iiinova — where your digital self keeps evolving

Reposted by Sebastian Triesch

Tobias Jores @tobiasjores.bsky.social · 30/04/2026

📢Out now on bioRxiv: We used Plant STARR-seq to characterize the species- and condition-specific enhancer activity of over 350,000 sequences derived from four plant species. For more, see below and read the paper at: www.biorxiv.org/content/10.6...

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Reposted by Sebastian Triesch

West German Genome Center | WGGC @wggc-de.bsky.social · 30/04/2026

We are thrilled to announce that our first WGGC Webinar in the new design is now available on YouTube! buff.ly/fbdG23g In case you missed Sebastian's @sebtriesch.bsky.social exciting presentation about "Decoding plant gene regulation with machine learning" - This is your opportunity to watch it!

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Reposted by Sebastian Triesch

Andreas P.M. Weber 🌾🌱🧬 @apmweber.bsky.social · 26/11/2025

AI model Helixer predicts eukaryotic genes ab initio, directly from a plain text FASTA file. No RNA-seq. No protein homology. No repeats, hints, or curated evidence. Raw genome → accurate gene models. Deep learning + HMM, published in @natmethods.nature.com www.nature.com/articles/s41...

nature.com

Helixer: ab initio prediction of primary eukaryotic gene models combining deep learning and a hidden Markov model - Nature Methods

By leveraging both deep learning and hidden Markov models, Helixer achieves broad taxonomic coverage for ab initio gene annotation of eukaryotic genomes from fungi, plants, vertebrates and invertebrat...

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Reposted by Sebastian Triesch

Journal of Experimental Botany @jxbotany.bsky.social · 11/11/2025

🌿 RESEARCH 🌿 Single-nucleus RNAseq reveals bundle sheath cell-specific photorespiration pathways in Moricandia arvensis, incl ammonium assimilation & redox regulation, highlighting metabolic compartmentalization in C3–C4 photosynthesis – Triesch et al. 🔗 doi.org/10.1093/jxb/... #PlantScience 🧪

Fig. 2.UMAP visualizations of the integrated Moricandia arvensis single-nuclei RNA-Seq and Kim et al. (2021) Arabidopsis thaliana single-cell RNA-Seq dataset colored by cell type (A) and species (B). (C) Heatmaps indicating normalized expression in mesophyll and bundle sheath clusters in A. thaliana and M. arvensis. Expression was normalized to the highest expressed marker gene in the respective cluster and species. (D) Enrichment of MapMan bins for 110 BSC-specific differentially partitioned genes between M. arvensis and A. thaliana. (E) Sankey diagram indicating the expression of M. arvensis marker genes (right side of the diagram) in A. thaliana clusters (left side).

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Reposted by Sebastian Triesch

soapboxsciencerhld.bsky.social @soapboxsciencerhld.bsky.social · 19/06/2025

Speaker introduction. Let’s introduce our seventh speaker JANA PETER from the @hhu.de @ceplas.bsky.social who will give an inspiring talk at our #soapboxscience event in 1 week! 📅Saturday, June 28 📍Rheinpromenade, Düsseldorf #womeninstem #womeninscience #soapboxscience

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Reposted by Sebastian Triesch

Tobias Jores @tobiasjores.bsky.social · 17/06/2025

Our latest paper is out in its final form in @theplantcell.bsky.social We show that in plants the same DNA sequence can act as an insulator or silencer depending on the surrounding regulatory context. Read the full paper at: doi.org/10.1093/plce...

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