Eva Holtkamp

Hot off the press! Jun Cheng presents AlphaGenome at the Kipoi seminar this Wednesday. Don’t miss it.

How many high-impact developmental variants are we missing by relying only on adult splicing annotations?
We address this in our preprint “Aberrant splicing prediction during human organ development”: www.biorxiv.org/content/10.1...

Staying active during this time #ASHG25 is important🏋️‍♀️, so go and check out Shubhankar’s poster! Really happy to be part of this project!

DeepRVATv2 is in the making! We learn from >60M WGS variants, >90 features, and 500k UKB participants to predict gene impairment beyond coding regions and showcase how DeepRVAT can advance rare disease diagnostics and gene constraint measurement.

Learn more at my Poster 5058W, Wed 2:30pm #ASHG25

This was such a special event! So grateful that I could be part of it, learning about great science, making truly unique connections with amazing fellow students and tutors, and even learning how to punt 🛶 Huge thanks to everyone who helped bring this unique school back to life!

@thbec.bsky.social is going to share preliminary results on Meta-DeepRVAT, a new approach for deep learning based meta-analysis improving the power of rare variant association studies using population scale external control cohorts. #MLCSB
📅 July 21 |📍 Poster A-312

Postdoctoral Researcher in Computational Genetics The research group of Oliver Stegle looks for a postdoctoral researcher to join a collaborative project with GSK with the goal to apply computational methods to investigate the effects of rare variant...

Job alert: Join us for a postdoc in AI in genetics at @EMBL Heidelberg! Great collaboration with @Adrian Cortes @GSK, aiming to develop new tools to elucidate genetic effects using population-scale cohorts and single-cell readouts. Please share!

embl.wd103.myworkdayjobs.com/de-DE/EMBL/d...

Update of our protein outlier caller PROTRIDER. We now handle missing values, a widespread issue for mass spec where missing values are not a random -- and this improves outlier detection on non-missing data! Thumbs up to Daniela and George for the great work.
doi.org/10.1101/2025...

Join us for our next Kipoi Seminar with Katherine Pollard, Gladstone Institute of Data Science & Biotechnology,UCSF, Biohub
@gladstoneinst.bsky.social @czbiohub.bsky.social
👉Human variant interpretation with sequence-to-activity models
📅Wed June 4,5:30pm CET🧬 kipoi.org/seminar/🦋@kipoizoo.bsky.social

Excited to be back at #eshg2025! Come by my poster today to check out fresh results on how rare high impact variants influence gene expression across immune cells—analyzed in 5,000 UK Biobank participants

Join us for our next Kipoi Seminar with Laura Martens, Gagneur lab, TUM @lauradmartens.bsky.social @gagneurlab.bsky.social @tum.de
🐕scooby: Modeling multi-modal genomic profiles from DNA sequence at single-cell resolution
📅Wed May 7, 5:30pm CET
🧬https://kipoi.org/seminar/
🦋kipoizoo.bsky

PHD POSITIONS IN COMPUTATIONAL RESEARCH, DATA SCIENCE AND ARTIFICIAL INTELLIGENCE Are you interested in solving fascinating biological or medical questions computationally? At the German Cancer Research Center (DKFZ), Germany’s largest biomedical research institute with its core site in Heidelberg, computational scientists work at the forefront of artificial intelligence and cancer research. They combine inter­ disciplinary approaches from computer science, medical informatics, physics, biology, bioinformatics and statistics to analyze and understand complex biological and medical data. Main activities at the DKFZ involving big data: • Development and application of machine learning and computa­ tional methods for multi-modal data integration, including integrative analysis of genomic, epigenomic, transcriptomic, proteomic, meta­ bolomic and radiomic imaging data • Development of methods for modeling and simulation of biological and medical processes • Medical Informatics • • • • DNA mutation analysis and machine learning to decipher cancer genome variation Application and development of state-of-the-art technologies for single-cell omics and life cell imaging Computer-assisted radiology and surgery Biostatistical evaluation of experimental and clinical data More information at www.dkfz.de/datascience. Full funding is provided for the duration of the PhD. To apply online to the International PhD Program visit To apply online to the International PhD Program visit www.dkfz.de/phd Application deadline 24 April 2025 We support and value diversity and encourage applications from individuals from underrepresented groups. If you require assistance during the application process, please contact phd@dkfz.de.

The next selection round for the DKFZ International PhD Program has started. Please consider applying to this really excellent program! I'll be proposing projects, as will many other outstanding PIs.

Hello #probgen25! We have 3 contribs this year @lauradmartens.bsky.social starts today, poster 87, presenting scooby modeling scRNA-seq and sc-ATAC-seq profiles from DNA and applications. Shhh... don't tell it further... rumour says there are awesome cute scooby stickers to win ;-)

Join us for our next Kipoi Seminar with with Alexander Sasse
@lxsasse.bsky.social
@zmbh.uni-heidelberg.de

👉Advanced training strategies for genomic sequence-to-function models
📅 Wed March 5, 5:30pm CET
🧬 kipoi.org/seminar/
🦋 @kipoizoo.bsky.social

Join us for our next Kipoi Seminar with with Pedro Tomaz da Silva @pedrotomazdasilva.bsky.social @gagneurlab.bsky.social @TU_Muenchen!
👉Nucleotide dependency analysis of DNA language models reveals genomic functional elements
📅Wed Feb 5, 5:30pm CET
🧬https://kipoi.org/seminar/
🦋kipoizoo.bsky

Hey reg genomics folks, here is our little x-mas present: Flashzoi. Borzoi. Just as good. 3x faster. Thumbs up to @johahi.bsky.social for the great initiative, conception & implementation. Big thanks to Johannes Linder, David Kelley and colleagues to have created Borzoi and shared it freely.

Flashzoi: An enhanced Borzoi model for accelerated genomic analysis https://www.biorxiv.org/content/10.1101/2024.12.18.629121v1