Michael Stadler
@mbstadler.bsky.social
📤 432
📥 88
📝 3
reposted by
Michael Stadler
Bioconductor
about 1 month ago
🚀 EuroBioC2026 – Call for Abstracts is Now Open! We invite submissions for short talks, posters, and workshops for EuroBioC2026 by Jan 30, 2026. 👉 Submit here:
openreview.net/group?id=bio...
⚠️ Note: Register on OpenReview at least two weeks before the abstract deadline to be able to submit.
0
6
5
reposted by
Michael Stadler
Bioconductor
2 months ago
🧬 EuroBioC2026 is coming to Turku, Finland, from June 3–5, 2026! Expect 3 exciting days with the Bioconductor community, showcasing the latest advances in Bioconductor software and emerging technologies shaping computational biology. 👉 More details soon at
eurobioc2026.bioconductor.org
0
12
11
I think this is a beautiful example of evolution having come up with a simple and elegant solution to a complex gene regulation task!
add a skeleton here at some point
3 months ago
0
4
0
reposted by
Michael Stadler
FMI science
4 months ago
📣The Turco group is seeking a computational biologist to analyze large omics datasets. Work on cutting-edge 3D organoid models of the human placenta and be embedded in our Computational Biology Platform (part of
@sib.swiss
). Apply here:
www.fmi.ch/education-ca...
0
8
11
reposted by
Michael Stadler
FMI science
4 months ago
🚨 We're hiring, please share! The FMI seeks a tenure-track Group Leader (Assistant Prof) in Structural Biology 🔬 Innovative scientists in genome regulation, RNA metabolism, or protein homeostasis—especially using cutting-edge approaches—apply now at
www.fmi.ch/education-ca...
0
61
70
reposted by
Michael Stadler
Silvia Barbiero
5 months ago
🙏 A big thank you to the Liberali Lab, FMI community & the FAIM imaging platform for testing and giving valuable feedback - keeping ez_zarr sharp, fast & useful! (3/3)
0
1
1
reposted by
Michael Stadler
Silvia Barbiero
5 months ago
From spatial sequencing data to 5D images & high-throughput plate screens, ez_zarr helps you navigate images & labels quickly. If you work with NGFF OME standards, give it a try — and let us know what features you’d like to see next 💡(2/3) 📚 Docs:
fmicompbio.github.io/ez_zarr/
loading . . .
ez_zarr
https://fmicompbio.github.io/ez_zarr/
1
1
1
reposted by
Michael Stadler
Silvia Barbiero
5 months ago
We’re excited to share that ez_zarr now supports Zarr v3! 🚀 Huge thanks to
@mbstadler.bsky.social
&
@csoneson.bsky.social
who took on the challenge of creating this open-source tool for fast, programmatic access to OME-Zarr file sets + easy plotting 📊 📄
joss.theoj.org/papers/10.2110…
(1/3)
loading . . .
ez-zarr: A Python package for easy access and visualisation of OME-Zarr filesets
Barbiero et al., (2025). ez-zarr: A Python package for easy access and visualisation of OME-Zarr filesets. Journal of Open Source Software, 10(109), 7882, https://doi.org/10.21105/joss.07882
https://joss.theoj.org/papers/10.21105/joss.07882
1
20
11
reposted by
Michael Stadler
Bioconductor
6 months ago
📝 New blog post: Bioconductor and ggplot2 4.0.0 - What’s Changing and How to Prepare A major ggplot2 update is coming and may impact Bioconductor packages. What’s changing, how to test, and where to get help 👉
blog.bioconductor.org/posts/2025-0...
#Bioconductor
#RStats
loading . . .
Bioconductor and ggplot2 4.0.0: What’s Changing and How to Prepare – Bioconductor community blog
Preparing for the upcoming update - key changes, potential breakages, and what developers and users can do
https://blog.bioconductor.org/posts/2025-07-07-ggplot2-update/
0
16
8
reposted by
Michael Stadler
Bioconductor
7 months ago
🎓 Sharpen your RNA-seq skills at EuroBioC2025 Workshops! 📍 Barcelona | Bulk & Single-cell RNA-seq 📅 Sept 15–16 | Hands-on training 🎟️ Limited spots. Register now:
eurobioc2025.bioconductor.org
#Bioinformatics
#EuroBioC2025
0
10
7
reposted by
Michael Stadler
Bioconductor
8 months ago
📣 EuroBioC2025 Registration is Open! 🎉 📍 Barcelona, 17–19 Sept 2025 Join us for keynotes, talks, workshops & more on open-source bioinformatics & Bioconductor. 🔗
eurobioc2025.bioconductor.org/pages/regist...
#EuroBioC2025
#Bioinformatics
loading . . .
registration – EuroBioC2025
The budget EuroBioC2025 is conceived to break even after the conference. As a result, the organization of the EuroBioC2025 is unable to offer individual refunds.
https://eurobioc2025.bioconductor.org/pages/registration.html
0
11
10
If you look for an easy way to plot OME-zarr images in your scripts, I hope the ez-zarr python package will be useful:
add a skeleton here at some point
8 months ago
0
7
6
reposted by
Michael Stadler
Hans-Rudolf Hotz
10 months ago
Eleven (!) quick tips for writing a Bioconductor package from
@csoneson.bsky.social
et al. from
@fmiscience.bsky.social
journals.plos.org/ploscompbiol...
loading . . .
Eleven quick tips for writing a Bioconductor package
https://journals.plos.org/ploscompbiol/article?id=10.1371/journal.pcbi.1012856
1
21
7
reposted by
Michael Stadler
FMI science
10 months ago
Researchers led by
@marcbuhler.bsky.social
@merleskribbe.bsky.social
@mbstadler.bsky.social
@csoneson.bsky.social
shed light on how transcription factors control genes in fission yeast—plus, they created FMI TFexplorer, a free tool for scientists!
@pombase.bsky.social
www.fmi.ch/news-events/...
loading . . .
Charting gene secrets: New insights into genetic switches
Gene regulation underpins nearly every biological process—from cell development to responses to environmental changes, and understanding it can provide insights into cancer and other diseases. Now, FM...
https://www.fmi.ch/news-events/articles/news.html?news=632
0
8
2
reposted by
Michael Stadler
Merle Skribbe
10 months ago
www.sciencedirect.com/science/arti...
I am very excited to share our latest work on the protein and chromatin interactomes of transcription factors! 🧬 Huge thanks to everyone who contributed, especially
@csoneson.bsky.social
and
@mbstadler.bsky.social
for driving this story with me! 🙌
loading . . .
A comprehensive Schizosaccharomyces pombe atlas of physical transcription factor interactions with proteins and chromatin
Transcription factors (TFs) are key regulators of gene expression, yet many of their targets and modes of action remain unknown. In Schizosaccharomyce…
https://www.sciencedirect.com/science/article/pii/S1097276525000991?via%3Dihub
2
21
12
reposted by
Michael Stadler
Michael Baym
11 months ago
Btw this is an actual movie, shot with a Canon DSLR in a photo studio incubator, of fluorescence-expressing plasmids competing and segregating inside cells
add a skeleton here at some point
0
30
7
reposted by
Michael Stadler
Bioconductor
11 months ago
📣 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
loading . . .
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…
https://buff.ly/3EN9w6P
0
18
17
reposted by
Michael Stadler
Prisca Liberali
12 months ago
A perfect start in the new year! 🌱 Regenerating tissues are just an amazing spatio temporal controlled process! Our new manuscript explores how cell heterogeneity and bistability orchestrate intestinal regeneration. 🧵
biorxiv.org/cgi/content/...
loading . . .
Cell heterogeneity and fate bistability drive tissue patterning during intestinal regeneration
Tissue regeneration relies on the ability of cells to undergo de novo patterning. While tissue patterning has been viewed as the transition from initially identical un-patterned cells to an arrangemen...
https://biorxiv.org/cgi/content/short/2025.01.14.632683v1
6
147
59
Permanent position for a Linux Systems Engineer: Are you fond of scientific computing and/Linux/HPC and would enjoy working in a vibrant research environment? Have a look at our job opening:
www.fmi.ch/education-ca...
loading . . .
Friedrich Miescher Institute, open position
Friedrich Miescher Institute, open position
https://www.fmi.ch/education-careers/positions/jobdetails.html?jobID=308
12 months ago
0
6
11
reposted by
Michael Stadler
FMI science
about 1 year ago
📣 Please share: We’re hiring a tenure-track Group Leader in Multicellular Systems to explore the molecular and cellular mechanisms driving the formation, maintenance, or destabilization of tissues, organs and organisms. Apply at:
www.fmi.ch/education-ca...
4
110
125
reposted by
Michael Stadler
Bioconductor
about 1 year ago
Bioconductor 3.20 is released! 🎉🌟 Thanks to all developers and community members for contributing to the project! 🙌 👉 See the full release announcement:
bioconductor.org/news/bioc_3_...
#Bioconductor
#DataScience
#Bioinformatics
#OpenSource
loading . . .
Bioconductor - Bioconductor 3.20 Released
The Bioconductor project aims to develop and share open source software for precise and repeatable analysis of biological data. We foster an inclusive and collaborative community of developers and dat...
https://bioconductor.org/news/bioc_3_20_release/
0
22
14
you reached the end!!
feeds!
log in