Simon Wengert
@simon-wengert.bsky.social
Postdoc at Copenhagen University | foundation models for genomics | mtDNA heteroplasmy | ageing & psychiatric diseases | https://biobuild.github.io/
Reposted by Simon Wengert
GWAS has been an incredible discovery tool for human genetics: it regularly identifies *causal* links from 1000s of SNPs to any given trait. But mechanistic interpretation is usually difficult.
Our latest work on causal models for this is out yesterday:
www.nature.com/articles/s41...
A short🧵:
Our latest work on causal models for this is out yesterday:
www.nature.com/articles/s41...
A short🧵:
Causal modelling of gene effects from regulators to programs to traits - Nature
Approaches combining genetic association and Perturb-seq data that link genetic variants to functional programs to traits are described.
www.nature.com
December 11, 2025 at 5:54 PM
GWAS has been an incredible discovery tool for human genetics: it regularly identifies *causal* links from 1000s of SNPs to any given trait. But mechanistic interpretation is usually difficult.
Our latest work on causal models for this is out yesterday:
www.nature.com/articles/s41...
A short🧵:
Our latest work on causal models for this is out yesterday:
www.nature.com/articles/s41...
A short🧵:
Reposted by Simon Wengert
I'm teaching Statistical Rethinking again starting Jan 2026. This time with live lectures, divided into Beginner and Experienced sections. Will be a lot more work for me, but I hope much better for students.
I will record lectures & all will be found at this link: github.com/rmcelreath/s...
I will record lectures & all will be found at this link: github.com/rmcelreath/s...
December 9, 2025 at 1:58 PM
I'm teaching Statistical Rethinking again starting Jan 2026. This time with live lectures, divided into Beginner and Experienced sections. Will be a lot more work for me, but I hope much better for students.
I will record lectures & all will be found at this link: github.com/rmcelreath/s...
I will record lectures & all will be found at this link: github.com/rmcelreath/s...
Reposted by Simon Wengert
Hiring Senior Computational Postdoc to lead large-scale scRNAseq analysis for Project JAGUAR, one of the world’s most comprehensive single-cell immune resources from Latin American ancestries. If big data, global partnerships, human diversity and immune regulation excite you, apply! bit.ly/3XyFWrW
Senior Postdoctoral Fellow
Do you want to help us improve human health and understand life on Earth? Make your mark by shaping the future to enable or deliver life-changing science to solve some of humanity’s greatest challenge...
sanger.wd103.myworkdayjobs.com
December 4, 2025 at 9:06 AM
Hiring Senior Computational Postdoc to lead large-scale scRNAseq analysis for Project JAGUAR, one of the world’s most comprehensive single-cell immune resources from Latin American ancestries. If big data, global partnerships, human diversity and immune regulation excite you, apply! bit.ly/3XyFWrW
Reposted by Simon Wengert
Join EMBL's Interdisciplinary Postdoc Programme!
3 years funding, self-designed interdisciplinary project co-led between EMBL PI and PI in one of EMBL's actual, prospect or associate member states.
In particular: AI&Theory, use mathem. models, physics principles and AI
www.embl.org/about/info/p...
3 years funding, self-designed interdisciplinary project co-led between EMBL PI and PI in one of EMBL's actual, prospect or associate member states.
In particular: AI&Theory, use mathem. models, physics principles and AI
www.embl.org/about/info/p...
EIPOD-LinC Fellowship Programme – Postdoctoral Programme
www.embl.org
December 1, 2025 at 11:00 AM
Join EMBL's Interdisciplinary Postdoc Programme!
3 years funding, self-designed interdisciplinary project co-led between EMBL PI and PI in one of EMBL's actual, prospect or associate member states.
In particular: AI&Theory, use mathem. models, physics principles and AI
www.embl.org/about/info/p...
3 years funding, self-designed interdisciplinary project co-led between EMBL PI and PI in one of EMBL's actual, prospect or associate member states.
In particular: AI&Theory, use mathem. models, physics principles and AI
www.embl.org/about/info/p...
Reposted by Simon Wengert
First time on Bsky and first big announcement!
I am excited to announce that our new study explaining the missing heritability of many phenotypes using WGS data from ~347,000 UK Biobank participants has just been published in @Nature.
Our manuscript is here: www.nature.com/articles/s41....
I am excited to announce that our new study explaining the missing heritability of many phenotypes using WGS data from ~347,000 UK Biobank participants has just been published in @Nature.
Our manuscript is here: www.nature.com/articles/s41....
Estimation and mapping of the missing heritability of human phenotypes - Nature
WGS data were used from 347,630 individuals with European ancestry in the UK Biobank to obtain high-precision estimates of coding and non-coding rare variant heritability for 34 co...
www.nature.com
November 12, 2025 at 5:57 PM
First time on Bsky and first big announcement!
I am excited to announce that our new study explaining the missing heritability of many phenotypes using WGS data from ~347,000 UK Biobank participants has just been published in @Nature.
Our manuscript is here: www.nature.com/articles/s41....
I am excited to announce that our new study explaining the missing heritability of many phenotypes using WGS data from ~347,000 UK Biobank participants has just been published in @Nature.
Our manuscript is here: www.nature.com/articles/s41....
Reposted by Simon Wengert
Want to generate point clouds? Our (w/ Ernst Röell) #NeurIPS2025 paper shows a topology-driven method that is fast, simple, and high-quality. 🔥
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October 29, 2025 at 8:19 AM
Want to generate point clouds? Our (w/ Ernst Röell) #NeurIPS2025 paper shows a topology-driven method that is fast, simple, and high-quality. 🔥
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Reposted by Simon Wengert
We're seeking a PhD student passionate about ML, biology, and driving impact in healthcare!
You'll be working on multi-omics factorization models for personalized medicine, co-supervised by @junyanlu.bsky.social.
👉 Project: www.helmholtz.de/assets/hidss...
✍️ Apply: hidss4health.de/application
You'll be working on multi-omics factorization models for personalized medicine, co-supervised by @junyanlu.bsky.social.
👉 Project: www.helmholtz.de/assets/hidss...
✍️ Apply: hidss4health.de/application
Application - Helmholtz Information & Data Science Academy
hidss4health.de
August 5, 2025 at 8:08 AM
We're seeking a PhD student passionate about ML, biology, and driving impact in healthcare!
You'll be working on multi-omics factorization models for personalized medicine, co-supervised by @junyanlu.bsky.social.
👉 Project: www.helmholtz.de/assets/hidss...
✍️ Apply: hidss4health.de/application
You'll be working on multi-omics factorization models for personalized medicine, co-supervised by @junyanlu.bsky.social.
👉 Project: www.helmholtz.de/assets/hidss...
✍️ Apply: hidss4health.de/application
Reposted by Simon Wengert
‘Genetic Risk Effects on Psychiatric Disorders Act in Sets’, the title of our new preprint on
@medrxivpreprint.bsky.social! This huge collaborative effort advances our understanding of psychiatric genetic architecture and emphasizes the importance of looking beyond additive effects. 🧵1/n; 🧪👩🏽🔬🧬
@medrxivpreprint.bsky.social! This huge collaborative effort advances our understanding of psychiatric genetic architecture and emphasizes the importance of looking beyond additive effects. 🧵1/n; 🧪👩🏽🔬🧬
July 24, 2025 at 8:16 AM
‘Genetic Risk Effects on Psychiatric Disorders Act in Sets’, the title of our new preprint on
@medrxivpreprint.bsky.social! This huge collaborative effort advances our understanding of psychiatric genetic architecture and emphasizes the importance of looking beyond additive effects. 🧵1/n; 🧪👩🏽🔬🧬
@medrxivpreprint.bsky.social! This huge collaborative effort advances our understanding of psychiatric genetic architecture and emphasizes the importance of looking beyond additive effects. 🧵1/n; 🧪👩🏽🔬🧬
Finally - please do reach out and let's grab a coffee if you happen to be in beautiful Copenhagen! :)
July 9, 2025 at 4:34 PM
Finally - please do reach out and let's grab a coffee if you happen to be in beautiful Copenhagen! :)
..and, of course, to all my fellow student and friends who were with me all the way - true science is a team sport and I would never have been able to climb so high without all of you.
July 9, 2025 at 4:33 PM
..and, of course, to all my fellow student and friends who were with me all the way - true science is a team sport and I would never have been able to climb so high without all of you.
Above all though, a genuine and heartfelt thanks to my doctoral advisors @caina89.bsky.social and Matthias Heinig for their invaluable guidance, training and countless opportunities!
July 9, 2025 at 4:33 PM
Above all though, a genuine and heartfelt thanks to my doctoral advisors @caina89.bsky.social and Matthias Heinig for their invaluable guidance, training and countless opportunities!
While leaving, I am deeply greatful to everyone at @pioneercampus.bsky.social for making the last five years such a wonderful adventure. Special and many thanks to everyone at HPC, #MUDS and @jherzstiftung.bsky.social for their continued support and making our research possible.
July 9, 2025 at 4:31 PM
While leaving, I am deeply greatful to everyone at @pioneercampus.bsky.social for making the last five years such a wonderful adventure. Special and many thanks to everyone at HPC, #MUDS and @jherzstiftung.bsky.social for their continued support and making our research possible.
I will exploring the capabilities of patient level multi-model foundation models to large-scale human data sets to learn the molecular basis of human disease - stayed tuned for exciting news on this front! :)
July 9, 2025 at 4:29 PM
I will exploring the capabilities of patient level multi-model foundation models to large-scale human data sets to learn the molecular basis of human disease - stayed tuned for exciting news on this front! :)
After an immensely enriching and rewarding PhD in @caina89.bsky.social lab at @pioneercampus.bsky.social, I am excited to announce that I moved to beautiful Copenhagen for my postdoc in Simon Rasmussen's group @cbmr.science!
July 9, 2025 at 4:26 PM
After an immensely enriching and rewarding PhD in @caina89.bsky.social lab at @pioneercampus.bsky.social, I am excited to announce that I moved to beautiful Copenhagen for my postdoc in Simon Rasmussen's group @cbmr.science!
Reposted by Simon Wengert
Postdoc opportunity! At National Genomics Infrastructure in Uppsala we're looking for a postdoc in genomics R&D. Cutting-edge methods dev in an excellent, international environment at the junction between academia and infrastructure. Deadline May 23!
www.uu.se/en/about-uu/...
www.uu.se/en/about-uu/...
Postdoctoral Researcher, NGI Uppsala, SNP&SEQ Technology Platform - Uppsala University
Postdoctoral Researcher, NGI Uppsala, SNP&SEQ Technology Platform, Department of Medical Sciences, Uppsala University
www.uu.se
May 20, 2025 at 7:43 PM
Postdoc opportunity! At National Genomics Infrastructure in Uppsala we're looking for a postdoc in genomics R&D. Cutting-edge methods dev in an excellent, international environment at the junction between academia and infrastructure. Deadline May 23!
www.uu.se/en/about-uu/...
www.uu.se/en/about-uu/...
Thank you, very encouraging indeed!
May 1, 2025 at 8:28 AM
Thank you, very encouraging indeed!
Absolutely! Any chance of a reprint coming?
April 30, 2025 at 9:10 AM
Absolutely! Any chance of a reprint coming?
Thanks so much @anavinuela.bsky.social, glad you like it!! :)
December 19, 2024 at 9:20 AM
Thanks so much @anavinuela.bsky.social, glad you like it!! :)
Reposted by Simon Wengert
Very happy to share *two* new projects from my group now on @biorxivpreprint.bsky.social on mtDNA variation effects on tissue-specific gene expression conducted using RNAseq data in 49 tissues in the GTEx project! 🧵
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December 19, 2024 at 9:11 AM
Very happy to share *two* new projects from my group now on @biorxivpreprint.bsky.social on mtDNA variation effects on tissue-specific gene expression conducted using RNAseq data in 49 tissues in the GTEx project! 🧵
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...and here is the big, big thanks to all co-authors in full: @xenophong.bsky.social, Peter Kreitmaier, Pauline Kautz, Leif S. Ludwig, Holger Prokisch, Paolo Casale, Matthias Heinig and
@caina89.bsky.social !!! Thank you for this amazing journey!!! 🤩
@caina89.bsky.social !!! Thank you for this amazing journey!!! 🤩
December 18, 2024 at 10:52 AM
...and here is the big, big thanks to all co-authors in full: @xenophong.bsky.social, Peter Kreitmaier, Pauline Kautz, Leif S. Ludwig, Holger Prokisch, Paolo Casale, Matthias Heinig and
@caina89.bsky.social !!! Thank you for this amazing journey!!! 🤩
@caina89.bsky.social !!! Thank you for this amazing journey!!! 🤩
Huge shout out to @caina89.bsky.social & Matthias Heinig for their guidance, to all co-authors and acknowledgements for invaluable contributions, to @pioneercampus.bsky.social for support, and to @tuuliel.bsky.social, @alanjhodgkinson.bsky.social & @bhattaarjun2p.bsky.social for stellar prior work!
December 18, 2024 at 10:50 AM
Huge shout out to @caina89.bsky.social & Matthias Heinig for their guidance, to all co-authors and acknowledgements for invaluable contributions, to @pioneercampus.bsky.social for support, and to @tuuliel.bsky.social, @alanjhodgkinson.bsky.social & @bhattaarjun2p.bsky.social for stellar prior work!
7/7 Taken together, we provide the first deep dive into mtDNA heteroplasmy across 49 human tissues: exploring its age-related changes, its impact on gene expression, mediation of age-related gene expression changes, and the biological mechanism underlying variations in mtRNA mod.
December 18, 2024 at 10:39 AM
7/7 Taken together, we provide the first deep dive into mtDNA heteroplasmy across 49 human tissues: exploring its age-related changes, its impact on gene expression, mediation of age-related gene expression changes, and the biological mechanism underlying variations in mtRNA mod.
6/7 Finally, we zoom in on p9 mt-tRNA mod levels to test their impact on mitochondrial transcript processing. We replicate prev assocs between them in blood, test this in all 48 tissues, and further test whether cuts on the 5’ of p9 mods mediate this effect using read-level data.
December 18, 2024 at 10:39 AM
6/7 Finally, we zoom in on p9 mt-tRNA mod levels to test their impact on mitochondrial transcript processing. We replicate prev assocs between them in blood, test this in all 48 tissues, and further test whether cuts on the 5’ of p9 mods mediate this effect using read-level data.
5/7 There are 10 sites (9 mtDNA het, 1 mtRNA mod) linked to both donor age and mtDNA gene exp. To learn how age, gene exp and het/mod are related, we perform a mediation analysis using partial corr, and find the variations are consistently mediating the effect of age on gene exp.
December 18, 2024 at 10:38 AM
5/7 There are 10 sites (9 mtDNA het, 1 mtRNA mod) linked to both donor age and mtDNA gene exp. To learn how age, gene exp and het/mod are related, we perform a mediation analysis using partial corr, and find the variations are consistently mediating the effect of age on gene exp.
4/7 Next, we apply the framework to test for relationships with mtDNA encoded poly-A transcript levels, and find 784 effects across tissues (# 576 mtDNA hets; # 208 mtRNA mods). We find that 18 of these are cell type specific, suggesting potentially common effects across cells.
December 18, 2024 at 10:37 AM
4/7 Next, we apply the framework to test for relationships with mtDNA encoded poly-A transcript levels, and find 784 effects across tissues (# 576 mtDNA hets; # 208 mtRNA mods). We find that 18 of these are cell type specific, suggesting potentially common effects across cells.