tool for evaluating masonry quality using the Masonry Quality Index (MQI) from 2D images, promoting the preservation of historic structures and sustainable construction practices. Additionally, the platform will enable researchers to contribute and document new 3D microstructures, fostering collaboration and advancing numerical research on stone masonry.
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In order to advance our understanding of the carbon cycle, it is essential to evaluate the spatiotemporal variations of carbon between river and marine environments and gain insights into the pathways of carbon transfer from land to ocean. To do this, we need to work jointly with riverine and marine data, accounting for their temporal and spatial distribution. However, each of these systems have different data and metadata reporting strategies that need to be accounted for, which complicates their joint application. Efforts have been made to compile data from each of these systems into independent databases, but no attempt has yet been done to create a joint database of data of both of these systems while accounting for their different metadata. Hence, this project aims to bring together riverine and marine data into one database to easily query the data between both systems through the River to Ocean Geodatabase for Education and Research (ROGER). This database will be displayed in an interactive web-interface that queries riverine and/or marine data depending on the user’s requirements through a REST API. Harnessing the advanced geographical functions of PostgreSQL, the REST API will include functions that allow users to geospatially integrate riverine and marine data. This new database will provide a crucial step forward in the understanding of the carbon cycle along the land-ocean continuum, while ensuring that the data complies with best Open Research Data practices.
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Chronic cough is a common condition globally. While efforts are being made to develop wearables to detect and quantify cough events automatically, such monitoring devices have not yet been incorporated into routine clinical practice due to a lack of consistency in their validation, resulting in slow progress and a lack of trust in reported results. We have identified three main reasons for this heterogeneity: 1) the clinical definition of different cough events and especially the delimitation of their beginning/end lacks standardization, 2) the data used is typically private and imbalanced with inadequate labelling as a result of the previous point, and 3) methodologies to assess the accuracy of event detection are different between research groups and often inappropriate. This proposal builds on ORD datasets, community guidelines, and standards to propose a unified framework for validating cough event detection algorithms. The main objective is the development of standards that will unify the workflow for validating respiratory event detection algorithms to ensure data adheres the principles of Findable, Accessible, Interpretable, and Reusable data. This will be distributed through a website, serving as a central hub and reference for standardizing clinical definitions and methodologies, leading to a future benchmarking platform for respiratory event detection algorithms.
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Sharing of research data is often perceived as a burden by researchers, as it usually involves manual upload of data from data management systems like Electronic Lab Notebooks (ELN) to repositories. This project aims to contribute to a better integration between ELN systems and data repositories in the ETH Domain, by implementing open API-based interfaces between the SciCat data repository and three important ELNs in the ETH Domain (SciLog, openBIS, Heidi). By implementing seamless interfaces between these widely used solutions in the ETH Domain, the project will simplify existing ORD practices for researchers, thereby lowering the barrier for publication of high-quality FAIR datasets.
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The adoption of Electronic Laboratory Notebooks (ELNs) in academic research settings is steadily increasing and gradually replacing traditional paper-based notebooks. However, transitioning to ELNs requires time and expertise. Complicating matters, the market offers numerous ELN solutions, each with its unique data model, impeding seamless information exchange. In this project, we plan to address two critical aspects of ELN adoption in academia. First, we would like to broaden and strengthen the knowledge and requirements for adoption of ELN and data management solutions in academic research groups inside the ETH domain. This will be a collaboration between ETH Scientific IT Services (SIS) with the School of Engineering of EPFL, drawing from extensive experience inside SIS in deploying and providing their own software, openBIS, as an ELN and data management solution inside the ETH Domain (namely ETH Zurich, Empa and PSI) and beyond. Second, we aim to enhance interoperability by implementing a standard for data export from ELNs. To this end, we will explore and suggest enhancements to the RO-crate format which focuses on packaging data with metadata and simplifies data sharing and preservation, ensuring reproducibility and long-term accessibility. By sharing our experiences and introducing openBIS while exploring data export standards, we aim to contribute to streamlining ELN adoption and fostering data interoperability in academic research environments in the ETH domain. Our approach will facilitate efficient collaboration, enhance research reproducibility, and promote the advancement of scientific knowledge.
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Authentication, authorization, and identity and access management (IAM) are central to interoperability between services. Currently ETH services use a variety of identity providers, from federated services like SWITCH eduID to institute-specific active directory installations. Incompatibilities between authentication and authorization can be a major obstacle to interoperability between institutes. To mitigate this, we propose to draft a set of guidelines for IAM practices relating to ORD services. All M2 projects funded under this measure will be expected to follow the guidelines, ensuring that these services are interoperable. The guidelines will also be published in the Central Info Point website and disseminated to researchers, providing clear best practices for services outside the ETH ORD program to follow.
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Access to data is a fundamental part of any scientific analysis and discovery, and a basic requirement for Open Research Data. Nevertheless, accessing data can be limited by various barriers, including incompatible infrastructures and APIs, as it was highlighted in the Infrastructure report by the Expert Group Services & Infrastructures (EG-SI). This project aims to introduce a common Storage Access API based on industry standards in high impact use cases among the ETH Domain institutes. This will lower the efforts both for accessing data, and for developing general and domain-specific data-based tools, thus accelerating the path to scientific discoveries and leading to reusable tools across the ETH Domain scientific communities.
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With this first-of-its-kind interoperability project, Eawag/LIB4RI, WSL and PSI aim to jointly define and implement a basic blueprint for metadata format and exchange to demonstrate the feasibility of achieving interoperability between data catalogues and repositories in the ETH Domain. We aim to define a common understanding and an agreed compliance level with national and international metadata standards relevant to ETH Domain data catalogues and repositories, and subsequently take all required steps to implement and comply with them, in order to improve the visibility of datasets in the ETH domain and beyond. This will include, as major deliverables, improving the link between datasets and scientific publications, and connecting the involved repositories (EnviDat, SciCat, Materials Cloud Archive) with each other and with well-established central search portals (including DORA and the Lib4RI search tool). This project will also uncover hidden challenges and barriers to interoperability, paving the way for other repositories in the ETH domain to join our interoperability efforts.
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We propose to build an integration between analysis platforms and research data repositories to allow for an exchange of information about data use and to facilitate data reuse. The analysis platforms support the reproducibility of data analyses by managing and tracking the relations between input data, algorithms (and their versions), and output data while repositories contain relevant research data. This project will provide a blueprint and a concrete implementation for integrating these two vital sides of ETH Domain ORD infrastructure.
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To ensure data to be sustainably FAIR and research to be reproducible, lab data management (LDM) and electronic lab notebooks (ELNs) must not evolve as separate systems, but rather ELNs need to be integrated into LDM. To address this need, we propose Gatekeeper, an extension of the already existing Renku platform. Gatekeeper is a centralized system that facilitates research data management across the complete project life cycle, including user access management, versatile integration of different sources, data sharing, archiving, and publication. This Renku extension acts as a middle layer that allows project-specific access to all connected data, independent of its source. In this proposal we will focus on extending Renku regarding the connection and metadata management for ELNs and other sources used in our consortium. New data sources can be integrated in a modular fashion, ranging from low-level and simple linking of data to in-depth integration including data integrity and metadata sanity checks. This modular set-up allows community-driven dissemination of Renku extensions and refinements across future users.
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The ORD Central Info Point (CIP) project will create an online resources portal, where ETH researchers can navigate and orientate themselves in the ETH ORD landscape at various stages of the Research Data Management (RDM) life cycle. These web pages provide a single-entry point to promote ORD practices and increase services’ visibility with the aim to lower the barriers for researchers in identifying useful tools and services available in the ETH Domain. ORD Central Info Point will foster increased access and interoperability, and push towards increasing the availability of new and existing tools across institutions of the ETH Domain. The ORD Central Info Point will outline infrastructures and services available in the ETH Domain providing information on their respective purpose and use cases, access conditions and costs. The portal will not host any service, but instead direct users to the webpage of the relevant service. It will further provide curated information on policies and best practices in the ETH Domain. It will also be designed to include information on the training content from Measure 3 and direct links to these resources, and information on Measure 4. Technically, the ORD Central Info Point will be set up and run on existing infrastructure of the ORD Program Website.
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Explore a comprehensive suite of digital learning resources designed to support researchers, students, and staff across the ETH Domain in implementing best practices for Research Data Management (RDM) and Open Research Data (ORD). The learning modules allow to learn at one’s own pace, cover a wide range of topics essential for effective management throughout the research data lifecycle, and are available as Open Educational Resources (OER).
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Research increasingly relies on large amounts of data. To be successful, it needs to be paired with smart and efficient data management. The Data Stewardship Network Proposal of the Lib4RI, Empa, EPFL Library and ETH Library meets this need by:
- Facilitating knowledge exchange and best-practice workshops among persons with data-related roles. List of active Data Stewards is to be shared with the ETH Domain ORD program Measure 3 (dependent on their consent) as complementing activity, to encourage their involvement in the development of course material.
- Providing coordinated and pragmatic support for managing research data across the ETH Domain (i.e., developing a simplified data management plan template and interactive guides on archiving data)
- Suggesting improvements for data policies in the ETH Domain. This complements Measure 4 of the ETH Domain ORD program.
- Making the work and skill sets of Data Stewards and Research Software Engineers visible in the research community by choosing an existing communication platform and promoting its use by active Data Stewards and Research Software Engineers. This complements the service-related information which will be provided by the Central Info Point of Measure 2.
- Empowering the 4RI to catch up with ETH Zürich and EPF Lausanne in terms of data management support for researchers
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Promoting the FAIR (Findable, Accessible, Interoperable, Reusable) data principles is not complete without considering the links between data and research software. Research software is an integral part of the entire data life cycle and is indispensable for data generation, data collection, data analysis or data archiving. Additionally, software itself as a digital artifact needs to be FAIR. Recently, FAIR principles for research software (FAIR4RS) have been proposed. Most of research software is developed by research software engineers (RSEs), who are dispersed widely across the research landscape. To better promote FAIR & ORD (Open Research Data) principles and other best practices for sustainable software in this community, RSEs would benefit from a common platform for regular interaction and knowledge exchange. In many other countries, RSE communities have been established with great success and help to promote the FAIR data principles and ORD. In this project, we propose to establish RSE communities at all institutions within the ETH Domain and to take the first steps towards building a Swiss-wide RSE community to promote best practices in research software engineering and adoption of FAIR principles for data and software. We also propose to connect the emerging RSE communities to synergize with other relevant established communities in the ORD landscape.
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With the focus on data stewardship and other research data management specialists, ETH needs to consider whether the current role descriptions, functions, employment conditions and trainings are suitable for ORD and RDM specialists and, if necessary, develop proposals for future career paths of ORD professionals and training programmes.
The ETH Domain ORD Programme currently is concerned with career paths of ORD professionals. Within Measure 5 “Career Paths for Open Research Data Professionals” a project will be launched under the direction of HR ETH Board together with the Heads of Human Resources of the ETH Domain, to
- identify and delineate RDM/ORD roles (i.e., with example job descriptions);
- estimate FTE distribution across institutions and units of roles in each category;
- assess how roles are effectively defined in terms of written job descriptions; perception of roles by staff, their managers, and internal customers; and
- identify the drivers of staff hiring, retention, and job satisfaction/engagement.
The project will make recommendations, to inform strategy and for operational guidance and advice re roles, career paths and training.
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This project aims to establish an open database and processing pipeline for ALS (Airborne Laser Scanner) data, complementing the imaging spectrometry platform, to promote transparency, accessibility, reproducibility and innovation in sensor co-registration and data analysis, ultimately benefiting scientific communities worldwide
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Our aim is to develop practices and tools to trace and share the state of shared inventory items in a multi-user laboratory, linking this information to the personal Electronic Lab Notebook (ELN) of each user. With this practice, we seek to fill a big blank spot in the tracking of mutable laboratory information management system (LIMS) objects. A tool akin to a digital inventory logbook will be developed as an openBIS extension to support a wide range of experimental laboratories with variable types of measurement equipment and inventory items. This inventory logbook will complement the native openBIS ELN-LIMS, with focus on measurement equipment and inventory
management. The implementation will prioritize generality and user-friendliness to minimize adaptation barriers and promote the dissemination of this ORD practice.
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The Nexus-e platform is a powerful tool for assessing the impacts of potential pathways for the Swiss energy system. This project aims to open-source both the model input data and code, adhering to FAIR Open Research Data and Open Science principles. The objective is to develop a modular framework allowing quick integration of new models and enabling easy execution of existing ones. Currently featuring five models, Nexus-e facilitates interdisciplinary research and policy analysis in energy systems. The project seeks to streamline the process of adding new models through a plugin architecture and implementing an API for standardized interaction with scenarios. By fostering collaboration and providing access to diverse input data, the project aims to enhance the usability and impact of Nexus-e within and beyond the ETH community, thereby advancing energy system research and supporting policy development.
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To enhance the reproducibility of research practices within the urban drainage community, particularly focusing on improving the interpretability and reusability of both data and code, it is imperative to enhance the documentation of the origins of open datasets and the outcomes of workflows and models utilizing these datasets. Our goal is twofold: develop prototype Open Research Data (ORD) tools with the Swiss Data Science Center and assess their effectiveness with the international urban drainage community. We will explore if RENKU can serve as a comprehensive platform for this, given its features like collaborative workflow management, version control, and integration with data science tools, promoting reproducibility, and efficient collaboration among researchers. Planned use cases include i) individual researchers sharing results, ii) benchmarking rainfall-runoff models in our department, iii) and distributed groups providing pre-processed datasets with full provenance information. We will start by enhancing the FAIRness of a 20-year-old dataset on sewer mixing. Additionally, we will evaluate different EPA-SWMM model implementations and engage the international urban drainage community in ORD practices. This initiative could establish a cornerstone for data sharing in urban drainage, extending beyond Eawag's research.
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OpenPulse: Assessing Open Science community metrics for Open Source Software" aims to redefine the measurement of Open Science by focusing on Open Source Software (OSS) from EPFL. It addresses the limitations of current Open Science metrics, which primarily track Open Access publications, by proposing a new framework to evaluate the development of OSS and its community impact. This involves developing a tool, OpenPulse, to monitor OSS activities, establish reliable OSS datasets, and create visualizations for real-time impact assessment. The project emphasizes collaboration, community engagement, and the development of discipline-specific dashboards, aiming to foster a more inclusive and comprehensive understanding of Open Science's impact beyond traditional publications.
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The MED-WEAR project addresses the absence of data interoperability in wearable devices in clinical practice and research, i.e., each manufacturer, service provider and researcher, executes unique solutions for data capturing, storing, and formatting in each study. In response to this challenge, we propose the development of a Wearable API (MED-WEAR), which provides a standardised framework between medical wearables and robotic devices to collect data in multiple research and clinical facilities, whilst reducing the workload and costs by applying FAIR principles in clinical research with this devices. We aim to establish standardised data collection in the ETH domain and beyond, herewith, empowering the research in healthcare community for streamlined data collection with wearables to foster innovation with wearables and define open standards. MED-WEAR impacts clinical and data science research by enabling lifelogging for individuals, promoting transparency in patient monitoring across rehabilitation laboratories. Engaging with the Swiss Neuro Rehab
Initiative and collaboration across ETH RESC, RELAB, SMS lab, SCAI lab and DART lab at LLUI, the project establishes an interoperable platform, with the potential to provide a new ORD service within the ETH domain.
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The OPEN-ACTRIS project aims to explore and build up FAIR data chain standards and strategies for atmospheric observations collected in Switzerland as part of the Aerosol, Clouds and Trace Gases Research Infrastructure (ACTRIS). ACTRIS is a pan-European network that aims to deepen our understanding of climate change and air pollution by producing high-quality data on short-lived atmospheric constituents. ACTRIS- Switzerland is the multi-institutional Swiss node of the network. ACTRIS has a comprehensive vision for FAIR data that covers all stages of the research data life cycle through the definition of data levels covering raw measurements, processed data, and elaborated data products. The OPEN-ACTRIS project aims to implement these ORD concepts in the ETH domain and to explore best ORD practice within ACTRIS-Switzerland by combining existing tools and infrastructure from the ETH domain and the ACTRIS community. We will achieve this by building FAIR data chains for the aerosol observations continuously recorded at field measurement stations on the Jungfraujoch and in Payerne, and for the aerosol and gas measurements performed on a campaign-basis in the PSI Atmospheric Chemistry Simulation Chambers
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Experimental data from chemical synthesis are complex, rarely openly available in a computational format, and mostly biased toward positive results, which represent a minority of cases. This situation strongly impacts the development of efficient predictive models in chemistry, drug discovery, energy storage or generation, and new materials development. To improve data quality and availability for the chemist community, the Swiss Cat+ West Hub and SDSC, with support from the SWITCH Foundation, propose to jointly develop HT-CHEMBORD. This project combines a global chemical synthesis robust and open ontology based on high quality FAIR compliant experimental data generated initially in the Swiss Cat+ hubs and then thanks to future collaborations by other high-throughput validated laboratories, an open access database with complete data integrity management and a set of query tools allowing the community of chemists and data scientists to explore the unique dataset offered. Exploratory work on the data validation strategy, with a view to extending it to external data providers, is already planned in the current project.
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The exponential growth of biomedical sequencing data has led to considerable challenges and open problems for genomic data management, leading to imitations in accessing and utilising this vast resource efficiently. The Sequence Read Archive (SRA) exemplifies the scale of available data, housing over 40 Petabases. However, the current indexing methods, which rely on metadata rather than full-text searches, significantly limit the potential for research and discovery. The Biomedical Informatics lab at ETH Zürich has developed a computational framework capable of indexing whole sequence repositories on a petabyte scale, compressing data significantly while maintaining search efficiency. This framework, embodied in the MetaGraph software platform, represents a major technological advancement, enabling precise, large-scale genomic data analysis. The lab has applied this framework to over 4 PB of raw sequencing data, freely sharing the generated indexes to promote open research. The proposal aims to establish MetaGraph as a leading open research data tool and to build a vibrant user community around it, enhancing accessibility and utility of genomic data. This initiative seeks to break down barriers to data access, fostering a more open, collaborative research environment, and expanding the scope of MetaGraph beyond DNA to include non-DNA repositories, addressing privacy and ethical considerations in data accessibility, and contributing to the democratisation of genomic data.
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The project aims to improve openness and interaction between research communities working with geospatial data. There is currently a significant gap in the absence of an application that enables research communities and Open Science stakeholders to publish, visualise, combine and extract research geospatial data in the formats desired by users, and to use them directly and openly in teaching and research. The project will focus on addressing key questions and working with research communities to better understand the needs and requirements of researchers for working with geospatial data in an open research data context. Key questions include the desired practices, data formats and standards for searching, combining, sharing and publishing open research geodata, and assessing the capabilities of existing geoportals such as GeoVITe to implement the developed ORD practices. Collaboration with the community, in particular with representatives of the geosciences, is essential to discuss and develop user-centred ORD practices. Participatory approaches aim to focus on user needs to make research geodata findable, accessible, interoperable and reusable in line with the FAIR principles. Based on the identified needs and processes, initial testing and technical implementation will be carried out on the portal. The long-term goal is to establish sustainable tools for the open research geodata community, based on existing open standards and an improved web-based geoportal.