@bpucker.bsky.social
Prof. @unibonn.bsky.social. Plant Biotechnology & Bioinformatics (@puckerlab.bsky.social). #Genomics #Bioinformatics #Evolution #SpecializedMetabolism #MolecularBiology #Pigmentation #Flavonoids. Website: https://www.pbb.uni-bonn.de. Views are my own.
Summary of the Plant Bioinformatics course. AI-generated image (ChatGPT) showing some of the central elements. Details: https://github.com/bpucker/PlantBioinformatics
Getting ready for “Plant Bioinformatics” 🌱
Big data, command line, cloud computing & reproducible research — plus replicating published studies.
Materials: github.com/bpucker/Plan...
Study in Bonn: www.biologie.uni-bonn.de/de/studium/b...
#Bioinformatics #OpenEducation @puckerlab.bsky.social
I do not want to hide my GitHub repositories. Scripts and data should be accessible once the preprint is on bioRxiv. How would others cite these resources without names attached to them? I am not against double blind review, but I do not see a huge benefit and it does not seem feasible
16.02.2026 11:01 — 👍 2 🔁 0 💬 1 📌 0If you submit data to ENA, it gives away your name. If you publish scripts on GitHub, your name is visible. If you mention Botanical Gardens for providing material, it is not that difficult to infer the author identity. Therefore, I do not think a double blind review would be feasible in plant bio
16.02.2026 10:54 — 👍 1 🔁 0 💬 1 📌 0Highly recommended! I had the pleasure to speak at an earlier edition and found it an amazing gathering!
13.02.2026 17:15 — 👍 10 🔁 3 💬 0 📌 0
Genome sequence annotation workflow. Source: https://doi.org/10.1186/s12864-026-12623-z
How to complete your plant genomics project with a comprehensive annotation?
"Cookbook for Plant Genome Sequences"
doi.org/10.1186/s128...
#Genomics #Bioinformatics #BigData
@puckerlab.bsky.social
If you are looking for the hands-on part of our cookbook, we also have a copy on GitHub to ensure that it can be updated over time:
github.com/bpucker/Plan...
#Genomics #Bioinformatics
Three medals / horese ribbons in green, blue and red colours
Our calls to nominate #ECRs for 3 scientific awards are out
1/5
➡️ www.deutsche-botanische-gesellschaft.de/u/BS3awards
Plant genome sequencing workflow. Details: https://doi.org/10.1186/s12864-026-12623-z
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"
doi.org/10.1186/s128...
#Genomics #LongReads #PlantSciences #Bioinformatics
@puckerlab.bsky.social @unibonn.bsky.social
Promote brilliant plant science #ECRs 🌱
@plantsciencedbg.bsky.social Awards 2026 are open. monetary prize, a certificate & a plenary talk at Botanik-Tagung.
Deadline: 26 Apr 2026.
Pro tip: 👉 Self-noms welcome for Horst Wiehe Award
Details: www.deutsche-botanische-gesellschaft.de/u/3awards
No, we would use NAVIP to classify variants based on effect: doi.org/10.1371/jour...
09.02.2026 12:10 — 👍 2 🔁 0 💬 1 📌 0
Plant genome sequencing workflow. Details: https://doi.org/10.1186/s12864-026-12623-z
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"
doi.org/10.1186/s128...
#Genomics #LongReads #PlantSciences #Bioinformatics
@puckerlab.bsky.social @unibonn.bsky.social
Figure summarizing the content of this Python course (AI generated). Teaching materials and additional details are openly available: https://github.com/bpucker/teaching/tree/master/WBIO-A-07.
Last day of our Python course 🐍
Students are presenting individual projects: tools for analyzing biological datasets. Creativity & smart AI use produced amazing results. Really impressive work across the board 👏
Materials:
github.com/bpucker/teac...
#Python #Bioinformatics #OpenScience #Teaching
💡 #KnowledgeHighlight | Course: Applied Plant Genomics by @bpucker.bsky.social @unibonn.bsky.social @puckerlab.bsky.social 🌱 🖥️
github.com/bpucker/Appl...
Explore open-access training materials in the ERGA #KnowledgeHub ➡️ knowledge.erga-biodiversity.eu #WGSdata #DataAnalysis #sequencing #assembly
📣 Hey @igemhq.bsky.social teams!
Looking for biosafety ideas for your next project?
Check out this resource on engineered auxotrophy & xeno-DNA containment:
🔗 doi.org/10.1186/s130...
#iGEM #SynBio #Biosafety 🧬
@igemcommunity.bsky.social @igembonn.bsky.social @puckerlab.bsky.social
📣 Hey @igemhq.bsky.social teams!
Looking for biosafety ideas for your next project?
Check out this resource on engineered auxotrophy & xeno-DNA containment:
🔗 doi.org/10.1186/s130...
#iGEM #SynBio #Biosafety 🧬
@igemcommunity.bsky.social @igembonn.bsky.social @puckerlab.bsky.social
Screenshots of Python course slides. Source: https://github.com/bpucker/teaching
Two weeks in, and the Python course participants are officially starting their own projects 🐍✨
From fundamentals to hands-on bioinformatics—now the fun really begins.
Slides: github.com/bpucker/teac...
#Python #Bioinformatics #Education @puckerlab.bsky.social
Microsynteny analysis around the DFR, ANS, and arGST loci in Cucurbitaceae and closely related lineages. Details: https://doi.org/10.1101/2025.10.06.680802
Updated preprint:
"Out of the blue: Family-wide loss of anthocyanin biosynthesis in Cucurbitaceae"
doi.org/10.1101/2025...
#Evolution #Pigments #Genomics #Bioinformatics
@nancy-choudhary.bsky.social @bpucker.bsky.social @unibonn.bsky.social
Jakob celebrating https://doi.org/10.1186/s12870-025-08006-3 with his new paper mug.
New paper + new mug = official celebration 🎉☕
Here is Jakob with our review:
“Diversity and ecological functions of anthocyanins”
doi.org/10.1186/s128...
Paper mugs are a tradition in our group — and this one is well earned. Congrats! 🌸🔬
#Anthocyanins #Pigments #Flavonoids #Evolution
Screenshots of Python course slides. Source: https://github.com/bpucker/teaching
Two weeks in, and the Python course participants are officially starting their own projects 🐍✨
From fundamentals to hands-on bioinformatics—now the fun really begins.
Slides: github.com/bpucker/teac...
#Python #Bioinformatics #Education @puckerlab.bsky.social
💡 #KnowledgeHighlight | Course: Data Analysis with Python by @bpucker.bsky.social @unibonn.bsky.social @puckerlab.bsky.social 🐍🖥️
github.com/bpucker/teac...
Explore open-access training materials in the ERGA #KnowledgeHub ➡️ knowledge.erga-biodiversity.eu
#Phyton #DataAnalysis #Bioinformatics #data
Nele celebrating the paper https://doi.org/10.1186/s12870-025-08006-3
We published our open-access review on anthocyanins in BMC Plant Biology! 🌿🔬
From antioxidants to ecological roles in nature, these pigments are way more than pretty colors.
Check it out👇
🔗 doi.org/10.1186/s128...
📸 Here is Nele celebrating this achievement!
#PlantScience #Anthocyanins #OpenAccess
Digitalis purpurea genome sequence data publication in bonndata. Details: https://doi.org/10.60507/FK2/4KUKXI
Looking for genome sequences, annotations, or expression data from @puckerlabpapers.bsky.social ?
Access large datasets on bonndata:
🔗 www.izmb.uni-bonn.de/en/pbb/resea...
#OpenScience #Genomics #ResearchData #Bioinformatics #GenomeData @bpucker.bsky.social @opensciene-unibonn.bsky.social
Screens showing the exercises for file handling with Python.
🌱 One week of Python = students analyzing plant genomics data — no AI needed!
Learn Python & bioinformatics in Bonn:
🔗 www.izmb.uni-bonn.de/en/pbb/contact
#Python #Bioinformatics #PlantScience #Genomics @puckerlab.bsky.social
Why is there a tube on every monitor in our Python course? 🐍 It is a simple progress signal: students put the tube up while working on exercises and take it down when they are finished. This makes it easy to see who is still working and who is ready for the next step — no interruptions needed. https://www.izmb.uni-bonn.de/en/pbb/teaching #Python #Bioinformatics # #TeachingTips #EdTech #ProgrammingEducation #PythonCourse #TeachingTrick #LowTechHighImpact #SmartTeaching #LearningByDoing #ClassroomInnovation
Why is there a tube on every monitor in our Python course? 🐍
It is a simple progress signal: students put the tube up while working on exercises and take it down when they are finished. This makes it easy to see who is still working and who is ready for the next step. @puckerlab.bsky.social
You would be most welcome here in Bonn, Jens :)
16.01.2026 06:57 — 👍 1 🔁 0 💬 0 📌 0
Screens showing the exercises for file handling with Python.
🌱 One week of Python = students analyzing plant genomics data — no AI needed!
Learn Python & bioinformatics in Bonn:
🔗 www.izmb.uni-bonn.de/en/pbb/contact
#Python #Bioinformatics #PlantScience #Genomics @puckerlab.bsky.social
Why is there a tube on every monitor in our Python course? 🐍 It is a simple progress signal: students put the tube up while working on exercises and take it down when they are finished. This makes it easy to see who is still working and who is ready for the next step — no interruptions needed. https://www.izmb.uni-bonn.de/en/pbb/teaching #Python #Bioinformatics # #TeachingTips #EdTech #ProgrammingEducation #PythonCourse #TeachingTrick #LowTechHighImpact #SmartTeaching #LearningByDoing #ClassroomInnovation
Why is there a tube on every monitor in our Python course? 🐍
It is a simple progress signal: students put the tube up while working on exercises and take it down when they are finished. This makes it easy to see who is still working and who is ready for the next step. @puckerlab.bsky.social
Figure illustrating some content of the Python course for biology students at UniBonn
“Analysis of Biological Data with Python” started today for biology bachelor students 🧬🐍
Want to learn Python for data analysis?
Slides are freely available:
github.com/bpucker/teac...
#Python #DataAnalysis #Biology #OpenScience #BigData #Bioinformatics #DataScience @puckerlab.bsky.social
Team around Armin Djamei @effectomics.bsky.social show in @newphyt.bsky.social that the fungus #Ustilago maydis hijacks a programme in the #maize plant that is responsible for the formation of lateral roots www.uni-bonn.de/en/news/002-...
12.01.2026 15:51 — 👍 8 🔁 6 💬 0 📌 0
Figure illustrating some content of the Python course for biology students at UniBonn
“Analysis of Biological Data with Python” started today for biology bachelor students 🧬🐍
Want to learn Python for data analysis?
Slides are freely available:
github.com/bpucker/teac...
#Python #DataAnalysis #Biology #OpenScience #BigData #Bioinformatics #DataScience @puckerlab.bsky.social
