MPRAs are the gold-standard tool for measuring how DNA sequences drive gene expression and prioritizing variant effects.
In this preprint we asked: does it matter WHERE you place a variant in an MPRA?
Spoiler: yes, and it might lead you to miss disease-causing variants. 1/6
doi.org/10.64898/202...
🚨We are recruiting two PhD students 🚨
1) Quantitative & dynamic analysis of limb-regenerative signaling centers w/ @osvaldo-chara.bsky.social 📶🧮💻
🔗www.phd.tuebingen.mpg.de/80704/Quantitative-and-d...
I wrote a guide on constructive peer review. This is a polished version of an internal guide I had for my group. Of course, constructive feedback is welcome, peers!
deboer.bme.ubc.ca/2025/12/09/g...
👋@sbmeubc.bsky.social and @bccancerfdn.bsky.social are seeking a successful candidate for the Dr. Connie Eaves Chair in Cancer Stem Cell Research (Professor or Associate Professor with tenure). Please apply if you have innovative engineering solutions and technologies!
www.nature.com/naturecareer...
We are hiring a PhD intern for Summer 2026 in ML for regulatory genomics at ReLU/BRAID/Genentech! Work on DNA sequence models for the noncoding genome (e.g. DNA design, models of MPRA and genetic variants)! 🥳
I built a specialized reader for researchers to keep up with the literature. It aggregates papers from 3200+ journals into a clean, unified feed.
Let me know what you think!
uncited.org
“We fundamentally believe that publishing less – but better – is essential for the health of the entire research system worldwide,” the authors of the report state.
1/ Why are eukaryotic gene regulatory networks (GRNs) so much more complex than prokaryotic ones?
In our new preprint, we investigated the role that recombination – a key step in eukaryotic reproductive strategies – plays in this problem! www.biorxiv.org/content/10.1...
Passionate about single-cell method development? 🔬 Join our lab as a Postdoctoral Fellow at @UBC and help uncover androgen receptor enhancer mechanisms in prostate cancer.
ubc.wd10.myworkdayjobs.com/en-US/ubcfac...
To all post-docs: The Genome Biology dept @embl.org
has an Independent faculty position. Fantastic place to set up your lab –great package: core funding, fantastic Ph.D. students, cutting edge core facilities & great colleagues. Closing date Sept 19th
embl.wd103.myworkdayjobs.com/en-US/EMBL/j...
SOOOO MANY GENOMICS MODELSSSS! 😱 Often unclear which is best since they benchmark differently! In this preprint, we introduce GAME, a new framework that utilizes APIs to enable sustainable, uniform model evaluation so we can see which is actually best for each task. doi.org/10.1101/2025...
Free in-person registration is open for #MLCB2025! Sept 10-11 at @nygenome.org and online at youtube.com/@mlcbconf. Paper/abstract deadline is June 1, more deets including our fantastic invited speaker lineup at mlcb.org! Please RP.
Sevgili gençler, hazırlanın, büyük bir yolculuğa çıkıyoruz.
CAGT Poster featuring Keynote, Dr. Calin Plesa, of DropSynth fame!
⏰Abstract deadline for the Cascadia Advanced Genomic Technologies Meeting is April 30!⚠️ We're hoping this will be the first of many, catalyzing collaboration and leveraging our regional strength in advanced genomics technologies! See you there!
de-boer-lab.github.io/CAGT_meeting/
Clone bunch of gRNAs in one go! 🚀
Multiplexed CRISPR-Cas9 is driving next-gen functional genomics: think gene regulation, base editing, and combinatorial screens. However, efficiently delivering many gRNAs simultaneously into cells remains tricky. One elegant solution? gRNA arrays... (1/11)
Latest preprint from the lab describing a super fast way to clone arrays of CRISPR guide RNAs. If you want to target multiple sites simultaneously, and want fast iteration on building and testing arrays of guides, look no further!
Bonus: it's named after a Pokemon🔥🦄
Merhaba!
Join us June 19-20, 2025 in Vancouver BC for the Cascadia Advanced Genomic Technologies meeting! Featuring Keynote speaker Calin Plesa @calin.bsky.social Abstract deadline April 30🔔, but registration is capped so don't wait! 😱
de-boer-lab.github.io/CAGT_meeting/
0/ Essential reading for anyone training or using sequence-function models trained on genomic sequences! 🚨 In our new preprint, we explore the ways homology within genomes can cause leakage when training sequence-based models and ways to prevent it
Beware! AAV libraries prone to length & homology dependent chimerism! Our latest preprint, from the brilliant @jblalanne.bsky.social, was a true surprise as related phenomena are textbook for lentivirus (highly relevant to HIV & Perturb-seq) yet to our reading not known for AAV tinyurl.com/5amc562a
🎉 Excited to announce job openings in our new lab @mpi-bio-fml.bsky.social in Tübingen!🇩🇪Looking for enthusiastic colleagues to explore regeneration together! We have positions for:
🔬 Research Technician
💻 Bioinformatician
🎓 PhD Studentship
🧪🔬📖 Postdocs
Details and links below👇
