Max Trauernicht
@mtrauernicht.bsky.social
PhD student Bas van Steensel lab (Netherlands Cancer Institute)
Reposted by Max Trauernicht
Have you ever wondered how the exact location of a gene affects it's activity?
The main story of my PhD deals with exactly that question, and is now published in Science! ✨
www.science.org/doi/10.1126/...
My amazing co-author and friend @mathiaseder.bsky.social summarized the highlights for you
The main story of my PhD deals with exactly that question, and is now published in Science! ✨
www.science.org/doi/10.1126/...
My amazing co-author and friend @mathiaseder.bsky.social summarized the highlights for you
September 19, 2025 at 2:22 PM
Have you ever wondered how the exact location of a gene affects it's activity?
The main story of my PhD deals with exactly that question, and is now published in Science! ✨
www.science.org/doi/10.1126/...
My amazing co-author and friend @mathiaseder.bsky.social summarized the highlights for you
The main story of my PhD deals with exactly that question, and is now published in Science! ✨
www.science.org/doi/10.1126/...
My amazing co-author and friend @mathiaseder.bsky.social summarized the highlights for you
Reposted by Max Trauernicht
✨Exciting news: the main story of my PhD is out in Science!
Together with Christine Moene @cmoene.bsky.social, we explored what happens when you scramble the genome—revealing how Sox2’s position shapes enhancer activation.
📖 Read the full story here: www.science.org/doi/10.1126/...
Together with Christine Moene @cmoene.bsky.social, we explored what happens when you scramble the genome—revealing how Sox2’s position shapes enhancer activation.
📖 Read the full story here: www.science.org/doi/10.1126/...
Functional maps of a genomic locus reveal confinement of an enhancer by its target gene
Genes are often activated by enhancers located at large genomic distances, and the importance of this positioning is poorly understood. By relocating promoter-reporter constructs into thousands of alt...
www.science.org
September 19, 2025 at 2:09 PM
✨Exciting news: the main story of my PhD is out in Science!
Together with Christine Moene @cmoene.bsky.social, we explored what happens when you scramble the genome—revealing how Sox2’s position shapes enhancer activation.
📖 Read the full story here: www.science.org/doi/10.1126/...
Together with Christine Moene @cmoene.bsky.social, we explored what happens when you scramble the genome—revealing how Sox2’s position shapes enhancer activation.
📖 Read the full story here: www.science.org/doi/10.1126/...
Reposted by Max Trauernicht
Very proud of our paper on "scrambling-by-hopping" LADs, which was just published: www.nature.com/articles/s41.... Congrats to Lise Dauban and the rest of the team – this was a real tour-de-force!
September 2, 2025 at 5:26 PM
Very proud of our paper on "scrambling-by-hopping" LADs, which was just published: www.nature.com/articles/s41.... Congrats to Lise Dauban and the rest of the team – this was a real tour-de-force!
Reposted by Max Trauernicht
Our review "Predicting gene expression from DNA sequence using deep learning models" is finally out! 🤗
Predicting gene expression from DNA sequence using deep learning models go.nature.com/3F8r0Li #Review by Lucía Barbadilla-Martínez, Noud Klaassen, Bas van Steensel & Jeroen de Ridder @nkinl.bsky.social @umcutrecht.bsky.social
Predicting gene expression from DNA sequence using deep learning models - Nature Reviews Genetics
Barbadilla-Martínez et al. review recent progress in deep-learning-based sequence-to-expression models, which predict gene expression levels solely from DNA sequence. These models are providing new in...
go.nature.com
May 14, 2025 at 3:43 PM
Our review "Predicting gene expression from DNA sequence using deep learning models" is finally out! 🤗
Reposted by Max Trauernicht
Predicting gene expression from DNA sequence using deep learning models go.nature.com/3F8r0Li #Review by Lucía Barbadilla-Martínez, Noud Klaassen, Bas van Steensel & Jeroen de Ridder @nkinl.bsky.social @umcutrecht.bsky.social
Predicting gene expression from DNA sequence using deep learning models - Nature Reviews Genetics
Barbadilla-Martínez et al. review recent progress in deep-learning-based sequence-to-expression models, which predict gene expression levels solely from DNA sequence. These models are providing new in...
go.nature.com
May 14, 2025 at 7:41 AM
Predicting gene expression from DNA sequence using deep learning models go.nature.com/3F8r0Li #Review by Lucía Barbadilla-Martínez, Noud Klaassen, Bas van Steensel & Jeroen de Ridder @nkinl.bsky.social @umcutrecht.bsky.social
Reposted by Max Trauernicht
Welcome to our lab! We are no longer active on Twitter/X. New results/preprints/papers will be posted here.
January 13, 2025 at 10:17 PM
Welcome to our lab! We are no longer active on Twitter/X. New results/preprints/papers will be posted here.
Reposted by Max Trauernicht
A throwback to last month's 'Quantitative biology to molecular mechanisms' conference – time to introduce the poster prize winners! #EMBLOmics
A round of applause for:
🏅 Max Trauernicht
🏅 @ingridpelaez.bsky.social
🏅 Honorine Destain
🏅 Óscar García Blay
Read on 👉🏻 s.embl.org/omx24-01-blog
@embl.org
A round of applause for:
🏅 Max Trauernicht
🏅 @ingridpelaez.bsky.social
🏅 Honorine Destain
🏅 Óscar García Blay
Read on 👉🏻 s.embl.org/omx24-01-blog
@embl.org
December 19, 2024 at 2:22 PM
A throwback to last month's 'Quantitative biology to molecular mechanisms' conference – time to introduce the poster prize winners! #EMBLOmics
A round of applause for:
🏅 Max Trauernicht
🏅 @ingridpelaez.bsky.social
🏅 Honorine Destain
🏅 Óscar García Blay
Read on 👉🏻 s.embl.org/omx24-01-blog
@embl.org
A round of applause for:
🏅 Max Trauernicht
🏅 @ingridpelaez.bsky.social
🏅 Honorine Destain
🏅 Óscar García Blay
Read on 👉🏻 s.embl.org/omx24-01-blog
@embl.org
Reposted by Max Trauernicht
Finally out! We present EXTRA-seq, a new EXTended Reporter Assay to quantify endogenous enhancer-promoter communication at kb scale!
www.biorxiv.org/content/10.1...
A 🧵about what it can do:
#SynBio #DeepLearning #GeneRegulation
www.biorxiv.org/content/10.1...
A 🧵about what it can do:
#SynBio #DeepLearning #GeneRegulation
EXTRA-seq: a genome-integrated extended massively parallel reporter assay to quantify enhancer-promoter communication
Precise control of gene expression is essential for cellular function, but the mechanisms by which enhancers communicate with promoters to coordinate this process are not fully understood. While seque...
biorxiv.org
December 16, 2024 at 2:39 PM
Finally out! We present EXTRA-seq, a new EXTended Reporter Assay to quantify endogenous enhancer-promoter communication at kb scale!
www.biorxiv.org/content/10.1...
A 🧵about what it can do:
#SynBio #DeepLearning #GeneRegulation
www.biorxiv.org/content/10.1...
A 🧵about what it can do:
#SynBio #DeepLearning #GeneRegulation
Excited to share that my main PhD project has been published! 🎉 We systematically designed and optimized reporters for 86 transcription factors in parallel. If you're interested in using these optimized reporters for your own research, don’t hesitate to reach out!
Optimized reporters for multiplexed detection of transcription factor activity
Direct measurements of transcription factor (TF) activity are crucial for understanding how TFs interpret signals and drive gene expression. TF reporter constructs have been widely used to detect activity in cell signaling, developmental biology, and disease models. However, many mammalian TFs lack reliable reporters. In this study, a library of reporters for 86 TFs was designed and evaluated to identify optimized “prime” TF reporters.
www.cell.com
December 13, 2024 at 8:49 AM
Excited to share that my main PhD project has been published! 🎉 We systematically designed and optimized reporters for 86 transcription factors in parallel. If you're interested in using these optimized reporters for your own research, don’t hesitate to reach out!