Tag: open data

  • “What drives me is that we share a common goal”- an interview with Elisabeth Coudert, Team Lead Biocuration

    “What drives me is that we share a common goal: to provide the most accurate and up-to-date open knowledge to support research.” Meet Elisabeth Coudert, at SIB since 2000, who is leading the Annotation Enhancements team in the Swiss-Prot Group....

  • Legal perspectives on Open Research Data in a biomedical context

    While Open Research Data (ORD) is widely considered as a core principle contributing to common knowledge, it raises complex legal issues in the field of sensitive and non-sensitive data alike.

  • Bringing meaning to biological data: knowledge graphs meet ChatGPT

    Can technologies like ChatGPT support life science researchers in exploring data they are not familiar with? This is the question our new Knowledge Representation unit investigated, through concrete examples from SIB’s leading open databases and...

  • Towards a national curriculum for life science Data Stewards

    SIB has joined forces with the University of Lausanne and several Swiss institutions to launch a new project to foster training and a national curriculum for Data Stewards, and is in charge of the life science part.

  • “The flexibility offered by SIB is quite unique”- an interview with Monique Zahn, Biodata Resources Support Manager

    “The flexibility offered by SIB is quite unique”: find out more on the themes of learning and development at the institute and meet Monique Zahn, at SIB since 2012 and who recently took on a new role as Biodata Resources Support Manager, in...

  • A tool to widen access to resources of glycobiology

    Discover a method to automatically generates queries and democratize glycoinformatics.

  • Epigenomics Focus Group

    Epigenomics, the study of the complete set of epigenetic modifications on the genetic material of a cell, underwent a profound Big Data revolution over the past years. To enable research and downstream discoveries by making the most of the data...

  • A database using machine learning to decipher peptides for T cell recognition

    The ‘MHC motif atlas’ interprets data to understand binding specificities. in silico talks – The latest in bioinformatics, by SIB Scientists

  • SIB catalyzes Open Research Data practices in Switzerland

    Several ORD projects led by or involving SIB Members have been awarded funding by swissuniversties.

  • The SwissBioData ecosystem gains further traction

    The vision to enable biological Open Research Data in Switzerland just onboarded new key partners.

  • Adding cell images from SwissBiopics to your resource: why and how

    Discover a library of interactive cell images for the visualization of subcellular location data.

  • "It is urgent that we talk about antibiotic resistance"

    Interview in Basler Zeitung – Life science special supplement (02.09.22), by Alexandra Bucher (edited for length and translated from German).

  • AI-powered extraction of biomedical relationships from the literature

    To understand and fight melanoma, it is essential to identify the genes involved in it. What if such information could be automatically retrieved and annotated from the vast research literature? In this in silico talk, SIB Group Leader Fabio...

  • Top score for the SwissBioData ecosystem proposal in scientific evaluation

    The aim of the SwissBiodata ecosystem (SBDe) is to boost Switzerland’s capacity to convert research data into knowledge and innovation. Led by SIB, the University of Bern, and 15 other Swiss institutions, the proposal has been submitted to the...

  • Data Stewardship at SIB: leading the way to Open Research Data

    Organizing biological and biomedical data for sharing and reuse – the ambition of Open Research Data – is at the core of SIB’s activities. From coordinating data in pan-European health projects according to the FAIR principles, to teaching life...

  • The quest for small-molecule cancer immunotherapeutics

    If you are working in computer-aided drug design, this in silico talk is for you: SIB Senior Research Scientist Ute Röhrig takes you on a journey to push the boundaries of knowledge around IDO1 and its role in immunotherapy resistance.

  • SwissBioData ecosystem: boosting Switzerland's data-intensive research in life sciences

    This is the summary description of this new research infrastructure, submitted to the SERI Research Infrastructure Roadmap 2023. Switzerland is at the forefront of the data revolution in the life sciences. To support this transformation, Swiss...

  • SIB is co-steering European efforts to foster open sharing of SARS-CoV-2 genomic data

    After setting up the Swiss SARS-CoV-2 data hub, SIB is now co-leading an international project to facilitate open sharing of viral genomic sequences in other countries. Through SIB, Switzerland will thus be sharing its experience setting up and...

  • Switzerland establishes a national infrastructure to track COVID-19 and its variants

    Today, the delta variant of the virus dominates the Swiss landscape. This is only possible thanks to an unprecedented sequencing effort. At the heart of the process, a national infrastructure, co-led by the SIB Swiss Institute of Bioinformatics,...

  • Fast and automated interpretation of single-cell RNA-seq data

    If you are a researcher using single-cell transcriptomics to study immunology-related problems, you are probably on the lookout for a way to efficiently characterize cell states. This in silico talk presents a powerful tool (ProjecTILs) and...

  • Joining a European consortium to improve psoriatic arthritis diagnostic and treatment

    European research organisations, pharmaceutical companies, SME’s and patient organisations have joined forces as partners to develop innovative personalised treatment options for people affected by psoriatic arthritis. SIB is delivering core data...

  • Applying user-centred design in life science resources

    If you are interested in making the most of your scientific website, database or software, learning how to convert user feedback into new developments is key. And putting the user at the centre was a key aspect of the redesign of Expasy, our...

  • Accelerating global COVID-19 research with a Swiss SARS-CoV-2 Data Hub

    Over the past weeks and with the threat of emerging variants growing, pressing calls for an open sharing of SARS-CoV-2 sequencing data were issued by the scientific community. Such sharing would allow fast, representative and large-scale research...

  • 10 years of Human Proteome Project with neXtProt as reference database

    The Human Proteome Project (HPP) of the Human Proteome Organisation (HUPO) is ten years old. Its mission? To generate the map of the protein-based molecular architecture of the human body.

  • Discover the new Expasy.org, the Swiss Bioinformatics Resource Portal

    Exploring the 160 databases and software tools developed by SIB Groups has never been this easy. Created in 1993, Expasy, the SIB bioinformatics resource portal, is now available as a new release, after a major overhaul.

  • ENYO Pharma SA and SIB make human protein interaction data publicly available

    The SIB CALIPHO Group and ENYO Pharma SA worked hand-in-hand in a transnational public-private partnership (PPP) to make human protein interaction data publicly available and FAIR, through the SIB Resource neXtProt.

  • Answering biological questions with federated queries across databases

    Providing biologists with a single-entry-point to the wealth of information contained in complementary data resources.

  • Global Biodata Coalition: a champion for essential biological databases

    The Global Biodata Coalition (GBC), an international coalition of research funders to better coordinate approaches for the efficient funding, management and growth of biodata resources worldwide has been created. Its set-up is co-piloted by SIB.

  • Latest SIB Profile: explore a year of Swiss bioinformatics

    Welcome to the latest activity report of the SIB Swiss Institute of Bioinformatics. To get a sense of its diverse nationwide community of Data scientists for life, across 80 Groups and top institutions in Switzerland, simply start browsing!

  • Putting FAIR principles into action for multi-omics

    Are you working with multi-omics and aiming to make the generated data shareable and reusable? Find out what it entails and some of the tools that may help.

  • Towards a data management toolkit for life scientists

    SIB is one of the 29 research institutes across 22 European countries to be part of ELIXIR-CONVERGE, a project funded by the European Commission to help standardize life science data management across Europe to drive good data management,...

  • From Open Data to Open Knowledge: a video!

    Discover, in a short video clip, SIB’s vision on Open Data, one of the many facets of Open Science – the movement to make scientific research and its dissemination accessible to all levels of the society.

  • January Virtual Seminar by Claire Clivaz: an interview

    Digging deeper into the human experienceIn the recent years, bioinformatics has crept into the arts and humanities. Software tools initially developed for the life sciences are being adapted to interpret ancient manuscripts, for instance, or to...

  • SIB is part of a European project to improve data sharing and reuse in the life sciences

    SIB is lending its expertise in data management to the FAIRplus project, aiming to increase the discovery, accessibility and reusability of data from selected projects funded by the European Innovative Medicines Initiative (IMI), as well as...

  • Meet the past SIB Awards Laureates – Julien Roux

    In 2019, the SIB Bioinformatics Awards will be presented for the 10th time, providing a great occasion to reach out to past laureates and ask them where they are now in their career. In this interview, we met with Julien Roux, recipient of the 2009...

  • How best to fund knowledgebases? An ELIXIR webinar

    To ensure the preservation of life science knowledge on the long term, innovative funding models for knowledgebases such as UniProt must be found. SIB conducted a study addressing this very topic...

  • SIB study on how best to fund knowledgebases - author and reviewer in conversation

    The recent study addressing funding concerns for knowledgebases, conducted by SIB and supported by ELIXIR, is the focus of an F1000 Research blog.

  • A sustainable funding model for core data resources in the life sciences

    A recent study by the SIB Swiss Institute of Bioinformatics and supported by ELIXIR compares existing funding models and identifies a candidate scheme, according to which the costs of core data resources worldwide could be covered by using less...

  • SourceData is making data discoverable

    A push for a paradigm change in scientific publication. Bringing to the surface information buried in the figures of scientific papers: this is the purpose of SourceData, an open-access platform developed by EMBO in collaboration with the SIB Swiss...