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Week 16: Group 3

tags: OLS-2 cohort calls project-leads

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Cohort call

Syllabus : https://openlifesci.org/ols-2/schedule/#week-16

Looking for other Graduation notes? see here: https://hackmd.io/@ols-2/week-16

Project Leads: Register by adding your name below

Name / Project / social handles (twitter, GitHub, etc.) / _emoji mood _

  1. Stephen Klusza/Synthetic Biology Chassis for Public Domain Use/t: @codebiologist/ 🐟
  2. Pradeep Eranti (he/him)/ Open platform for Indian Bioinformatics community / t: @pradeeperanti
  3. Georgia Aitkenhead (she/her) with James Scott/ Autistica/Turing citizen science project/GeorgiaHCA
  4. Beatriz Serrano-Solano (she/her) / Growing the Galaxy Community / t: @Birthae gh: beatrizserrano
  5. Karega Pauline / The-Hub-Portal/ t:@KaregaP /gh: @karegapauline
  6. Neha Moopen + Paul Owoicho / Embedding Accessibility in The Turing Way Open Source Community Guidance / NM t: @NehaMoopen, gh: @nehamoopen + PO t: @ogbonokopaul, gh: paulowoicho
  7. Sangram Keshari Sahu / Practical Guide to Reproducibility in Bioinformatics / gh: @sk-sahu
  8. The OSUM team / Open Science UMontreal / @OSUMontreal / openscience
  9. Tainá Rocha / Global land-use and land-cover (LULC) data under historical, current, and future climatic conditions for ecologists /github (Tai-Rocha) twitter (@Tai_Rocha_).
  10. Sebastian Eggert / OpenWorkstation - Empowering Bench Scientists to Develop Customizable and Accessible Lab Automation

Guests, colleagues, and friends of OLS

Name / Project / social handles (twitter, GitHub, etc.) / _emoji mood _

  • Sarah Gibson / The Alan Turing Institute / t: @drsarahlgibson, gh: @sgibson91 / :D
  • Lena Karvovskaya @langdata 👏
  • Yvan Le Bras / French museum of natural history / PNDB french biodiversity e-infrastructure / @Yvan2935
  • Samuel Guay
  • Renato Alves / EMBL Bio-IT / t:@renato_alvs gh:@unode
  • Hans-Rudolf Hotz / Friedrich Miescher Institute / @hrhotz
  • Piv Gopalasingam / EMBL-EBI / t:@cascade21, gh:@PivG
  • Jez Cope / The British Library / @jezcope
  • Stephen Klusza/Synthetic Biology Chassis for Open Domain Use/t: @codebiologist
  • David Opoku / Growing Gold Farms / @sdopoku
  • Meag Doherty / AllofUs Research Program / t: @emdohh

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Welcome

Hosts: Bérénice, Malvika, Yo, Emmy

  • Please note that this call will be streamed on the OLS YouTube channel
  • Turn on your webcam if you don’t mind sharing your face (or off if you do!)

Icebreaker question: What was your favourite pastime when you were 1o, and is it something you still do?

  • Name / answer
  • Yo / reading / and YES, READING 4 EVA 📚📚📚📚📚 +1
    • +1000000
    • yesss!
  • Malvika / sketching I still do it sometimes!
  • Lena/reading books - I still do it but much much less :-(
  • Renato / doing weird ramps to then jump over with a MTX bike
  • Georgia / making up weird languages with my sister usually involving animal symbols - yep, still do it! 🐑
    • Ahh! That’s true!
  • Paul / Playing video games + watching cartoons. I still do it! +1(piv)
  • Stephen / read lots of fiction books/now I read pseudoscience papers for fiction
  • Neha / probably just reading :) I struggle to keep up with books nowadays, but generally reading is <3 +1(lena) +1(piv)
  • Sebastian / skiing
  • Piv / building stuff with lego. I don’t do it anymore, but hopefully this holiday I’ll be able to pick it up again.
  • Martina / reading / yes!

🖥 Project Presentations

Emmy (⏰ 3 min)

Presenters will add their info in the following format

  1. Stephen Klusza/Synthetic Biology Chassis for Public Domain Use/t: @codebiologist/ 🐟
    • Links
    • Where can others help?
    • Questions / Comments from the audience?
      • Wow, what a well-explained intro! I feel like I genuinely understand synthetic biology better as the intro was so approachable.
      • Stephen - Thank you for the kind words!
      • love the analogy between smart phones and bacteria
      • Very happy that this analogy resonated for you!
      • I love that synbio and plasmid repositories have a possibility of involving more people (particularly non-traditional “scientists”) into research - but there are also concerns that they may be used for malicious intent…. I wonder what your thoughts are on this?
        • Stephen: Excellent question. The work in this project will be place with Open MTA license which makes these reagents freely available with underlying conditions including using only for the benefit for humanity. That in itself is not enough but fortunately if you want to build new parts, you need to clone the gene or get it synthesized. Any sequences sent to reputable companies are screened to ensure that the products will not create harmful reagents. It’s still not 100% effective, but it makes it very difficult to do so under the present circumstances. I hope this helps answer your question!
        • Thank you Stephen - yes! It’s good to know that there are some screening steps in place. I guess every coin has two sides, it’s better to open it up and learn and adjust - great work!
      • Questions / Comment
  2. Pradeep Eranti (he/him)/ Open platform for Indian Bioinformatics community / t: @pradeeperanti
    • Links:
    • Where can others help?
    • Questions / Comments from the audience?
      • I love that you rose to the challenge when faced with the difficulties from covid, and that you created a community survey to really understand stakeholders! 70 respondents is AMAZING too!
        • Pradeep: Thank you!
      • Great idea, I love seeing these kinds of initiatives! Have you connected with APBioNet? They may have contacts you can link with.
        • Pradeep: I am planning to connect with them soon as soon as the website is ready.
      • This is such a valuable dataset! Esp that you have respondents from different regions of India too +1+1
      • Can’t wait to see the website in 2021!!! 🙌🙌🙌
        * Thanks for the interest, I shall update the community once it is ready.
  3. Georgia Aitkenhead (she/her)/ Autistica/Turing citizen science project/GeorgiaHCA
    • Links
    • Where can others help?
    • Questions / Comments from the audience?
      • Hearing about all of the hands-on citizen involvement is amazing
      • Yay hidden REF!
      • Such clever collab w/ hidden REF - and “Lived experience” is such an important, under-acknowledged category of contributors
      • Questions / Comment
      • SO HAPPY to hear you onboarded a contributor!!
        • Thank you! There were actually a few new contributors who had different interests, it was good to have a clear visual.
      • I would LOVE to learn how you build such a participatory project in terms of processes, managing group dynamics and expectations. +1(piv)
        • Thanks! There’s a whole lot of complexity to this - but definitely being prepared to listen is important, and respect difference. Actually there’s a lot of info about this on the repository as all the study protocols are openly available there,
  4. Beatriz Serrano-Solano (she/her) / Growing the Galaxy Community / t: @Birthae gh: beatrizserrano
    • Links
    • Where can others help?
    • Questions / Comments from the audience?
      • Really happy to see the Galaxy community evolving and growing and super glad to see it’s in great hands, Bea
      • It’s great to see how you went in as a new community manager and take the existing initiatives further and with your own spin :) +1
      • “Paper cuts” is such a great clear name!+1(piv)
  5. Karega Pauline / The-Hub-Portal/ t:@KaregaP /gh: @karegapauline
  6. Neha Moopen + Paul Owoicho / Embedding Accessibility in The Turing Way Open Source Community Guidance / NM t: @NehaMoopen, gh: @nehamoopen + PO t: @ogbonokopaul, gh: paulowoicho
  7. Sangram Keshari Sahu / Practical Guide to Reproducibility in Bioinformatics / gh: @sk-sahu
    • Links https://github.com/sk-sahu/PGRB
    • Where can others help? https://github.com/sk-sahu/PGRB
    • Questions / Comments from the audience?
      • I was telling my mum about the reproducibility crisis in biology, i’m DEFINITELY going to tell her there are projects like yours trying to fix it!!
      • Great progress!! Also lovely to see that you’ll be cross-referencing existing material - but still build this for your local community
      • Questions / Comment
  8. The OSUM team / Open Science UMontreal / @OSUMontreal / openscience
    • https://osumontreal.github.io/ soon-to be https://openscience.ca/
    • Where can others help?
    • Questions / Comments from the audience?
      • Making resources available in many languages is so important and French is such a huge one - so happy to see this! +1
      • It just struck my how many open science terminology (at least to my small sphere of knowledge) are English based - e.g. FAIR, how would that look in French?
        1. Facilement trouvable - Accessible - Interopérable - Réutilisable ;)
        1. We mostly try to match acronym most of the time.
        2. But tbh, many words are hard to define and often add another layer of abstraction…
        • Maybe someone can launch OLS-francophone one day (and portuguese and spanish?!) +1+1
          2. Let’s launch the MOLS, Multilingual OLS.
          3. MultilinguOLS +1
      • Questions / Comment
  9. Tainá Rocha / Global land-use and land-cover (LULC) data under historical, current, and future climatic conditions for ecologists /github (Tai-Rocha) twitter (@Tai_Rocha_).
    • Links
    • Where can others help?
    • Questions / Comments from the audience?
      • This looks like incredibly important work! I would love to see more non-specialists access and make use of this work!
      • Optimising scripts: it’s one of those tasks I think you can always do more and is hard to say “it’s done” - good luck! +100
      • This is incredibly important for everyone to see and access this data. Excellent job!
      • Such impressive and important work for the world, you’ve amazed me with how much one person can achieve
  10. Sebastian Eggert / OpenWorkstation - Empowering Bench Scientists to Develop Customizable and Accessible Lab Automation
    • Links
    • Where can others help?
    • Questions / Comments from the audience?
      • Who’d have thought that science can be boring hands-on labour ;) yay for high throughput machines!
        • I kind of missed the hands-on manual downtime…. But rather irreproducible ): I love how you’ve taken the problem on your own hands!
      • Questions / Comment
      • Science wasn’t doing what I needed… so I built my own platform YESSSSSSSSSS 💪💪💪
        • So cool, the stuff of sci-fi!
      • “Democratize access to laboratory automation”!!! +100
      • Just looked at your GH repo- WOW the clarity of that documentation, thank youuuu for building and sharing all this knowledge
      • Users are not devs - important realisation but I bet it can take time!
      • This looks like an amazing resource - def useful to me to check out your GitHub :)

🗣️ Closing

Feedback

What worked?

What didn’t work?

What would you change?

What surprised you?

Reference: Open leadership Framework, Mozilla Open Leaders 6 & 7, Open Life Science 1

License: CC BY 4.0, Open Life Science (OLS-2), 2020

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