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Elias Dohmen

@drdomain.bsky.social
112 followers 181 following 14 posts

edohmen.github.io Bioinformatician @Gerhard-Domagk-Institute of Pathology - University Hospital Münster From Evolutionary Biology through all OMICS to Biomedicine and Molecular Pathology...

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Reposted by Elias Dohmen
Johannes Köster @johanneskoester.bsky.social · 17/08/2026
We seek for an experienced bioinformatician to perform #Snakemake based reproducible multi omics data integration in order to decipher melanoma therapy resistance. The project is a DFG funded CRC and might be extended for up to 12 years. Details can be found here: karriere.ume.de/wp-content/u...
karriere.ume.de
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ELIXIR Europe @elixir-europe.org · 14/07/2026
📣 The position of #ELIXIR Director is open for applications! Apply now if you are a #lifesciences specialist with experience in #bioinformatics and will bring awareness of the needs of bioscience data users in both academia and industry. Apply by 10 August 🗓️ loom.ly/UpAh6aI
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Laurie Belcher @lauriebelch.bsky.social · 26/05/2026
We’re hiring for OrthoFinder! Great role for someone who enjoys scientific software development: Python, data analysis, workflows, Git, scalability, and making tools nicer to use. Comparative genomics or open-source bioinformatics experience would be a lovely bonus. my.corehr.com/pls/uoxrecru...
my.corehr.com
Job Details
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Nico Posnien @posnienlab.bsky.social · 03/04/2026
🚨 Postdoc Opportunity as part of DFG Research Training Group "GönomiX" at the University of Göttingen! ​We are seeking a bioinformatician/scientist to study cross-species comparison of Gene Regulatory Networks using our "Göttingen Zoo" of emerging model systems. #GoenomiX @bucherlab.bsky.social
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Genome Biology and Evolution @genomebiolevol.bsky.social · 19/11/2025
Grandchamp, @drdomain.bsky.social et al. publish a new Review on commonly used methods for de novo gene detection, address the limitations of nomenclature and detection methods, and establish a de novo gene annotation format to standardize reporting 🔗 doi.org/10.1093/gbe/evaf197 #genome #evolution
GBE | De Novo Gene Emergence: Summary, Classification, and Challenges of Current Methods
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Python Software Foundation @python.org · 12/11/2025
The PSF's 2025 end-of-year fundraiser is live 🐍🚀 #Python is for everyone—and it takes everyone to keep it thriving. Support the PSF, the Python community, and the language we love. Join in today 💛💙 donate.python.org #PythonForEveryone
donate.python.org
PSF Fundraiser 2025
The Python Software Foundation is the charitable organization behind the Python programming language.
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Rob Waterhouse @rmwaterhouse.bsky.social · 27/09/2025
Sign up today to receive the monthly newsletter from the ERGA European Reference Genome Atlas to learn about #biodiversy #genomics initiatives in #Europe, courses, jobs, conferences, & more www.youtube.com/watch?v=kYL9...
youtube.com
What is ERGA? - European Reference Genome Atlas
YouTube video by ERGA - European Reference Genome Atlas
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Elias Dohmen @drdomain.bsky.social · 12/11/2025
🧩 Thrilled to share our new paper in @genomebiolevol.bsky.social ! We present a comprehensive review of de novo gene emergence — providing a classification of current detection methods and a roadmap for addressing major challenges in the field of gene birth from non-genic sequences.
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Elias Dohmen @drdomain.bsky.social · 12/11/2025
🚀We’re excited to share our new paper in Bioinformatics! We introduce a user-friendly toolkit that implements our novel DeNoFo file-format for standardised annotation of de novo gene detection workflows — enabling reproducible methodology descriptions and easier dataset comparison across studies.
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Sebastian Höhna @hoehna.bsky.social · 11/11/2025
PhD position available in evolutionary genomics/bioinformatics (hoehnalab.github.io/job_adverts/...). Topic: analyzing gene expression evolution across several firefly species and linking expression changes to genomic architecture. The position is jointly supervised with @anaevolcatalan.bsky.social
hoehnalab.github.io
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Lars Eicholt @lacholt.bsky.social · 03/11/2025
The DeNoFo format & toolkit for annotating, assessing and comparing the tools and tresholds used in studies of de novo evolved genes is out now in Bioinformatics! Great effort led by @drdomain.bsky.social and Anna Grandchamp! academic.oup.com/bioinformati...
academic.oup.com
DeNoFo: a file format and toolkit for standardized, comparable de novo gene annotation
AbstractMotivation. De novo genes emerge from previously non-coding regions of the genome, challenging the traditional view that new genes primarily arise
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Oded Rechavi @odedrechavi.bsky.social · 15/10/2025
BIG ANNOUNCEMENT📣: I haven’t been this excited to be part of something new in 15 years… Thrilled to reveal the passion project I’ve been working on for the past year and a half!🙀🥳 (thread 👇)
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James McInerney @jomcinerney.bsky.social · 09/09/2025
I’ll be advertising a post-doc position (up to 3 year) soon. It will be for somebody that is a good programmer, interested in evolution & is keen to learn new machine learning & AI approaches. I don’t have a link to a job advertisement yet. The post will be hybrid working and based at U of Liverpool
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Elias Dohmen @drdomain.bsky.social · 08/09/2025
Going into my last week @uni-muenster.de and was really happy to have a final meeting with so many awesome people from @gevol.bsky.social . Good luck to all of you for your second phase projects, a great time and hopefully I'm crossing paths with some of you in the future! ☺️
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Christian Kost @kostchristian.bsky.social · 01/09/2025
Only 10 days left to apply: We are searching for a senior postdoc (3 +3 years) in the field of theoretical ecology and evolution. The position provides the opportunity to closely interact with experimentalists and develop own research projects. Please RT. Details 👇: shorturl.at/iiiOv
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Kelsey J.R.P. Byers @plantpollinator.bsky.social · 19/08/2025
Robert Waterhouse at #ESEB2025 - PIs/Profs please give your students a break when they're doing orthology, ancestral state reconstruction, gene/species tree reconciliation work - it's not an overnight process, there are no push-button tools, and fast doesn't equal correct! Love this :-)
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Christian Kost @kostchristian.bsky.social · 18/08/2025
Me and my group are searching for a senior postdoc (3 +3 years) in the field of theoretical/ computational biology. The position provides the opportunity to closely interact with experimentalists and develop own research projects. Please RT. Deadline: 11/09/2025 Details 👇: shorturl.at/iiiOv
shorturl.at
116 FB 5 Research Assistant (m/f/d) field of Theoretical Ecology and Evolution or Computational Biology: Uni Osnabrück
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Nico Posnien @posnienlab.bsky.social · 08/08/2025
If you want to discuss #networks in #evo-devo, you should join this year's satellite symposium of the @dzg2025berlin.bsky.social organized by the developmental biology section (@marketa-kau.bsky.social, Benjamin Naumann, Alexander Klimovich). I will talk about gene regulatory networks.
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Christian Kost @kostchristian.bsky.social · 08/08/2025
I am excited to announce that the position of a senior postdoc (3 +3 years) in the field of theoretical biology is available in my group. The position provides the opportunity to closely interact with experimentalists and develop own research projects. Please RT. Details 👇: shorturl.at/iiiOv
shorturl.at
116 FB 5 Research Assistant (m/f/d) field of Theoretical Ecology and Evolution or Computational Biology: Uni Osnabrück
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Laurie Belcher @lauriebelch.bsky.social · 16/07/2025
OrthoFinder just dropped a major update It’s faster, more accurate, and ready for thousands of genomes Let’s break it down (1/10) github.com/OrthoFinder/... www.biorxiv.org/content/10.1...
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Rob Waterhouse @rmwaterhouse.bsky.social · 11/07/2025
BUSCO v6.0.0 has been released. busco.ezlab.org
busco.ezlab.org
BUSCO - from QC to gene prediction and phylogenomics
from QC to gene prediction and phylogenomics
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Earth BioGenome Project 🌍 @ebpgenome.bsky.social · 23/06/2025
🚨 Abstract deadline approaching! 🧬 Are you passionate about decoding life through genomics and cutting-edge science? 📅 Don’t delay—register today and submit your abstract! 🚨LINK to apply 👉 bit.ly/4n9AuqN
bit.ly
Understanding Life: Using Largescale Biodiversity Reference Genomes — 20251027
Understanding life: Using largescale biodiversity reference genomes
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Elias Dohmen @drdomain.bsky.social · 12/06/2025
🚨 New preprint alert! 🚨 🔬 Ever wondered how new genes emerge from scratch? Meet DESwoMAN, a fully automated pipeline to detect and analyze newly expressed ORFs (neORFs) from transcriptome data — giving us a window into the earliest stages of de novo gene emergence! (Thread 🧵👇)
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Society for Molecular Biology and Evolution @official-smbe.bsky.social · 18/04/2025
📖 SMBE journals on Bluesky Interested in learning the latest advances in evolutionary biology, genomics, and molecular biology? Follow the SMBE sister journals MBE and GBE here on Bluesky and get updates on new articles coming out. MBE: @molbioevol.bsky.social GBE: @genomebiolevol.bsky.social
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Gregg Thomas @gwct.bio · 05/06/2025
Recently I developed several Snakemake workflows for tasks related to Cactus and HAL files, including whole genome alignment and pangenome inference. The goal was to perform these tasks efficiently on SLURM-based (or possibly other) clusters. I hope they are useful! github.com/harvardinfor...
github.com
GitHub - harvardinformatics/cactus-snakemake: Snakemake workflows for performing whole genome alignment with Cactus efficiently on SLURM clusters
Snakemake workflows for performing whole genome alignment with Cactus efficiently on SLURM clusters - harvardinformatics/cactus-snakemake
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James McInerney @jomcinerney.bsky.social · 01/06/2025
YUP. Made an error in the very first post. Correct link is: github.com/mol-evol/gcua
github.com
GitHub - mol-evol/gcua: GCUA - General Codon Usage Analysis (v2.0)
GCUA - General Codon Usage Analysis (v2.0). Contribute to mol-evol/gcua development by creating an account on GitHub.
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Rob Waterhouse @rmwaterhouse.bsky.social · 24/05/2025
The WorkflowHub registry has a global reach, with hundreds of research organisations involved, and more than 800 workflows registered. www.nature.com/articles/s41... #bioinformatics #FAIR
nature.com
WorkflowHub: a registry for computational workflows - Scientific Data
Scientific Data - WorkflowHub: a registry for computational workflows
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Alexis Stamatakis @stamatak.bsky.social · 15/05/2025
RAxML-NG v2.0 beta is here github.com/amkozlov/rax... Features 1. Difficulty prediction academic.oup.com/mbe/article/... 2. Adaptive search academic.oup.com/mbe/article/... 3. Early Stop www.biorxiv.org/content/10.1... 4. Model selection 5. Rapid bootstrapping academic.oup.com/mbe/article/...
github.com
Release RAxML-NG v2.0-beta2 · amkozlov/raxml-ng
Main new features Adaptive tree search heuristic (Togkousidis 2023) , (Togkousidis 2024) Multiple fast branch support measures Integrated model testing Full Changelog: 1.2.2...2.0-beta2
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Claudia Alvarez Carreño @claudiaalcar.bsky.social · 01/05/2025
We are pleased to announce that the next speaker in the ProSE seminar series will be Dr. Klara Hlouchova with a talk on "Protein Structure Before LUCA" May 13, 4PM CET Registration link: tinyurl.com/prose-seminar4 Please share!
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Rob Waterhouse @rmwaterhouse.bsky.social · 24/04/2025
⏩ Is your institute part of the @elixir-europe.org Network? ⏩ Do you work with #biodiversity #data? The ELIXIR #Biodiversity Community 🟢 Recommendations: f1000research.com/articles/10-... 🟦 Goals: elixir-europe.org/communities/... 🟢 Community: f1000research.com/articles/12-...
f1000research.com
F1000Research Article: Recommendations for connecting molecular sequence and biodiversity research infrastructures through ELIXIR.
Read the latest article version by Robert M. Waterhouse, Anne-Françoise Adam-Blondon, Donat Agosti, Petr Baldrian, Bachir Balech, Erwan Corre, Robert P. Davey, Henrik Lantz, Graziano Pesole, Christian...
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Jos Kramer @joskramer.bsky.social · 24/04/2025
🎓 #PhD in Evolutionary Ecology @UniBayreuth 🇩🇪 Parental care vs microbe communities in burying beetles 🪲🧫 ERC-funded | 3 years | behavioral ecology & metabarcoding Details: tinyurl.com/CareVsMicrobes Apply by May 16, start in September #AcademicSky #Microbiome #SocialEvolution #Insects
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Joana Meier @joanameier.bsky.social · 24/02/2025
Do you use Darwin Tree of Life (DToL) genomes for your work or grant applications? If so, can you please fill out this form? docs.google.com/forms/d/e/1F... We are gathering info on how DToL genomes are used. It will help us raise money to continue producing publicly available high-quality genomes.
docs.google.com
Darwin Tree of Life Impact Assessment
This form is used to share information within DToL about case studies, ongoing research, and funding awards that demonstrate the impact the Darwin Tree of Life consortium project has had on Global and...
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Rob Waterhouse @rmwaterhouse.bsky.social · 09/04/2025
A trove of new termite genomes www.biorxiv.org/content/10.1... #biodiversity #genomics
biorxiv.org
Unravelling termite evolution with 47 high-resolution genome assemblies
Termites are a lineage of social cockroaches abundant in tropical ecosystems where they are key decomposers of organic matter from wood to soil. Despite their ecological significance, only a handful o...
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Rob Waterhouse @rmwaterhouse.bsky.social · 06/04/2025
How #genome-wide sequence divergence maps to species status www.pnas.org/doi/10.1073/... #biodiversity #genomics
pnas.org
Genomic divergence across the tree of life | PNAS
Nucleotide sequence data are being harnessed to identify species, even in cases in which organisms themselves are neither in hand nor witnessed. Bu...
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Elias Dohmen @drdomain.bsky.social · 03/04/2025
De novo genes research community 🧬 - please consider using for your future or past work our new methodology annotation format for better comparability of studies and higher reproducibility. (1/3)
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Christian Kost @kostchristian.bsky.social · 03/04/2025
Dear Blueskye-verse, I have a question: We are about to buy a new 96-well microplate-reader that we want to use for measuring OD and fluorescence in long-term-cultivation experiments inside the platereader (to e.g. measure growth rate). Which instruments/ brand can you recommend?
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Silvia Manrique @tank-silvia.bsky.social · 02/04/2025
🧪📣Course alert!📣🧪 Applications are open for the new edition of the @EMBO.org course on Genome assembly and downstream analysis in Florence 🇮🇹. We can’t wait to welcome a new group of participants after the success of🇧🇪 & 🇪🇸 editions. 🗓️ Apply by May 31. 🧪🧬🖥️ #EMBOgenomeSeq #ScienceTraining
meetings.embo.org
Genome sequencing, assembly, curation, and downstream analyses
Advances in long-read sequencing methods such as Pacific Biosciences (PacBio) and Oxford Nanopore Technologies (ONT) and scaffolding approaches using chromosome conformation capture have significantl…
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SPP 2349 Gevol @gevol.bsky.social · 02/04/2025
Check out the recent "Genetics" paper by our Gevol members Pete Czuppon and Daniel Omole: "Maintenance of long-term transposable element activity through regulation by nonautonomous elements" doi.org/10.1093/gene...
doi.org
Maintenance of long-term transposable element activity through regulation by nonautonomous elements
Abstract. Transposable elements are DNA sequences that can move and replicate within genomes. Broadly, there are 2 types: autonomous elements, which encode
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Bruno Cuevas Zuviría @brunocuevaszuviria.bsky.social · 24/03/2025
Join us this August in Barcelona for the @eseb2025.bsky.social. In "The Future Meets The Beginning: Synthetic Biology, Evolution & Origin of Life," we will explore the connections between these topics. Submit your abstract before the 25th of April! #evolution #science #synthetic_biology
ESEB2025 "The Future Meets the Beginning: Synthetic Biology, evolution & origin of Life" symposium flyer, which features Klara Hlouchova and Ryo Mizuuchi as featured speakers, and is organized by Bruno Cuevas-Zuviría, Katsumi Hagino, and Evrim Fer.
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Bornberglab @bornberglab.bsky.social · 24/03/2025
Marie, Sarah, Bharat and Lars (@lacholt.bsky.social) presented their research last week at the Münster Evolution Meeting 2025!
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SPP 2349 Gevol @gevol.bsky.social · 21/03/2025
We are looking forward to your abstracts for our Syposium #29 Genomic Basis of Evolutionary Innovations @eseb2025.bsky.social in 🌞Barcelona this August ➡️ eseb2025.com/list-of-symp...
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Max Körner @max-evolbio.bsky.social · 17/03/2025
Excellent first day (and finish) at MEM25 :) with @drdomain.bsky.social and @joskramer.bsky.social & @kathrinaotte
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Centre de Regulació Genòmica (CRG) @crg.eu · 27/02/2025
The AI tools in the study could one day be used to design enzymes capable of entirely new chemical reactions that do not exist in nature, says @noeliaferruz.bsky.social in @nature.com. “The limitations are just basically your imagination; you can design anything.”
nature.com
Scientists use AI to design life-like enzymes from scratch
Combined approach takes AI-engineered enzymes one step closer to practical applications.
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Boas Pucker @bpucker.bsky.social · 28/02/2025
I am trying to find everyone working on plant genomics: go.bsky.app/NqARJ7V Please let me know who is already on @bsky.app, but missing in this #PlantGenomics starter pack
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Luisa F. Pallares @luisapallares.bsky.social · 26/02/2025
Deadline for abstract submission is this Friday! Hope to see many of you (n=40) this June in Tübingen!
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Gemma C. Atkinson @gemmaatkinson.bsky.social · 26/02/2025
Post-doc opportunities! Wet/dry/hybrid projects available in my group. Drop me an email with CV if interested. www.scilifelab.se/research/pul...
scilifelab.se
Pulse - Application
Application PULSE postdoc applicants have the opportunity to choose between an academic or an entrepreneurial track. Both fellowship tracks will include advanced training in research and transferable ...
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Rob Waterhouse @rmwaterhouse.bsky.social · 25/02/2025
Resulting from an @snsf-ch.bsky.social SPARK grant this took some time to mature, but the outcome is very imformative and builds a foundation for where to head next - how to liberate facts/information locked in the published literature www.biorxiv.org/content/10.1... #textmining #biodiversity
biorxiv.org
From literature to biodiversity data: mining arthropod organismal and ecological traits with machine learning
The fields of taxonomy and biodiversity research have witnessed an exponential growth in published literature. This vast corpus of articles holds information on the diverse biological traits of organi...
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