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Björn Usadel

@usadellab.bsky.social
894 followers 657 following 117 posts

Plant Omics, Machine Learning, Genomics, Tools, Data Managment Labs in Forschungszentrum Jülich and HHU Düsseldorf Uni www.fz-juelich.de/en/ibg/ibg-4 www.biological-data-science.hhu.de/…

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Reposted by Björn Usadel
Journal of Experimental Botany @jxbotany.bsky.social · 15h
🚨 SPECIAL ISSUE - CLOSING SOON 🚨 🔬 Proteases in Cell Fate Regulation 📝 Edited by Peter Bozhkov & Simon Stael 📅 Closing date: 31 October 📇 Got a suitable manuscript? Contact the JXB office: bit.ly/JXBissues #JXBspecialissues #PlantScience 🧪 @sebiology.bsky.social
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Khaled_Selim Lab @selimlab.bsky.social · 30/09/2026
A great talk by Vivien @vivienrosenthal.bsky.social from @usadellab.bsky.social at @mibinet.bsky.social conference @hhu.de
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Ulrich Hammes @uhammes.bsky.social · 24/09/2026
We’re looking for a new colleague in Würzburg! 🌱 W3 Professorship in Plant Metabolism 💊 Chair of Pharmaceutical Biology 🧪 Head of the Metabolomics Core Unit jobs.zeit.de/jobs/univers... Please spread the word! Questions? Feel free to contact me. www.biologie.uni-wuerzburg.de/en/about-the...
biologie.uni-wuerzburg.de
W3_Pflanzenmetabolismus - FACULTY OF BIOLOGY
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Max Planck Institute for Plant Breeding Research @mpipz.bsky.social · 17/09/2026
📣📣Paper Alert! New paper @nature.com from the Marques group @amarques.bsky.social and colleagues on Rhynchospora tenuis - 🌿a plant that reproduces sexually but has completely lost the reshuffling of DNA🧬 Congratulations! 👏 🥳 Read more👉 www.mpipz.mpg.de/pr-marques-2... www.nature.com/articles/s41...
nature.com
Sex without crossovers mimics clonal reproduction in Rhynchospora tenuis - Nature
Rhynchospora tenuis undergoes obligate, genome-wide achiasmy in both male and female meiosis.
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Plant Science🍀🌱 @sciplant.bsky.social · 13/09/2026
#PlantScienceJobs #PlantSciJobs #PlantScienceJob #PlantSciJob
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Boas Pucker @bpucker.bsky.social · 10/09/2026
Kirsten Krause is talking about plant interactions, especially parasitic plants #BT2026 #Botanik-Tagung2026 @plantsciencedbg.bsky.social
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Boas Pucker @bpucker.bsky.social · 10/09/2026
Borjana Arsova is presenting insights into plant-microbe interaction under different N availabilities #BT2026 #Botanik-Tagung2026
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Team Thomma @teamthomma.bsky.social · 08/09/2026
📣...and now for something completely different: no plant pathogens, no Verticillium, but lichens! Driven by our lichen king🤴@ciarankelly.bsky.social with help of a.o. @hroevenich.bsky.social @usadellab.bsky.social @vivienrosenthal.bsky.social Watch for more in future! www.biorxiv.org/content/10.6...
biorxiv.org
Decoupled evolution of antimicrobial repertoires in lichen-forming fungi
Lichens are stable multipartite symbioses in which a fungal mycobiont associates with one or more photosynthetic partners while hosting complex microbiomes. Secreted antimicrobial proteins (AMPs) have...
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Reposted by Björn Usadel
Ciaran Kelly @ciarankelly.bsky.social · 08/09/2026
Overall, AMP repertoire size is conserved, but its composition is highly variable. CAZyme and BGC repertoires show stronger differences between photobiont associations. Different molecular repertoires may be shaped by different evolutionary constraints. Preprint: www.biorxiv.org/content/10.6... 🍄
biorxiv.org
Decoupled evolution of antimicrobial repertoires in lichen-forming fungi
Lichens are stable multipartite symbioses in which a fungal mycobiont associates with one or more photosynthetic partners while hosting complex microbiomes. Secreted antimicrobial proteins (AMPs) have...
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Reposted by Björn Usadel
epsoeurope.bsky.social @epsoeurope.bsky.social · 08/09/2026
EPSO statement ‘Towards a Virtual Institute for AI in Plant Science’ - Members are invited to join the new ‘AI in Plant Science’ Working Group and confirm joining its meeting on 9Oct’2026. bit.ly/4AgjNRg #AI #PlantScience #HorizonEU #EULifeScienceStrategy #FP10
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Mariana Schuster @marischuster.bsky.social · 07/09/2026
I'm excited to share that my newly funded #ERCStG FRONTERA is recruiting two postdoctoral researchers at @ipbhalle.bsky.social 🌱🔬 If you are passionate about plant immunity, proteolysis, membrane proteins, or proteomics, I'd love to hear from you. 🧵 Please RT/share!
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Mike Keesey @tmkeesey.bsky.social · 30/08/2026
We are getting VERY close 13,000 silhouettes! www.phylopic.org/images
phylopic.org
All Silhouette Images on PhyloPic
Browse all the free silhouette images in PhyloPic.
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Pau Formosa-Jordan @pauformosa.bsky.social · 25/08/2026
Our article “Time-dependent bistability leads to critical slowing down during floral transition in Arabidopsis” is now published in @natcomms.nature.com. Link: rdcu.be/fBZ3S. What an exciting collaboration with the Coupland lab! @mpipz.bsky.social @ceplas.bsky.social #PlantDevelopment #criticality
Top: Waddington/quasi-potential landscape cartoon illustrating a bistable transition. Bottom: Scheme of a simplified regulatory network underlying floral transition at the Arabidopsis shoot apical meristem. Adapted from Rodríguez-Maroto, Wang et al. (2026). Link: https://rdcu.be/fBZ3S
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Marc Somssich @somssich.bsky.social · 24/08/2026
An opportunity to work with me 👇
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Ralf Reski @reskilab.bsky.social · 20/08/2026
Professorship Plant Breeding. Halle, Germany. #plantscijobs #plantscijob #plantsciencejob www.academics.de/jobs/w3-prof...
academics.de
W3-Professur "Pflanzenzüchtung" - Martin-Luther-Universität Halle-Wittenberg (MLU)
Martin-Luther-Universität Halle-Wittenberg (MLU) bietet Stelle als W3-Professur "Pflanzenzüchtung" in Halle (Saale) - jetzt bewerben!
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German Society for Plant Sciences (DBG) @plantsciencedbg.bsky.social · 14/08/2026
#PlantSciJobs #PlantSciJob W3 Professorship: Functional Plant Biology @Uni Oldenburg, Germany Deadline: 27 September 2026 www.deutsche-botanische-gesellschaft.de/en/job-openi...
deutsche-botanische-gesellschaft.de
Job Openings
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Michael Feldbrügge @mfeldbruegge.bsky.social · 24/07/2026
We proudly present @mibinet.bsky.social, @hhu.de
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Informationsdienst Wissenschaft - idw @idw-online.de · 23/07/2026
Möglicher neuer Therapieansatz zur Vorbeugung von Herzinfarkten und Schlaganfällen entdeckt Forschenden der Heinrich-Heine-Universität Düsseldorf (HHU) und des Universitätsklinikums Düsseldorf (UKD) ist es gelungen, einen neuen, körpereig... weiterlesen
Prof. Dr. Amin Polzin, Erstautor Dr. Marcel Benkhoff, Dr. Philipp Mourikis (alle Klinik für Kardiologie, Pneumologie und Angiologie) - Copyright UKD / HHU
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Abiotic Stress in Plants @abioticstress.bsky.social · 21/07/2026
Publishing new work on #AbioticStress in plants?🌱 Tag us in your posts, and we may repost your work to help it reach the #PlantScience community @planteditors.bsky.social @sciplant.bsky.social @de.scientists4future.org @plantbirdwoman.bsky.social @chemodiversity.bsky.social @msriffle.bsky.social
Publishing new work on #AbioticStress in plants?🌱

Tag us in your posts, and we may repost your work to help it reach the #PlantScience community
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Reposted by Björn Usadel
Agristok @agristok.bsky.social · 23/07/2026
Full Professor Job in Technologies for Sustainable Water and Energy Use in Agricultural Systems – University of Hohenheim, Germany The University of Hohenheim is recruiting a tenured Full Professor (W3) in Technologies for Sustainable Water and Energy Use in Agricultural Systems. This prestigious…
agristok.net
Full Professor Job in Technologies for Sustainable Water and Energy Use in Agricultural Systems – University of Hohenheim, Germany
The University of Hohenheim is recruiting a tenured Full Professor (W3) in Technologies for Sustainable Water and Energy Use in Agricultural Systems. This prestigious academic position offers an opportunity to lead innovative research in sustainable agriculture, smart farming technologies, robotics, artificial intelligence, and resource-efficient agricultural engineering.
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Gabriel Schaaf @gabrielschaaf.bsky.social · 22/07/2026
Please share! 🌱🤖 Permanent W2 Professorship in crop & plant sciences @ PhenoRob, University of Bonn. Especially encouraged: crop genome engineering, sustainable pest control, or sustainable disease control. Expertise in one area is enough. Apply by Sept. 30, 2026. www.uni-bonn.de/en/universit...
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Björn Usadel @usadellab.bsky.social · 23/07/2026
Join my group at @fz_juelich within the @ceplas.bsky.social excellence cluster. #PlantJobs We’re looking for a postdoc/senior scientist in plant single-cell and spatial transcriptomics recruiting.fz-juelich.de/jobposting/8...
recruiting.fz-juelich.de
Postdoctoral Researcher / Senior Scientist in the field of plant single-cell and spatial transcriptomics
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Björn Usadel @usadellab.bsky.social · 17/07/2026
Within the @trr341.bsky.social JJ Szymanski has an interesting postdoc position for leading plant Ecological genetics AI recruiting.fz-juelich.de/jobposting/5...
recruiting.fz-juelich.de
Postdoctoral Researcher - Machine Learning for Plant Regulatory Genomics
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Deutsche Forschungsgemeinschaft @dfg.de · 17/07/2026
#Fachkollegienwahl: Die Frist für Vorschläge zu Kandidat*innen läuft ab jetzt bis 6. Nov. 2026. Vorschlagsberechtigt für alle Fächer sind fachgebundene Institutionen, DFG-Mitglieder und der Stifterverband – diesmal via eNominierung. Die Wahl hat dann die Community im Herbst 2027! sohub.io/ep37
dfg.de
Fachkollegienwahl 2027: Frist für das Vorschlagen von Kandidierenden läuft
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Harmit Singh Malik @harmitmalik.bsky.social · 14/07/2026
Got a well intentioned email that ended with “I work at odd hours. My working hours are not necessarily your working hours. Please respond when you feel you comfortably can.” Obviously that’s code for they don’t expect a response from me. Ever.
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Björn Usadel @usadellab.bsky.social · 10/07/2026
Only 17% of 307 million publicly available sequences include geographical provenance.Yet benefit-sharing from digital sequence information depends on knowing where genetic resources came from.Can databases close this gap without making open data harder to submit&reuse? www.nature.com/articles/s41...
nature.com
How can biological databases support the new UN mechanism for benefit-sharing from digital sequence information? - Scientific Data
Scientific Data - How can biological databases support the new UN mechanism for benefit-sharing from digital sequence information?
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Ralf Reski @reskilab.bsky.social · 09/07/2026
Professorship Plant Biochemistry. Bielefeld, Germany. #plantscijobs #plantscijob #plantsciencejob www.uni-bielefeld.de/uni/karriere...
uni-bielefeld.de
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Khaled_Selim Lab @selimlab.bsky.social · 07/07/2026
Happy to share our latest finding on ComFB, a new #cdiGMP receptor in bacteria Team effort w/ @freecyano.bsky.social at @sfb1381.bsky.social ComFB regulates type IV pilus-dependent functions via sequestering TFs (CRP1/2) @hhu.de @biologyunifreiburg.bsky.social www.sciencedirect.com/science/arti...
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Björn Usadel @usadellab.bsky.social · 08/07/2026
@sebastianbeier.bsky.social has fixed some minor issues in our read trimmer Trimmomatic for R0.41 since the latest release just a few months ago academic.oup.com/bioinformati.... github.com/usadellab/Tr.... Please note, that the website trimmomatic.com is not ours and send you to commercials.
academic.oup.com
Trimmomatic: a decade of feature-rich, high-performance NGS read preprocessing
AbstractMotivation. Trimmomatic is a widely adopted tool for preprocessing high-throughput sequencing data, particularly from Illumina platforms. Since its
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Thomas Ott @ottlab.bsky.social · 08/07/2026
Hey plant colleagues out there! 3 days to go to apply for the plant biotechnology professorship. Great colleagues @biologyunifreiburg.bsky.social, amazing atmosphere @dompsfr.bsky.social, lovely city to settle. And great support by @cibss.bsky.social. www.nature.com/naturecareer...
nature.com
W3 Professorship for Plant Biotechnology - Freiburg im Breisgau, Baden-Württemberg (DE) job with University of Freiburg (Uni Freiburg) | 12859402
The future position holder will lead an internationally recognized research program that combines excellent basic research with clear perspectives for
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Gulnara Tagirdzhanova @metalichen.bsky.social · 07/07/2026
Was so great to be part of this study, which explores iron exchange as one of the aspects of #lichen #symbiosis, a first study of its sort. Big thanks to Isidor Happacher and Hubertus Haas for putting this together! #SymbioSky 🖥️ 🧪 🦠 🧫
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Borjana Arsova @borjana-a.bsky.social · 27/05/2026
🆕📃: #Pseudomonas🦠 helps #plants🌾 grow better under #Nitrogen limitation by stimulating mild protein changes, in the #root, only @⬇️#N. #phenomics #PlantSci #Botany #proteomics #lipidomics #phenotyping #PlantMicrobeInteractions #PMI 🧪 #Brachypodium #PlantCellEnvir #PCE doi.org/10.1111/pce....
doi.org
Systems‐Level Plant Responses Reveal Pseudomonas‐Mediated Growth Promotion in Brachypodium Under Nitrogen Limitation
The plant growth–promoting bacterium Pseudomonas koreensis improves Brachypodium distachyon growth under limited nitrogen by modulating plant-encoded N acquisition and metabolic organization within a....
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Charlie Underwood @charlieunderwood.bsky.social · 02/07/2026
In meiosis homologous chromosomes pair and exchange DNA non-randomly. How does reproductive gender and chromosome sequence shape recombination landscapes? To answer this we generated new wild tomato genomes and many reciprocal crosses with @usadellab.bsky.social www.nature.com/articles/s41...
nature.com
Wild tomato genome assemblies reveal structural variants and repeat content act as recombination barriers - Nature Communications
Introgression of genes from wild tomato species can enhance the robustness of modern tomatoes. Here van Rengs et al. describe the genomes of wild tomato species and show how reproductive gender and st...
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Björn Usadel @usadellab.bsky.social · 02/07/2026
1/ In 2014, we published the genome of the stress resilient wild tomato Solanum pennellii. It showed many new transposable elements – non randomly inserted. Now, a new chapter begins (and more is yet to come) with Willem Rengs and @charlieunderwood.bsky.social www.nature.com/articles/s41...
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Team Thomma @teamthomma.bsky.social · 25/06/2026
Thoroughly enjoyed this collaboration with @usadellab.bsky.social & @faltegoer.bsky.social groups in the @mibinet.bsky.social framework to characterize Peltigera lichen symbioses with major contributions from @ciarankelly.bsky.social & @yukiyosato.bsky.social
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Björn Usadel @usadellab.bsky.social · 25/06/2026
1/8 What if the genomic features we associate with fungal pathogens were also used by mutualists? We assembled 41 scale lichen genomes across 11 Peltigera species with 30 chromosome scale and 5 T2T revealing an unexpected genomic toolkit behind lichen symbiosis. doi.org/10.64898/202... #lichen
doi.org
A chromosome-scale super-pangenome of the lichen genus Peltigera reveals genome architecture and expanded interaction repertoires shared across pathogenic and mutualistic fungi
Fungi engage in associations with other organisms across a continuum from pathogenic to mutualistic lifestyles. Hence, they require a compendium of molecular capacities, including partner recognition,...
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Genome Biology and Evolution @genomebiolevol.bsky.social · 22/06/2026
Wong, Otte & Schmitt present over 30 new chloroplast and mitochondrial genomes of Trebouxia species, extracted from PacBio metagenomes of diverse Umbilicaria lichens from multiple climate zones. 🔗 doi.org/10.1093/gbe/evag129 #genome #evolution
GBE | Chloroplast and Mitochondrial Genomes of the Lichen-Symbiotic Green Alga Trebouxia Illuminate Evolutionary Relationships and Climate Associations and Yield New Phylogenetic Markers

Microscopic view of Trebouxia, the green algal partner (photobiont) isolated and cultured from an Umbilicaria lichen.
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Ingolf Kühn @ingolfkuehn.eurosky.social · 06/06/2026
New Preprint out. Great collaboration with colleagues from @awi.de, @GFZ.bsky.social, agrosphere-ibg-3.bsky.social, and @ufz.de Herzschuh et al.: Earth-positive futures: adaptive steering of trajectories for Earth-system functions at the wicked intermediate scale. [1/2]
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Björn Usadel @usadellab.bsky.social · 18/06/2026
Our @denbi.bsky.social NGS trimmer/preprocessor Trimmomatic has some additional speed ups using parallel (de)compression and some more developments upcoming. academic.oup.com/bioinformati... #NGS #bioinformatics #genomics
academic.oup.com
Trimmomatic: a decade of feature-rich, high-performance NGS read preprocessing
AbstractMotivation. Trimmomatic is a widely adopted tool for preprocessing high-throughput sequencing data, particularly from Illumina platforms. Since its
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Julia Frunzke @frunzkelab.bsky.social · 21/04/2026
Congratulations Florian!! @mibinet.bsky.social
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Björn Usadel @usadellab.bsky.social · 20/04/2026
Galaxy is really smashing it -with their training material. Here for helixer gene finding.
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de.NBI & ELIXIR Germany @denbi.bsky.social · 01/04/2026
FORGET SILICON: de.NBI Switches to 100% Organic Server Racks! 🧬🌿 We are phasing out traditional GPUs in favor of our new chlorophyll-powered compute clusters. Please remember to water your allocated cloud partition every Tuesday. #GreenIT #Bioinformatics #SustainableScience #DNAstorage #AprilFools
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Björn Usadel @usadellab.bsky.social · 01/04/2026
True green computing:-)
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Michael Raissig @michaelraissig.bsky.social · 13/03/2026
Our Review "Development, Anatomy and Integrated Function of Grass Leaf Veins and Graminoid Stomata" is out doi.org/10.1146/annu... Alec Baird and I discuss the development and function of the anatomical structures that regulate water supply (leaf veins) and water demand (stomata) in the grass leaf.
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Kedrov Lab @ HHU @kedrov-lab.bsky.social · 06/03/2026
What an amazing development here! @hhu.de 🤝@fz-juelich.de Best wishes for great science - and the highest hopes for future collaborations!
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CIBSS – Centre for Integrative Biological Signalling Studies @cibss.bsky.social · 06/03/2026
📢 #CIBSS research highlight! Prof. Dr. Thomas Ott @ottlab.bsky.social helped identify SYFO2, a protein that lets legumes 🫛☘️“open the door” to nitrogen-fixing bacteria. 🦠 The team even activated it in tomato 🍅 — suggesting this symbiosis could be engineered in new crops. 🌱 🔗 kurzlinks.de/v7bi
kurzlinks.de
A molecular ‘gatekeeper’ in plants opens the door for beneficial microbes
CIBSS researchers at the University of Freiburg are part of an international team that sheds light on a crucial step in the initiation of the symbiosis between plants and soil bacteria.
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GreenRobust @greenrobust.de · 05/03/2026
Next position advertised by our cluster: We are searching for a Lab Manager running the single cell-sequencing lab at Heidelberg University. adb.zuv.uni-heidelberg.de/info/INFO_FD...
adb.zuv.uni-heidelberg.de
Stellenausschreibungen an der Universität Heidelberg
Infosystem der ZUV
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ERGA - European Reference Genome Atlas @ergabiodiv.bsky.social · 04/03/2026
#ERGAReads | Helixer: ab initio prediction of primary eukaryotic gene models combining deep learning and a hidden Markov model 🧬 www.nature.com/articles/s41... #GenomeAnnotation #Helixer @natmethods.nature.com
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…
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Dolf Weijers @dolfweijers.bsky.social · 03/03/2026
We are very excited to share a new resource from our team: spatial subcellular proteome maps in plants! We developed an MS-based method that registers localizations of about 8000 proteins in Arabidopsis roots in a single experiment. (1/9) www.biorxiv.org/cgi/content/...
biorxiv.org
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German Society for Plant Sciences (DBG) @plantsciencedbg.bsky.social · 26/01/2026
New AI tool “Helixer” identifies genes in newly sequenced organisms. Helixer identifies genes directly from DNA sequences. Developed by team around @usadellab.bsky.social @fz-juelich.de, @apmweber.bsky.social , @sebtriesch.bsky.social @hhu.de et al. www.fz-juelich.de/en/news/arch...
fz-juelich.de
AI tool “Helixer” identifies genes in newly sequenced organisms
Researchers at Forschungszentrum Jülich and Heinrich Heine University Düsseldorf have developed a tool that could significantly transform genome research: Helixer identifies genes directly from DNA se...
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