Congrats on the amazing work @jgahan.bsky.social and the team!

I am very proud to see @kkajan.bsky.social and Marta Bosnjakovic from my group presenting their exciting results obtained from #CAGE data! #CroAGE #nextGenerationEU

To recognise and celebrate @svobodalab.bsky.social's pivotal contribution to Woodstock Bio2 + Night Science, #TCTeAC, I am starting this "What Petr Svoboda did at Woodstock?" thread. If you were there - #contribute and #retweet. "Petr Didn’t Submit an Abstract. #TCTeAC Submitted to Him."

🐦 @kkajan.bsky.social is exploring promoter usage during early avian development in #EvolCompGen. #ISMBECCB2025

📈 Scaling CAGE analysis across tens of #DANIO-CODE samples with the @nf-co.re inspired CAGEflow pipeline —big data meets promoters. Catch Ira's poster D-515! 🦓🐠

🦓🐠 Building the first promoter atlas of adult zebrafish organs—expanding #DANIO-CODE. Visit Marta at poster C-514. #zebrafish #CAGE

🤖 @da-bar.bsky.social is exploring AI-driven promoter architecture characterisation from CAGE! Come chat at poster D-507 at #ISMBECCB2025 @iscb-regsys.bsky.social

🚀 The CroAGE team is attending to Liverpool for #ISMBECCB2025! Catch our CAGE & promoter research posters all week at ACC Liverpool. Thank you #nextGenerationEU for the opportunity🧵

Do we really need large language models to tell us that the germline residue is the optimal one? One of the questions Charlotte Dean tackled in her talk at #ISMBECCB2025, and how she and her team addressed the problem of germline bias in antibody target prediction 🧬🔬💻🤖

Today marks the start of the #RegSys @iscb-regsys.bsky.social track at ##ISMBECCB2025! Very much looking forward to listening to the exciting science that will be presented. Join us in room 11BC today and tomorrow.

🚨 We're hiring! NCMBM @ncmbm.bsky.social is looking for 2 new group leaders to join our vibrant research community. Ready to build your own group with strong support and a solid startup package? Interested and attending #ISMBECCB2025? Let’s connect! 🔗 www.jobbnorge.no/en/available...

Day 3 of #ISMBECCB2025 started with an excellent talk from @jameszou.bsky.social which presented how AI can form virtual labs to discuss problems, how can AI reanalyse research data to get new biological results, and how we can interpret complex AI predictions 💻🤖

Today's keynote at #ISMBECCB2025 Amos Bairoch talking about 45 years of data curation #swissProt #cellosaurus

Eagerly waiting for the start of #ISMBECCB2025 with @croage.bsky.social team, @kkajan.bsky.social, Marta and Ira, with the great company of @damlaob.bsky.social and @ferenckata.bsky.social for a keynote talk from John Jumper 🧬🔬

Meet our team! 👨‍🔬 Dr. Damir Baranašić – Project Leader @da-bar.bsky.social 🔬 Dr. Matija Piškorc – Research Associate 👩‍🔬 Dr. Katarina Kajan – Postdoc @kkajan.bsky.social 🧬 Marta Bošnjaković & Ira Renko – PhD candidates

Using cutting-edge technologies like CAGE (Cap Analysis of Gene Expression) and AI-driven algorithms, we aim to develop tools to explore promoter architecture & identify novel antitumor targets.

🚀 Introducing CroAGE – a #NextGenerationEU project advancing regulatory & comparative genomics in 🇭🇷 Croatia! We study gene promoters to understand how they control development & how tumours disrupt transcription. 🔗 croage.eu/en

Oh boy, what an intensive and exciting June is behind me!! After three excellent meetings, including #TCTeAC, the Origin of Metazoans at @sbroscoff.bsky.social, and finally the @embo.org YIP annual meeting, #ISMBECCB2025 you are next!!! 🧵

Extremely proud to be part of this story! 🧬🔥 Our @nature.com paper, led by Will Scott @mrc-lms.bsky.social , maps 171k nuclei in human fat. Weight loss reverses senescence & reignites metabolic flux, but macrophages remain primed—clues for future therapies. www.nature.com/articles/s41...

I am glad to announce that the #DANIO-CODE Data Coordination Center is back online at a new home: danio-code-dcc.genereg.net Thank you all for your patience and sorry for any inconvenience!

I am happy and extremely proud to be able to contribute to this work with Irène Amblard and @vmetzis.bsky.social, where by changing one motif we completely rewired the function of a regulatory element!🔬🧬 Now out in Developmental Cell!

What do you write at the end of the #TCTeAC survey email?

It was my pleasure to be a part of the birth of a legend at the #TCTeAC

@bzunar.bsky.social and I are first to the YMCA camp for the grand finale of the @woodstocknightsci.bsky.social #TCTeAC #theconferencetoendallconferences

@itaiyanai.bsky.social introducing @bzunar.bsky.social to his victim #TCTeAC

#TCTeAC right now!

Bojan Žunar at the Woodstock Night Science #TCTEAC

@bzunar.bsky.social didn't anthropomorphize genes - it's clearly a duck 🦆 #TCTeAC #theconferencetoendallconferences

The second day of @woodstocknightsci.bsky.social starts with the session "Don't anthropomorphize genes - they don't like it"! Excited to see what the organisers have in store for us today! #theconferencetoendallconferences #TCTeAC

#theconferencetoendallconferences @woodstocknightsci.bsky.social is about to start! Happy to attend with @bzunar.bsky.social

I am excited to see the method we used in DANIO-CODE now fully developed as #IPP — and successfully tested on heart enhancers between chicken 🐔 and mouse 🐭! 🧬 Thanks to @danielibrahim.bsky.social for leading this. Proud to be part of it! Exciting times for future comparative regulatory analyses 🚀

6 days left to apply to the Post-doc opening in our lab @ebi.embl.org to develop&apply #bioinformatics & #machine-learning methods to study intra-/extra cellular networks to extract disease mechanisms from #single-cell and #spatial multiomic data: embl.wd103.myworkdayjobs.com/EMBL/job/Hin...

Failure is always in the background of any creative project; when the experiments are not working or the results don’t seem to make sense. But for discovery, you can’t deny yourself the permission to fail, and we should better teach failure in all its glory.

Our speaker application is still open! Fill out the survey to come share your research with the Fragile Nucleosome community!

Do you have a new and exciting chromatin/transcription story that you'd like to share with an enthusiastic audience? If so, you should apply to give a talk in the 2025 Fragile Nucleosome seminar series: forms.gle/fwMYPFDf4az3...! We're open to scientists at all stages of their careers!

From the DSLC.io aRchives: 🔵 Advanced R: Function Factories youtu.be/U-CoF7MCik0 🔵 Computational Genomics: Unsupervised and Supervised Machine Learning youtu.be/HfA6GCinHTo Visit dslc.video for hours of new #DataScience videos every week! #dataBS #RStats

Thrilled to see #choanoflagellates on the cover of Science Advances🤩. Our latest work "Electrical signaling and coordinated behavior in the closest relative of animals" out now. Link: www.science.org/doi/10.1126/... 👏 @jeffcolgren.bsky.social @msarscentre.bsky.social

🌟 PhD Opportunities at Ruđer Bošković Institute! 🌟 Join @daniorecode.bsky.social! 🐟 💡 DC5: Transcription initiation in regenerative neurogenesis. 💡 DC6: Genomic insights from models to human regulation. 🗓 Apply by Dec 20, 2024. 👉 euraxess.ec.europa.eu/jobs/290548 🚀 Let’s decode regeneration!

🌟 PhD Opportunities! 🌟 Join @daniorecode.bsky.social with 15 positions across Europe! 🐟 Are you passionate about regenerative genomics? Collaborate with top institutions and cutting-edge tools! 🌍 🗓 Apply by Dec 20, 2024. 👉 euraxess.ec.europa.eu/jobs/290548 🚀 Let’s decode regeneration!

Our paper on the origin and properties of elusive 3' UTR-derived capped mRNA fragments is out. Great work by Nejc Haberman in collaboration with the labs of Aida Martinez-Sanchez, Chris Sibley, and Jernej Ule. link.springer.com/article/10.1...

SOX and POU are crucial Transcription Factors in animal development, believed to be innovations of this group. Here we find them in unicellular relatives of animals. And hold tight, you can use a choanoflagellate 🦠 SOX gene to make a full chimeric 🐁 ! Read more here 🧵: rdcu.be/d0dPN 1/6

There's a lot of new people here. Welcome! So I'm reposting our starter pack. go.bsky.app/Npxsd7h

The new program of Evolutionary Medical Genomics, lead by @mirimiam.bsky.social, and shared between our Institute, CRG & UPF will hold its 1st symposium next week. Our work on unicellular relatives of animals and tumorigenesis will be represented by Yosuke. Link: evomedgenomics.com/events/inaug...

I am excited to share that I will be starting my lab at UCL as part of the LMCB @LMCB_UCL in 2024. We will be studying how cis-regulatory elements controls cell fate decisions during development. We are recruiting at all levels. Learn more and reach out!

Happy to share that the Gahan lab will be branching out (or more like returning) to working on Nematostella in the near future. Details will follow but for now if anyone is interested in doing a Postdoc or PhD in 2025 on chromatin in Nematostella drop me a message :)

Interested in difficult to access parts of genetics, cellular & structural biology? Join us in Edinburgh 2-4th April 2025 for "Hidden Cell, Dark Genome" Regulation in the dark genome Uncharted proteins, RNA complexity Atomic structures at cellular scale Cell diversity www.ed.ac.uk/c/hidden-cel...

🚨🚨Group leader open position in the Genome Biology Department of the I2BC. More information : i2bc.paris-saclay.fr/jobs/ deadline January 15th, 2024!

There are only 10 days left to apply to the postdoc position in our group to generate deep learning models to enhance the JASPAR database! Spread the word.

For my first post, I waited for this occasion! 🎉 I am glad I could contribute to yet another release of JASPAR, led by @amathelier.bsky.social 's group! Please make sure to check the accompanying Bioconductor package: bioconductor.org/packages/rel...