📣 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 🗓️ https://loom.ly/UpAh6aI

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...

🚨 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

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

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

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...

What is ERGA? - European Reference Genome Atlas

YouTube video by ERGA - European Reference Genome Atlas

youtube.com

🧩 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.

🚀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.

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

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...

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

academic.oup.com

Elias Dohmen@drdomain.bsky.social · last yr.

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)

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 👇)

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

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! ☺️

SPP 2349 Gevol @gevol.bsky.social · 11mo ago

Many thanks to all GEvol members for a truly wonderful annual meeting. It was really great to catch up with you all again.

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

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 :-)

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

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.

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

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...

BUSCO v6.0.0 has been released. busco.ezlab.org

🚨 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

Wellcome Connecting Science Learning and Training@eventswcs.bsky.social · last yr.

Present your insights from studies into #eukaryotic genomes at our #Biodiversity25 conference! 📈 🗓️ 27-29 October 2025 Submit by 14 July 📩 We encourage submissions showcasing best practices for applying new methods and resources to analyse #biodiversity genomes at scale 🌳🧬 📎 bit.ly/4j3vAZ9

🚨 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 🧵👇)

📖 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

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 - 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

github.com

YUP. Made an error in the very first post. Correct link is: github.com/mol-evol/gcua

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.

github.com

James McInerney@jomcinerney.bsky.social · last yr.

Thread: Introducing GCUA v2.0 (General Codon Usage Analysis) - a Python tool for analysing codon usage patterns in DNA sequences! Originally developed in 1998, now completely rewritten with modern features. Let me walk you through what I like about this version (PLS RT) github.com/mol-evol/gcu...

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

WorkflowHub: a registry for computational workflows - Scientific Data

Scientific Data - WorkflowHub: a registry for computational workflows

nature.com

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/...

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

github.com

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!

⏩ 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 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...

f1000research.com