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Open Science: Home

A guide for Open Science at UC Berkeley.

Bay Area Open Science Group

Bay Area Open Science Group

Bay Area Open Science Group Logo with mapAre you interested in making your research more openly available? Want to learn about open science tools and platforms that can make your research more effective and reproducible? The Bay Area Open Science Group is intended to bring together students, faculty, and staff from the Stanford, Berkeley, and UCSF communities to learn about open science, discuss the application of open science practices in a research context, and meet other members of the community who are interested in (or already are) incorporating open science practices into their work.

Meetings:

We meet on the 4th Tuesday of the month from 2-3pm via Zoom. All are welcome to attend and join the conversation!

Dates for 2022-2023:

Tuesday, August 23, 2022, 2-3 PM - Open Science Team Agreements

Click here to register for August Zoom Meeting

This month, the Bay Area Open Science Group introduces the “Open Science Team Agreement,” a template that research groups can use to discuss, adopt and implement open science practices. Ariel, John, and Sam (the co-hosts of Bay Area Open Science Group) have designed a prototype team agreement (available via Overleaf or Google Docs) and are looking for feedback. Join us to discuss what else should be included, and how team agreements can be used to kickstart conversations on open science. Potential adopters are especially welcome.

Tuesday, September 27, 2022, 2-3 PM - Free Open Access Medical education

Register for September Zoom Meeting

Dana Larsen - UCSF 

This month the Bay Area Open Science Group is learning about engaging with #FOAMed (Free Open Access Medical education): how medical trainees are utilizing online educational resources.

FOAMed, Free Open Access Medical education, describes online resources which are free and generally represent a crowdsourcing of content, such as blogs, microblogs (Twitter), podcasts, and online journal clubs. While FOAMed has been increasing within medical education, limited data exists on how to utilize this tool to supplement existing curriculum in order to fill gaps in trainees' knowledge and stimulate self-directed learning. In this session, Dr. Dana Larsen, principal investigator of a UCSF Innovations Funding in Education study, will discuss her design-based research project seeking to pragmatically build an adjunct curriculum for nephrology fellows using FOAMed resources.

Tuesday, October 25, 2022, 2-3 PM

Shilaan Alzawahi - Stanford (Zoom Registration forthcoming)

Bay Area Open Science Group

Are you interested in making your research more openly available? Want to learn about open science tools and platforms that can make your research more effective and reproducible? The Bay Area Open Science Group is intended to bring together students, faculty, and staff from the Stanford, Berkeley, and UCSF communities to learn about open science, discuss the application of open science practices in a research context, and meet other members of the community who are interested in (or already are) incorporating open science practices into their work.

Meetings:

We meet on the 4th Tuesday of the month from 2-3pm via Zoom. All are welcome to attend and join the conversation!

Dates for 2021-2022:

  • September 28: 
    • Introductions and Open Science Group Discussion
  • October 26: 
    • Join us in October to learn about Curating a COVID-19 Data Repository, a public data repository built by the Yu Group at UC Berkeley to aid community-wide data science efforts in the fight against COVID-19.
      Tiffany Tang, a statistics PhD student in the Yu Group, will be discussing how the project came about, what it was like working in the time pressure situation, and some lessons learned in the process of creating an open-source data repository. We will also have plenty of time for questions and a more general discussion on creating an open-source data repository.
  • November 30: (note, 5th Tuesday instead)

Open peer review is the least practiced aspect of open science. Yet it may teach us a lot about how manuscripts can change from their submitted version to their (peer-revied) published version of record. Mario Malicki will give an overview of 21 studies that analysed manuscript changes and his own study in which I analysed changes between 121 epidemiology preprints and 
their subsequent published versions. Finally, he will present a call for declaring changes to manuscripts with each published paper.

  • December (no meeting)
  • January 25, 2022
  • February 22, 2022
  • March 22, 2022
    • Milo Johnson (https://miloswebsite.com/, starting a post-doc in the Koskella Lab at UC Berkeley this June)

      The linear format of scientific papers is an entrenched, constrained result of history that holds back efficient and effective transmission of information between scientists. Science requires depth, but the reality is that the majority of readers don’t care about the majority of things in a paper. And we know it! At conferences, scientists give 5-minute talks at poster sessions that effectively communicate their work to 95% of their audience, and the other 5% can ask follow-up questions about the details. Can we design a way to write scientific content in a similar way, such that the details are accessible behind a concise narrative? I'll present this idea along with some preliminary technical explorations, and I'll invite y'all to brainstorm with me about how we can make tools to improve communication between scientists!

  • April 26, 2022

    • Gather around virtually with colleagues at Stanford and Berkeley for a presentation on The COVID Tracking Project by Kevin Miller, a former team lead with the project who is archiving the project's data and collections for the UCSF Archives & Special Collections. The project was a volunteer-run, community-science program that became a critical source of national pandemic data accidentally and overnight. He will discuss how it was built, and the challenges of archiving such a massive, born-digital collection.

  • May 24, 2022

    • Join us in May as we get together virtually with colleagues at UCSF and Stanford to hear from the fledgling Open Source Science at Berkeley student organization. They will be introducing their group and seeking feedback for a planned 1-unit course on developing open-source scientific software. Rachel Clune, Orion Cohen, Tarini Hardikar, and Connie Robinson are chemistry graduate students at UC Berkeley. They share an interest in improving the scientific software ecosystem and teaching computational skills to the Berkeley community

  • Tuesday June 28, 2022

    • Examining the Openness of COVID-19-related Randomized Control Trials with John Borghi

Check out our website (https://bayareaopensciencegroup.github.io/) to get on our mailing list, or let us know if you want to present!