Research associate at @institutrb. Interested in #ComputationalBiology and #Bioinformatics, as well as #RegulatoryGenomics and #ComparativeGenomics
Republic of Croatia
Joined July 2011
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Damir Baranašić retweeted
looking to develop your computational biology skills ..... we have an new MSc course running at Cardiff uni this year! take a look ... cardiff.ac.uk/study/postgrad…
Damir Baranašić retweeted
Can we build multimodal models by simply aligning pretrained unimodal models with limited paired data?
We introduce STRUCTURE 🏗️: a lightweight, plug-and-play regularizer that preserves latent geometry to align frozen unimodal models using <1% of paired data typically used in the field #AI #MachineLearning #MultimodalAlignment
🚀 +51.6% avg boost in zero-shot classification
🔍 +91.8% in retrieval tasks
Very proud of the fantastic team @FabianGroger @ShuoWen18 Huyen Le
Paper: arxiv.org/abs/2506.16895
Project webpage: brbiclab.epfl.ch/projects/st…
Damir Baranašić retweeted
Why are there intronic reads in your bulk RNA-seq data?
You're not alone—it's common, and the reasons are more layered than you think.
Let’s break it down. 🧵
Damir Baranašić retweeted
New lab preprint - an awesome collaboration with @jjtenagu lab and @A_RuizHerrera and @malmuedocas labs is just out - check out the regulatory dynamics of zebrafish spermatogenesis 👇
Ever wondered how sperm are formed? Spermatogenesis is a microscopic marathon that starts in the testes and ends with fully functional sperm! Our new preprint biorxiv.org/content/10.1101/… takes a deep dive into zebrafish spermatogenesis, mapping out every fascinating step. 🧵👇 1/7
Damir Baranašić retweeted
🌟 Exciting news for all #Multicellularity enthusiasts! 🌱🧬🦠
Mark your calendars, and pre-register, for the EMBO Workshop: "Evolution and Origins of Multicellularity Across the Tree of Life"
📅 October 9-11, 2025
📍 Barcelona
🧑🤝🧑 Organized by @victoriashabard @MartonaAlvarez @koryu_kin Guifré Torruella & Aurora Nedelcu
✨ Fantastic line-up of speakers – more info coming soon!
🔗 Pre-register here: coming-soon.embo.org/w25-102
📽️ Watch the teaser below!
@IBE_Barcelona @CSICCat @the_prbb @EMBO
Damir Baranašić retweeted
🚨 PhD in Bioinformatics & Gene Regulation 🚨
Join the Bioinformatics in Life Science initiative through a multidisciplinary project to unravel gene regulation from DNA to proteins, co-supervised by @eviledv @jonnings and me @biovitenskap @NCMMnews!
jobbnorge.no/en/available-jo…
Damir Baranašić retweeted
We're #hiring a postdoc to study epigenetic imprinting during adipogenesis.
Cool interdisciplinary project to analyze ChIP-seq, ATAC-seq, Hi-C, and CAGE. The postdoc will be co-supervised by P. Chymkovitch @biovitenskap and me @NCMMnews.
Spread the word!
jobbnorge.no/en/available-jo…
Damir Baranašić retweeted
Suuuuuuuper excited to see our work on the transcriptional dynamics of TEs across mammalian embryos finally out on @CellCellPress !
Short version: from rabbits, to cows, to pigs, to mice and even monkeys... TEs of all classes and ages are transcriptionally activated at ZGA ⚡
Very excited that our paper is now online! cell.com/cell/fulltext/S0092…
Long thread on our findings on the other app 🦋
Damir Baranašić retweeted
Join the EuroFAANG G2P-in-a-Dish workshop online!
🗓️ 3-7 February 2025
📍 Online
Discover how G2P approaches are transforming livestock research, breeding, and sustainability. Registration is open until 24 January—don’t miss out! Secure your spot 👉 bit.ly/3DSmAr1
Damir Baranašić retweeted
Single Cell & Spatial Transcriptomics Analysis
@cshlcourses @CSHL
Key Dates
Application Deadline: March 15th, 2025
Arrival: June 26th by 6pm EST
Departure: July 14th around 12pm EST
Topics
-Droplet-based single cell RNA-seq using RNA Flex Technology.
-Single-Cell Imaging using Single cell Transcriptomics And Multimodal Profiling though imaging (STAMP) using Xenium Technology.
-Spatial Transcriptomics of tissues using Visium HD
-Single-Cell Western blot
-Single-Cell Mass Spectrometry
-Photoactivatable Single cell probes
-Introduction to Bioinformatics (R/Python)
-Single-Cell and Spatial Transctiptomics Bioinformatics and more!
Amazing evening speakers too!
meetings.cshl.edu/courses.as…
Damir Baranašić retweeted
We have two open PhD positions in my group at @CRGenomica.
We are seeking candidates with a background in comp. and/or molecular biology, and with a broad interest in evolution, gene regulation, and comparative genomics.
🗓️Apply before Jan 12 here: crg.eu/en/content/training-p…
Damir Baranašić retweeted
🚀 We're #Hiring #PhD students at MLBio Lab at @EPFL_en through the EDIC Program!
📅 Deadline: Dec 15
Are you passionate about generative AI, unsupervised learning and solving problems in biomedicine? 🧬 Apply & mention your interest in your application.
💥 We're part of @ICepfl and @epflSV, which gives access to excellent collaborators, network, and resources!
👉 Learn more at brbiclab.epfl.ch! Questions? Drop us an email.
Damir Baranašić retweeted
Acute multi-level response to defective de novo chromatin assembly in S-phase (Dreyer et al., 2024) cell.com/molecular-cell/full…
Damir Baranašić retweeted
💎Brilliant new work from @RuedaLab, @MRC_LMS @ImperialInfect & @ICStructBio in @Nature uncovers how the SWR1 enzyme reduces genome instability by ‘flipping’ nucleosomes over to modify histones on each side.
bit.ly/3NVGZNz
Damir Baranašić retweeted
📢 We are hiring Group Leaders! 🌊
Come join our team @UiB to lead innovative research in molecular, cellular and organismal biology using marine/aquatic organisms! ⌛️ Application deadline Dec. 15. Share this exciting opportunity ⤵️
tinyurl.com/4bwn8u3n @embl @EMBRC_EU
Damir Baranašić retweeted
Fantastic work by Wallace, many colleagues and collaborators of the #FANTOM6 consortium. Identification and characterisation of full-length structures of eRNA, and other non coding RNAs, is essential for our understanding of biology.
Excited to share our new preprint on "CFC-seq & enhancer-derived transcription". We have identified ~24,000 eRNAs and their transcription are correlated with enhancer structures. Read more on @biorxivpreprint: [doi.org/10.1101/2024.10.31.6…]
Damir Baranašić retweeted
Does 6mA exist in eukaryotic DNA? This is our take on this dispute: yes it does, and can be very abundant, but mostly correlates with presence of the MT-A70 writer AMT1. Then, 6mA is associated with transcriptionally-permissive chromatin (H3K4me3) 1/6: biorxiv.org/content/10.1101/…
Damir Baranašić retweeted
I am very happy to announce that our work on hemichordate gene expression and chromatin accessibility dynamics is now published on Nature Ecology and Evolution! nature.com/articles/s41559-0…
Damir Baranašić retweeted
Are you a graduate student or postdoc wishing to make a collaborative visit to another lab? Apply by 25 October for a Travelling Fellowship of up to £3,000 from @Dev_journal, @J_Cell_Sci, @J_Exp_Biol and @DMM_Journal.
Find out more at
biologists.com/grants/travel…
