Welcome to the 2nd cohort of OLS program!

Niklas Morberg (CC BY-NC 2.0)

The OLS-2 program

Purpose: Training for early stage researchers and young leaders interested in furthering their Open Science skills

Outcome: Ambassadors for Open Science practice, training and education across multiple European and international bioinformatics communities.

Process: A 16-week mentoring & training program, based on the Mozilla Open Leader program, helping participants in becoming Open Science ambassadors by using three principles:

  1. Sharing essential knowledge required to create, lead, and sustain an Open Science project.
  2. Connecting members across different communities, backgrounds, and identities by creating space in this program for them to share their experiences and expertise.
  3. Empowering them to become effective Open Science ambassadors in their communities.

Goals and Learning Objectives

The vision of Open Life Science program is to strengthen Open Science skills for early stage researchers and young leaders in life science.

At the end of the program, our participants will be able to:

  • Describe and define the terms openness, open science, open leadership, community interactions, value exchanges, inclusivity, accessibility, open Science practices in developing resources and training
  • Learn how to apply those principles to open leadership and working open in their projects and communities . Learn how to collect, invite, and tell stories that demonstrate how and why openness benefits the communities they serve
  • Give original examples for the types of openness in science
  • Design
    • Illustrate the need for a project, its vision, and its goals
    • Embrace and communicate the benefits of Open Science and how to strategically apply different open practices to their work
    • Identify the public resources to share their data
    • Identify the different type of Open Access and associated journals
  • Build
    • Start any project with openness in mind from day one
    • Setup a project repository on GitHub using best practices for enabling collaboration
    • Choose and apply open licenses appropriately
  • Empower
    • Create and enforce a safe working environment
    • Promote the values of Open Science to empower others to lead and collaborate
    • Include a broad range of contributors in their work
    • Communicate their work and vision in a 2min demo of elevator pitch
  • Lead an open project in science

Timeline

OLS’s second cohort (OLS-2) will be conducted from September 2020 until December 2020.

  • May 20, 2020 : Opening of the applications on Easychair

    We have templates you can download to use when preparing your application.

  • June 12, 2020 : Application webinar( Talk + Q&A) - Notes with Zoom call link

  • June 23, 2020 : Application webinar( Recording + Q&A) - Notes with Zoom call link

  • June 30, 2020 : Closing of the applications on Easychair for main cohort applications

  • July 15, 2020 : Closing of the applications on Easychair for the collaborating organisations - The Turing Way

  • July 24, 2020 : Call for applications closed

  • July 24, 2020 : Successful applicants announced

  • August 31, 2020: Start of the program

  • December 14, 2020: End of the program

Schedule

During the program,

  • Mentors and mentees meet every 2 weeks for a 30 minutes call
  • Mentees participate every ~2 weeks to 90-minutes cohort calls during which the program leaders introduce new topics and resources, facilitate break-out discussions, and invite expert from the field to give talks
  • Mentees can participate to skill-up, Q&A or coworking session in the weeks without cohort calls
  • Mentors take part to mentoring workshop and calls

Organizers will inform participants of the week schedule by email.

Subscribe to the OLS calendar

Week Call Date Topic Agenda
Week 01 (start. August 31, 2020) Mentor-Mentee   Meet your mentor! Meet each other and discuss your personal motivation, expectations, working practices and project goals
  Mentor September 1, 2020 (16:00 Universal Time) Mentor training  
  Mentor September 4, 2020 (11:30 Universal Time) Mentor training  
Week 02 (start. September 07, 2020) Mentor September 8, 2020 (09:00 Universal Time) Mentoring workshop  
  Mentor September 8, 2020 (16:00 Universal Time) Mentoring workshop  
  Cohort September 10, 2020 (08:00 Universal Time) Welcome to Open Life Science! Meet other members of your cohort, Share project vision, Intro to working openly (open canvas)
Week 03 (start. September 14, 2020) Mentor-Mentee   Meet your mentor! Discuss assignments from the cohort call & concrete implementations
  Coworking September 17, 2020 (15:00 Universal Time) Coworking on assignments, knowledge exchange and networking  
Week 04 (start. September 21, 2020) Cohort September 24, 2020 (16:30 Universal Time) Tooling and roadmapping for Open projects Working with GitHub as a community hub: Markdown as a tool to make websites, Licence, Goals and Roadmap, Contributors, Code of Conduct
Week 05 (start. September 28, 2020) Mentor-Mentee   Meet your mentor!  
  Coworking October 01, 2020 (15:00 Universal Time) Coworking on assignments, knowledge exchange and networking  
  Cohort October 01, 2020 (11:30 Universal Time) Skill-up: GitHub tutorial for beginners  
  Skill-up October 01, 2020 (11:30 Universal Time) GitHub tutorial for beginners  
Week 06 (start. October 05, 2020) Cohort October 08, 2020 (08:00 Universal Time) Open Science I: Project Development Developing Open Projects: Iterative and agile project management, Open- Source, Software, Hardware, Data
Week 07 (start. October 12, 2020) Mentor-Mentee   Meet your mentor!  
  Coworking October 12, 2020 (10:00 Universal Time) Coworking on assignments, knowledge exchange and networking  
  Mentor   Mentor training  
Week 08 (start. October 19, 2020) Cohort October 22, 2020 (16:30 Universal Time) Open Science II: Knowledge Dissemination Sharing Open Project: Preprint publications, DOI and citation, Open protocols, Open Education & Training
Week 09 (start. October 26, 2020) Mentor-Mentee   Meet your mentor!  
  Coworking October 29, 2020 Coworking on assignments, knowledge exchange and networking  
  Skill-up October 29, 2020 (15:00 Universal Time) Personal Ecology and Ally Skills  
Week 10 (start. November 02, 2020) Cohort November 05, 2020 (09:00 Universal Time) Open Science III: Next steps - applying FAIR research principles FAIRification of existing or mature projects, etc
Week 11 (start. November 09, 2020) Mentor-Mentee   Meet your mentor!  
Week 12 (start. November 16, 2020) Cohort November 19, 2020 (17:30 Universal Time) Open Leadership: Academia, industry and beyond!  
Week 13 (start. November 23, 2020) Mentor-Mentee   Meet your mentor!  
  Cohort November 26, 2020 (14:00 Universal Time) Pub Quiz!  
  Skill-up October 26, 2020 (14:00 Universal Time) Pub Quiz!  
Week 14 (start. November 30, 2020) Cohort December 03, 2020 (09:00 Universal Time) Designing & Empowering for inclusivity  
Week 15 (start. December 07, 2020) Mentor-Mentee   Meet your mentor! Preparation for the final demos
  Cohort December 10, 2020 (09:00 Universal Time) Final presentation rehearsal - Group 1  
  Cohort December 10, 2020 (17:30 Universal Time) Final presentation rehearsal - Group 2  
Week 16 (start. December 14, 2020) Cohort December 15, 2020 (09:00 Universal Time) Final presentations & Graduation! - Group 1 5-minute demos of projects (Audience: entire community & public, Open and recorded call)
  Cohort December 16, 2020 (14:00 Universal Time) Final presentations & Graduation! - Group 2 5-minute demos of projects (Audience: entire community & public, Open and recorded call)
  Cohort December 17, 2020 (17:30 Universal Time) Final presentations & Graduation! - Group 3 5-minute demos of projects (Audience: entire community & public, Open and recorded call)

Role Descriptions

Project leads (aka Mentees)

Participants join this program with a project that they either are already working on or want to develop during this program. More details about the role of a project lead (mentee) can be found here.

For the second round of the Open Life Science program, we welcome 52 participants with 32 projects.

Mentors

Our project leads are supported in this program by our mentor-community who are paired based on the compatibility of expertise, interests and requirements of their projects. Our mentors are Open Science practitioners and champions with previous experiences in training and mentoring. They are currently working in different professions in data science, publishing, community building, software development, clinical studies, industries, scientific training and IT services.

Mentors advise and inspire

  • Connect: to people, programs, companies
  • Recommend: resources, readings, classes, experiences
  • Feedback: for the project leads to consider
The GitHub avatar of

Aidan Budd

Pronouns: he/him
@aidanbudd

Embo Solutions Gmbh

Expertise:
Community building

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The GitHub avatar of

Andrew Stewart

Pronouns: he/him
@ajstewart_lang

University Of Manchester

Expertise:
Open research, Reproducibility, Psychology

More about Andrew

The GitHub avatar of

Anelda van der Walt

Pronouns: she/her
@aneldavdw

Talarify and RSSE Africa

Expertise:
Community building

More about Anelda

The GitHub avatar of

Anita Bröllochs

Pronouns: she/her
@AnitaBroellochs

Protocols.io

Expertise:
Open method sharing, Best practices for writing protocols, Reproducibility, Podcasting, Social media, Webinars, protocols.io which covers a large diversity of life science topics

More about Anita

The GitHub avatar of

Anjali Mazumder

Pronouns: she/her

Alan Turing Institute

Expertise:
Data Science, Ethics, Human Right, Statistics, Law, Data science informed decision-making in policy

More about Anjali

The GitHub avatar of

Arielle Bennett

Pronouns: she/her
@biotechchat

The Alan Turing Institute

Expertise:
Road mapping and strategy planning, Community consultation, Culture change, Code of conducts, Community goals, Drug discovery, Computational biology, Neuroscience.

More about Arielle

The GitHub avatar of

Bruno Soares

Pronouns: He/Him
@Bruno_E_Soares

Universidade Federal Do Rio De Janeiro

Expertise:
SciComm, Community building, Open Data, Biodiversity

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The GitHub avatar of

Delphine Lariviere

Pronouns: She/her
@ddlariviere

Penn State University

Expertise:
Genomics, Epigenetics, Galaxy

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Holger Dinkel

Pronouns: he/him

Expertise:
Programming (Python), Version control (git), Web services (REST), Anti-procrastination, Protein biology, Bioinformatics, Disorder motifs

More about Holger

The GitHub avatar of

Hans-Rudolf Hotz

@hrhotz

Friedrich Miescher Institute For Biomedical Research

Expertise:
Galaxy, Bioconductor, PostgreSQL, Bioinformatics, Next Generation Sequencing

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The GitHub avatar of

Ivo Jimenez

Pronouns: he/him
@ivotron

Uc Santa Cruz

Expertise:
Computer Science, Open infrastructure for science, DevOps for science, Best software delivery practices applied in scientific contexts

More about Ivo

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Jez Cope

Pronouns: he/him
@jezcope

The British Library

Expertise:
Research data management, Digital scholarship, Libraries, Open research, Open data, Open scholarship, Open science, Research software engineering practice, Neurodiversity, Glam

More about Jez

The GitHub avatar of

Lena Karvovskaya

Pronouns: She/her
@Langdata

Vu Amsterdam

Expertise:
Community management, Rdm, Open science

More about Lena

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Caleb Kibet

Pronouns: he/him
@calkibet

Expertise:
Community building, Reproducibility, Computational Biology, Regulatory Genomics

More about Caleb

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Katharina Lauer

Pronouns: she/her
@lauerkatharina

Elixir

Expertise:
Infectious diseases, Data driven life sciences, Entrepreneurship, Strategy, External relations

More about Katharina

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Lilian Juma

Pronouns: she/her

Information Training and Outreach Centre for Africa

The GitHub avatar of

Lorena Pantano

Pronouns: she/her
@lopantano

CRG, Barcelona

Expertise:
Genomic, Transcriptomic, Python, Visualization, Gene editing, Xenotransplantation, Health science

More about Lorena

The GitHub avatar of

Luis Pedro Coelho

Pronouns: he/them
@luispedrocoelho

Fudan University

Expertise:
Microbiome, Computational biology

More about Luis Pedro

The GitHub avatar of

Mallory Freeberg

Pronouns: she/her
@MalloryFreeberg

Embl European Bioinformatics Institute

Expertise:
Metadata; fair principles; post-transcriptional gene regulation; ontologies; project management; data management; bioinformatics; galaxy; github; human genomics; sensitive data sharing

More about Mallory

The GitHub avatar of

Malvika Sharan

Pronouns: she/her
@malvikasharan

The Alan Turing Institute

Role in OLS: Director of Partnerships and Strategy

Expertise:
Community building, Mentoring, Data Science best practices, Reproducibility, Inclusive and collaborative practices, Python, Version Control, Funding Proposals, Bioinformatics, Algorithm design

More about Malvika

The GitHub avatar of

Martina Vilas

Pronouns: She/her
@martinagvilas

Max-Planck-Institute Ae

Expertise:
Open source, Open source documentation, Open infrastructure, Open science communities, Version control, Computational Modeling, Machine learning, Neuroimaging, Neuroscience

More about Martina

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Meag Doherty

Pronouns: she/her
@emdohh

Expertise:
Product strategy, Go to market, User research

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Mesfin Diro

Pronouns: he/him
@mesfindiro

Addis Ababa University

Expertise:
Data science, Machine Learning, HPC, Nanotechnology, Bioinformatics

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The GitHub avatar of

Markus Löning

Pronouns: he/him
@mm_loening

University College London

Expertise:
Git, GitHub, Software development, Python, Continuous integration, Unit testing, Machine learning, Packaging/distribution, Applied machine learning projects in biochemical engineering, health and agricultural research

More about Markus

The GitHub avatar of

Naomi Penfold

Pronouns: she/her/they/them
@npscience

Science Practice, Uk

Expertise:
Grantsmaking, Design thinking, Participatory research, Community building

More about Naomi

The GitHub avatar of

Patricia Herterich

Pronouns: she/her
@pherterich

Dcc, University Of Edinburgh

Role in OLS: Fellowship and Finance Manager

Expertise:
Research data management, Fair data, Collaboration, Library and archiving skills, Open science and community

More about Patricia

The GitHub avatar of

Piraveen Gopalasingam

Pronouns: he/him
@cascade21

Embl-Ebi (European Bioinformatics Institute)

Expertise:
Education, Training, Course design, Course delivery, Science communication

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Raniere Silva

Pronouns: he/him
@rgaiacs

Expertise:
GitHub/GitLab, License, Community, Teaching, Machine Learning, X-rays

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Samuel Guay

Pronouns: he/him
@SamGuay_

Université de Montréal

Expertise:
Open Science, Building website with Hugo, Reproducible reports, Clinical neuroscience

More about Samuel

The GitHub avatar of

David Selassie Opoku

Pronouns: he/him
@sdopoku

Expertise:
Open data, Low-income/low-tech data skills and resource design, Accessible data skills and resources in low-income contexts.

More about David

The GitHub avatar of

Sarah Gibson

Pronouns: she/her
@drsarahlgibson

The Alan Turing Institute

Expertise:
Reproducibility, Cloud infrastructure, Open source, Community building, Continuous integration

More about Sarah

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Dave Clements

Pronouns: he/him
@tnabtaf

Galaxy Project, Johns Hopkins University

Expertise:
Community outreach, Training, Imposter Syndrome, Data analysis and integration

More about Dave

The GitHub avatar of

Sonika Tyagi

Pronouns: she/her
@tsonika

Monash University Melbourne

Expertise:
Genomics, Machine learning, Data Science, Computational Epigenomics, Transcriptomics

More about Sonika

The GitHub avatar of

Renato Alves

Pronouns: he/him
@renato_alvs

European Molecular Biology Laboratory (EMBL)

Expertise:
Full-stack developer, Computational Training, Reproducibility, Computational biology, Metagenomics, Meta-transcriptomics

More about Renato

The GitHub avatar of

Yo Yehudi

Pronouns: they/them
@yoyehudi

Role in OLS: Executive Director, Business and Development Lead

Expertise:
Software development, Community building, Mentoring

More about Yo

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Yvan Le Bras

Pronouns: He
@Yvan2935

French Museum Of Natural History

Expertise:
Ecology, Data management, Data analysis

More about Yvan

Mentoring training

Mentorship roles can sound like a big personal responsibility and can be overwhelming for new mentors. To support our mentors in this program, we will offer training, topic-based guided discussions and opportunity for social interaction over 4 calls during the mentorship round:

  • 2 training calls in the beginning of the cohort to get participants trained and prepared for their role as mentors
  • 1 catch-up call in the middle of the cohort to discuss new topics and challenges that might have occurred and address them
  • 1 call at the end to capture experiences of mentors and assess their interest in future cohorts
  • Social and co-working calls schedule will be agreed among the mentors as per their needs and interests

In the mentor training, our mentors will then gain mentoring skills (active listening, effective questioning, giving feedback), learn to celebrate successes and gain confidence on navigating challenges in mentoring.

A dedicated slack channel will facilitate open discussions among mentors to help them discuss their experiences, challenges and tips and tricks (contact the team if you are not yet on this channel).

Experts

Experts are invited to join cohort calls or individual mentorship calls to share their experience and expertise during the program.

The GitHub avatar of

Athina Tzovara

Pronouns: she/her
@aath0

Expertise:
Machine Learning, Statistics, Python programming, Neuroscience

More about Athina

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Alejandra Gonzalez-Beltran

@alegonbel

Expertise:
Software Engineering, Data Management, Data and Software Publication and Citation, Semantic Web / Linked Data, Research Reproducbility

More about Alejandra

The GitHub avatar of

Aidan Budd

Pronouns: he/him
@aidanbudd

Embo Solutions Gmbh

Expertise:
Community building

More about Aidan

The GitHub avatar of

Andrew Stewart

Pronouns: he/him
@ajstewart_lang

University Of Manchester

Expertise:
Open research, Reproducibility, Psychology

More about Andrew

The GitHub avatar of

Alex Chan

Pronouns: they/she
@alexwlchan

Wellcome Collection

The GitHub avatar of

Aleksandra Nenadic

Pronouns: she/her/hers
@aleks_nenadic

University Of Manchester

Expertise:
Open and reproducible research best practices, Training and teaching tech to researchers, Pedagogical approaches to instructor training and curricula development

More about Aleksandra

The GitHub avatar of

Anita Bröllochs

Pronouns: she/her
@AnitaBroellochs

Protocols.io

Expertise:
Open method sharing, Best practices for writing protocols, Reproducibility, Podcasting, Social media, Webinars, protocols.io which covers a large diversity of life science topics

More about Anita

The GitHub avatar of

Arielle Bennett

Pronouns: she/her
@biotechchat

The Alan Turing Institute

Expertise:
Road mapping and strategy planning, Community consultation, Culture change, Code of conducts, Community goals, Drug discovery, Computational biology, Neuroscience.

More about Arielle

The GitHub avatar of

Beth Duckles

Pronouns: she, her
@bduckles

Insightful, Llc

Expertise:
Social science, Qualitative research, Sustainability, Standards, Mixed methods, Post academics

More about Beth

The GitHub avatar of

Bérénice Batut

Pronouns: she/her
@bebatut

University of Freiburg

Role in OLS: Director of Learning and Technology

Expertise:
Galaxy, Galaxy training, Citizen science, Bioinformatics, High-throughput sequencing, Metagenomics, Wordpress, Jekyll, GitHub/GitLab Pages, Designing and developing training material, Collaborating with Git & GitHub/GitLab, Git, GitHub, GitLab, Publishing web content

More about Bérénice

The GitHub avatar of

Björn Grüning

Pronouns: he/him
@bjoerngruening

Expertise:
Containers, Conda, Galaxy, Python, Training, Reproducible research, Cheminformatics, Genome annotation, High-Throughput-Screening, Epigenetics

More about Björn

The GitHub avatar of

Melissa Burke

Pronouns: She/Her
@burkemlou

Australian Biocommons

Expertise:
Training, FAIR training materials, Bioinformatics, Life Science, eLearning, Webinar and workshop development, Functional genomics, Parasitology

More about Melissa

The GitHub avatar of

Cassandra Gould Van Praag

Pronouns: she/her
@cassgvp

University Of Oxford

Expertise:
Neuroimaging, Community, Edi, Champions/ambassadors programme, Data sharing, Incentives/reward, Academia-to-professional services transition / research adjacent roles, Transparent and inclusive leadership.

More about Cassandra

The GitHub avatar of

Chiara Bertipaglia

Pronouns: she/her
@ChiaBertipaglia

Columbia University | Zuckerman Institute

Expertise:
Neuroscience
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Christine Rogers

Pronouns: she/her
@xtinerogers

Mcgill University

Expertise:
Neuroinformatics, Open science, Open source, Research software

More about Christine

The GitHub avatar of

Daniela Saderi

Pronouns: she/her
@Neurosarda

Expertise:
Open scholarship, Community organizing, Research, leadership, Neuroscience

More about Daniela

The GitHub avatar of

Demitra Ellina

Pronouns: She/her
@j_ellina

F1000Research

Expertise:
Open science, Open research, Open access, Open peer review, Preprints

More about Demitra

The GitHub avatar of

Emmy Tsang

Pronouns: she/her
@emmy_ft

Role in OLS: Director of Finance and Operations

Expertise:
Community strategies, Open research

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Fotis Psomopoulos

Pronouns: he/him
@fopsom

Institute Of Applied Biosciences, Centre For Research And Technology Hellas

Expertise:
Bioinformatics, Machine learning, Training

More about Fotis

The GitHub avatar of

Bastian Greshake Tzovaras

Pronouns: he/him
@gedankenstuecke

Center For Research & Interdisciplinarity

Expertise:
Bioinformatics, Citizen science, Web development, Python, Personal data, Community management

More about Bastian

The GitHub avatar of

Gracielle Higino

Pronouns: She/her
@graciellehigino

University Of British Columbia

Expertise:
Reproducibility, Open data, Data management, Collaboration, Data synthesis, Science communication, Ecology, Biodiversity

More about Gracielle

The GitHub avatar of

Hao Ye

Pronouns: he/him
@Hao_and_Y

University of Pennsylvania / Community for Rigor

Expertise:
Ecology, Health sciences, R, Git and github, Version control, Time series analysis, Research reproducibility, Community management, Ally skills training

More about Hao

The GitHub avatar of

Holger Dinkel

Pronouns: he/him

Expertise:
Programming (Python), Version control (git), Web services (REST), Anti-procrastination, Protein biology, Bioinformatics, Disorder motifs

More about Holger

The GitHub avatar of

Jason Williams

Pronouns: he/him
@JasonWilliamsNY

Expertise:
Education and training, Life Science Education, Management and leadership, Bioinformatics, Molecular biology

More about Jason

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Julien Colomb

Pronouns: he/his
@j_colomb

Hu Berlin

Expertise:
Neurobiology

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Jez Cope

Pronouns: he/him
@jezcope

The British Library

Expertise:
Research data management, Digital scholarship, Libraries, Open research, Open data, Open scholarship, Open science, Research software engineering practice, Neurodiversity, Glam

More about Jez

The GitHub avatar of

Kari L. Jordan

Pronouns: she/her
@drkariljordan

Expertise:
Equity and Inclusion, Assessment, Strategic Planning, Project Planning, Public speaking, Leadership

More about Kari

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Katharina Lauer

Pronouns: she/her
@lauerkatharina

Elixir

Expertise:
Infectious diseases, Data driven life sciences, Entrepreneurship, Strategy, External relations

More about Katharina

The GitHub avatar of

Caleb Kibet

Pronouns: he/him
@calkibet

Expertise:
Community building, Reproducibility, Computational Biology, Regulatory Genomics

More about Caleb

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Kirstie Whitaker

Pronouns: she/her
@kirstie_j

Expertise:
Open research, Reproducibility, Community building, Citizen science, Equity and inclusion, Human brain imaging (neuroscience)

More about Kirstie

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Lena Karvovskaya

Pronouns: She/her
@Langdata

Vu Amsterdam

Expertise:
Community management, Rdm, Open science

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Laura Ación

Pronouns: she/ella
@_lacion_

MetaDocencia

Expertise:
Ethics in artificial intelligence, Health data science, Responsible use of data, Latin america, Open education, Community building

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Luis Pedro Coelho

Pronouns: he/them
@luispedrocoelho

Fudan University

Expertise:
Microbiome, Computational biology

More about Luis Pedro

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Lilly Winfree

Pronouns: she/her
@lilscientista

Open Knowledge Foundation

Expertise:
Project management, Open source, Open data, Open science, Data management, Project communications, Giving presentations, Writing documentation, Working with a distributed team, Neuroscience

More about Lilly

The GitHub avatar of

Malvika Sharan

Pronouns: she/her
@malvikasharan

The Alan Turing Institute

Role in OLS: Director of Partnerships and Strategy

Expertise:
Community building, Mentoring, Data Science best practices, Reproducibility, Inclusive and collaborative practices, Python, Version Control, Funding Proposals, Bioinformatics, Algorithm design

More about Malvika

The GitHub avatar of

Martin Čech

Pronouns: he/him

Expertise:
Galaxy project, Software development, Reproducibility, Computational infrastructure, Computer science, DNA sequencing, Multi-omics, Frameworks behind the software aspects of the science.

More about Martin

The GitHub avatar of

Martina Vilas

Pronouns: She/her
@martinagvilas

Max-Planck-Institute Ae

Expertise:
Open source, Open source documentation, Open infrastructure, Open science communities, Version control, Computational Modeling, Machine learning, Neuroimaging, Neuroscience

More about Martina

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Maria Doyle

Pronouns: she/her

Peter MacCallum Cancer Centre

Expertise:
Training material, Documentation, Cancer research

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Meag Doherty

Pronouns: she/her
@emdohh

Expertise:
Product strategy, Go to market, User research

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Mateusz Kuzak

Pronouns: he/him
@matkuzak

Expertise:
Training, Open research software, Community building

More about Mateusz

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Nikolaos Nerantzis

Pronouns: he/him
@nerantzis

Expertise:
Inclusion, Accessibility, Teaching and education

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Nicolás Palopoli

Pronouns: Él/He/Him
@npalopoli

Universidad Nacional De Quilmes & Conicet

Expertise:
Bioinformática, Ciencia abierta, Educación, Bioinformatics, Open science, Education

More about Nicolás

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Naomi Penfold

Pronouns: she/her/they/them
@npscience

Science Practice, Uk

Expertise:
Grantsmaking, Design thinking, Participatory research, Community building

More about Naomi

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Paula Andrea Martinez

Pronouns: she/her

Expertise:
Biomedical, Bioinformatics, Training and skill-building, Open Science

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Paul Villoutreix

Pronouns: he/him
@paulvilloutreix

Expertise:
Machine learning, Microscopy, Transcriptomics, Applied mathematics, Graph based modelling, Developmental biology, Transcriptomics, Microscopy imaging data analysis

More about Paul

The GitHub avatar of

Patricia Herterich

Pronouns: she/her
@pherterich

Dcc, University Of Edinburgh

Role in OLS: Fellowship and Finance Manager

Expertise:
Research data management, Fair data, Collaboration, Library and archiving skills, Open science and community

More about Patricia

The GitHub avatar of

Giuseppe Profiti

Pronouns: he/him/his
@GProfiti

Biodec S.R.L

Expertise:
Teaching, Devops, Software development, Bioinformatics, Wiki*, Carpentries, Communities, Databases, Reproducible science

More about Giuseppe

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Rachael Ainsworth

Pronouns: she/her
@rachaelevelyn

Software Sustainability Institute

Expertise:
Astrophysics, Open Science/Research, Reproducibility, Community building, Organising events, Virtual events, GitHub

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The GitHub avatar of

Raniere Silva

Pronouns: he/him
@rgaiacs

Expertise:
GitHub/GitLab, License, Community, Teaching, Machine Learning, X-rays

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Ross Mounce

Pronouns: he/him

Expertise:
Policy, Legal aspects of text and data mining, Taxonomy & Nomenclature, Systematics & Palaeontology

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Renato Augusto Correa Dos Santos

Pronouns: He
@CorreaSantosRA

Changing From Unicamp To Another Institution (Post-Doc)

Expertise:
Bioinformatics, Genomics, Transcriptomics, Omics, Education

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David Selassie Opoku

Pronouns: he/him
@sdopoku

Expertise:
Open data, Low-income/low-tech data skills and resource design, Accessible data skills and resources in low-income contexts.

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Sarah Gibson

Pronouns: she/her
@drsarahlgibson

The Alan Turing Institute

Expertise:
Reproducibility, Cloud infrastructure, Open source, Community building, Continuous integration

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Sofia Kirke Forslund

Pronouns: she/her
@inanna_nalytica

Expertise:
Computational biology, Leadership, Bioinformatics, Multi-omics, Microbiome, Systems medicine, Host-microbiome health associations, Drug mediation/effects, Antibiotic resistance, Microbiome-immune interactions, Disease biomarkers...

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Julieta Arancio

Pronouns: She/her
@cassandreces

University Of Bath & Drexel University

Expertise:
Open science hardware, Sti policy, Open educational resources

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Tomas Klingström

Pronouns: he/him

Swedish University of Agricultural Sciences

Expertise:
Bioinformatics, Figuring out the social aspects of collaborations, Thinking about stakeholder needs, Bioinformatics, Biobanking, Ethics, Cattle genomics

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Dave Clements

Pronouns: he/him
@tnabtaf

Galaxy Project, Johns Hopkins University

Expertise:
Community outreach, Training, Imposter Syndrome, Data analysis and integration

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Toby Hodges

Pronouns: he/him
@tbyhdgs

The Carpentries

Expertise:
Designing and developing training material, Collaborating with git & github/gitlab, Publishing web content, Wordpress, Jekyll, Github/gitlab pages, Scientific community engagement, Teaching and organising workshops

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Sonika Tyagi

Pronouns: she/her
@tsonika

Monash University Melbourne

Expertise:
Genomics, Machine learning, Data Science, Computational Epigenomics, Transcriptomics

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Renato Alves

Pronouns: he/him
@renato_alvs

European Molecular Biology Laboratory (EMBL)

Expertise:
Full-stack developer, Computational Training, Reproducibility, Computational biology, Metagenomics, Meta-transcriptomics

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The GitHub avatar of

Veronika Cheplygina

Pronouns: she/her
@DrVeronikaCH

Expertise:
Machine learning, Medical imaging (classification / segmentation), Productivity/organization, Medical imaging

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The GitHub avatar of

Vicky Nembaware

Pronouns: she/her
@VickyNembaware

Expertise:
Bioinformatics, Genomics and Genomic Medicine, Training, Public Engagement, Sickle Cell Disease, Bioinformatics

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Yo Yehudi

Pronouns: they/them
@yoyehudi

Role in OLS: Executive Director, Business and Development Lead

Expertise:
Software development, Community building, Mentoring

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Yvan Le Bras

Pronouns: He
@Yvan2935

French Museum Of Natural History

Expertise:
Ecology, Data management, Data analysis

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Harry Smith

@Zebetus

Expertise:
Community Organisation, Event organising, Communication, Physics (Quantum Nanowires)

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A dedicated slack channel will facilitate open discussions among experts and other participants in OLS-2 to help them expand their network while discussing relevant topics (contact the team if you are not yet on this channel).

Organizers

The GitHub avatar of

Bérénice Batut

Pronouns: she/her
@bebatut

University of Freiburg

Role in OLS: Director of Learning and Technology

Expertise:
Galaxy, Galaxy training, Citizen science, Bioinformatics, High-throughput sequencing, Metagenomics, Wordpress, Jekyll, GitHub/GitLab Pages, Designing and developing training material, Collaborating with Git & GitHub/GitLab, Git, GitHub, GitLab, Publishing web content

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Malvika Sharan

Pronouns: she/her
@malvikasharan

The Alan Turing Institute

Role in OLS: Director of Partnerships and Strategy

Expertise:
Community building, Mentoring, Data Science best practices, Reproducibility, Inclusive and collaborative practices, Python, Version Control, Funding Proposals, Bioinformatics, Algorithm design

More about Malvika

The GitHub avatar of

Yo Yehudi

Pronouns: they/them
@yoyehudi

Role in OLS: Executive Director, Business and Development Lead

Expertise:
Software development, Community building, Mentoring

More about Yo

Hosts for calls

Collaborators

OLS team have established the following collaborations to support organisation specific projects within the OLS-2 cohort:

OLS-2 for Turing

Under the collaboration name OLS-2 for Turing, Open Life Science has partnered with The Turing Way, a project within the Tools, Practices and Systems Research Program in The Alan Turing Institute.

This partnership will offer training and mentoring to interested members from Turing and The Turing Way communities to join the second cohort (OLS-2) individually or in teams. They will have an opportunity to develop Open Science aspects in the projects that they either already have been working on, or want to develop in the near future. Mentors will be preferably selected from The Alan Turing Institute but there will be a possibility to match projects with the right mentor from the broader cohort. The roles and benefits for the participants and the eligibility of proposed projects will be as described for our main program.

Since this partnership was announced close to the deadline of the OLS-2 application call, we will welcome applications for OLS-2 for Turing projects until 15 July 2020 via EasyChair. This extension in deadline will ensure that the interested participants have sufficient time to discuss their plans with their supervisors within the organisation.

To share this announcement with the potential mentors, experts and project leads from the Turing and The Turing Way, please use our promotion pack.

Resources

The resources available to the OLS-2 cohort members will facilitate their communication, training, mentoring and learning process during their participation in the program.

Calls

Cohort calls

The full cohort meetings take place every 2 weeks (unless mentioned otherwise) and last for 90 minutes.

During these calls:

  • Organisers/hosts will introduce new topic of the week
  • Speakers will present their work related to the topic of the week
  • Participants will be given group discussion exercises
  • An open Q&A will be run and notes will be co-developed
  • Exercises will be given for the week to be completed before the mentee-mentor meeting

The calls will be hosted online using the Zoom web-conferencing option. A link for the calls will be shared for each meeting separately.

Look up the shared notes for each call linked to the schedule in this website. You will also be updated via email each week by the organisers with additional details to aid your participation.

If you can’t make it to a call:

The call will be recorded and available on the OLS YouTube channel after the call.

If you can not attend most calls during the program due to the time zone incompatibility or other personal obligation, please let the organisers know. If you are unable to communicate with your mentor regularly or do not engage in the program as planned, we may need to evaluate if you are able to finish the program.

Mentor-mentee calls

The Mentor-mentee calls take place every 2 weeks (unless mentioned otherwise) and last for 30 minutes.

During these calls:

  • Mentors help their mentees evaluate their understanding of the new topics
  • Mentees will complete their task assigned at the cohort calls using new skills learned that week
  • Mentors and mentee will review progress together where mentees provide constructive feedback
  • Mentors will connect mentees with other experts and get consulted on their project when needed

Coordinate with your mentor how you manage the notes and assignments for your 1:1 calls.

The online communication options can be agreed upon by the mentor-mentee pairs. A few options to explore are the following:

  • Zoom: 40 mins limit for each call
  • Google hangout: Free for members with google account
  • Skype: Free, download the app
  • Whereby.com: Free option, valid upto 4 participants
  • Jitsi: Free, open source web-based call is possible
  • Whatsapp or other phone-based calls: Only if both mentor and mentee are comfortable with exchanging numbers

If a mentor has to miss a mentee-mentor meeting, please discuss it with your mentee and reschedule your call. If you are unable to make it to any slot together, please find other ways (asynchronous documentation) to interact with your mentee.

If a mentor has to step back from the program for any reason, please communicate with the organisers to identify an alternative for their mentees.

Skill-up calls

In some weeks during which there is not cohort call, we will offer some optional skill-up calls.

The calls will be hosted online using the Zoom web-conferencing option. A link for the calls will be shared for each meeting separately.

Look up the shared notes for each call linked to the schedule in this website. You will also be updated via email each week by the organisers with additional details to aid your participation.

Coworking calls

The coworking sessions take place in weeks during which there is not cohort call. These calls are optional but highly valuable for enhancing your understanding of the materials discussed in OLS-2 with the help of other participants.

During these calls,

  • Participants can work together on the assignments
  • Participants connect and talk about their projects

The calls will be hosted online using the Zoom web-conferencing option. A link for the calls will be shared for each meeting separately.

Mentor calls

4 mentor calls will take place during the program.

The calls will be hosted online using the Zoom web-conferencing option. A link for the calls will be shared for each meeting separately.

OLS Speaker Guide

We have a short guide for invited speakers.

Communication channels

Communication within the cohort members

OLS-2 Slack Channel

A dedicated Slack channel has been setup to facilitate real-time as well as asynchronous communication among the all members of the OLS-2 cohort. A personal invitation link will be shared with the participants via an email.

OLS-2 private Google group

Organizers inform participants of the week schedule by email. An archive of all emails can be found on the private OLS-2 Google group.

An invitation is sent to all participants (mentees, mentors, etc) at the beginning of the program. If it is not the case, please contact the team

Communication with members not in the cohort

Twitter

General updates from the program such as new posts, collaborations and relevant retweets will be shared via our official Twitter channel.

Gitter

We have a public Gitter channel that can be used by members of the public contact the OLS team and community.

OLS Google group

Updates regarding new calls for applications, announcements, and final project presentations are posted on the OLS public Google group

Community Participation Guidelines

This project, as part of the Open Life Science community, is committed to providing a welcoming, friendly, and harassment-free environment for everyone to learn and grow by contributing. As a result, we require participants to follow our code of conduct.

This code of conduct outlines our expectations for participants within the community, as well as steps to reporting unacceptable behavior. We are committed to providing a welcoming and inspiring community for all and expect our code of conduct to be honored. Anyone who violates this code of conduct may be banned from the community.

Our open source community strives to:

  • Be friendly and patient.

  • Be welcoming: We strive to be a community that welcomes and supports people of all backgrounds and identities. This includes, but is not limited to members of any race, ethnicity, culture, national origin, colour, immigration status, social and economic class, educational level, sex, sexual orientation, gender identity and expression, age, size, family status, political belief, religion, and mental and physical ability.

  • Be considerate: Your work will be used by other people, and you in turn will depend on the work of others. Any decision you take will affect users and colleagues, and you should take those consequences into account when making decisions. Remember that we’re a world-wide community, so you might not be communicating in someone else’s primary language.

  • Be respectful: Not all of us will agree all the time, but disagreement is no excuse for poor behavior and poor manners. We might all experience some frustration now and then, but we cannot allow that frustration to turn into a personal attack. It’s important to remember that a community where people feel uncomfortable or threatened is not a productive one.

  • Be careful in the words that we choose: We are a community of professionals, and we conduct ourselves professionally. Be kind to others. Do not insult or put down other participants. Harassment and other exclusionary behavior aren’t acceptable. This includes, but is not limited to: Violent threats or language directed against another person, Discriminatory jokes and language, Posting sexually explicit or violent material, Posting (or threatening to post) other people’s personally identifying information (“doxing”), Personal insults, especially those using racist or sexist terms, Unwelcome sexual attention, Advocating for, or encouraging, any of the above behavior, Repeated harassment of others. In general, if someone asks you to stop, then stop.

  • Try to understand why we disagree: Disagreements, both social and technical, happen all the time. It is important that we resolve disagreements and differing views constructively. Remember that we’re different. Diversity contributes to the strength of our community, which is composed of people from a wide range of backgrounds. Different people have different perspectives on issues. Being unable to understand why someone holds a viewpoint doesn’t mean that they’re wrong. Don’t forget that it is human to err and blaming each other doesn’t get us anywhere. Instead, focus on helping to resolve issues and learning from mistakes.

Diversity Statement

We encourage everyone to participate and are committed to building a community for all. Although we will fail at times, we seek to treat everyone both as fairly and equally as possible. Whenever a participant has made a mistake, we expect them to take responsibility for it. If someone has been harmed or offended, it is our responsibility to listen carefully and respectfully, and do our best to right the wrong.

Although this list cannot be exhaustive, we explicitly honor diversity in age, gender, gender identity or expression, culture, ethnicity, language, national origin, political beliefs, profession, race, religion, sexual orientation, socioeconomic status, and technical ability. We will not tolerate discrimination based on any of the protected characteristics above, including participants with disabilities.

Reporting Issues

If you experience or witness unacceptable behavior, or have any other concerns, please report it by contacting the organisers - Bérénice, Malvika and Yo. (team@we-are-ols.org).

To report an issue involving one of the members, please email one of the members individually (berenice@we-are-ols.org, malvika@we-are-ols.org, yo@we-are-ols.org).

All reports will be handled with discretion. In your report please include:

  • Your contact information.

  • Names (real, nicknames, or pseudonyms) of any individuals involved. If there are additional witnesses, please include them as well. Your account of what occurred, and if you believe the incident is ongoing. If there is a publicly available record (e.g. a mailing list archive or a public IRC logger), please include a link.

  • Any additional information that may be helpful.

After filing a report, a representative will contact you personally, review the incident, follow up with any additional questions, and make a decision as to how to respond. If the person who is harassing you is part of the response team, they will recuse themselves from handling your incident. If the complaint originates from a member of the response team, it will be handled by a different member of the response team. We will respect confidentiality requests for the purpose of protecting victims of abuse.

Attribution & Acknowledgements

This code of conduct is based on the Open Code of Conduct from the TODOGroup.