Jorge Ferrer
@jorge-ferrer.bsky.social
Interested in how genome regulation and genetics shape β cells and diabetes pathways (and just as excited about each of these on their own)
Centre for Genomic Regulation – CRG, Barcelona.
Imperial College London; CIBERDEM
Centre for Genomic Regulation – CRG, Barcelona.
Imperial College London; CIBERDEM
Reposted by Jorge Ferrer
TF-MAPS: fast high-resolution functional and allosteric mapping of DNA-binding proteins by @XianghuaLi2
Are Transcription Factors really 'undruggable'?
www.biorxiv.org/content/10.1...
Are Transcription Factors really 'undruggable'?
www.biorxiv.org/content/10.1...
TF-MAPS: fast high-resolution functional and allosteric mapping of DNA-binding proteins
Transcription factors (TFs) bind specific DNA sequences to control gene expression. Modulating TF activity is of considerable therapeutic interest but very few TFs have been successfully drugged. TF D...
www.biorxiv.org
October 23, 2025 at 12:50 PM
TF-MAPS: fast high-resolution functional and allosteric mapping of DNA-binding proteins by @XianghuaLi2
Are Transcription Factors really 'undruggable'?
www.biorxiv.org/content/10.1...
Are Transcription Factors really 'undruggable'?
www.biorxiv.org/content/10.1...
Many exciting opportunities for a PhD in Life Sciences in CRG, Barcelona. If you are interested in Genomics of Diabetes check out the offer for a fully funded fellowship in our lab - we will consider candidates with experimental or computational backgrounds.
Please spread the word!
Please spread the word!
Are you looking for a PhD? Join us in Barcelona! You'll dive into a community of >100 PhD students from 30 countries exploring the frontiers of biology. You can also join an online workshop on 6 November (15:00 CET) to learn how to find the right lab for you.
More info: www.crg.eu/en/content/t...
More info: www.crg.eu/en/content/t...
October 23, 2025 at 9:09 AM
Many exciting opportunities for a PhD in Life Sciences in CRG, Barcelona. If you are interested in Genomics of Diabetes check out the offer for a fully funded fellowship in our lab - we will consider candidates with experimental or computational backgrounds.
Please spread the word!
Please spread the word!
Reposted by Jorge Ferrer
The Gaza Famine is the world’s famine. A preventable, predictable famine.
Enough. Ceasefire. Open all crossings, north and south. Let us get food in, unimpeded and at massive scale.
Enough. Ceasefire. Open all crossings, north and south. Let us get food in, unimpeded and at massive scale.
August 22, 2025 at 12:52 PM
The Gaza Famine is the world’s famine. A preventable, predictable famine.
Enough. Ceasefire. Open all crossings, north and south. Let us get food in, unimpeded and at massive scale.
Enough. Ceasefire. Open all crossings, north and south. Let us get food in, unimpeded and at massive scale.
Reposted by Jorge Ferrer
A HNF1A-A1CF transcription-splicing axis is suppressed in β cells from #T2D individuals, while genetic variants reducing pancreatic islet A1CF are associated with increased glycemia and T2D susceptibility www.cell.com/cell-metabol...
HNF1A and A1CF coordinate a beta cell transcription-splicing axis that is disrupted in type 2 diabetes
Bernardo et al. uncover a transcription-splicing regulatory axis driven by HNF1A and
A1CF in pancreatic β cells. Targeted perturbations, single-cell studies, and human
genetic evidence demonstrate tha...
www.cell.com
August 7, 2025 at 12:20 AM
A HNF1A-A1CF transcription-splicing axis is suppressed in β cells from #T2D individuals, while genetic variants reducing pancreatic islet A1CF are associated with increased glycemia and T2D susceptibility www.cell.com/cell-metabol...
An HNF1A-A1CF transcription splicing axis regulates insulin secretion, and breaks down in T2D.
Amazing work led by Edgar Bernardo + Matias de Vas + major contributions from Diego Balboa, Silvia Bonas, Mirabai Cuenca, Fanny Mollandin, Merce Planas, Miquel Torrent, MA Maestro and many others
Amazing work led by Edgar Bernardo + Matias de Vas + major contributions from Diego Balboa, Silvia Bonas, Mirabai Cuenca, Fanny Mollandin, Merce Planas, Miquel Torrent, MA Maestro and many others
HNF1A and A1CF coordinate a beta cell transcription-splicing axis that is disrupted in type 2 diabetes
Bernardo et al. uncover a transcription-splicing regulatory axis driven by HNF1A and
A1CF in pancreatic β cells. Targeted perturbations, single-cell studies, and human
genetic evidence demonstrate tha...
www.cell.com
August 6, 2025 at 8:14 PM
An HNF1A-A1CF transcription splicing axis regulates insulin secretion, and breaks down in T2D.
Amazing work led by Edgar Bernardo + Matias de Vas + major contributions from Diego Balboa, Silvia Bonas, Mirabai Cuenca, Fanny Mollandin, Merce Planas, Miquel Torrent, MA Maestro and many others
Amazing work led by Edgar Bernardo + Matias de Vas + major contributions from Diego Balboa, Silvia Bonas, Mirabai Cuenca, Fanny Mollandin, Merce Planas, Miquel Torrent, MA Maestro and many others
Reposted by Jorge Ferrer
SUM-seq out @natmethods.nature.com !
🚀 Ultra-high-throughput Multiplexed snATAC+RNA
Used to:
⏳ link temporal macrophage GRNs to immune disease genetics
🩸 map T cell regulatory landscapes
🧬✂️ dissect TF function in hiPSC differentiation via CRISPRi/a screens
doi.org/10.1038/s41592-025-02700-8
🧵
🚀 Ultra-high-throughput Multiplexed snATAC+RNA
Used to:
⏳ link temporal macrophage GRNs to immune disease genetics
🩸 map T cell regulatory landscapes
🧬✂️ dissect TF function in hiPSC differentiation via CRISPRi/a screens
doi.org/10.1038/s41592-025-02700-8
🧵
Single-cell ultra-high-throughput multiplexed chromatin and RNA profiling reveals gene regulatory dynamics - Nature Methods
This work presents SUM-seq, an ultra-high-throughput method for co-profiling chromatin accessibility and gene expression in single nuclei across multiplexed samples, advancing the study of gene regula...
doi.org
May 26, 2025 at 9:33 AM
SUM-seq out @natmethods.nature.com !
🚀 Ultra-high-throughput Multiplexed snATAC+RNA
Used to:
⏳ link temporal macrophage GRNs to immune disease genetics
🩸 map T cell regulatory landscapes
🧬✂️ dissect TF function in hiPSC differentiation via CRISPRi/a screens
doi.org/10.1038/s41592-025-02700-8
🧵
🚀 Ultra-high-throughput Multiplexed snATAC+RNA
Used to:
⏳ link temporal macrophage GRNs to immune disease genetics
🩸 map T cell regulatory landscapes
🧬✂️ dissect TF function in hiPSC differentiation via CRISPRi/a screens
doi.org/10.1038/s41592-025-02700-8
🧵
Reposted by Jorge Ferrer
These are VERY rough estimates, but here's life expectancy after diagnosis of type-I diabetes over the past 150 years.
It was Banting and Best's discovery of how to isolate insulin in 1921 — not some fucking cooking class — that gave people including my daughter a new lease on life.
It was Banting and Best's discovery of how to isolate insulin in 1921 — not some fucking cooking class — that gave people including my daughter a new lease on life.
May 26, 2025 at 4:32 AM
These are VERY rough estimates, but here's life expectancy after diagnosis of type-I diabetes over the past 150 years.
It was Banting and Best's discovery of how to isolate insulin in 1921 — not some fucking cooking class — that gave people including my daughter a new lease on life.
It was Banting and Best's discovery of how to isolate insulin in 1921 — not some fucking cooking class — that gave people including my daughter a new lease on life.
Congratulations for this study in @Dev_journal, no small feat in Argentina's anti-Science climate
Thrilled to announce a major milestone for our lab @ifibyne @Exactas_UBA — our paper on the glucocorticoid receptor's role in early pancreas development is now published in @Dev_journal!
Huge thanks to @vallierlab.bsky.social for this long-term collaboration!👇🧵
🔗 doi.org/10.1242/dev....
Huge thanks to @vallierlab.bsky.social for this long-term collaboration!👇🧵
🔗 doi.org/10.1242/dev....
May 26, 2025 at 6:44 PM
Congratulations for this study in @Dev_journal, no small feat in Argentina's anti-Science climate
Reposted by Jorge Ferrer
Want to improve your protein or genomic language model’s performance at zero-shot variant effect prediction? We propose a simple adjustment to likelihood-based predicton
New preprint in collaboration with @paulinanunezv.bsky.social supervised by @jonnyfrazer.bsky.social and Mafalda Dias – we propose a simple approach to improving zero-shot variant effect prediction in pre-existing protein and genome language models: 🧶 1/n
www.biorxiv.org/content/10.1...
www.biorxiv.org/content/10.1...
From Likelihood to Fitness: Improving Variant Effect Prediction in Protein and Genome Language Models
Generative models trained on natural sequences are increasingly used to predict the effects of genetic variation, enabling progress in therapeutic design, disease risk prediction, and synthetic biolog...
www.biorxiv.org
May 26, 2025 at 5:33 PM
Want to improve your protein or genomic language model’s performance at zero-shot variant effect prediction? We propose a simple adjustment to likelihood-based predicton
Reposted by Jorge Ferrer
📣 Join us @ ALMU!
If you have expertise in SMLM, experience in building bespoke microscope systems -or you're excited to start building- are familiar with Python, and have a passion for optical microscopy, we’d love to hear from you!
👇
recruitment.crg.eu/content/jobs...
Reposts appreciated-Thanks!
If you have expertise in SMLM, experience in building bespoke microscope systems -or you're excited to start building- are familiar with Python, and have a passion for optical microscopy, we’d love to hear from you!
👇
recruitment.crg.eu/content/jobs...
Reposts appreciated-Thanks!
May 26, 2025 at 5:40 PM
📣 Join us @ ALMU!
If you have expertise in SMLM, experience in building bespoke microscope systems -or you're excited to start building- are familiar with Python, and have a passion for optical microscopy, we’d love to hear from you!
👇
recruitment.crg.eu/content/jobs...
Reposts appreciated-Thanks!
If you have expertise in SMLM, experience in building bespoke microscope systems -or you're excited to start building- are familiar with Python, and have a passion for optical microscopy, we’d love to hear from you!
👇
recruitment.crg.eu/content/jobs...
Reposts appreciated-Thanks!
Tracing human clones and lineages with DNA methylation. Congratulations for this fascinating breakthrough!
Out @nature.com: Clonal tracing with somatic epimutations
🧬 Single cell methylome encodes cell state & clonal identity
🔨 EPI-Clone reads out both (+mutations, +RNA) at scale
🩸 Clonal expansions of HSCs are universal from age 50, not driven by CH mutations
doi.org/10.1038/s415...
🧵
🧬 Single cell methylome encodes cell state & clonal identity
🔨 EPI-Clone reads out both (+mutations, +RNA) at scale
🩸 Clonal expansions of HSCs are universal from age 50, not driven by CH mutations
doi.org/10.1038/s415...
🧵
Clonal tracing with somatic epimutations reveals dynamics of blood ageing - Nature
The discovery that DNA methylation of different CpG sites can serve as digital barcodes of clonal identity led to the development of EPI-Clone, an algorithm that enables single-cell lineage tracing th...
doi.org
May 26, 2025 at 6:38 PM
Tracing human clones and lineages with DNA methylation. Congratulations for this fascinating breakthrough!
Reposted by Jorge Ferrer
Happy to share a work from the Helman lab on how beta cells sense and control their insulin secretion by Krell et al. in @CellReports.
Beta cells intrinsically sense and limit their secretory activity via mTORC1-RhoA signaling: Cell Reports www.cell.com/cell-reports...
Beta cells intrinsically sense and limit their secretory activity via mTORC1-RhoA signaling: Cell Reports www.cell.com/cell-reports...
Beta cells intrinsically sense and limit their secretory activity via mTORC1-RhoA signaling
Krell et al. show that mTORC1 in β cells acts as an activity sensor, activated by
the same signals that trigger insulin secretion. This activation, in turn, inhibits
insulin release via RhoA-dependent...
www.cell.com
May 18, 2025 at 2:20 PM
Happy to share a work from the Helman lab on how beta cells sense and control their insulin secretion by Krell et al. in @CellReports.
Beta cells intrinsically sense and limit their secretory activity via mTORC1-RhoA signaling: Cell Reports www.cell.com/cell-reports...
Beta cells intrinsically sense and limit their secretory activity via mTORC1-RhoA signaling: Cell Reports www.cell.com/cell-reports...
Reposted by Jorge Ferrer
Molecular Correlates of Glycine Receptor Activity in Human β Cells
https://www.sciencedirect.com/science/article/pii/S2212877825000638
https://www.sciencedirect.com/science/article/pii/S2212877825000638
April 19, 2025 at 5:06 PM
Molecular Correlates of Glycine Receptor Activity in Human β Cells
https://www.sciencedirect.com/science/article/pii/S2212877825000638
https://www.sciencedirect.com/science/article/pii/S2212877825000638
Reposted by Jorge Ferrer
Just heard from the VP research that my grant with @dgrand.bsky.social, "Promoting Accurate Information on Social Media" was terminated as well
Can confirm that my NSF grant "How False Beliefs Form & How to Correct Them" was cancelled today because it is "not in alignment with current NSF priorities" Shocking that understanding how people are misled by false information is now a forbidden topic. Our work will continue but at a smaller scale
NSF has posted an “update on priorities.”
They’re canceling all “DEI and misinformation/disinformation” grants.
And the guidance on how to fulfill the longstanding, legally mandated Broadening Participation requirement is utterly incoherent.
www.nsf.gov/updates-on-p...
They’re canceling all “DEI and misinformation/disinformation” grants.
And the guidance on how to fulfill the longstanding, legally mandated Broadening Participation requirement is utterly incoherent.
www.nsf.gov/updates-on-p...
April 19, 2025 at 12:07 AM
Just heard from the VP research that my grant with @dgrand.bsky.social, "Promoting Accurate Information on Social Media" was terminated as well
Reposted by Jorge Ferrer
Is the genome just a bag of genes? A new paper in Science now reports that for two thirds of an organisms' genes the position along the chromosome is actually very tightly constrained! Amazing work from my favorite night scientist
Martin Lercher and his team!
www.science.org/doi/10.1126/...
Martin Lercher and his team!
www.science.org/doi/10.1126/...
April 11, 2025 at 5:56 PM
Is the genome just a bag of genes? A new paper in Science now reports that for two thirds of an organisms' genes the position along the chromosome is actually very tightly constrained! Amazing work from my favorite night scientist
Martin Lercher and his team!
www.science.org/doi/10.1126/...
Martin Lercher and his team!
www.science.org/doi/10.1126/...
Reposted by Jorge Ferrer
🚨🚨 New pre-print from the lab. led by the amazing @alejotorrescano.bsky.social !
Alejo & Co. elegantly decode the spatial logic of progenitor cell organization in the developing pancreas — from individual cells to structured cellular communities 🔬🔬🧫🧪
Check-it out ⤵️
Alejo & Co. elegantly decode the spatial logic of progenitor cell organization in the developing pancreas — from individual cells to structured cellular communities 🔬🔬🧫🧪
Check-it out ⤵️
Spatially organized cellular communities shape functional tissue architecture in the pancreas https://www.biorxiv.org/content/10.1101/2025.04.16.649169v1
April 17, 2025 at 9:12 PM
🚨🚨 New pre-print from the lab. led by the amazing @alejotorrescano.bsky.social !
Alejo & Co. elegantly decode the spatial logic of progenitor cell organization in the developing pancreas — from individual cells to structured cellular communities 🔬🔬🧫🧪
Check-it out ⤵️
Alejo & Co. elegantly decode the spatial logic of progenitor cell organization in the developing pancreas — from individual cells to structured cellular communities 🔬🔬🧫🧪
Check-it out ⤵️
@elpais.com Many established US scientists are taking a bold decision to move to Europe. EU is devoting funding to this but should be more ambitious elpais.com/ciencia/2025...
Hablan los científicos que quieren emigrar a España por Trump: “Tengo miedo al fascismo”
Centros punteros de Barcelona y Madrid reciben decenas de solicitudes de investigadores en Estados Unidos
elpais.com
March 27, 2025 at 7:07 AM
@elpais.com Many established US scientists are taking a bold decision to move to Europe. EU is devoting funding to this but should be more ambitious elpais.com/ciencia/2025...
Reposted by Jorge Ferrer
Accuracy of gene regulatory network inference is increased by combining multiome single-cell and atlas-scale bulk data go.nature.com/43YySqO
rdcu.be/ebBio
rdcu.be/ebBio
Inferring gene regulatory networks from single-cell multiome data using atlas-scale external data - Nature Biotechnology
Accuracy of gene regulatory network inference is increased by combining multiome single-cell and atlas-scale bulk data.
go.nature.com
March 13, 2025 at 1:25 PM
Accuracy of gene regulatory network inference is increased by combining multiome single-cell and atlas-scale bulk data go.nature.com/43YySqO
rdcu.be/ebBio
rdcu.be/ebBio
Reposted by Jorge Ferrer
We are looking for a keen bioinformatician for a fully funded PhD position!
Drop me an email with your CV!
www.findaphd.com/phds/project...
Drop me an email with your CV!
www.findaphd.com/phds/project...
PhD Opportunity in Bioinformatics – Fully Funded for UK Home Fee Students at University of Birmingham on FindAPhD.com
PhD Project - PhD Opportunity in Bioinformatics – Fully Funded for UK Home Fee Students at University of Birmingham, listed on FindAPhD.com
www.findaphd.com
March 11, 2025 at 11:36 AM
We are looking for a keen bioinformatician for a fully funded PhD position!
Drop me an email with your CV!
www.findaphd.com/phds/project...
Drop me an email with your CV!
www.findaphd.com/phds/project...
*last day* to register and submit your work in topics relevant to liver and islets in metabolic disease, including…
- organoid models, regeneration, and synthetic biology
- disease mechanisms and therapies
- genome regulation
- ….others
- organoid models, regeneration, and synthetic biology
- disease mechanisms and therapies
- genome regulation
- ….others
Sign up now: registration and abstract submission deadline approaching.
EMBO Workshop Liver and pancreas in metabolic disease: from pathways to therapies
Sant Feliu de Guíxols (Girona), Spain, 2 – 4 April 2025
Deadline: 6 March
meetings.embo.org/event/25-liv... <a href="/hashtag/EMBOliverPancreas" class="hover:underline text-blue-600 dark:text-sky-400 no-card-link">#EMBOliverPancreas 🧪
EMBO Workshop Liver and pancreas in metabolic disease: from pathways to therapies
Sant Feliu de Guíxols (Girona), Spain, 2 – 4 April 2025
Deadline: 6 March
meetings.embo.org/event/25-liv... <a href="/hashtag/EMBOliverPancreas" class="hover:underline text-blue-600 dark:text-sky-400 no-card-link">#EMBOliverPancreas 🧪
Liver and pancreas in metabolic disease: from pathways to therapies
The liver and pancreas arise from a common developmental origin and are controlled by shared gene regulatory programs.These organs are central to two of the most common and devastating metabolic dise…
meetings.embo.org
March 6, 2025 at 8:31 AM
*last day* to register and submit your work in topics relevant to liver and islets in metabolic disease, including…
- organoid models, regeneration, and synthetic biology
- disease mechanisms and therapies
- genome regulation
- ….others
- organoid models, regeneration, and synthetic biology
- disease mechanisms and therapies
- genome regulation
- ….others
Reposted by Jorge Ferrer
Join the exciting EMBO Workshop on Liver and Pancreas in Metabolic Disease, which brings together top-tier speakers in an outstanding seaside venue in April 🌊🌅. We’ve designed an interactive and engaging program—register now before it’s too late! ⏳👉 meetings.embo.org/event/25-liv...
March 5, 2025 at 9:36 AM
Join the exciting EMBO Workshop on Liver and Pancreas in Metabolic Disease, which brings together top-tier speakers in an outstanding seaside venue in April 🌊🌅. We’ve designed an interactive and engaging program—register now before it’s too late! ⏳👉 meetings.embo.org/event/25-liv...
Reposted by Jorge Ferrer
Great work by @sviatoslavsidorov.bsky.social !
Our new preprint is out: biorxiv.org/content/10.1... We computationally investigated properties of alternative coding isoforms of human TF genes. Huge thanks to my collaborator Dr Koustav Pal and my supervisors Professors Nicholas Luscombe and @borislenhard.bsky.social!
Cross-tissue isoform switches by human transcription factors suggest a widespread regulatory mechanism
Many human genes, including transcription factor (TF) genes, produce alternative coding isoforms. Although some alternative coding TF isoforms have been experimentally studied, a genome-wide character...
biorxiv.org
December 2, 2024 at 3:48 PM
Great work by @sviatoslavsidorov.bsky.social !
Still time to apply!
Applications from US welcome – four years can feel longer or shorter depending on where you are 😉
Applications from US welcome – four years can feel longer or shorter depending on where you are 😉
📣 Hiring, please forward widely!!
Two postdoc openings to work on genomics of diabetes
1. Computational regulatory genomics/statistical genetics.
2. Experimental cell-based modeling
DM if interested
@crg.eu
shorturl.at/O3wMi
shorturl.at/ieyZy
Two postdoc openings to work on genomics of diabetes
1. Computational regulatory genomics/statistical genetics.
2. Experimental cell-based modeling
DM if interested
@crg.eu
shorturl.at/O3wMi
shorturl.at/ieyZy
Postdoctoral scientist, gene regulatory mechanisms and diabetes | CRG Online Recruitment Portal
The Centre for Genomic Regulation (CRG) is an international biomedical research institute of excellence, based in Barcelona, Spain, with more than 400 scientists from 44 countries. The CRG is composed by an interdisciplinary, motivated and creative scientific team which is supported both by a flexible and efficient administration and by high-end and innovative technologies.
shorturl.at
February 2, 2025 at 8:18 PM
Still time to apply!
Applications from US welcome – four years can feel longer or shorter depending on where you are 😉
Applications from US welcome – four years can feel longer or shorter depending on where you are 😉
Reposted by Jorge Ferrer
Application deadline is get closer - make sure you do not miss this exciting EMBO workshop on liver and pancreatic biology and disease 😉
meetings.embo.org/event/25-liv...
meetings.embo.org/event/25-liv...
Liver and pancreas in metabolic disease: from pathways to therapies
The liver and pancreas arise from a common developmental origin and are controlled by shared gene regulatory programs.These organs are central to two of the most common and devastating metabolic dise…
meetings.embo.org
January 21, 2025 at 9:10 PM
Application deadline is get closer - make sure you do not miss this exciting EMBO workshop on liver and pancreatic biology and disease 😉
meetings.embo.org/event/25-liv...
meetings.embo.org/event/25-liv...
If the past two meetings are any indication, this promises to be another great genome regulation workshop
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
February 1, 2025 at 11:31 AM
If the past two meetings are any indication, this promises to be another great genome regulation workshop