| Website | https://www.izmb.uni-bonn.de/en/molecular-plant-sciences/samuel_nestor_meckoni |
| ORCID | https://orcid.org/0000-0003-4877-8762 |
This week, I teach the students of WBIO-A-08 how to use the CLI. Currently they are having a lot of fun with piping 😈
They already learned how to create a @deNBI VM, transfer files, install tools via apt, and how to use a lot of small helpful utilities. In the next days some more bioinformatics orientated tools will follow.
🌿 Plant Bioinformatics! 💻🧬
How do we turn massive plant omics datasets into biological insight?
We cover genomics, transcriptomics, sequence analysis, phylogenetics, statistics, and reproducible research practices. Plant science is data science. 🌱
More details & course materials:
https://github.com/bpucker/PlantBioinformatics
This Utricularia gibba was gifted as a piece of art to a gardener from the Botanic Gardens Bonn for helping with growing plants that I use for research. Another specimen is hold by the Herbarium Bonn. For the Botanic Gardens Bonn, Utricularia gibba is usually a "weed" that needs to be removed regularly. Last year, some were allowed to bloom to obtain seeds. #Utricularia #Herbarium #BotanicalGarden #Bonn
First two Photos by @jahorz :)
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
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
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
Scientists have renamed 27 human genes to stop Microsoft Excel misreading them as dates. The changes have been underway for the past year but have been formally announced as new guidelines published by the HUGO Gene Nomenclature Committee. Scientist are overjoyed but annoyed Microsoft didn’t make the changes itself.
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
PuckerLab
Boas Pucker
de.NBI & ELIXIR Germany
Mehrad 
