Table of content
This page shows you the full library of available videos from talks in Open Seeds cohort calls: 314 videos by 124 speakers.
Below are all of the individual videos, but the videos are part of cohort calls that you can watch directly from the same links. You can use these for self-study, courses, and more!
Open Life Science
OLS Introduction
Welcome to Open Seeds Programme
"Welcome to OLS!" - Malvika Sharan - 2021-02-17
Role in OLS:
Director of Partnerships and Strategy
Malvika Sharan is a Senior Researcher at The Alan Turing Institute, where she leads a team of community managers and co-leads The Turing Way, a community-led handbook on data science. She is a co-founder of Open Life Science, and an active contributor of several open source/science projects. Connect with her on topics such as community building, open science, strategic collaboration and representation of marginalised members in leadership.
"Welcome to OLS!" - Emmy Tsang - 2022-03-07
Role in OLS:
Director of Finance and Operations
Emmy is the Director of Finance and Operations at Open Life Science and Engagement Lead at Invest in Open Infrastructure. She is passionate and curious about open, research culture and knowledge equity. Her expertise is in community design, and open research and scholarly communication.
"Welcome to OLS!" - Yo Yehudi - 2022-03-16
Role in OLS:
Co-Executive Director
Yo is the co-executive director and a co-founder of OLS. As an EngD student at the University of Manchester, Yo is studying pathogen-related data sharing and sustainability of open source software.Yo is a founder of Code is Science, and previously, they were editor for the PLOS Open Source Toolkit, editor emeritus at the Journal of Open Source Software, board member of the Open Bioinformatics Foundation, and a software developer at the University of Cambridge, working on an open source biological data warehouse called InterMine.
"Welcome to OLS!" - Yo Yehudi - 2022-09-27
Role in OLS:
Co-Executive Director
Yo is the co-executive director and a co-founder of OLS. As an EngD student at the University of Manchester, Yo is studying pathogen-related data sharing and sustainability of open source software.Yo is a founder of Code is Science, and previously, they were editor for the PLOS Open Source Toolkit, editor emeritus at the Journal of Open Source Software, board member of the Open Bioinformatics Foundation, and a software developer at the University of Cambridge, working on an open source biological data warehouse called InterMine.
"Welcome to OLS!" - Yo Yehudi - 2022-10-05
Role in OLS:
Co-Executive Director
Yo is the co-executive director and a co-founder of OLS. As an EngD student at the University of Manchester, Yo is studying pathogen-related data sharing and sustainability of open source software.Yo is a founder of Code is Science, and previously, they were editor for the PLOS Open Source Toolkit, editor emeritus at the Journal of Open Source Software, board member of the Open Bioinformatics Foundation, and a software developer at the University of Cambridge, working on an open source biological data warehouse called InterMine.
"Welcome to OLS!" - Emmy Tsang - 2023-03-07
Role in OLS:
Director of Finance and Operations
Emmy is the Director of Finance and Operations at Open Life Science and Engagement Lead at Invest in Open Infrastructure. She is passionate and curious about open, research culture and knowledge equity. Her expertise is in community design, and open research and scholarly communication.
"Welcome to OLS!" - Yo Yehudi - 2023-03-15
Role in OLS:
Co-Executive Director
Yo is the co-executive director and a co-founder of OLS. As an EngD student at the University of Manchester, Yo is studying pathogen-related data sharing and sustainability of open source software.Yo is a founder of Code is Science, and previously, they were editor for the PLOS Open Source Toolkit, editor emeritus at the Journal of Open Source Software, board member of the Open Bioinformatics Foundation, and a software developer at the University of Cambridge, working on an open source biological data warehouse called InterMine.
"Welcome to Open Seeds" - Malvika Sharan - 2023-10-04
Role in OLS:
Director of Partnerships and Strategy
Malvika Sharan is a Senior Researcher at The Alan Turing Institute, where she leads a team of community managers and co-leads The Turing Way, a community-led handbook on data science. She is a co-founder of Open Life Science, and an active contributor of several open source/science projects. Connect with her on topics such as community building, open science, strategic collaboration and representation of marginalised members in leadership.
Tooling for Project Design
Open Canvas
Planning and resourcing for your project
"Introducing Open Canvas" - Yo Yehudi - 2020-01-29
Role in OLS:
Co-Executive Director
Yo is the co-executive director and a co-founder of OLS. As an EngD student at the University of Manchester, Yo is studying pathogen-related data sharing and sustainability of open source software.Yo is a founder of Code is Science, and previously, they were editor for the PLOS Open Source Toolkit, editor emeritus at the Journal of Open Source Software, board member of the Open Bioinformatics Foundation, and a software developer at the University of Cambridge, working on an open source biological data warehouse called InterMine.
"Introducing Open Canvas" - Yo Yehudi - 2020-09-10
Role in OLS:
Co-Executive Director
Yo is the co-executive director and a co-founder of OLS. As an EngD student at the University of Manchester, Yo is studying pathogen-related data sharing and sustainability of open source software.Yo is a founder of Code is Science, and previously, they were editor for the PLOS Open Source Toolkit, editor emeritus at the Journal of Open Source Software, board member of the Open Bioinformatics Foundation, and a software developer at the University of Cambridge, working on an open source biological data warehouse called InterMine.
"Introducing Open Canvas" - Yo Yehudi - 2021-02-17
Role in OLS:
Co-Executive Director
Yo is the co-executive director and a co-founder of OLS. As an EngD student at the University of Manchester, Yo is studying pathogen-related data sharing and sustainability of open source software.Yo is a founder of Code is Science, and previously, they were editor for the PLOS Open Source Toolkit, editor emeritus at the Journal of Open Source Software, board member of the Open Bioinformatics Foundation, and a software developer at the University of Cambridge, working on an open source biological data warehouse called InterMine.
"Introducing Open Canvas" - Bérénice Batut - 2021-09-22
Role in OLS:
Director of Learning and Technology
Bérénice is a bioinformatician (post-doc in the Freiburg Galaxy Team), analyzing biological data and developing tools for data analysis, mainly via Galaxy. In her current role, she also serves as a deputy training coordinator for ELIXIR Germany (de.NBI). Bérénice is passionate about training and education. She founded and co-leads the Galaxy Training Material project, and regularly giving talks and workshops on topics like data analysis, and tool development. She is also a founder of Street Science Community, a citizen science and outreach program.
"Introducing Open Canvas" - Emmy Tsang - 2021-09-29
Role in OLS:
Director of Finance and Operations
Emmy is the Director of Finance and Operations at Open Life Science and Engagement Lead at Invest in Open Infrastructure. She is passionate and curious about open, research culture and knowledge equity. Her expertise is in community design, and open research and scholarly communication.
"Introducing Open Canvas" - Yo Yehudi - 2022-03-07
Role in OLS:
Co-Executive Director
Yo is the co-executive director and a co-founder of OLS. As an EngD student at the University of Manchester, Yo is studying pathogen-related data sharing and sustainability of open source software.Yo is a founder of Code is Science, and previously, they were editor for the PLOS Open Source Toolkit, editor emeritus at the Journal of Open Source Software, board member of the Open Bioinformatics Foundation, and a software developer at the University of Cambridge, working on an open source biological data warehouse called InterMine.
"Introducing Open Canvas" - Emmy Tsang - 2022-03-16
Role in OLS:
Director of Finance and Operations
Emmy is the Director of Finance and Operations at Open Life Science and Engagement Lead at Invest in Open Infrastructure. She is passionate and curious about open, research culture and knowledge equity. Her expertise is in community design, and open research and scholarly communication.
"Introducing Open Canvas" - Malvika Sharan - 2022-09-27
Role in OLS:
Director of Partnerships and Strategy
Malvika Sharan is a Senior Researcher at The Alan Turing Institute, where she leads a team of community managers and co-leads The Turing Way, a community-led handbook on data science. She is a co-founder of Open Life Science, and an active contributor of several open source/science projects. Connect with her on topics such as community building, open science, strategic collaboration and representation of marginalised members in leadership.
"Introducing Open Canvas" - Yo Yehudi - 2022-10-05
Role in OLS:
Co-Executive Director
Yo is the co-executive director and a co-founder of OLS. As an EngD student at the University of Manchester, Yo is studying pathogen-related data sharing and sustainability of open source software.Yo is a founder of Code is Science, and previously, they were editor for the PLOS Open Source Toolkit, editor emeritus at the Journal of Open Source Software, board member of the Open Bioinformatics Foundation, and a software developer at the University of Cambridge, working on an open source biological data warehouse called InterMine.
"Introducing Open Canvas" - Bérénice Batut - 2023-03-07
Role in OLS:
Director of Learning and Technology
Bérénice is a bioinformatician (post-doc in the Freiburg Galaxy Team), analyzing biological data and developing tools for data analysis, mainly via Galaxy. In her current role, she also serves as a deputy training coordinator for ELIXIR Germany (de.NBI). Bérénice is passionate about training and education. She founded and co-leads the Galaxy Training Material project, and regularly giving talks and workshops on topics like data analysis, and tool development. She is also a founder of Street Science Community, a citizen science and outreach program.
"Introducing Open Canvas" - Malvika Sharan - 2023-03-15
Role in OLS:
Director of Partnerships and Strategy
Malvika Sharan is a Senior Researcher at The Alan Turing Institute, where she leads a team of community managers and co-leads The Turing Way, a community-led handbook on data science. She is a co-founder of Open Life Science, and an active contributor of several open source/science projects. Connect with her on topics such as community building, open science, strategic collaboration and representation of marginalised members in leadership.
"Open Canvas" - Gracielle Higino - 2024-10-15
Theoretical & Quantitative Ecology freak. SciComm & Open Science leader. Catalyst of movements.
Project Roadmapping
Creating project goals and milestones
"Road Mapping" - Bérénice Batut - 2020-01-29
Role in OLS:
Director of Learning and Technology
Bérénice is a bioinformatician (post-doc in the Freiburg Galaxy Team), analyzing biological data and developing tools for data analysis, mainly via Galaxy. In her current role, she also serves as a deputy training coordinator for ELIXIR Germany (de.NBI). Bérénice is passionate about training and education. She founded and co-leads the Galaxy Training Material project, and regularly giving talks and workshops on topics like data analysis, and tool development. She is also a founder of Street Science Community, a citizen science and outreach program.
"Road Mapping" - Emmy Tsang - 2021-02-17
Role in OLS:
Director of Finance and Operations
Emmy is the Director of Finance and Operations at Open Life Science and Engagement Lead at Invest in Open Infrastructure. She is passionate and curious about open, research culture and knowledge equity. Her expertise is in community design, and open research and scholarly communication.
"Introducing Road Mapping" - Emmy Tsang - 2021-09-22
Role in OLS:
Director of Finance and Operations
Emmy is the Director of Finance and Operations at Open Life Science and Engagement Lead at Invest in Open Infrastructure. She is passionate and curious about open, research culture and knowledge equity. Her expertise is in community design, and open research and scholarly communication.
"Introducing Road Mapping" - Yo Yehudi - 2021-09-29
Role in OLS:
Co-Executive Director
Yo is the co-executive director and a co-founder of OLS. As an EngD student at the University of Manchester, Yo is studying pathogen-related data sharing and sustainability of open source software.Yo is a founder of Code is Science, and previously, they were editor for the PLOS Open Source Toolkit, editor emeritus at the Journal of Open Source Software, board member of the Open Bioinformatics Foundation, and a software developer at the University of Cambridge, working on an open source biological data warehouse called InterMine.
"Introducing Road Mapping" - Emmy Tsang - 2022-03-07
Role in OLS:
Director of Finance and Operations
Emmy is the Director of Finance and Operations at Open Life Science and Engagement Lead at Invest in Open Infrastructure. She is passionate and curious about open, research culture and knowledge equity. Her expertise is in community design, and open research and scholarly communication.
"Introducing Road Mapping" - Malvika Sharan - 2022-03-16
Role in OLS:
Director of Partnerships and Strategy
Malvika Sharan is a Senior Researcher at The Alan Turing Institute, where she leads a team of community managers and co-leads The Turing Way, a community-led handbook on data science. She is a co-founder of Open Life Science, and an active contributor of several open source/science projects. Connect with her on topics such as community building, open science, strategic collaboration and representation of marginalised members in leadership.
"Introducing Road Mapping" - Emmy Tsang - 2022-09-27
Role in OLS:
Director of Finance and Operations
Emmy is the Director of Finance and Operations at Open Life Science and Engagement Lead at Invest in Open Infrastructure. She is passionate and curious about open, research culture and knowledge equity. Her expertise is in community design, and open research and scholarly communication.
"Introducing Road Mapping" - Yo Yehudi - 2022-10-05
Role in OLS:
Co-Executive Director
Yo is the co-executive director and a co-founder of OLS. As an EngD student at the University of Manchester, Yo is studying pathogen-related data sharing and sustainability of open source software.Yo is a founder of Code is Science, and previously, they were editor for the PLOS Open Source Toolkit, editor emeritus at the Journal of Open Source Software, board member of the Open Bioinformatics Foundation, and a software developer at the University of Cambridge, working on an open source biological data warehouse called InterMine.
"Introducing Road Mapping" - Bérénice Batut - 2023-03-07
Role in OLS:
Director of Learning and Technology
Bérénice is a bioinformatician (post-doc in the Freiburg Galaxy Team), analyzing biological data and developing tools for data analysis, mainly via Galaxy. In her current role, she also serves as a deputy training coordinator for ELIXIR Germany (de.NBI). Bérénice is passionate about training and education. She founded and co-leads the Galaxy Training Material project, and regularly giving talks and workshops on topics like data analysis, and tool development. She is also a founder of Street Science Community, a citizen science and outreach program.
"Introducing Road Mapping" - Paz Bernaldo - 2023-03-15
Role in OLS:
Community Researcher & Programme Coordinator (contract)
Chilean worker and researcher. Social scientist (wannabe). I am an immigrant, not an expat. Open science hardware was my entrance to the world of critical open science. “Critical” as in: it matters who gets to be involved in science.
Tooling for Project Design Introduction
Help you clarify and communicate your project idea, purpose and goals in a way that will invite and encourage participation from your community.
Tooling for Collaboration
Open Licensing
Giving permission for others to use your research
"A Primer on Open Licenses" - Christine Rogers - 2020-09-24
Project Officer and Technical lead in neuroscience software and infrastructure to accelerate and open neuroinformatics research workflows, based at the Montreal Neurological Institute. Mentor for Google Summer of Code and Season of Docs, and past participant in OLS program.
"A Primer on Open Licenses" - Hao Ye - 2021-03-03
Hao is the Reproducibility Librarian at the University of Florida Health Science Center Libraries. He is passionate about empowering others, whether through training in open science and reproducible research practices or promoting equity and inclusion by dismantling gatekeeping in academia.
"Open Licensing" - Raniere Silva - 2022-03-23
"Open Licensing" - Hao Ye - 2023-03-22
Hao is the Reproducibility Librarian at the University of Florida Health Science Center Libraries. He is passionate about empowering others, whether through training in open science and reproducible research practices or promoting equity and inclusion by dismantling gatekeeping in academia.
"A Primer on Open Licenses" - Malvika Sharan - 2024-10-17
Role in OLS:
Director of Partnerships and Strategy
Malvika Sharan is a Senior Researcher at The Alan Turing Institute, where she leads a team of community managers and co-leads The Turing Way, a community-led handbook on data science. She is a co-founder of Open Life Science, and an active contributor of several open source/science projects. Connect with her on topics such as community building, open science, strategic collaboration and representation of marginalised members in leadership.
README
Making your project welcoming for others
"READMEs for Open Projects" - Mateusz Kuzak - 2020-02-12
Mateusz is Research Software Community Manager at the Netherlands eScience Center. He has background in life sciences and have been working with bioinformatics data analysis and research software engineering. Past few years he has been involved in the Carpentries as an instructor, trainer and mentor (both in the mentoring subcommittee and mentoring teams).
"READMEs for Open Projects" - Mateusz Kuzak - 2020-09-24
Mateusz is Research Software Community Manager at the Netherlands eScience Center. He has background in life sciences and have been working with bioinformatics data analysis and research software engineering. Past few years he has been involved in the Carpentries as an instructor, trainer and mentor (both in the mentoring subcommittee and mentoring teams).
"README" - Carlos Martinez-Ortiz - 2021-03-03
Carlos did his PhD in computer science, and has been working in different areas of application ever since. He likes learning about the different areas of research where digital technology can open up new areas of research. In his words - In every project I have been involved, I have always learned something new, and I love that feeling of discovering new things.
"README" - Hao Ye - 2022-03-23
Hao is the Reproducibility Librarian at the University of Florida Health Science Center Libraries. He is passionate about empowering others, whether through training in open science and reproducible research practices or promoting equity and inclusion by dismantling gatekeeping in academia.
"README" - Alexander Martinez Mendez - 2022-10-12
Systems administrator and PhD student specializing in Workflows, Open Science and data management. I manage research platforms that enhance collaboration and reproducibility, combining technical expertise with advanced research skills.
Code of Conduct
Setting norms and expectations for a team/community
"Contributing Guidelines and Codes of Conduct for Open Projects" - Lilly Winfree - 2020-09-24
Lilly works on open source software for open science as the product manager for the Frictionless Data for Reproducible Research project at Open Knowledge Foundation. Lilly has her PhD in neuroscience from Oregon Health and Science University, where she researched brain injury in fruit flies and became an advocate for open science and open data.
"Contributing Guidelines and Code of Conduct" - Malvika Sharan - 2021-03-03
Role in OLS:
Director of Partnerships and Strategy
Malvika Sharan is a Senior Researcher at The Alan Turing Institute, where she leads a team of community managers and co-leads The Turing Way, a community-led handbook on data science. She is a co-founder of Open Life Science, and an active contributor of several open source/science projects. Connect with her on topics such as community building, open science, strategic collaboration and representation of marginalised members in leadership.
"Contributing Guidelines and Code of Conduct" - Emma Karoune - 2021-10-06
All of my research and community building embraces an open scholarship approach in which I strive to develop more open and sustainable research practices across different disciplines.
"Contributing Guidelines and Code of Conduct" - Andres Sebastian Ayala Ruano - 2022-10-12
I am a young researcher and freelance data scientist, currently pursuing a master’s degree in Systems Biology at Maastricht University, the Netherlands. I have worked in Bioinformatics and Cheminformatics for five years at different laboratories. My current research interests are devoted to Network Science and Machine Learning for drug discovery. I am part of several research, open-science, and software development communities ( ISCBSC, The Carpentries, Streamlit Creators, and Open Life Science. Moreover, I am involved in various initiatives to empower Bioinformatics in Ecuador and Latin America.
GitHub Introduction
Sharing your project through online repositories
"Introduction to GitHub" - Malvika Sharan - 2021-10-13
Role in OLS:
Director of Partnerships and Strategy
Malvika Sharan is a Senior Researcher at The Alan Turing Institute, where she leads a team of community managers and co-leads The Turing Way, a community-led handbook on data science. She is a co-founder of Open Life Science, and an active contributor of several open source/science projects. Connect with her on topics such as community building, open science, strategic collaboration and representation of marginalised members in leadership.
"Introduction to GitHub" - Malvika Sharan - 2022-03-28
Role in OLS:
Director of Partnerships and Strategy
Malvika Sharan is a Senior Researcher at The Alan Turing Institute, where she leads a team of community managers and co-leads The Turing Way, a community-led handbook on data science. She is a co-founder of Open Life Science, and an active contributor of several open source/science projects. Connect with her on topics such as community building, open science, strategic collaboration and representation of marginalised members in leadership.
"Introduction to GitHub" - Patricia Herterich - 2022-10-18
Role in OLS:
Co-Executive Director OLS
Patricia is a Co-Executive Director of OLS. Before joining OLS she worked at Centre at the University of Edinburgh, University of Birmingham and CERN’s Scientific Information Service working closely with software developers to deliver data and code sharing solutions. She loves collaborating openly and making projects welcoming to new comers.
Setting up a project
Set up a repository for open science project
Good Coding Practices
Tips and practices for ensuring good quality code
Code Review
Reviewing code to help improve your code quality
"Code-review" - Gracielle Higino - 2022-11-30
Theoretical & Quantitative Ecology freak. SciComm & Open Science leader. Catalyst of movements.
"Code Review" - Riva Quiroga - 2023-11-29
Riva is a Linguist that uses computational techniques to explore how language use changes. She is an editor at Programming Historian, a Software Sustainability Institute Fellow, and a member of the RLadies Global Leadership Team.
Package Management
Software environment for research reproducibility
Open Science
Open Science Introduction
Sharing knowledge for the global access
"Welcome to OLS!" - Malvika Sharan - 2020-01-29
Role in OLS:
Director of Partnerships and Strategy
Malvika Sharan is a Senior Researcher at The Alan Turing Institute, where she leads a team of community managers and co-leads The Turing Way, a community-led handbook on data science. She is a co-founder of Open Life Science, and an active contributor of several open source/science projects. Connect with her on topics such as community building, open science, strategic collaboration and representation of marginalised members in leadership.
"Open Science" - Yo Yehudi - 2023-04-04
Role in OLS:
Co-Executive Director
Yo is the co-executive director and a co-founder of OLS. As an EngD student at the University of Manchester, Yo is studying pathogen-related data sharing and sustainability of open source software.Yo is a founder of Code is Science, and previously, they were editor for the PLOS Open Source Toolkit, editor emeritus at the Journal of Open Source Software, board member of the Open Bioinformatics Foundation, and a software developer at the University of Cambridge, working on an open source biological data warehouse called InterMine.
Open Hardware
Physical and digital tools for enabling research
"Open Science Hardware" - Julieta Arancio - 2020-02-26
Julieta Arancio is a postdoctoral researcher at Drexel University (US) & the University of Bath (UK), and an associate researcher at CENIT-UNSAM in Argentina. Her research focuses on social studies of open hardware, in particular for democratization of the production of science and technology. She is a co-organizer at reGOSH, the Latin America open science hardware network, and 1/3 of the mentorship program Open Hardware Makers.
"Open tools, for opening science" - Julieta Arancio - 2020-10-08
Julieta Arancio is a postdoctoral researcher at Drexel University (US) & the University of Bath (UK), and an associate researcher at CENIT-UNSAM in Argentina. Her research focuses on social studies of open hardware, in particular for democratization of the production of science and technology. She is a co-organizer at reGOSH, the Latin America open science hardware network, and 1/3 of the mentorship program Open Hardware Makers.
"Open science hardware" - Paz Bernaldo - 2022-10-25
Role in OLS:
Community Researcher & Programme Coordinator (contract)
Chilean worker and researcher. Social scientist (wannabe). I am an immigrant, not an expat. Open science hardware was my entrance to the world of critical open science. “Critical” as in: it matters who gets to be involved in science.
Open Source Software
Making analysis reproducible with open source code
"Open Software in Research" - Andrew Stewart - 2020-02-26
I am an Experimental Psychologist and Fellow of the SSI at the University of Manchester interested in data visualisations, open science, and reproducible research. I am the University of Manchester Open and Reproducible Research Institutional Lead.
"Open Source Software" - Aleksandra Nenadic - 2020-10-08
Software Sustainability Institute’s training lead. Over the past 5 years committed to ongoing improvement of research software practice through training and community engagement work. Driving the trends in training for researchers and scientists in computational and data analysis skills forward and helping develop new training curricula.
"FAIR Research Software" - Fotis Psomopoulos - 2020-11-05
"Open Source in Research" - Sam Van Stroud - 2021-10-20
"Open Source Software in Research" - Andrew Stewart - 2022-04-04
I am an Experimental Psychologist and Fellow of the SSI at the University of Manchester interested in data visualisations, open science, and reproducible research. I am the University of Manchester Open and Reproducible Research Institutional Lead.
"Open Science Software" - Luis Pedro Coelho - 2022-10-25
"Open Source Software " - Hao Ye - 2022-11-30
Hao is the Reproducibility Librarian at the University of Florida Health Science Center Libraries. He is passionate about empowering others, whether through training in open science and reproducible research practices or promoting equity and inclusion by dismantling gatekeeping in academia.
Open Data
Making data findable, accessible, interoperable, reusable
"Open Data" - Lilly Winfree - 2020-02-26
Lilly works on open source software for open science as the product manager for the Frictionless Data for Reproducible Research project at Open Knowledge Foundation. Lilly has her PhD in neuroscience from Oregon Health and Science University, where she researched brain injury in fruit flies and became an advocate for open science and open data.
"Open Data" - Paula Andrea Martinez - 2020-10-08
Paula is an Open Science advocate her passions are data management, data analytics, research, and diversity. She is a computer scientist who has worked on data intensive bioinformatics and data management. She has also collaborated on community projects such as The Carpentries, rOpenSci, RLadies. Currently she works for the National Imaging Facility in Australia.
"FAIR Data: Insights and perspectives" - Philippe Rocca-Serra - 2020-11-05
I trained as an Agronomist / Molecular Biologist before switching to Bioinformatics when joining EMBL-EBI and the ArrayExpress database. There I build up expertise in data management for functional genomics data (transcriptomics, proteomics and metabolomics). I lead on the ISA project (https://isa-tools.org), a syntax for holding such data and STATO, an ontology for statistics. I am also involved in Data FAIRification (via FAIRsharing.org) and IMI FAIRplus, for which I coordinate the development of the FAIR cookbook (https://fairplus.github.io/the-fair-cookbook)
"Open Data" - Esther Plomp - 2021-03-17
Esther works as a Data Steward at Delft University of Technology (Faculty of Applied Sciences) in the Netherlands. As a Data Steward she supports researchers with their data/code management and with sharing their research. Before this, Esther did a PhD in bioanthropology, studying the isotopic composition of human teeth to determine where they grew up.
"FAIR data" - Emma Anne Harris - 2021-04-14
Dr Emma Anne Harris’ research background is in cultural history, specifically the fear of technology, but her career has moved from science fiction to science fact. Working in research project management she has become an enthusiast for open science, research integrity, and RDM through roles including; Ethics Manager on the Human Brain Project and Research Integrity Officer at De Montfort University. Moving to Berlin from the UK in 2017, she worked on the ORION Open Science project as a Training Developer and Project Manager. She now works at Humboldt University on the FDNext Project which supports research data management through service portfolios, legal advice, and training.
"Research data management" - Sara El-Gebali - 2021-10-20
I’m a strong advocate for equity and inclusion of individuals from marginalized groups in STEM fields. I’m also a passionate community builder and research data manager specialized in metadata and curation with a passion for OpenScience and all things FAIR (Findable, Accessible, Interoperably, Resuable).
"The future of Open Science? DMPs and FAIR data" - Patricia Herterich - 2021-12-15
Role in OLS:
Co-Executive Director OLS
Patricia is a Co-Executive Director of OLS. Before joining OLS she worked at Centre at the University of Edinburgh, University of Birmingham and CERN’s Scientific Information Service working closely with software developers to deliver data and code sharing solutions. She loves collaborating openly and making projects welcoming to new comers.
"Open Data" - Renato Alves - 2022-04-04
Renato is a computational biologist with a background in evolution, genomics and the microbiome. Currently project and community manager of the EMBL Bio-IT project, supporting the local bio-computational community through training, consulting and core resources. Open-source and scientific reproducibility advocate. When not tanning in front of a screen you may find him wandering the green and blue in Nature.
"Agile & Iterative Project Management Methods" - Lilly Winfree - 2022-04-04
Lilly works on open source software for open science as the product manager for the Frictionless Data for Reproducible Research project at Open Knowledge Foundation. Lilly has her PhD in neuroscience from Oregon Health and Science University, where she researched brain injury in fruit flies and became an advocate for open science and open data.
"Managing & developing research data (RDM)" - Sara Petti - 2022-10-25
Sara works with communities at Open Knowledge Foundation. She leads the Open Knowledge Network and manages the Frictionless Data community. She has previously worked in EU policy research and advocacy, and has managed projects on digital education and literacy with schools and public libraries from all across Europe. Sara is passionate about the open movement and strongly believes in removing barriers and opening knowledge as a means of empowering citizens and fostering democracy.
"Applying FAIR principles to (open) data management" - Bethan Iley - 2022-12-20
Role in OLS:
Finance Administrator & OSPARK Coordinator
I’m a Psychology PhD student in the Centre for Identity and Intergroup Relations at Queen’s University Belfast, where I research conspiracy theory beliefs and dis/misinformation about gender equality. I’m generally interested in the psychology of science (how people think and behave regarding science) and political beliefs. I also care about inclusion in science and run a science communication project.
"Open Data" - Esther Plomp - 2023-05-17
Esther works as a Data Steward at Delft University of Technology (Faculty of Applied Sciences) in the Netherlands. As a Data Steward she supports researchers with their data/code management and with sharing their research. Before this, Esther did a PhD in bioanthropology, studying the isotopic composition of human teeth to determine where they grew up.
Open Engagement of Social Actors
Engaging local actors and promoting knowledge exchange
"Citizen science using your own personal data" - Bastian Greshake Tzovaras - 2020-03-11
Bastian is a long-term research fellow at the Center for Research & Interdisciplinarity in Paris, where he studies how bottom-up communities in citizen science can peer-produce knowledge. He’s also the Director of Research for the Open Humans Foundation, an online platform & community around empowering individuals to learn from their personal data. He started his academic career in evolutionary biology & genomics and has a PhD in Bioinformatics.
"Participatory Citizen Science" - Georgia Aitkenhead - 2021-03-31
I am a researcher at The Alan Turing Instiitute working on co-creating a citizen science platform, AutSPACEs, with a community of autistic collaborators. I also worked for 3 years for the British Civil Service in their fast track scheme. I’m a believer in creating a collaborative over competitive work ethos, equity, and open research.
"Open / citizen sience, the only way to " - Yvan Le Bras - 2021-12-15
"Public engagement: Open Infrastructure, Citizen Science, Science Communication" - Gilbert Beyamba - 2022-05-30
"Public engagement: Open Infrastructure, Citizen Science, Science Communication" - Marco Anteghini - 2022-12-20
Open Educational Resources
Sharing teaching and learning resources
"Open Education and Training" - Caleb Kibet - 2020-03-11
"Open Education and Training - MetaDocencia Case Study" - Laura Ación - 2020-10-22
I am a tenured researcher leading a collaborative health data science research group. I also work to improve data analysis teaching and practice. I co-founded MetaDocencia, an open, collaborative, and Spanish-speaking education community. One of the roles I enjoy most is mentoring and teaching others.
"Making training materials FAIR in 10 steps" - Melissa Burke - 2020-11-05
Melissa is the Training and Communications Officer with Australian BioCommons. She previously worked at EMBL-EBI and has extensive experience in developing, organising, delivering and running face-to-face and online workshops and webinars. She has a PhD in Molecular Parasitology and has worked as a Scientific Curator through which first became interested in open science practices. Some of the open-science related projects that she has been involved in include applying FAIR principles to training materials and showing researchers how they can get the most out of their data by teaching best practice in data management and the FAIR principles.
"FAIR training" - Alexandra Holinski - 2021-04-14
I am working as a Scientific Training Officer at EMBL-EBI and dedicate my work time to developing and designing training in the field of biomedical sciences and bioinformatics. In our training courses we encourage scientists to work according to and advocate the principles of Open Science. I am not a bioinformatician myself, but a chemist / biochemist by education, with several years of experience in scientific research; mainly in the wet lab.
"Usable, comprehensive, accessible, FAIR and empowering training - The case of the Galaxy Training Network" - Bérénice Batut - 2021-11-17
Role in OLS:
Director of Learning and Technology
Bérénice is a bioinformatician (post-doc in the Freiburg Galaxy Team), analyzing biological data and developing tools for data analysis, mainly via Galaxy. In her current role, she also serves as a deputy training coordinator for ELIXIR Germany (de.NBI). Bérénice is passionate about training and education. She founded and co-leads the Galaxy Training Material project, and regularly giving talks and workshops on topics like data analysis, and tool development. She is also a founder of Street Science Community, a citizen science and outreach program.
"Open access, Preprints" - Piraveen Gopalasingam - 2022-05-02
I am a scientific training officer at the European Bioinformatics Institute (EMBL-EBI) where I mainly coordinate and support training in Latin America via the CABANA project (https://cabana.online/). My background lies in structural biology and biomedical sciences, and I am passionate about science communication, equity and inclusion.
"Open Educational Resources" - Toby Hodges - 2023-11-21
Toby is Director of Curriculum at The Carpentries, a community of practice building global capacity in essential data and computational skills for conducting efficient, open, and reproducible research. Before that, he was a CSCCE CEFP2019 Fellow and community manager for EMBL Bio-IT, a community of bioinformaticians/computational biologists at the European Molecular Biology Laboratory.
Open Access Publication
Removing barriers to knowledge access
"Pre-print and open review" - Demitra Ellina - 2020-03-11
"Preprint in the Context of Open Science" - Umar Ahmad - 2020-10-22
Umar Ahmad is currently the Head, Department of Anatomy at Bauchi State University, Nigeria. He is also a founder and CEO of BioSeq, a bioinformatics company that translates omics data into informative knowledge by providing quality high-throughput sequencing (NGS) data analysis. His work in basic and translational research is focused on developing targeted therapy for human bladder cancer, colon and lung cancers with primary focus on genomics (WGS, WES) and transcriptomics (RNA-Seq, scRNA-Seq, Microarray) data integration to investigate the regulatory pathways that drive tumour recurrence and progression. Additionally, Umar works in an international team of scholarly professionals at AfricArXiv - the pan-African Open Access portal – towards increased discoverability of African research output. His role involves facilitating manuscript submission moderation and quality assurance as well as representing AfricArXiv at international meetings, events and webinars. At the Science Communication Hub Nigeria, he supports a team that provides mentorship, implements training and community building for the next generation of Nigerian scientists. Umar is a fellow of Accelerating Science and Publication in Biology (ASAPbio), a mentee and a member in The Carpentries community and a member of Open Bioinformatics Foundation. He is also the current Regional Coordinator (North East) of the Nigerian Bioinformatics and Genomics Network (NBGN). Moreover, Umar maintains a community of scientists who are passionate about bioinformatics in a slack workspace called Bioinformatics Hub to facilitate sharing of bioinformatics knowledge in Nigeria. (Link: https://docs.google.com/document/d/14ayo1wHRpDvF-L5yHaBHyEqXW29EqEApfCtf3F3xiq4/edit?usp=sharing)
"Let's talk #preprint" - Iratxe Puebla - 2021-03-31
I am Associate Director for ASAPbio, a nonprofit with a mission to accelerate innovation and transparency in life sciences communication. In this role I work to foster awareness of preprints and drive community engagement, and support initiatives to bring further transparency into peer review.
Prior to ASAPbio, I worked in publishing for 16 years, I held editorial roles with Open Access publishers, initially at BioMed Central and then PLOS, where I was Deputy Editor-in-Chief at the journal PLOS ONE. I am also Facilitation and Integrity Officer for the Committee on Publication Ethics (COPE).
"FAIR Principles Promoting openness in science" - Mallory Freeberg - 2022-11-22
Mallory is Coordinator for the EMBL-EBI European Genome-phenome Archive supporting archiving and sharing of personally identifiable genetic and phenotypic human data. Her academic background is in bioinformatics specifically to study post-transcriptional gene regulation. She has worked with Open Science projects including the Galaxy Project and the Human Cell Atlas, and is passionate about promoting metadata standards and best practices.
Open Evaluation
Open peer review and research evaluation
"Open Protocols" - Anita Bröllochs - 2020-03-11
Anita Bröllochs is the Head of Outreach at protocols.io. She studied Life Science Engineering at the Friedrich-Alexander University in Erlangen, Germany and her background is on optical clearing of skeletal muscle for multiphoton microscopy. Anita has a passion for open science and is also the host of a science podcast called ‘Minor Tweak, Major Impact’ which is aiming to shine a spotlight on method development.
Openness to Diversity of Knowledge
Many ways to produce and apply knowledge
"Citizen Science" - Bastian Greshake Tzovaras - 2020-10-22
Bastian is a long-term research fellow at the Center for Research & Interdisciplinarity in Paris, where he studies how bottom-up communities in citizen science can peer-produce knowledge. He’s also the Director of Research for the Open Humans Foundation, an online platform & community around empowering individuals to learn from their personal data. He started his academic career in evolutionary biology & genomics and has a PhD in Bioinformatics.
"Openness to diversity of knowledge" - Batool Almarzouq - 2023-05-02
Batool is a computational biologist affiliated with both KAIMRC in Saudi Arabia and the University of Liverpool in the UK. As an advocate for Open Science and its role in improving scientific and economic outputs in the Middle east, Batool established an Open Science Community in Saudi Arabia (OSCSA). OSCSA aims to create significant value towards Saudi Arabia’s Vision 2030, which focus on enhancing knowledge and improving equal access to education in the Kingdom
Open Science Infrastructures
Creating infrastructure for the collective benefit
Project, Community & Personal Management
Agile & Iteractive Project Management
Developing projects through iterative feedback processes
"Agile and iterative project management methods" - Yo Yehudi - 2020-02-26
Role in OLS:
Co-Executive Director
Yo is the co-executive director and a co-founder of OLS. As an EngD student at the University of Manchester, Yo is studying pathogen-related data sharing and sustainability of open source software.Yo is a founder of Code is Science, and previously, they were editor for the PLOS Open Source Toolkit, editor emeritus at the Journal of Open Source Software, board member of the Open Bioinformatics Foundation, and a software developer at the University of Cambridge, working on an open source biological data warehouse called InterMine.
"Agile and iterative project management methods" - Renato Alves - 2020-10-08
Renato is a computational biologist with a background in evolution, genomics and the microbiome. Currently project and community manager of the EMBL Bio-IT project, supporting the local bio-computational community through training, consulting and core resources. Open-source and scientific reproducibility advocate. When not tanning in front of a screen you may find him wandering the green and blue in Nature.
"Agile and iterative project management methods" - Renato Alves - 2021-03-17
Renato is a computational biologist with a background in evolution, genomics and the microbiome. Currently project and community manager of the EMBL Bio-IT project, supporting the local bio-computational community through training, consulting and core resources. Open-source and scientific reproducibility advocate. When not tanning in front of a screen you may find him wandering the green and blue in Nature.
Equity, Diversity and Inclusion (EDI)
Applying EDI practices to project goals and ways of working
"Inclusion is not an afterthought or (Unconscious bias: Does it really matter?)" - Rowland Mosbergen - 2021-05-12
"Inclusion is not an afterthought or (Unconscious bias: Does it really matter?)" - Rowland Mosbergen - 2022-05-18
"Diversity and Inclusion" - Piraveen Gopalasingam - 2022-12-07
I am a scientific training officer at the European Bioinformatics Institute (EMBL-EBI) where I mainly coordinate and support training in Latin America via the CABANA project (https://cabana.online/). My background lies in structural biology and biomedical sciences, and I am passionate about science communication, equity and inclusion.
Mountain of Engagement
Supporting participants through various levels of engagements
"Mountain of Engagement & Community Interactions" - Malvika Sharan - 2020-03-25
Role in OLS:
Director of Partnerships and Strategy
Malvika Sharan is a Senior Researcher at The Alan Turing Institute, where she leads a team of community managers and co-leads The Turing Way, a community-led handbook on data science. She is a co-founder of Open Life Science, and an active contributor of several open source/science projects. Connect with her on topics such as community building, open science, strategic collaboration and representation of marginalised members in leadership.
"Mountain of Engagement" - Emmy Tsang - 2021-05-12
Role in OLS:
Director of Finance and Operations
Emmy is the Director of Finance and Operations at Open Life Science and Engagement Lead at Invest in Open Infrastructure. She is passionate and curious about open, research culture and knowledge equity. Her expertise is in community design, and open research and scholarly communication.
Personas & Pathways
Taking people’s experiences and expectations in planning our projects
"Using Personas and Pathways to Build Community" - Kirstie Whitaker - 2020-03-25
Kirstie is a lead of the Tools, Practices and Systems research programme 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.
"Personas & Pathways" - Anelda van der Walt - 2021-05-12
Anelda is the founder of Talarify, a South Africa-based consultancy working with researchers and postgraduates to help grow digital, computational, and open science literacy. She has a formal background in bioinformatics, but spend most of her time working in interdisciplinary teams these days. Main projects currently: 1) afrimapr, funded by Wellcome Open Research, where the team is working with data science communities in Africa and beyond to help make African data more accessible via the development of R building blocks; and 2) ESCALATOR - growing an inclusive and active community of practice in Digital Humanities and Computational Social Sciences in South Africa.
"Using Personas and Pathways to Build Community" - Batool Almarzouq - 2021-11-03
Batool is a computational biologist affiliated with both KAIMRC in Saudi Arabia and the University of Liverpool in the UK. As an advocate for Open Science and its role in improving scientific and economic outputs in the Middle east, Batool established an Open Science Community in Saudi Arabia (OSCSA). OSCSA aims to create significant value towards Saudi Arabia’s Vision 2030, which focus on enhancing knowledge and improving equal access to education in the Kingdom
"Designing & empowering for inclusivity: Personas & Pathways" - Anelda van der Walt - 2022-04-20
Anelda is the founder of Talarify, a South Africa-based consultancy working with researchers and postgraduates to help grow digital, computational, and open science literacy. She has a formal background in bioinformatics, but spend most of her time working in interdisciplinary teams these days. Main projects currently: 1) afrimapr, funded by Wellcome Open Research, where the team is working with data science communities in Africa and beyond to help make African data more accessible via the development of R building blocks; and 2) ESCALATOR - growing an inclusive and active community of practice in Digital Humanities and Computational Social Sciences in South Africa.
Personal Ecology
Sustaining our energy as individuals and leaders
"Personal Ecology and Self Care " - Yo Yehudi - 2020-04-01
Role in OLS:
Co-Executive Director
Yo is the co-executive director and a co-founder of OLS. As an EngD student at the University of Manchester, Yo is studying pathogen-related data sharing and sustainability of open source software.Yo is a founder of Code is Science, and previously, they were editor for the PLOS Open Source Toolkit, editor emeritus at the Journal of Open Source Software, board member of the Open Bioinformatics Foundation, and a software developer at the University of Cambridge, working on an open source biological data warehouse called InterMine.
"Personal Ecology and Self Care" - Malvika Sharan - 2021-12-08
Role in OLS:
Director of Partnerships and Strategy
Malvika Sharan is a Senior Researcher at The Alan Turing Institute, where she leads a team of community managers and co-leads The Turing Way, a community-led handbook on data science. She is a co-founder of Open Life Science, and an active contributor of several open source/science projects. Connect with her on topics such as community building, open science, strategic collaboration and representation of marginalised members in leadership.
"Personal Ecology and Self Care" - ,Malvika SharanMayya Sundukova - 2023-05-23
Role in OLS:
Resident Fellow
Researcher
Ally Skills for Open Leaders
Using your privilege to step up for others
"Ally Skills" - Malvika Sharan - 2020-04-01
Role in OLS:
Director of Partnerships and Strategy
Malvika Sharan is a Senior Researcher at The Alan Turing Institute, where she leads a team of community managers and co-leads The Turing Way, a community-led handbook on data science. She is a co-founder of Open Life Science, and an active contributor of several open source/science projects. Connect with her on topics such as community building, open science, strategic collaboration and representation of marginalised members in leadership.
Community Interactions
Considering different kinds of interactions for your community
"Welcoming new contributions to your project" - Bérénice Batut - 2021-05-12
Role in OLS:
Director of Learning and Technology
Bérénice is a bioinformatician (post-doc in the Freiburg Galaxy Team), analyzing biological data and developing tools for data analysis, mainly via Galaxy. In her current role, she also serves as a deputy training coordinator for ELIXIR Germany (de.NBI). Bérénice is passionate about training and education. She founded and co-leads the Galaxy Training Material project, and regularly giving talks and workshops on topics like data analysis, and tool development. She is also a founder of Street Science Community, a citizen science and outreach program.
"Welcoming New Contributors on Your Project" - Yo Yehudi - 2022-04-20
Role in OLS:
Co-Executive Director
Yo is the co-executive director and a co-founder of OLS. As an EngD student at the University of Manchester, Yo is studying pathogen-related data sharing and sustainability of open source software.Yo is a founder of Code is Science, and previously, they were editor for the PLOS Open Source Toolkit, editor emeritus at the Journal of Open Source Software, board member of the Open Bioinformatics Foundation, and a software developer at the University of Cambridge, working on an open source biological data warehouse called InterMine.
Community Design for Inclusivity
Creating inclusive projects that are welcoming for others
"Personas, community design for inclusivity" - Melissa Black - 2022-11-09
I am currently the infrastructure and impact measurement coordinator at MetaDocencia. I collaborate with The Turing Way, the OpenSciency project (formerly the NASA TOPS OpenCore team) and am a 2023 SSI and OLS fellow. I am also co-mentoring two Outreachy interns with the Open Science Community Saudi Arabia.
Open Leadership
Open Leadership in Practice
Examples of leadership from different open leaders
"Leadership in Academia" - Fotis Psomopoulos - 2020-04-01
"Becoming a Post Academic " - Beth Duckles - 2020-04-01
I’m a research consultant and social scientist and I support researchers in developing mixed methods and qualitative research skills. I also run a peer support group called Open Post Academics (OPA) where we encourage those with a PhD to share their skills and knowledge outside of the academy.
"Leadership in training and education" - Jason Williams - 2020-04-01
"Community building" - Rachael Ainsworth - 2020-11-19
Rachael is the Research Software Community Manager for the Software Sustainability Institute and Open Research advocate at the University of Manchester. She is passionate about openness, transparency, reproducibility, wellbeing and inclusion in research. She was a project lead in Round 4 and Mentor and Cohort Host in Round 5 of Mozilla Open Leaders, and organises a women in data meetup group in Manchester called HER+Data MCR.
"Academia" - Andrew Stewart - 2020-11-19
I am an Experimental Psychologist and Fellow of the SSI at the University of Manchester interested in data visualisations, open science, and reproducible research. I am the University of Manchester Open and Reproducible Research Institutional Lead.
"Social entrepreneurship" - David Selassie Opoku - 2020-11-19
David is a “self-designated” Data Plumber from Ghana working to build technical and data capacity for low-income individuals, organisations and communities. His background is in Biology and Computer Science and has worked with journalists, advocacy organisations, research institutions, government officials and private businesses in over 30 countries across 5 continents. Currently, he leads data research at Growing Gold Farms, a food startup in Tema, Ghana.
"Social entrepreneurship" - David Selassie Opoku - 2021-04-28
David is a “self-designated” Data Plumber from Ghana working to build technical and data capacity for low-income individuals, organisations and communities. His background is in Biology and Computer Science and has worked with journalists, advocacy organisations, research institutions, government officials and private businesses in over 30 countries across 5 continents. Currently, he leads data research at Growing Gold Farms, a food startup in Tema, Ghana.
"Talking about data in trustworthy ways" - Natalie Banner - 2021-04-28
I’m Director of Ethics at Genomics England, working to ensure we can innovate in genomic medicine and research while doing right by the participants who trust us with their data. I’m a philosopher by background and keen to bring better openness, transparency and accountability to the use of health-related data.
"Academic leadership, group or project leaders" - Mayya Sundukova - 2022-04-25
"Post-academia career path, Social entrepreneurship" - Jason Williams - 2022-04-25
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