BF Francis Ouellette
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bffo.bsky.social
BF Francis Ouellette
@bffo.bsky.social
3K followers 4.7K following 350 posts
Bioinformatics 🧬🖥️🧪
#PLOS Comp Biol Education Sect. Editor;
#DATABASE OUP Associate Editor;
#OpenScience #OpenAccess #OpenData;
friend of @jxtxfoundation.bsky.social,
@abinstitute.bsky.social
- I am 🇨🇦
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bffo.bsky.social
BF Francis Ouellette @bffo.bsky.social · Nov 29
Be Open so the world can see how great you are!

#OpenScience
#OpenAccess
#OpenData
#OpenSource
#OpenEducationalResources
bffo.bsky.social
From @wormsense.bsky.social in @plos.org #Computational #Biology | Ten simple rules for maximizing summer research experiences for students, mentors, & research groups | ❤️ Rule 1: A great short-term project is like a great short film | #Education #PLOSCBTSR 🧪🔓
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journals.plos.org/ploscompbiol...
Ten simple rules for maximizing summer research experiences for students, mentors, and research groups
Whether hosted by colleges, universities, stand-alone research institutions, federal research labs, or private companies, immersive summer (6–12 weeks) research experiences build students’ confidence ...
journals.plos.org
November 22, 2025 at 6:07 PM
bffo.bsky.social
From @natureportfolio.nature.com #Scientific #Data | The ICGC ARGO data dictionary for standardizing global cancer clinical data | #Cancer #ClinicalData #Bioinformatics #Genomics #OpenScience 🧬 🖥️ 🧪 🔓
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www.nature.com/articles/s41...
The ICGC ARGO data dictionary for standardizing global cancer clinical data - Scientific Data
Scientific Data - The ICGC ARGO data dictionary for standardizing global cancer clinical data
www.nature.com
November 22, 2025 at 5:57 PM
Reposted by BF Francis Ouellette
brian.teague.bio
I agree with EVERY SINGLE ONE of these rules. I came to most of them on my own because I never had any mentorship for my mentorship. And despite being published in PLOS Comp Bio, they apply to EVERY undergraduate and masters student project.
November 19, 2025 at 6:26 PM
bffo.bsky.social
From @plos.org #Computational #Biology | Ten simple rules for early-career researchers supervising short-term student projects | #Education #Bioinformatics #OpenScience #PLOSCBTSR #ECR 🧪 🔓 CC/ @knaegle.bsky.social
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journals.plos.org/ploscompbiol...
Ten simple rules for early-career researchers supervising short-term student projects
Author summary Supervising undergraduate or master’s research projects is a vital aspect of academic life, offering opportunities for both student development and supervisor growth. For many early-car...
journals.plos.org
November 19, 2025 at 6:18 PM
Reposted by BF Francis Ouellette
genomebc.bsky.social
In this clip Dr. Goodridge explains why he studies Salmonella, which causes 93 million cases of illness worldwide each year.

🎧 Listen to the full episode of Nice Genes! – Gut Check: link.cohostpodcasting.com/b87cc2cc-6ed...

#NiceGenesPodcast #Genomics #Microbiome #FoodSafety #GutBrainConnection
November 19, 2025 at 5:52 PM
bffo.bsky.social
From the @genomebrowser.bsky.social team in @narjournal.bsky.social #NARDatabaseIssue | The UCSC Genome Browser database: 2026 update | #Bioinformatics #Genomics #Database #OpenScience 🧬 🖥️🧪🔓
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academic.oup.com/nar/advance-...
The UCSC Genome Browser database: 2026 update
Abstract. Now in its 25th year of operation, the UCSC Genome Browser (https://genome.ucsc.edu) provides a central location for researchers around the world
academic.oup.com
November 19, 2025 at 6:04 PM
bffo.bsky.social
From @gillespm.bsky.social and colleagues in @narjournal.bsky.social #NARDatabaseIssue | The #Reactome Knowledgebase 2026 | #Bioinformatics #Proteomics #Human #OpenScience #OpenData #OpenSource #Database #GlobalCoreBiodata and @elixir-europe.org resource 🧬 🖥️🧪🔓
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academic.oup.com/nar/advance-...
The Reactome Knowledgebase 2026
Abstract. The Reactome Knowledgebase (https://reactome.org) is a freely accessible, expert-curated, open-source, and open-data resource that describes huma
academic.oup.com
November 19, 2025 at 5:52 PM
bffo.bsky.social
From @csoneson.bsky.social , @markrobinsonca.bsky.social & colleagues in @plos.org #Computational #Biology | Building a continuous #benchmarking ecosystem in #bioinformatics | #Education 🧬 🖥️ 🧪 🔓  
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journals.plos.org/ploscompbiol...
Building a continuous benchmarking ecosystem in bioinformatics
Benchmarking, which involves collecting reference datasets and demonstrating method performance, is a requirement for the development of new computational tools, but also becomes a domain of its own t...
journals.plos.org
November 15, 2025 at 5:11 PM
Reposted by BF Francis Ouellette
dstansby.bsky.social
Today I'm announcing a new digital textbook 📖🖥️, "An Introduction to OME-Zarr for Big Bioimaging Data".

ome-zarr-book.readthedocs.io
An Introduction to OME-Zarr for Big Bioimaging Data
ome-zarr-book.readthedocs.io
November 4, 2025 at 3:33 PM
Reposted by BF Francis Ouellette
zoognosisjoy.bsky.social
Evidence of domestication syndrome associated with urbanization in racoons. 🧪
frontiersinzoology.biomedcentral.com/articles/10....
November 15, 2025 at 12:12 PM
Reposted by BF Francis Ouellette
jxtxfoundation.bsky.social
The James P. Taylor Foundation for Open Science is pleased to announce the recipients of the 2025 JXTX+CSHL Genome Informatics Scholarships. JXTX provides support for students to attend conferences in CompBio and data science, where they can present their work [1/8]
November 6, 2025 at 3:27 PM
bffo.bsky.social
From the @narjournal.bsky.social #NARDatabaseIssue | EMBL's European Bioinformatics Institute (EMBL-EBI) in 2025 | #Bioinformatics #OpenData #OpenScience #Proteomics #Genomics #Bioimaging 🧬 🖥️🧪🔓
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academic.oup.com/nar/advance-...
EMBL’s European Bioinformatics Institute (EMBL-EBI) in 2025
Abstract. The European Molecular Biology Laboratory’s European Bioinformatics Institute (EMBL-EBI) is one of the world’s leading sources of public biomolec
academic.oup.com
November 15, 2025 at 2:38 PM
Reposted by BF Francis Ouellette
sneumann.bsky.social
This celebrates 20 years since #MassBank started in Japan. The new system developed at @ipbhalle.bsky.social went live in June at both massbank.eu and massbank.jp. We had >20 releases of reference spectra submitted by not only the #metabolomics, #exposomics and #EnvironmentalScience communities.
MassBank
massbank.eu
November 13, 2025 at 8:40 AM
Reposted by BF Francis Ouellette
galaxyproject.bsky.social
Galaxy showed up strong at Genome Informatics 2025 with new posters, new tools, and new ideas for making genomics more open and accessible.

Catch the highlights from Anton Nekrutenko, Mike Schatz, and Delphine Larivière 👉 galaxyproject.org/news/2025-11...
Galaxy at Genome Informatics 2025
Galaxy was in full force at Genome Informatics 2025, presenting cutting-edge work on scalable analysis, interactive workflows, and high-quality genome curation.
galaxyproject.org
November 11, 2025 at 7:18 PM
bffo.bsky.social
From @sneumann.bsky.social and colleagues in @narjournal.bsky.social #NARDatabaseIssue | MassBank: an open and FAIR mass spectral data resource | #Bioinformatics #Proteomics #OpenScience #FAIR #Database 🧪🔓
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academic.oup.com/nar/advance-...
MassBank: an open and FAIR mass spectral data resource
Abstract. The open spectral library MassBank (https://massbank.jp/) started in 2006 in Japan, as one of the first open source and open access cross-vendor
academic.oup.com
November 12, 2025 at 3:12 PM
bffo.bsky.social
From the @narjournal.bsky.social #NARDatabaseIssue | ProteomeXchange consortium in 2026: making proteomics data #FAIR | #Bioinformatics #Proteomics #OpenScience 🧪🔓
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academic.oup.com/nar/article/...
The ProteomeXchange consortium in 2026: making proteomics data FAIR
Abstract. The ProteomeXchange consortium of proteomics resources (http://www.proteomexchange.org) was established to standardize open data practices in the
academic.oup.com
November 10, 2025 at 4:21 PM
bffo.bsky.social
From @ngehlenborg.bsky.social & colleagues in @plos.org #Computational #Biology | Ten simple rules for making biomedical data resources accessible | I like Rule 10:Focus on progress over perfection | #Education #Bioinformatics #PLOSCBTSR #OpenScience 🧬 🖥️ 🧪 🔓
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journals.plos.org/ploscompbiol...
Ten simple rules for making biomedical data resources accessible
journals.plos.org
November 7, 2025 at 6:06 PM
Reposted by BF Francis Ouellette
scedmunds.bsky.social
Thank you Francis for all you've done for the journal. We put in a lot of effort to build up an excellent and very experienced Ed Board, and seeing so many of them resigning in this manner is sad but shows they've taken their responsibilities seriously.
November 7, 2025 at 12:38 PM
bffo.bsky.social
I was one of the Editorial Board Members at @gigascience.bsky.social who resigned from the Editorial Board.
🧪 🔓
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retractionwatch.com/2025/11/03/d...
Dozens of board members resign from big-data journal after mass staff firings
More than three-fifths of the editorial board of a biomedical sciences journal resigned after the publication’s operations moved from Hong Kong to Shenzhen, China, and the editors and software team…
retractionwatch.com
November 4, 2025 at 3:46 PM
Reposted by BF Francis Ouellette
atanas-g-atanasov.bsky.social
🤝 I’m forming a focus group to synergize and supercharge evidence‑based science communication on social media. Want to join? Drop a comment below or DM me. #SciComm
November 1, 2025 at 11:50 AM
bffo.bsky.social
From @plos.org #Computational #Biology | Ten rules for a structural bioinformatic analysis | i like Recommendation #10: Visualize everything! | #Bioinformatics #Education #Recommendations #NotSimpleRules 🧬 🖥️ 🧪 🔓 CC/ @ppalagi.bsky.social
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journals.plos.org/ploscompbiol...
Ten rules for a structural bioinformatic analysis
Author summary Here, we provide a roadmap for users to leverage the Protein Data Bank’s vast collection of protein structural models into reliable and valuable insights. It lays out 10 clear rules tha...
journals.plos.org
November 1, 2025 at 12:44 PM
Reposted by BF Francis Ouellette
matthewcobb.bsky.social
My article in tomorrow's @theobserveruk.bsky.social now online. But go and buy a copy!
Francis Crick: The science genius with poetry in his DNA
He is celebrated for co‑discovering the double helix, but it was Crick’s poetic appreciation of the world that was key to how his mind worked
observer.co.uk
November 1, 2025 at 11:37 AM
bffo.bsky.social
From @mdpiopenaccess.bsky.social #Viruses | vvv2_align_[SE|PE|display]: Galaxy-Based Workflows & Tool Designed 2 Perform, Summarize & Visualize Variant Calling & Annotation in #Viral #Genome Assemblies | #UseGalaxy #Bioinformatics #OpenScience #NGS 🧬 🖥️ 🧪 🔓 🇫🇷
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www.mdpi.com/1999-4915/17...
www.mdpi.com
October 31, 2025 at 5:02 PM
bffo.bsky.social
From @plos.org #Computational #Biology | Nine quick tips for trustworthy machine learning in the biomedical sciences | #Bioinformatics #Education #ML #AI #PLOSCBQT 🧬 🖥️ 🧪 🔓 CC/ @ppalagi.bsky.social
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journals.plos.org/ploscompbiol...
Nine quick tips for trustworthy machine learning in the biomedical sciences
As machine learning (ML) becomes increasingly central to biomedical research, the need for trustworthy models is more pressing than ever. In this paper, we present nine concise and actionable tips to ...
journals.plos.org
October 31, 2025 at 1:32 PM
bffo.bsky.social
News you can use at your next dinner party!
The potato evolved from the tomato 9 million years ago
#RealScience #NotFakeNews #OpenScience 🧬 🖥️ 🧪 🔓
From @cellpress.bsky.social
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www.cell.com/news-do/pr-p...
The potato evolved from the tomato 9 million years ago
Recent Cell research covered by The Guardian, The New York Times, The Atlantic, and more.
www.cell.com
October 30, 2025 at 7:05 PM