Celebrate the brilliance of women driving plant sciences forward at Pucker Lab on International Day of Women and Girls in Science! 🌱🔬 Here's to curiosity, innovation, and shattering glass ceilings in STEM! 💪♀️ #WomenInScience #PuckerLab #PlantGenomics #GirlsInSTEM

SimpleVM: Cloud computing without configuration complexity. Set up virtual machines in just a few clicks, run RStudio directly in your browser, manage computational workflows with built-in SNORT-based security. Focus on your research, not infrastructure management. Part of de.NBI's curated bioinformatics services. Learn more: https://simplevm.github.io/

Need a genome sequence of your favourite plant? We laid out instructions for a complete workflow based on ONT sequencing:

"Cookbook for plant genome sequences"
https://doi.org/10.1186/s12864-026-12623-z

#Genomics #LongReads #PlantSciences #Bioinformatics
@PuckerLab
@samnm

@zerodivision this sounds like you want to do a functional annotation with a reference? Have your heard of the tool GeMoMa? Maybe this might help you, but it needs GFF/GTF files.

@lwpembleton and with your current job?
I fear that the same fate awaits me when I finish my studies. Luckily my Professor is a Linux advocate :D

Final day of our Python course: Students are presenting individual projects in which they developed tools for the analysis of biological datasets.

The combination of human creativity and thoughtful use of AI led to impressive solutions.

All teaching materials are openly available:
https://github.com/bpucker/teaching/tree/master/WBIO-A-07

#Python #Bioinformatics #OpenScience #Teaching
@PuckerLab
@samnm

@lwpembleton wait a moment... You are using windows? 😅

There are few practices that deeply hurt me as a Bioinformatician. On top of the list is getting gene expression data in Excel file and figures in PowerPoint file.

I don't know what can it be done and how can it be communicated that not only this is not "okay", but it is a terrible practice because the modifications Microsoft Office Suite does. The situation is so bad that 27 gene names had to be changed because some people are not stopping!

https://www.theverge.com/2020/8/6/21355674/human-genes-rename-microsoft-excel-misreading-dates

#Bioinformatics #Academia

@PuckerLab @boas_pucker
Thats @jahorz!

Looking for data from @PuckerLab ?

We share genome sequences, annotations, expression data, & other large files via bonndata 📦

🔗 https://www.izmb.uni-bonn.de/en/pbb/research#datapub

Open 📊 | Reusable 📁 | Ready for research 🧬

#OpenData #Genomics #Bioinformatics
@researchdata_openaccess
@boas_pucker
@samnm

🚀 Bielefeld University is hiring!
The Genomic Informatics Working Group is looking for a Research Assistant – System Developer (m/f/d). Join a dynamic team at the intersection of genomics & informatics!
👉 More info & application: https://www.denbi.de/de-nbi-jobs-portal/2011-wissenschaftliche-r-mitarbeiter-in-systementwickler-in-m-w-d-ag-genominformatik
#JobAlert #Bioinformatics #AcademicJobs

Just 4 days of Python and our students are extracting insights from plant genomics data — all without AI! 🌱

Learn Python & bioinformatics in Bonn:
https://www.izmb.uni-bonn.de/en/pbb/contact

#Python #Bioinformatics #PlantGenomics #ScienceEducation #Genomics
@PuckerLab
@samnm

New year, new courses. Getting ready to teach #Python to undergrads again - this time at #UniBonn.

Slides: https://github.com/bpucker/teaching
More courses: https://www.izmb.uni-bonn.de/en/pbb/teaching

#OpenEducation #OpenScience
@PuckerLab
@samnm

Für alle, die es vor den Feiertagen verpasst haben:

"Journale wie aus dem Jahr 1665, Preise wie bei MrBeast-Meet&Greets, Datenschutz wie bei Facebook, Verlässlichkeit wie bei TikTok-Lifehacks: Warum es höchste Zeit war, dass die EU die Wissenschaft befreit. Wenn man sie denn lässt."

https://verfassungsblog.de/rechnungshof-statt-redaktionsschluss

#academicchatter #wissenschaft

new blog post: "PlantMetWiki: a linked open data service for querying and analyzing plant pathway knowledge" https://chem-bla-ics.linkedchemistry.info/2026/01/05/plantmetwiki.html https://doi.org/10.59350/wyz5v-vts33

"I am happy that Elena and Denise pulled me into a collaboration to create an RDF-based knowledge graph about plant pathways."

tl;dr: https://plantmetwiki.bioinformatics.nl/

Replying to this post makes it show up in my blog.

#plants #bioinformatics #openscience

🎉 Happy New Year 2026! 🎉

We are starting the year with great news: several new publications went live over the holidays. A big thank-you to everyone involved in this work!

🔬📄 Explore the latest updates here:
https://www.izmb.uni-bonn.de/en/pbb/publications

Looking forward to more science, ideas, and exchange in 2026.
@boas_pucker
@samnm

Working with biological sequences… in the terminal 🔥

🧪 **SeqTUI** — A terminal-based sequence data viewer & toolkit.

🧬 View, translate, convert to FASTA, extract SNPs & combine huge alignments.

🦀 Written in Rust & built with @ratatui_rs

⭐ GitHub: https://github.com/ranwez-search/SeqTUI

#rustlang #ratatui #tui #bioinformatics #terminal #cli #opensource

Happy new year! Just repotted my Nicotiana benthamiana plants that I will use for #research next year! They are my most favorite root-harboring model organism 😁
What is your most favorite model organism?
#nicotiana #plantscience #modelorganism

Our digital Christmas tree this year is built from squares inspired by performance indicators in our ONT sequencing experiments 🎄📊
In 2025, sequencing output increased substantially — a great way to close the year!

More on the design idea and other news:
https://www.izmb.uni-bonn.de/en/pbb/news#tree2025

#OpenScience #Sequencing #DataArt #Christmas #LabLife
@boas_pucker
@samnm

Our course “From Gene Models to Biological Insights – Functional Annotation” has officially concluded! Proud to have supported 20+ early-career researchers in developing their skills in plant genomics. 🌱🧬
Looking forward to seeing their discoveries!
#PlantGenomics #Bioinformatics #FunctionalAnnotation #ScienceEducation

https://www.izmb.uni-bonn.de/en/pbb/news#d2025c2

@PuckerLab
@samnm