Stegle Lab

We're moving to Bluesky - come join us:

[Stegle Lab @StatGenomics]

Goodbye 🐦, hello 🦋
We're moving to Bluesky - come join us: https://t.co/6YxmGZ8h9y

[Stegle Lab @StatGenomics]

Our paper on using machine learning to predict the impact of rare genetic variants is out! #DeepRVAT utilizes a fully data-driven approach to analyze annotated variants.
@DKFZ press release: https://t.co/oPuJaZhuhp…Publication in @NatureGenet: https://t.co/swiPMqVRLP

[Stegle Lab @StatGenomics]

We are looking for a postdoctoral researcher!
Join our translational project aimed at exploring the processes that alter the epigenetic landscape of colorectal cancer cells and drive their metastasis.
Become part of our group at @EMBL
Apply here: https://t.co/NK5EFxYGxv

[Stegle Lab @StatGenomics]

Amazing work from our #DeepRVAT team! Using AI to predict the effects of rare variants, pushing the boundaries of personalised medicine. 🧬🔍
Check out the thread and explore their exciting results yourself!

[Brian Clarke @brianfclarke]

🧵 1/9 Delighted to announce that #DeepRVAT is out today in Nature Genetics! Here's a recap of our tweetorial from the preprint, with updates for some exciting new results. It's been a joy to work with @Holtkamp_Eva, as well as @gagneurlab and @OliverStegle.

[DKFZ @DKFZ]

Apply now for the DKFZ #Postdoc|toral Fellowships at the German #Cancer Research Center, covering all areas of #cancerresearch, including #epigenetics, #genomics, #stemcells, #radiooncology, #epidemiology. To apply for your #PostdocFellowship visit ➡️ https://t.co/iWPm0PTeN4

[Stegle Lab @StatGenomics]

Do you want to pursue a PhD at the intersection of AI and the life sciences? 🤖🧬

We are recruiting through the @hidss4health program! Join an exciting project on multi-omics factorization models for personalized medicine with @JunyanLu1118.
Apply here: https://t.co/0bGiDxdLHL

[Stegle Lab @StatGenomics]

Congratulation, Eva!

[Eva Holtkamp @Holtkamp_Eva]

Feeling extremely honored to receive the #eshg2024 Early Career Poster Award! This work wouldn’t be possible without everybody involved in DeepRVAT, esp. @brianfclarke @gagneurlab @StatGenomics

[Stegle Lab @StatGenomics]

#CHOCOLAT_G2P 🍫🐭 is available as a preprint! Our collaborative project on tumor spatial genomics, showcases a new technology enabling induction and spatial genotyping/phenotyping of hundreds of tumors in mouse liver. Check out the thread for the nuts and bolts of 🍫-G2P!

[Tschaharganeh Lab @tschaharganeh]

0/ Preprint alert! 🚨
One step closer to solving the genotype ➡ phenotype puzzle in cancer! Led by @BreinigMarco, @LomakinAI, and @HeidariElyas, our novel approach, #CHOCOLAT_G2P 🍫, deciphers the impact of combinatorial alterations on tumor phenotypes and their environment.

[Stegle Lab @StatGenomics]

🌟 Be part of our team!
Join our lab for a postdoc in computational biology, focused on multi-omics profiling in time and space.
Apply now: https://t.co/FkDLSCffhh

[Stegle Lab @StatGenomics]

One framework to rule them all: SpatialData 🔳

Excited to see our efforts in unifying and integrating multimodal spatial omics data highlighted by @embl. Phenomenal teamwork with @fabian_theis and @notjustmoore and more! 💪
Published in @naturemethods: https://t.co/mF5zqX2VpL…

[EMBL @embl]

SpatialData is a tool developed by EMBL scientists in cooperation with multiple research institutions to unify & integrate data from different omics technologies.

It provides holistic insights into health & disease and is publicly accessible.

https://t.co/yhV4QVG4ae

[Stegle Lab @StatGenomics]

Two wheels, one method to infer causality in biological networks: Bicycle! 🚲
Thrilled to share our team's breakthrough.
Dive into the details in the thread below 👇

[Stegle Lab @StatGenomics]

We are seeking a postdoctoral researcher at @EMBL!! 🦸‍♀️
Are you passionate about applying machine learning to unravel the causal mechanisms of gene regulation?
Apply now: https://t.co/TlSoW2wl3o

[Stegle Lab @StatGenomics]

Join our team! We are seeking a postdoctoral researcher! 🚀
Are you enthusiastic about using machine learning to decode the intricate world of cancer evolution? Join our collaborative project with @odom_lab at the @DKFZ.
Apply now: https://t.co/9tynuGMqzD

[Stegle Lab @StatGenomics]

Two papers up in @NatGenet on the same day!
1) Population-scale single-cell RNA-seq profiling across neuron differentiation https://t.co/6BmdA7ztSQ
2) Identification of regulatory variants in pluripotent cells using population-scale transcriptomics https://t.co/1KZqyOiOqA

[Stegle Lab @StatGenomics]

New lab paper up. Work by @BrittaVelten. We married up GPs with sparse factor analysis, which turns out to be a great fit for dealing with spatio-temporal data.

[Britta Velten @brittavelten.bsky.social @BrittaVelten]

Are you working with longitudinal/temporal/spatial omics data? Have a look at our new preprint: https://t.co/52PxpwavPn We present MEFISTO a method for the functional integration of spatial and temporal multi-omics data. Joint work with @OliverStegle @RArgelaguet

[Oliver Stegle @OliverStegle]

New Paper up! Great multi-lab team effort with @gagneurlab @anshulkundaje to establish a repository of ML models in genomics.Give @KipoiZoo a go!Large collection of ready-to-use models to predict molecular outputs from splicing to TF binding and more! https://t.co/18tdrYtG38

[MRC Biostatistics Unit @MRC_BSU]

We are recruiting for an MRC Programme Leader at Director of Research level, in Statistical Methodology for Systems Omics #statistics #recruiting @MRC_BSU @Cambridge_Uni. Deadline for applications: 25th March
https://t.co/AuPFGsCpdH

[Stegle Lab @StatGenomics]

New lab paper is up. StructLMM is a method to jointly test for genotype-environment interactions using tens or hundreds of exposures. Yields new GxE signals for BMI and gene expression traits. By @rachelmoo and ⁦@fpcasale⁩ with Barroso lab at Sanger. https://t.co/favhUN5Ne2

[Stegle Lab @StatGenomics]

New lab paper together with @sysbiomed. Great collaboration, providing new cues on the germline component of inter individual variation in drug response.

[Saez-Rodriguez Group @saezlab]

Menden @fpcasale et al. The germline genetic component of drug sensitivity in cancer cell lines - joint work w @StatGenomics https://t.co/biKo2o1maz https://t.co/nwPpTFS5UB

[Oliver Stegle @OliverStegle]

Paper on interpretable and sparse factor analysis for scRNA-seq is up. Generalises scLVM; software for R & python! https://t.co/x3gyfHBKy9