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Reposted by Davide Risso

Bioconductor @bioconductor.bsky.social · 20d

EuroBioC2025 is in full swing here in Barcelona!

Day 1 was full of great talks, conversations, and that amazing Bioconductor community energy. Excited for what’s ahead today and tomorrow!

#EuroBioC2025 #Bioconductor #OpenScience #Community

EuroBioC2025 group photo on PRBB terrace with sea in background.

EuroBioC2025 welcome in PRBB auditorium by host Robert Castelo, showing slides with conference sticker and sponsor logos.

EuroBioC2025 hexwall banner with the hexwall creator Kevin Rue-Albrecht standing beside it.

EuroBioC2025 carved wooden keyring, a gift for all participants, created by Annekathrin Nedwed.

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Bioconductor @bioconductor.bsky.social · Jun 20

📣 Late-breaking poster call for #EuroBioC2025 is now open!

Submit by July 11 to present your work in Barcelona this September.
🔗 forms.gle/ewTGdKzB2xyE...
📅 Notifications by July 15

#Bioconductor #Bioinformatics

EuroBioC2025 late-breaking poster abstract submission

Please fill the form below before the end of Friday July 11th, 2025, to submit an abstract for a poster to be considered for presentation at EuroBioC2025 in Barcelona on September 17-19, 2025…

forms.gle

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Boyi Guo (郭博逸) @boyiguo.bsky.social · Jun 6

🤔Could quality control create more harm than good? We explore this question in the context of #SRT.

SpotSweeper is developed to combat implicit selection bias.

Led by fellow rising star @mictott.bsky.social and collab with amazing mentor @stephaniehicks.bsky.social

👉: bsky.app/profile/mict...

Nature Methods @natmethods.nature.com · Jun 6

Quality control matters in spatial transcriptomics. Check out this paper from Guo and colleagues on SpotSweeper that corrects for both local and regional artifacts across diverse technologies. www.nature.com/articles/s41...

SpotSweeper: spatially aware quality control for spatial transcriptomics - Nature Methods

SpotSweeper is a spatially aware method for quality control of spatially resolved transcriptomics data that corrects for spatial confounding missed by existing methods, including both local and region...

www.nature.com

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Katie Mack @astrokatie.com · May 29

Everyone involved in trying to pass off that ChatGPT-extruded disinformation manifesto as a scientific report should be, at the very least, barred from public office for life. The MAHA report is dangerous criminal misconduct and an offence to the process of science.

Mehdi Hasan @mehdirhasan.bsky.social · May 29

This is what happens when you put internet conspiracy theorists in charge of major government departments.

The MAHA Report Cites Studies That Don’t Exist

The Trump administration’s “Make America Healthy Again” report misinterprets some studies and cites others that don’t exist, according to the listed authors.

www.notus.org

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David Pfau @davidpfau.com · May 28

The war on science in the US is already having an effect on private sector research like AlphaFold. Bears repeating but the private sector builds on top of things created by academic research for the public good. This hurts everyone.

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ProPublica @propublica.org · May 29

THREAD 🧵

Internal State Department records show that months of warnings have become a reality: The Trump administration’s sudden withdrawal of foreign humanitarian aid has brought about death, violence and unrest. 1/

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Carl T. Bergstrom @carlbergstrom.com · May 29

22 years ago I pivoted from working on antibiotic resistance to pandemic viruses.

Since then, I've argued that if we care about saving US lives in expectation, advance capacity for producing bird flu vaccine offers by far the greatest expected return on investment.

...

We were so goddamn close.

Trump administration cancels plans to develop a bird flu vaccine

The Department of Health and Human Services is ending a $766 million contract with the vaccine company Moderna to develop an mRNA vaccine for flu strains with pandemic potential, including bird flu.

www.npr.org

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Paul Gardner @ppgardne.bsky.social · May 29

This is terrible news, HMMER & Infernal are at the heart of DBs like Pfam, Rfam & Dfam. And vital pipelines such as AlphaFold.

Sean Eddy @cryptogenomicon.bsky.social · May 22

NIH funding supporting the HMMER and Infernal software projects has been terminated. NIH states that our work, as well as all other federally funded research at Harvard, is of no benefit to the US.

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Michael Baym @baym.lol · May 24

I appreciate the offers from other scientists to help Harvard (students, labs, etc) through this attack, but what would be most helpful is for you to use your position to contact your elected representatives and make it clear this fight isn't just Harvard, it will affect you, and their districts too

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Sean Eddy @cryptogenomicon.bsky.social · May 22

NIH funding supporting the HMMER and Infernal software projects has been terminated. NIH states that our work, as well as all other federally funded research at Harvard, is of no benefit to the US.

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Mark Robinson @markrobinsonca.bsky.social · Apr 29

Heads-up that Genome Biology is starting a new benchmark collection ("Benchmarks v2.0"):
www.biomedcentral.com/collections/...

Call for papers - Benchmarks v2.0

www.biomedcentral.com

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Davide Risso @davi1893.bsky.social · Apr 7

Fascinating talk by @andganna.bsky.social at #ds4hb A lot of food for thought on efficient data collection and fairness in AI for health!

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Tim Behrens @behrenstimb.bsky.social · Mar 25

Science is under threat in the US. @elife.bsky.social have commissioned a series of articles discussing the implications and what we can do. The first three articles are now live. More to follow:
elifesciences.org/articles/106...
elifesciences.org/articles/106...
elifesciences.org/articles/106...

Science Under Threat in the United States: How scientists and institutions should respond

Individual researchers and university leaders need to make the case for science to their elected representatives and to the public at large.

elifesciences.org

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Cristian Pattaro @cpattaro.bsky.social · Feb 28

Would you like to spend a #postdoctoral fellowship in the beautiful Italian Alps doing great science?

Apply for a MSCA Postdoctoral fellowship with us on #stats #biostats #genomics #epidemiology

Many infos here 👇 🧵

#StatsSky #rstats #popgen #nephsky

1/n

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Nonia Pariente @npariente.bsky.social · Mar 9

📣📣Are you looking for a postdoc? 📣📣

Does a EU or Horizon Europe assoc country (eg UK, S Korea) seem like a good destination?

These fellowships a great funding option for anyone in the 🌎

👀 Check them out - next call opens 8 May

🧪 👨‍🔬👩‍🔬
marie-sklodowska-curie-actions.ec.europa.eu/actions/post...

Postdoctoral Fellowships

The information provided on this page is a summary of the main rules and requirements for Postdoctoral Fellowships (PFs) and who can apply for them.

marie-sklodowska-curie-actions.ec.europa.eu

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Wolfgang Huber @wkhuber.bsky.social · Feb 28

Abstract submissions are now open for the European Bioconductor Conference (EuroBioC2025), 17-19 September 2025 in Barcelona.
This event will bring together the Bioconductor community in Europe to advance bioinformatics, data science, and open-source software.

eurobioc2025.bioconductor.org

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Bioconductor @bioconductor.bsky.social · Feb 28

🎨 Reminder that EuroBioC2025 Sticker Contest is still open! Deadline Mar 10. Don't miss out on the chance to have your design featured at the conference and win free registration ✨
Submit buff.ly/42JiCLN

Abstracts are open for submission too!

#EuroBioC2025 #RStats #Bioinformatics #StickerContest

buff.ly

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Itai Yanai @itaiyanai.bsky.social · Feb 28

"Your AI can’t see gorillas!"
A few years ago we found that students are more likely to see the gorilla in their data if they are not also asked to test a specific hypothesis. In his blog Chiraag Gohel now shows that Chat-GPT can’t help you to find it either.
chiraaggohel.com/posts/llms-e...

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Ilaria Prosdocimi @ilapros.bsky.social · Feb 24

In two weeks (10th March) John Burn-Murdoch will be holding a Conversation at the San Giobbe campus, Room 6A (2pm). Everyone is very welcome to join (and thanks @crisvarin.bsky.social for making this happen)!

A little poster promoting the event indicating its date and time (10 March, 2 pm, campus San Giobbe Venice, Room 6)

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Simon P. Couch @simonpcouch.com · Feb 20

New #rstats pkg gander is now on CRAN!

gander is a coding assistant that knows how describe the objects in your global R environment. So, when you're working with data, LLMs will know the names, types, and distributions of data columns, resulting in much more effective completions.

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Bioconductor @bioconductor.bsky.social · Feb 20

📣 EuroBioC2025: Abstract Submissions Open!

Join us in Barcelona, Spain 🇪🇸, Sep 17-19, 2025, for the European Bioconductor Conference! Submit your abstract for a short talk, workshop, or poster by Apr 24.

➡️ Submit https://buff.ly/3EN9w6P

#EuroBioC2025 #Bioinformatics #RStats #DataScience

European Bioconductor Conference 2025

EuroBioC2025 is the European edition of the Bioconductor conference that will take place on September 17th to 19th, 2025, in Barcelona, Spain. EuroBioC2025 will bring together the Bioconductor…

buff.ly

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Davide Risso @davi1893.bsky.social · Feb 19

The package is general and can be used with any distribution of the exponential dispersion family, which includes the Gaussian, Poisson, negative binomial, and many others.

More to come soon, including a @bioconductor.bsky.social wrapper to make it easier to work with single-cell RNA-seq data.

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Davide Risso @davi1893.bsky.social · Feb 19

The sgdGMF #rstats package is now officially on CRAN:
cran.r-project.org/package=sgdGMF

Please give it a try and let us know if you have any feedback!

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Bioconductor @bioconductor.bsky.social · Feb 10

🎨 EuroBioC2025 Sticker Contest!
Unleash your creativity for the European Bioconductor Conference in Barcelona! The winning sticker will be featured on our website and handed out at the event.
🗓 Deadline: Mar 10, 2025
🏆 Prize: Free reg to EuroBioC2025 for winning design!
Abstract call coming soon!

buff.ly

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Sen. Adam Schiff @schiff.senate.gov · Feb 8

Trump & Musk are making massive cuts to the National Institutes of Health.

I know there is a lot going on right now, but this is one of worst things they have done so far, will affect cancer research and trials, the search for cures, innovation and competitiveness, our universities. Your lives.

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