Robin Andersson
@randersson.bsky.social
Associate Professor at University of Copenhagen. Computational genomicist interested in gene regulation. @robin_andersson on X
https://anderssonlab.org
https://anderssonlab.org
Reposted by Robin Andersson
Excited to share DeepCompARE + ISA - a lightweight deep learning model + efficient interpretation method, to uncover rules of TF cooperativity via genome-wide in silico motif ablations!
Preprint: www.biorxiv.org/content/10.1...
Github: github.com/anderssonlab...
Preprint: www.biorxiv.org/content/10.1...
Github: github.com/anderssonlab...
Genome-wide rules of transcription factor cooperativity revealed through in silico binding site ablation
Transcription factor (TF) cooperativity plays a critical role in gene regulation. However, the underlying genomic rules remain unclear, calling for scalable methods to characterize the TF binding site...
www.biorxiv.org
June 26, 2025 at 3:03 PM
Excited to share DeepCompARE + ISA - a lightweight deep learning model + efficient interpretation method, to uncover rules of TF cooperativity via genome-wide in silico motif ablations!
Preprint: www.biorxiv.org/content/10.1...
Github: github.com/anderssonlab...
Preprint: www.biorxiv.org/content/10.1...
Github: github.com/anderssonlab...
Latest from the lab! Led by @xuening-he.bsky.social, establishing a framework for interpretation of the motif syntax of regulatory elements and a quantitative model for transcription factor cooperativity. Plenty of cool stuff revealed, including TF redundancy and synergy, and their regulatory roles!
Excited to share DeepCompARE + ISA - a lightweight deep learning model + efficient interpretation method, to uncover rules of TF cooperativity via genome-wide in silico motif ablations!
Preprint: www.biorxiv.org/content/10.1...
Github: github.com/anderssonlab...
Preprint: www.biorxiv.org/content/10.1...
Github: github.com/anderssonlab...
Genome-wide rules of transcription factor cooperativity revealed through in silico binding site ablation
Transcription factor (TF) cooperativity plays a critical role in gene regulation. However, the underlying genomic rules remain unclear, calling for scalable methods to characterize the TF binding site...
www.biorxiv.org
June 26, 2025 at 5:32 PM
Latest from the lab! Led by @xuening-he.bsky.social, establishing a framework for interpretation of the motif syntax of regulatory elements and a quantitative model for transcription factor cooperativity. Plenty of cool stuff revealed, including TF redundancy and synergy, and their regulatory roles!
Reposted by Robin Andersson
Symposium on ‘Enhancer Sequences’ at beautiful @collegedefrance.bsky.social in Paris, by April 11th. Open and free, no registration. Come to relax listening to facts #TherapeuticEffects #VillageGauloix Final programme below. Tell your friends! 🙏🤘
March 17, 2025 at 2:28 PM
Symposium on ‘Enhancer Sequences’ at beautiful @collegedefrance.bsky.social in Paris, by April 11th. Open and free, no registration. Come to relax listening to facts #TherapeuticEffects #VillageGauloix Final programme below. Tell your friends! 🙏🤘
Reposted by Robin Andersson
Job alert!
We are hiring a postdoc or PhD student focusing on
* developing computational methods to resolve gene regulation in single cells
* investigating the mechanisms and cell-type specific effects of genetic variants
PhD student: bsky.app/profile/jobr...
Postdoc: bsky.app/profile/jobr...
We are hiring a postdoc or PhD student focusing on
* developing computational methods to resolve gene regulation in single cells
* investigating the mechanisms and cell-type specific effects of genetic variants
PhD student: bsky.app/profile/jobr...
Postdoc: bsky.app/profile/jobr...
PhD student – Computational modeling of gene regulation in single cells #ScienceJobs #AcademicSky jobrxiv.org/job/univ...
PhD student - Computational modeling of gene regulation in single cells
Post a job in 3min, or find thousands of job offers like this one at jobRxiv!
jobrxiv.org
February 6, 2025 at 8:36 PM
Job alert!
We are hiring a postdoc or PhD student focusing on
* developing computational methods to resolve gene regulation in single cells
* investigating the mechanisms and cell-type specific effects of genetic variants
PhD student: bsky.app/profile/jobr...
Postdoc: bsky.app/profile/jobr...
We are hiring a postdoc or PhD student focusing on
* developing computational methods to resolve gene regulation in single cells
* investigating the mechanisms and cell-type specific effects of genetic variants
PhD student: bsky.app/profile/jobr...
Postdoc: bsky.app/profile/jobr...
Job alert!
We are hiring a postdoc or PhD student focusing on
* developing computational methods to resolve gene regulation in single cells
* investigating the mechanisms and cell-type specific effects of genetic variants
PhD student: bsky.app/profile/jobr...
Postdoc: bsky.app/profile/jobr...
We are hiring a postdoc or PhD student focusing on
* developing computational methods to resolve gene regulation in single cells
* investigating the mechanisms and cell-type specific effects of genetic variants
PhD student: bsky.app/profile/jobr...
Postdoc: bsky.app/profile/jobr...
PhD student – Computational modeling of gene regulation in single cells #ScienceJobs #AcademicSky jobrxiv.org/job/univ...
PhD student - Computational modeling of gene regulation in single cells
Post a job in 3min, or find thousands of job offers like this one at jobRxiv!
jobrxiv.org
February 6, 2025 at 8:36 PM
Job alert!
We are hiring a postdoc or PhD student focusing on
* developing computational methods to resolve gene regulation in single cells
* investigating the mechanisms and cell-type specific effects of genetic variants
PhD student: bsky.app/profile/jobr...
Postdoc: bsky.app/profile/jobr...
We are hiring a postdoc or PhD student focusing on
* developing computational methods to resolve gene regulation in single cells
* investigating the mechanisms and cell-type specific effects of genetic variants
PhD student: bsky.app/profile/jobr...
Postdoc: bsky.app/profile/jobr...
Reposted by Robin Andersson
BREAKING NEWS: CDC orders mass retraction and revision of submitted research across all science and medicine journals. Banned terms must be scrubbed.
Goes beyond MMWR +other CDC pubs. Applies to research already submitted to top medical journals.
Take a look.
open.substack.com/pub/insideme...
Goes beyond MMWR +other CDC pubs. Applies to research already submitted to top medical journals.
Take a look.
open.substack.com/pub/insideme...
BREAKING NEWS: CDC orders mass retraction and revision of submitted research across all science and medicine journals. Banned terms must be scrubbed.
Any unpublished manuscript mentioning certain topics, including gender and "LGBT," must be pulled or revised.
open.substack.com
February 1, 2025 at 9:20 PM
BREAKING NEWS: CDC orders mass retraction and revision of submitted research across all science and medicine journals. Banned terms must be scrubbed.
Goes beyond MMWR +other CDC pubs. Applies to research already submitted to top medical journals.
Take a look.
open.substack.com/pub/insideme...
Goes beyond MMWR +other CDC pubs. Applies to research already submitted to top medical journals.
Take a look.
open.substack.com/pub/insideme...
Reposted by Robin Andersson
Together with @smandrup.bsky.social and Minna Kaikkonen we are happy to announce the 3rd Edition of the EMBO Workshop on #Enhancers and #Enhanceropathies. This time we will meet during the beautiful Danish summer (June 16-21).
Book the dates and register soon!!!
meetings.embo.org/event/25-enh...
Book the dates and register soon!!!
meetings.embo.org/event/25-enh...
Enhancer Mechanics and Enhanceropathies
Join us for the highly anticipated third EMBO workshop on Enhancer Mechanics and Enhanceropathies! Building on the success of our previous meetings in Santander (2021) and Marseilles (2023), this eve…
meetings.embo.org
January 31, 2025 at 2:35 PM
Together with @smandrup.bsky.social and Minna Kaikkonen we are happy to announce the 3rd Edition of the EMBO Workshop on #Enhancers and #Enhanceropathies. This time we will meet during the beautiful Danish summer (June 16-21).
Book the dates and register soon!!!
meetings.embo.org/event/25-enh...
Book the dates and register soon!!!
meetings.embo.org/event/25-enh...
Reposted by Robin Andersson
Super excited to share our new study from the @jbuenrostro.bsky.social Lab in @nature.com! We developed a computational method for tracking transcription factor and nucleosome binding using single-cell ATAC-seq and deep learning.
Paper: www.nature.com/articles/s41...
Paper: www.nature.com/articles/s41...
Multiscale footprints reveal the organization of cis-regulatory elements - Nature
We developed PRINT, a computational method that identifies footprints of DNA–protein interactions from bulk and single-cell chromatin accessibility data across multiple scales of protein size.
www.nature.com
January 23, 2025 at 2:11 AM
Super excited to share our new study from the @jbuenrostro.bsky.social Lab in @nature.com! We developed a computational method for tracking transcription factor and nucleosome binding using single-cell ATAC-seq and deep learning.
Paper: www.nature.com/articles/s41...
Paper: www.nature.com/articles/s41...
Reposted by Robin Andersson
My book, An Intuitive Primer on Effective Functional Genomics Study Design, is published! I’d really appreciate it if you could help spread the word, and I’d love to hear your thoughts and feedback. I hope people will find it useful.
It’s available on Amazon: tinyurl.com/mx2hewen
It’s available on Amazon: tinyurl.com/mx2hewen
January 17, 2025 at 2:30 PM
My book, An Intuitive Primer on Effective Functional Genomics Study Design, is published! I’d really appreciate it if you could help spread the word, and I’d love to hear your thoughts and feedback. I hope people will find it useful.
It’s available on Amazon: tinyurl.com/mx2hewen
It’s available on Amazon: tinyurl.com/mx2hewen
Reposted by Robin Andersson
Our ChromBPNet preprint out!
www.biorxiv.org/content/10.1...
Huge congrats to Anusri! This was quite a slog (for both of us) but we r very proud of this one! It is a long read but worth it IMHO. Methods r in the supp. materials. Bluetorial coming soon below 1/
www.biorxiv.org/content/10.1...
Huge congrats to Anusri! This was quite a slog (for both of us) but we r very proud of this one! It is a long read but worth it IMHO. Methods r in the supp. materials. Bluetorial coming soon below 1/
December 25, 2024 at 11:48 PM
Our ChromBPNet preprint out!
www.biorxiv.org/content/10.1...
Huge congrats to Anusri! This was quite a slog (for both of us) but we r very proud of this one! It is a long read but worth it IMHO. Methods r in the supp. materials. Bluetorial coming soon below 1/
www.biorxiv.org/content/10.1...
Huge congrats to Anusri! This was quite a slog (for both of us) but we r very proud of this one! It is a long read but worth it IMHO. Methods r in the supp. materials. Bluetorial coming soon below 1/
Reposted by Robin Andersson
We are pursuing the wrong applications for AI.
December 22, 2024 at 2:36 PM
We are pursuing the wrong applications for AI.
Reposted by Robin Andersson
Scientists, academics, researchers: We’re excited to share that @altmetric.com is now tracking mentions of your research on Bluesky! 🧪
There are already many articles for which there is more attention on Bluesky than on other comparable micro-blogging sites, meaning the academic community and the general public have clearly adopted Bluesky as one of its core places to disseminate and discuss new research.
A Place of Joy.
A Place of Joy.
December 3, 2024 at 2:10 PM
Scientists, academics, researchers: We’re excited to share that @altmetric.com is now tracking mentions of your research on Bluesky! 🧪
Reposted by Robin Andersson
I'd suggest this starter pack for #epigenetics and #generegulation:
go.bsky.app/TKp9YAn
plus see the description for another 3!
go.bsky.app/TKp9YAn
plus see the description for another 3!
November 26, 2024 at 10:25 AM
I'd suggest this starter pack for #epigenetics and #generegulation:
go.bsky.app/TKp9YAn
plus see the description for another 3!
go.bsky.app/TKp9YAn
plus see the description for another 3!
Reposted by Robin Andersson
Introducing scE2G: a new model to link enhancers to target genes using single-cell data.
Excited that scE2G will enable building enhancer maps in hundreds of cell types in the human body!
Wonderful collaboration with @randersson.bsky.social @613weilin.bsky.social @mayayayas.bsky.social
Thread👇
Excited that scE2G will enable building enhancer maps in hundreds of cell types in the human body!
Wonderful collaboration with @randersson.bsky.social @613weilin.bsky.social @mayayayas.bsky.social
Thread👇
Excited to share our latest preprint on scE2G – a new model to link enhancers to target genes using single-cell data – with state-of-the-art performance across multiple perturbation benchmarks.
biorxiv.org/cgi/content/...
Read more below!
1/12
biorxiv.org/cgi/content/...
Read more below!
1/12
Mapping enhancer-gene regulatory interactions from single-cell data
Mapping enhancers and their target genes in specific cell types is crucial for understanding gene regulation and human disease genetics. However, accurately predicting enhancer-gene regulatory interac...
biorxiv.org
November 25, 2024 at 11:22 PM
Introducing scE2G: a new model to link enhancers to target genes using single-cell data.
Excited that scE2G will enable building enhancer maps in hundreds of cell types in the human body!
Wonderful collaboration with @randersson.bsky.social @613weilin.bsky.social @mayayayas.bsky.social
Thread👇
Excited that scE2G will enable building enhancer maps in hundreds of cell types in the human body!
Wonderful collaboration with @randersson.bsky.social @613weilin.bsky.social @mayayayas.bsky.social
Thread👇
Reposted by Robin Andersson
Our preprint:
Molecular convergence of risk variants for congenital heart defects leveraging a regulatory map of the human fetal heart
Multiomic atlas + human genetics = new cell types, genes, and pathways that influence heart development and disease
www.medrxiv.org/content/10.1...
Thread 👇
Molecular convergence of risk variants for congenital heart defects leveraging a regulatory map of the human fetal heart
Multiomic atlas + human genetics = new cell types, genes, and pathways that influence heart development and disease
www.medrxiv.org/content/10.1...
Thread 👇
November 25, 2024 at 11:29 PM
Our preprint:
Molecular convergence of risk variants for congenital heart defects leveraging a regulatory map of the human fetal heart
Multiomic atlas + human genetics = new cell types, genes, and pathways that influence heart development and disease
www.medrxiv.org/content/10.1...
Thread 👇
Molecular convergence of risk variants for congenital heart defects leveraging a regulatory map of the human fetal heart
Multiomic atlas + human genetics = new cell types, genes, and pathways that influence heart development and disease
www.medrxiv.org/content/10.1...
Thread 👇
Reposted by Robin Andersson
What cell types drive congenital heart defects (CHD)?
Some new answers in our latest preprint, where we explored:
1). Key cell types contributing to CHD genetics
2). Impact of noncoding variants on CHD risk
https://www.medrxiv.org/content/10.1101/2024.11.20.24317557v1
Some new answers in our latest preprint, where we explored:
1). Key cell types contributing to CHD genetics
2). Impact of noncoding variants on CHD risk
https://www.medrxiv.org/content/10.1101/2024.11.20.24317557v1
November 25, 2024 at 8:08 PM
What cell types drive congenital heart defects (CHD)?
Some new answers in our latest preprint, where we explored:
1). Key cell types contributing to CHD genetics
2). Impact of noncoding variants on CHD risk
https://www.medrxiv.org/content/10.1101/2024.11.20.24317557v1
Some new answers in our latest preprint, where we explored:
1). Key cell types contributing to CHD genetics
2). Impact of noncoding variants on CHD risk
https://www.medrxiv.org/content/10.1101/2024.11.20.24317557v1
Check out our latest work, scE2G, for mapping the target genes of enhancers from single cell data! www.biorxiv.org/content/10.1...
Amazing work led by co-first authors @mayayayas.bsky.social and @613weilin.bsky.social in a great collaboration with @jengreitz.bsky.social's lab
See 🧵 by Wei-Lin ⬇️
Amazing work led by co-first authors @mayayayas.bsky.social and @613weilin.bsky.social in a great collaboration with @jengreitz.bsky.social's lab
See 🧵 by Wei-Lin ⬇️
November 25, 2024 at 9:22 AM
Check out our latest work, scE2G, for mapping the target genes of enhancers from single cell data! www.biorxiv.org/content/10.1...
Amazing work led by co-first authors @mayayayas.bsky.social and @613weilin.bsky.social in a great collaboration with @jengreitz.bsky.social's lab
See 🧵 by Wei-Lin ⬇️
Amazing work led by co-first authors @mayayayas.bsky.social and @613weilin.bsky.social in a great collaboration with @jengreitz.bsky.social's lab
See 🧵 by Wei-Lin ⬇️
Reposted by Robin Andersson
For an idea of how well fine mapping results replicate between biobanks, I would really recommend checking out this preprint from @masakanai.bsky.social
www.medrxiv.org/content/10.1...
www.medrxiv.org/content/10.1...
Insights from complex trait fine-mapping across diverse populations
Despite the great success of genome-wide association studies (GWAS) in identifying genetic loci significantly associated with diseases, the vast majority of causal variants underlying disease-associat...
www.medrxiv.org
November 20, 2024 at 11:37 AM
For an idea of how well fine mapping results replicate between biobanks, I would really recommend checking out this preprint from @masakanai.bsky.social
www.medrxiv.org/content/10.1...
www.medrxiv.org/content/10.1...
Looking forward to #cshldata24 meeting starting tonight!
I will present #scE2G, a highly accurate model for mapping enhancer-gene regulatory interactions from single cell data. The model was developed in close collaboration with @jengreitz.bsky.social lab.
Who else is attending the meeting?
I will present #scE2G, a highly accurate model for mapping enhancer-gene regulatory interactions from single cell data. The model was developed in close collaboration with @jengreitz.bsky.social lab.
Who else is attending the meeting?
November 13, 2024 at 1:46 PM
Looking forward to #cshldata24 meeting starting tonight!
I will present #scE2G, a highly accurate model for mapping enhancer-gene regulatory interactions from single cell data. The model was developed in close collaboration with @jengreitz.bsky.social lab.
Who else is attending the meeting?
I will present #scE2G, a highly accurate model for mapping enhancer-gene regulatory interactions from single cell data. The model was developed in close collaboration with @jengreitz.bsky.social lab.
Who else is attending the meeting?
Seeing all the excitement from fellow scientists moving from X to here reminds me of academic Twitter 10 years ago. Let’s try out this platform!
I’m a computational genomicist focused on modeling gene regulation.
#firstpost #helloworld #introduction
I’m a computational genomicist focused on modeling gene regulation.
#firstpost #helloworld #introduction
November 13, 2024 at 1:39 PM
Seeing all the excitement from fellow scientists moving from X to here reminds me of academic Twitter 10 years ago. Let’s try out this platform!
I’m a computational genomicist focused on modeling gene regulation.
#firstpost #helloworld #introduction
I’m a computational genomicist focused on modeling gene regulation.
#firstpost #helloworld #introduction