First #tidyomics hackathon at #EuroBioC2026 in Turku! tidyomics.github.io/tidyomicsBlo... Join us at Euro Bioc (eurobioc2026.bioconductor.org) for a dive into our ecosystem, where you can learn about it and, hands-on, improve and extend it. Plz share! 🙏 @bioconductor.bsky.social

@helucro.bsky.social at CSAMA 2026 csama2026.bioconductor.eu

So here's what happened to my lab (and @viralemergence.org). www.nature.com/articles/d41...

In this story, they highlight two researchers who scored in the 3rd percentile well over a year ago and were not funded. Is this the environment that’s supposed to “encourage innovation”? How many past papers and discoveries would we have missed under these conditions?

Vince Carey kicking off the 22nd edition of the #CSAMA @bioconductor.bsky.social summer school in Brixen 🇮🇹 #CSAMA2026

We are thrilled to release Bambu-pipe 🧬 🚀 A Nextflow pipeline built for speed, scalability, and precision — unlocking isoform-level insights from long-read single-cell and spatial RNA-seq data💡 🔗 GitHub: github.com/GoekeLab/bambu-pipe 📄 Preprint: doi.org/10.1101/2024.12.30.630828

If you’ve worked with proteomics data, you’ve likely run into batch effects, MS drift, and missing values Try out our NMFBatch tool, unifies batch correction + missing-data handling in mass spectrometry proteomics. Preprint: doi.org/10.64898/202... #Proteomics #SingleCellProteomics #Bioinformatics

2) larger eQTL datasets found more colocalisations and enable the detection of lower MAF eQTLs but 3) higher resolution eQTLs identified in single-cell datasets are more likely to colocalise.

tinyurl.com/reuxynmc Very excited to see this work I was a small part of published! We analysed two large scale colocalisation datasets: OpenTargets data and an analysis of immune-mediated disease GWAS/immune cell eQTLs seeking to understand the "colocalisation gap". Some highlights:

New paper from my lab and @hoadley.bsky.social Lab investigating the role of BAP1 in the liver. Really good experience with G3 too

Using massively parallel reporter assays (MPRA) & graph genomics, we assayed >1.5 billion DNA fragments spanning both major cattle subspecies. This haplotype-aware approach captures complex, multi-allelic & tightly linked variants often missed by standard eQTL studies. Also finemapped GWAS loci.

The latest release of #Positron went out last week, and it is chock full of exciting stuff! 🤩 Check out the new Packages pane, inline output for Quarto, the new Posit Assistant interface, and more: opensource.posit.co/blog/2026-05...

New #tidyomics blog post! 🎉 #tidySummarizedExperiment greatly simplifies your omics workflows, giving tidyverse capabilities. We have improved its performance 30x on large datasets with tens of thousands of samples! tidyomics.github.io/tidyomicsBlo... Plz share! @mpibiochem.bsky.social

Yesterday, ASHG members kicked off a week of virtual meetings with lawmakers. Their message: human genetics research is transforming medicine & saving lives—and NIH funding powers the next generation. Amplify their message and contact your local representative 👉 https://bit.ly/4tgE5oO

Bioconductor 3.23 is released! Thanks to the core team for all the hard work that goes into a release, and to the package reviewers. The lab has a bunch of updates in here that I'll post in 🧵 over the next few days:

'Anglo-Saxon' is a bogus and misleading term in all but a very narrow set of uses. And I'm not sure it's entirely helpful even in those. But I think it's particularly bad as an ancestry category, certainly when applied to present day individuals, and probably in the past also.

🚨 Bioconductor and R-universe are joining forces to modernize infrastructure for bioinformatics tools while preserving the strong governance and review processes that have made Bioconductor a trusted resource for over 20 years. 🔗 Learn more: blog.bioconductor.org/posts/2026-0...

Upcoming Bioconductor Africa seminar series session: Orchestrating Microbiome Analysis with Bioconductor. 📅 May 6, May 13, May 20 2026 ⏰ 4 PM EAT | 3 PM CAT | 2 PM WAT 👤 Speaker: Tuomas Borman 🔗 Register to attend: bit.ly/3QeMkUI Coming up next: CRISPR data analysis (June 2026) #Bioconductor

🚀 Post-BioC2026 Workshop: Single-cell Analysis with Bioconductor This two‑day Bioconductor Carpentry workshop will focus on large‑scale single‑cell data analysis using Bioconductor. 📅 13–14 Aug 2026 Learn more here: bit.ly/4sHMe5m 👉 Registration now open: bit.ly/4mE3t6l

Lots of goodies in the upcoming (tomorrow) Bioconductor release 3.23. From the lab we have new stuff / improvements / documentation updates across five packages at least! @bioconductor.bsky.social

1/ Bioinformaticians: Before you heroically code your own method... STOP. You might be about to reinvent a very broken wheel.

I wrote a friendly rant about the use of causal language in AI. www.linkedin.com/posts/ewan-b...

#cellNexus is out! -> "Quality control, annotation, aggregation and analytical layers for the Human Cell Atlas data" - QC layers - Consensus cell annotation layers - Pseudobulk aggregation of the whole human atlas - R/Python APIs cellNexus.org Preprint: www.biorxiv.org/content/10.6...

Announcing Shiny for Python 1.6! 🐍🔭 This update focuses on production-grade observability with OpenTelemetry and UI efficiency with toolbars for #Python data scientists. Read the full release notes: opensource.posit.co/blog/2026-04...

And don't forget to check out the #FirstPerson interview with Tabea Soelter and Emma Jones, in which they discuss the inspiration behind their work and research plans for the future. Read: doi.org/10.1242/dmm....

We wrote a perspective "How to build the regulatory genome: a constructionist guide to the cis-regulatory code", out in Development yesterday. Title says it all. Find it here: journals.biologists.com/dev/article/...

The main project of my PhD 🧬🔬 is out: we developed single-cell lentiMPRA, a lentivirus-based method to measure enhancer activity and transcriptomes at single-cell resolution. We then applied sc-lentiMPRA to fully synthetic enhancers 🧩... 🔗 doi.org/10.64898/202...

Great interview here with @kauralasoo.bsky.social on genetics research and collaborative science. blog.cs.ut.ee/2025/10/06/k...

1/ 🧬 Happy to share our new preprint on modeling cis-regulatory variation in human brain enhancers across a large Parkinson’s disease cohort: www.biorxiv.org/content/10.6... Details in the thread below:

My lab will be attending #EuroBioc2026 in June. This is one of the three annual conferences for one of the world’s largest open-source research communities. Registration is still open until May 3, and poster submissions for another two weeks. More information: eurobioc2026.bioconductor.org

Excited to share this preprint from Rachel Sharp @rrsharp.bsky.social in the lab, in collaboration with a great team of collaborators at UNC and Duke. We examine bipolar disorder case status with social risk variables and with polygenic risk in the All of Us Research Program.

✍️ [blog] Collaborating between Bioconductor and R-Universe on Development of Common Infrastructure by rOpenSci and Bioconductor Teams The R-consortium ISC top-level project R-universe is working with Bioconductor to gradually modernize parts of its infrastructure while accommodating the […]

🎉 It's published! Our placental long-read transcriptome is now in @natcomms.nature.com! Thank you to @arjunbhattac.bsky.social, @jonhuang.bsky.social, and @mikelove.bsky.social for collaborating on this first project of my postdoc @mdanderson.bsky.social. A recap 🧬🫄🧵 www.nature.com/articles/s41...

New preprint on the genetic regulation of isoform expression and breast cancer risk! TL;DR: tissue-specific, long-read transcript annotations shape eQTL mapping, TWAS, and isoforms we prioritize at GWAS loci. @arjunbhattac.bsky.social www.biorxiv.org/content/10.6...

Improving isoform-level eQTL and integrative genetic analyses of breast cancer risk with long-read RNA transcript assemblies https://www.biorxiv.org/content/10.64898/2026.03.22.713514v1

We have summer internships y'all! Come work at Posit on the PyData, tidymodels, shiny, or Connect teams: grnh.se/tigz810a3us. You will have an awesome time, learn a ton, and help advance our open source and pro tools 🧰 #rstats #pydata

New pre-print on treatment effect heterogeneity led by Ash Patel: "Efficient semiparametric estimation of marginal treatment effects with genetic instrumental variables" available at arxiv.org/abs/2603.08871. Brief summary:

Awesome new work from Jingyi Fei's lab in collaboration with Oded Regev's group. RNA localization to nuclear speckles follows splicing logic url: academic.oup.com/nar/article/...

Oft Herr Mendel dreams that genes form living matter. They do the latter. doi.org/10.1093/gene...

In collab w @hdashnow.bsky.social, we have a new preprint out on tandem repeat (TR) mutagenesis! Using HiFi sequencing, we profiled nearly 8 million TR loci across four generations of a large CEPH/Utah family and identified 1,270 de novo expansions and contractions. www.biorxiv.org/content/10.6...

We are pleased to announce that Heather Turner @heathrturnr.fosstodon.org.ap.brid.gy has joined the R Core Team. She has been an active contributor notably via the R Dev Days, and has greatly improved cooperation between R Core and the R community in more ways #RStats.

Wow! What a tool: half million downloads from Bioconda - Congrats @robp.bsky.social and Combine-Lab! 👏 Happy to see SSHash plugged here.

I've been wanting to do a big refactor and build system update for salmon for a looong time. I finally got around to it, and updated the backend index to use the newest SSHash while I was at it : github.com/COMBINE-lab/... (also with native ARM support & on bioconda!)

🧬 New from @leandrosboukas.bsky.social & co 📄Identification of de novo variants from parent-proband duos via long-read sequencing 🖥️ github.com/sbergercnmc/...

Very happy to share our work with Seth Berger and UCI-GREGoR at @ajhgnews.bsky.social . We developed and extensively evaluated a method - duoNovo - that uses long-read sequencing to detect de novo variants using *only one* biological parent. (1/n) R package: github.com/sbergercnmc/...

🧬 New Review from Cromer et al! 📄 Incorporating polygenic risk scores and social determinants of health across populations: Considerations and best practices in research #PRS #SDoH

Are you interested in understanding how social and structural determinants of health influence estimates of genetic risk? Looking for figures for teaching these concepts? Check out our work on considerations for modeling them together, led by Sara Cromer and Dave Conti with @prsmethods.bsky.social

📣New from Li & Morrison! 📄Mind the gap: Characterizing bias due to population mismatch in two-sample Mendelian randomization

Great to see this work out, led by Jon Rosen and co-supervised Karen Mohlke @klmohlke.bsky.social! Connecting to some recent threads here:

🧬 New today! 📄 Higher eQTL power reveals signals that boost GWAS colocalization 🧑‍🤝‍🧑 @mikelove.bsky.social @klmohlke.bsky.social & colleagues