Marlies Oomen
@marliesoomen.bsky.social
Studying regulation of and by TEs in early mammalian development. Postdoc in Torres-Padilla lab @HelmholtzMunich. PhD in Dekker lab @UmassMedical
Reposted by Marlies Oomen
Thrilled to share our new review in Current Opinion in Genetics & Development on TE driven innovation in gene regulation🤘. I am honored to be part of this with two major TE aficionados @cedricfeschotte.bsky.social and @trono-lab.bsky.social
#TEsky #TEworldwide
authors.elsevier.com/c/1m6MC,LqAZ...
#TEsky #TEworldwide
authors.elsevier.com/c/1m6MC,LqAZ...
November 15, 2025 at 5:23 PM
Thrilled to share our new review in Current Opinion in Genetics & Development on TE driven innovation in gene regulation🤘. I am honored to be part of this with two major TE aficionados @cedricfeschotte.bsky.social and @trono-lab.bsky.social
#TEsky #TEworldwide
authors.elsevier.com/c/1m6MC,LqAZ...
#TEsky #TEworldwide
authors.elsevier.com/c/1m6MC,LqAZ...
Reposted by Marlies Oomen
Having a lot of fun at #EMBOMobileGenome 😃
Perfect timing for our paper from the lab of @toddmacfarlan.bsky.social to be out @natcomms.nature.com!!
…and I’m currently on the job market looking for a new scientific home!
www.nature.com/articles/s41...
Perfect timing for our paper from the lab of @toddmacfarlan.bsky.social to be out @natcomms.nature.com!!
…and I’m currently on the job market looking for a new scientific home!
www.nature.com/articles/s41...
Young KRAB-zinc finger gene clusters are highly dynamic incubators of ERV-driven genetic heterogeneity in mice - Nature Communications
KRAB-zinc finger proteins repress retrotransposons and rapidly evolve in mammals. Here, the authors show that ERV insertions drive the emergence and diversification of new KZFP genes in mice, revealin...
www.nature.com
November 6, 2025 at 9:40 AM
Having a lot of fun at #EMBOMobileGenome 😃
Perfect timing for our paper from the lab of @toddmacfarlan.bsky.social to be out @natcomms.nature.com!!
…and I’m currently on the job market looking for a new scientific home!
www.nature.com/articles/s41...
Perfect timing for our paper from the lab of @toddmacfarlan.bsky.social to be out @natcomms.nature.com!!
…and I’m currently on the job market looking for a new scientific home!
www.nature.com/articles/s41...
Reposted by Marlies Oomen
Very happy to see our paper published online natcomms.nature.com. Thank you to @wellcometrust.bsky.social for funding this work during my time with @robklose.bsky.social and David Booth! Thanks also to collaborators @garcialabms.bsky.social @alexdemendoza.bsky.social and the other authors!
Chromatin profiling identifies putative dual roles for H3K27me3 in regulating cell type-specific genes and transposable elements in choanoflagellates
Nature Communications - Here, the authors investigate chromatin-based gene regulation in the closest relative of animal, choanoflagellates. They uncover a putative dual role for the histone...
rdcu.be
October 29, 2025 at 1:40 PM
Very happy to see our paper published online natcomms.nature.com. Thank you to @wellcometrust.bsky.social for funding this work during my time with @robklose.bsky.social and David Booth! Thanks also to collaborators @garcialabms.bsky.social @alexdemendoza.bsky.social and the other authors!
Reposted by Marlies Oomen
📣 New preprint from the Jakobsson lab!
We describe a detailed protocol to inhibit the expression of transposable elements in human pluripotent stem cells, developed thanks to @asapresearch.parkinsonsroadmap.org funding.
Special shoutout to @anitaada.bsky.social!
www.biorxiv.org/content/10.1...
We describe a detailed protocol to inhibit the expression of transposable elements in human pluripotent stem cells, developed thanks to @asapresearch.parkinsonsroadmap.org funding.
Special shoutout to @anitaada.bsky.social!
www.biorxiv.org/content/10.1...
A framework for efficient CRISPRi-mediated silencing of retrotransposons in human pluripotent stem cells
This protocol describes the workflow for transcriptional silencing of transposable elements (TEs) in human induced pluripotent stem cells (hiPSCs). The protocol illustrates how to design gRNAs to targ...
www.biorxiv.org
October 29, 2025 at 8:24 AM
📣 New preprint from the Jakobsson lab!
We describe a detailed protocol to inhibit the expression of transposable elements in human pluripotent stem cells, developed thanks to @asapresearch.parkinsonsroadmap.org funding.
Special shoutout to @anitaada.bsky.social!
www.biorxiv.org/content/10.1...
We describe a detailed protocol to inhibit the expression of transposable elements in human pluripotent stem cells, developed thanks to @asapresearch.parkinsonsroadmap.org funding.
Special shoutout to @anitaada.bsky.social!
www.biorxiv.org/content/10.1...
Reposted by Marlies Oomen
🤩Join the Sci.STEPS 2026 Mentor Cohort!
We invite #mentors from varied backgrounds and stages of their #scientific careers to apply and share their knowledge and expertise with our #mentees.
✏ Register here: lnkd.in/edZggY32
🗓 Deadline: November 10th 2025
👀more about #SciSTEPS: www.scisteps.org
We invite #mentors from varied backgrounds and stages of their #scientific careers to apply and share their knowledge and expertise with our #mentees.
✏ Register here: lnkd.in/edZggY32
🗓 Deadline: November 10th 2025
👀more about #SciSTEPS: www.scisteps.org
October 24, 2025 at 12:12 PM
🤩Join the Sci.STEPS 2026 Mentor Cohort!
We invite #mentors from varied backgrounds and stages of their #scientific careers to apply and share their knowledge and expertise with our #mentees.
✏ Register here: lnkd.in/edZggY32
🗓 Deadline: November 10th 2025
👀more about #SciSTEPS: www.scisteps.org
We invite #mentors from varied backgrounds and stages of their #scientific careers to apply and share their knowledge and expertise with our #mentees.
✏ Register here: lnkd.in/edZggY32
🗓 Deadline: November 10th 2025
👀more about #SciSTEPS: www.scisteps.org
Reposted by Marlies Oomen
Our collab w. V Goel, @nicholas-aboreden.bsky.social , J Jusuf, G Blobel, L Mirny, @irate-physicist.bsky.social out in @natsmb.nature.com www.nature.com/articles/s41...
Was co-submitted with @allanaschooley.bsky.social @jobdekker.bsky.social whose paper should also come out soon
Brief thread 👇
Was co-submitted with @allanaschooley.bsky.social @jobdekker.bsky.social whose paper should also come out soon
Brief thread 👇
October 20, 2025 at 6:36 PM
Our collab w. V Goel, @nicholas-aboreden.bsky.social , J Jusuf, G Blobel, L Mirny, @irate-physicist.bsky.social out in @natsmb.nature.com www.nature.com/articles/s41...
Was co-submitted with @allanaschooley.bsky.social @jobdekker.bsky.social whose paper should also come out soon
Brief thread 👇
Was co-submitted with @allanaschooley.bsky.social @jobdekker.bsky.social whose paper should also come out soon
Brief thread 👇
Reposted by Marlies Oomen
So excited to see this out on bioRxiv! Huge thanks to @kaessmannlab.bsky.social and the amazing cerebellum team (@marisepp.bsky.social and @ioansarr.bsky.social) for all the support and insightful discussions that made this work possible!!
Did transposable elements shape brain evolution — and if so, which ones, and in which cell states and lineages? Led by @tyamadat.bsky.social, we explored this question in cerebellum development using sequence-based deep learning models!
www.biorxiv.org/content/10.1...
www.biorxiv.org/content/10.1...
October 17, 2025 at 5:58 AM
So excited to see this out on bioRxiv! Huge thanks to @kaessmannlab.bsky.social and the amazing cerebellum team (@marisepp.bsky.social and @ioansarr.bsky.social) for all the support and insightful discussions that made this work possible!!
Reposted by Marlies Oomen
Did transposable elements shape brain evolution — and if so, which ones, and in which cell states and lineages? Led by @tyamadat.bsky.social, we explored this question in cerebellum development using sequence-based deep learning models!
www.biorxiv.org/content/10.1...
www.biorxiv.org/content/10.1...
October 16, 2025 at 10:01 PM
Did transposable elements shape brain evolution — and if so, which ones, and in which cell states and lineages? Led by @tyamadat.bsky.social, we explored this question in cerebellum development using sequence-based deep learning models!
www.biorxiv.org/content/10.1...
www.biorxiv.org/content/10.1...
Reposted by Marlies Oomen
Are you enthusiastic about stem cell biology and developmental biology and looking to start a PhD in 2026? Funded opportunites now available. Contact for more infomation. Links below! @lovegrovelab.bsky.social @veronicabiga.bsky.social @manchester.ac.uk @ukri.org
October 9, 2025 at 4:21 PM
Are you enthusiastic about stem cell biology and developmental biology and looking to start a PhD in 2026? Funded opportunites now available. Contact for more infomation. Links below! @lovegrovelab.bsky.social @veronicabiga.bsky.social @manchester.ac.uk @ukri.org
Reposted by Marlies Oomen
Interested in understanding how new cell types evolve? Consider joining our group for a PhD!
2026 PhD recruitment is now open.
As well as our main PhD recruitment, which is open to all, we are pleased to be offering scholarships for candidates of Black or mixed Black heritage. Learn more and apply on our website:
www.crick.ac.uk/careers-stud...
As well as our main PhD recruitment, which is open to all, we are pleased to be offering scholarships for candidates of Black or mixed Black heritage. Learn more and apply on our website:
www.crick.ac.uk/careers-stud...
PhD student recruitment
PhD recruitment information.
www.crick.ac.uk
October 7, 2025 at 4:43 PM
Interested in understanding how new cell types evolve? Consider joining our group for a PhD!
Reposted by Marlies Oomen
Pathway to Independence: a forecast for the future of developmental biology
In this Perspective, each of our 2025 Pathway to Independence Fellows discuss future outlooks for #DevBio and how their work will contribute to this exciting new era.
journals.biologists.com/dev/article/...
In this Perspective, each of our 2025 Pathway to Independence Fellows discuss future outlooks for #DevBio and how their work will contribute to this exciting new era.
journals.biologists.com/dev/article/...
October 7, 2025 at 3:13 PM
Pathway to Independence: a forecast for the future of developmental biology
In this Perspective, each of our 2025 Pathway to Independence Fellows discuss future outlooks for #DevBio and how their work will contribute to this exciting new era.
journals.biologists.com/dev/article/...
In this Perspective, each of our 2025 Pathway to Independence Fellows discuss future outlooks for #DevBio and how their work will contribute to this exciting new era.
journals.biologists.com/dev/article/...
Reposted by Marlies Oomen
⚡⚡Excited to announce I'll be starting my lab at the Max Planck Institute of Molecular Genetics (@molgen.mpg.de) in Berlin in December! Leaving sunny California to join a fantastic environment with colleagues who do super cool work.
🔬🦠I'm hiring at all levels! 🔬🦠Check: www.molgen.mpg.de/fueyo-lab
🔬🦠I'm hiring at all levels! 🔬🦠Check: www.molgen.mpg.de/fueyo-lab
October 6, 2025 at 1:46 PM
⚡⚡Excited to announce I'll be starting my lab at the Max Planck Institute of Molecular Genetics (@molgen.mpg.de) in Berlin in December! Leaving sunny California to join a fantastic environment with colleagues who do super cool work.
🔬🦠I'm hiring at all levels! 🔬🦠Check: www.molgen.mpg.de/fueyo-lab
🔬🦠I'm hiring at all levels! 🔬🦠Check: www.molgen.mpg.de/fueyo-lab
Reposted by Marlies Oomen
Today in @nature.com, we present our work leveraging functional genomics and human blastoids to uncover a human-specific mechanism in preimplantation development driven by the endogenous retrovirus HERVK.
Special thanks to the reviewers whose comments improved our manuscript a lot! rdcu.be/eI3tD
Special thanks to the reviewers whose comments improved our manuscript a lot! rdcu.be/eI3tD
A human-specific regulatory mechanism revealed in a pre-implantation model
Nature - Genetic manipulation of blastoids reveals the role of recently emerged transposable elements and genes in human development.
rdcu.be
October 1, 2025 at 6:08 PM
Today in @nature.com, we present our work leveraging functional genomics and human blastoids to uncover a human-specific mechanism in preimplantation development driven by the endogenous retrovirus HERVK.
Special thanks to the reviewers whose comments improved our manuscript a lot! rdcu.be/eI3tD
Special thanks to the reviewers whose comments improved our manuscript a lot! rdcu.be/eI3tD
Reposted by Marlies Oomen
Meet the 2025 cohort of @dev-journal.bsky.social Pathway to Independence fellows
Read about the scientific visions of eight dev bio post-docs entering the academic job market
journals.biologists.com/dev/article/...
Read about the scientific visions of eight dev bio post-docs entering the academic job market
journals.biologists.com/dev/article/...
Pathway to Independence: a forecast for the future of developmental biology
ABSTRACT. In 2022, Development launched its Pathway to Independence (PI) programme, aimed at supporting postdocs as they transition to their first independent position. In 2025, we welcome our third c...
journals.biologists.com
October 1, 2025 at 6:15 AM
Meet the 2025 cohort of @dev-journal.bsky.social Pathway to Independence fellows
Read about the scientific visions of eight dev bio post-docs entering the academic job market
journals.biologists.com/dev/article/...
Read about the scientific visions of eight dev bio post-docs entering the academic job market
journals.biologists.com/dev/article/...
Reposted by Marlies Oomen
So glad to be among these good eggs, as @mads100tist.bsky.social once called us!
It's online! In this series of perspectives @dev-journal.bsky.social, yours truly talks about the exciting open questions and many things to do in the field of dev bio and neuroscience #DevBio🧪 #PIsOfTomorrow journals.biologists.com/dev/article/...
Pathway to Independence: a forecast for the future of developmental biology
ABSTRACT. In 2022, Development launched its Pathway to Independence (PI) programme, aimed at supporting postdocs as they transition to their first independent position. In 2025, we welcome our third c...
journals.biologists.com
September 30, 2025 at 1:57 PM
So glad to be among these good eggs, as @mads100tist.bsky.social once called us!
Reposted by Marlies Oomen
If you want to know why we should care about protein expression dynamics have a read of the perspective piece I wrote for @dev-journal.bsky.social. While you're there check out my fellow Pathway to Independence fellows' interesting pieces!
journals.biologists.com/dev/article/...
journals.biologists.com/dev/article/...
Pathway to Independence: a forecast for the future of developmental biology
ABSTRACT. In 2022, Development launched its Pathway to Independence (PI) programme, aimed at supporting postdocs as they transition to their first independent position. In 2025, we welcome our third c...
journals.biologists.com
September 30, 2025 at 2:04 PM
If you want to know why we should care about protein expression dynamics have a read of the perspective piece I wrote for @dev-journal.bsky.social. While you're there check out my fellow Pathway to Independence fellows' interesting pieces!
journals.biologists.com/dev/article/...
journals.biologists.com/dev/article/...
Reposted by Marlies Oomen
Together with my other wonderful 2025 PI fellows @biologists.bsky.social @dev-journal.bsky.social, I offer a perspective about the future of my respective field. Have a read - spoiler alert: its about brain evolution and neural lineages (I know - SHOCKER).
journals.biologists.com/dev/article/...
journals.biologists.com/dev/article/...
Pathway to Independence: a forecast for the future of developmental biology
ABSTRACT. In 2022, Development launched its Pathway to Independence (PI) programme, aimed at supporting postdocs as they transition to their first independent position. In 2025, we welcome our third c...
journals.biologists.com
September 30, 2025 at 11:04 AM
Together with my other wonderful 2025 PI fellows @biologists.bsky.social @dev-journal.bsky.social, I offer a perspective about the future of my respective field. Have a read - spoiler alert: its about brain evolution and neural lineages (I know - SHOCKER).
journals.biologists.com/dev/article/...
journals.biologists.com/dev/article/...
In need of a positive outlook on the future (of developmental biology)? Read our perspectives by my fellow @dev-journal.bsky.social PI fellows and myself. I'm hoping my future will contain much more TE biology and mammalian genome regulation!
journals.biologists.com/dev/article/...
journals.biologists.com/dev/article/...
Pathway to Independence: a forecast for the future of developmental biology
ABSTRACT. In 2022, Development launched its Pathway to Independence (PI) programme, aimed at supporting postdocs as they transition to their first independent position. In 2025, we welcome our third c...
journals.biologists.com
September 30, 2025 at 11:58 AM
In need of a positive outlook on the future (of developmental biology)? Read our perspectives by my fellow @dev-journal.bsky.social PI fellows and myself. I'm hoping my future will contain much more TE biology and mammalian genome regulation!
journals.biologists.com/dev/article/...
journals.biologists.com/dev/article/...
Reposted by Marlies Oomen
With perspectives from my esteemed colleagues @ethanewe.bsky.social @maxfarnworth.bsky.social @anzymiller.bsky.social @marliesoomen.bsky.social @giuliapaci.bsky.social @sonyawiden.bsky.social and Toshimichi Yamada 🧪RNAs of all kinds, junk, jumping, and fluctuating genes, cells&tissues with opinions!
It's online! In this series of perspectives @dev-journal.bsky.social, yours truly talks about the exciting open questions and many things to do in the field of dev bio and neuroscience #DevBio🧪 #PIsOfTomorrow journals.biologists.com/dev/article/...
Pathway to Independence: a forecast for the future of developmental biology
ABSTRACT. In 2022, Development launched its Pathway to Independence (PI) programme, aimed at supporting postdocs as they transition to their first independent position. In 2025, we welcome our third c...
journals.biologists.com
September 30, 2025 at 11:06 AM
With perspectives from my esteemed colleagues @ethanewe.bsky.social @maxfarnworth.bsky.social @anzymiller.bsky.social @marliesoomen.bsky.social @giuliapaci.bsky.social @sonyawiden.bsky.social and Toshimichi Yamada 🧪RNAs of all kinds, junk, jumping, and fluctuating genes, cells&tissues with opinions!
Reposted by Marlies Oomen
New work from my lab with the Brown lab on how genome folding changes during motor neuron maturation, and how this process goes awry in ALS motor neurons. Led by Dr. Ozgun Uyan.
www.biorxiv.org/content/10.1...
www.biorxiv.org/content/10.1...
Dynamic changes in chromosome and nuclear architecture during maturation of normal and ALS C9orf72 motor neurons
We have investigated changes in chromosome conformation, nuclear organization, and transcription during differentiation and maturation of control and mutant motor neurons harboring hexanucleotide expa...
www.biorxiv.org
September 23, 2025 at 9:13 PM
New work from my lab with the Brown lab on how genome folding changes during motor neuron maturation, and how this process goes awry in ALS motor neurons. Led by Dr. Ozgun Uyan.
www.biorxiv.org/content/10.1...
www.biorxiv.org/content/10.1...
Reposted by Marlies Oomen
Excited to post my first #JobOffer! I am looking for a research technician to help me build new projects from the grounds up at @cabd-upo-csic.bsky.social
We will use medaka to study how organs can be reprogrammed!
Details on how to apply below 👇
#JobOffer #ScienceJobs #EvoDevo #GeneRegulation
We will use medaka to study how organs can be reprogrammed!
Details on how to apply below 👇
#JobOffer #ScienceJobs #EvoDevo #GeneRegulation
September 19, 2025 at 8:53 AM
Excited to post my first #JobOffer! I am looking for a research technician to help me build new projects from the grounds up at @cabd-upo-csic.bsky.social
We will use medaka to study how organs can be reprogrammed!
Details on how to apply below 👇
#JobOffer #ScienceJobs #EvoDevo #GeneRegulation
We will use medaka to study how organs can be reprogrammed!
Details on how to apply below 👇
#JobOffer #ScienceJobs #EvoDevo #GeneRegulation
Reposted by Marlies Oomen
ICYMI, the recordings of our #DevPres webinar on gene regulation are now available.
Check out the talks from @dev-journal.bsky.social PI fellows Anzy Miller @anzymiller.bsky.social and Marlies Oomen @marliesoomen.bsky.social.
thenode.biologists.com/catch-up-on-...
#devbio 🎥
Check out the talks from @dev-journal.bsky.social PI fellows Anzy Miller @anzymiller.bsky.social and Marlies Oomen @marliesoomen.bsky.social.
thenode.biologists.com/catch-up-on-...
#devbio 🎥
Catch up on Development presents… webinar on gene regulation - the Node
Catch up on the Development presents... gene regulation webinar, featuring talks from two of Development's PI fellows.
thenode.biologists.com
September 12, 2025 at 10:49 AM
ICYMI, the recordings of our #DevPres webinar on gene regulation are now available.
Check out the talks from @dev-journal.bsky.social PI fellows Anzy Miller @anzymiller.bsky.social and Marlies Oomen @marliesoomen.bsky.social.
thenode.biologists.com/catch-up-on-...
#devbio 🎥
Check out the talks from @dev-journal.bsky.social PI fellows Anzy Miller @anzymiller.bsky.social and Marlies Oomen @marliesoomen.bsky.social.
thenode.biologists.com/catch-up-on-...
#devbio 🎥
Reposted by Marlies Oomen
💥 New preprint! 💥
We show that transposons are directly linked to a cell-type and region specific inflammatory state in Parkinson’s Disease 🧠🦠
What a team @jakobssonasap.bsky.social! Funded by @asapresearch.parkinsonsroadmap.org
#Parkinsons #Neuroinflammation #TEworldwide #singlecell #TEs
We show that transposons are directly linked to a cell-type and region specific inflammatory state in Parkinson’s Disease 🧠🦠
What a team @jakobssonasap.bsky.social! Funded by @asapresearch.parkinsonsroadmap.org
#Parkinsons #Neuroinflammation #TEworldwide #singlecell #TEs
New preprint from my lab! We describe how transposable elements are activated in Parkinson’s disease, which is linked to an interferon response. We believe this study significantly advances our understanding of transposons and their role in human brains.
www.biorxiv.org/content/10.1...
www.biorxiv.org/content/10.1...
Activation of transposable elements is linked to a region- and cell-type-specific interferon response in Parkinson's disease
Parkinson's disease (PD) is a common age-related neurodegenerative disorder involving a neuroinflammatory response, the cause of which remains unclear. Transposable elements (TE) have been linked to i...
www.biorxiv.org
September 8, 2025 at 7:42 PM
💥 New preprint! 💥
We show that transposons are directly linked to a cell-type and region specific inflammatory state in Parkinson’s Disease 🧠🦠
What a team @jakobssonasap.bsky.social! Funded by @asapresearch.parkinsonsroadmap.org
#Parkinsons #Neuroinflammation #TEworldwide #singlecell #TEs
We show that transposons are directly linked to a cell-type and region specific inflammatory state in Parkinson’s Disease 🧠🦠
What a team @jakobssonasap.bsky.social! Funded by @asapresearch.parkinsonsroadmap.org
#Parkinsons #Neuroinflammation #TEworldwide #singlecell #TEs
Reposted by Marlies Oomen
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!
Thank you for the interview @dev-journal.bsky.social! Very excited to be part of the Pathway to Independence program
Interested in my research? I'll be presenting my postdoc work at the 'Development presents' webinar, tomorrow afternoon: thenode.biologists.com/development-...
Interested in my research? I'll be presenting my postdoc work at the 'Development presents' webinar, tomorrow afternoon: thenode.biologists.com/development-...
August 26, 2025 at 2:33 PM
Thank you for the interview @dev-journal.bsky.social! Very excited to be part of the Pathway to Independence program
Interested in my research? I'll be presenting my postdoc work at the 'Development presents' webinar, tomorrow afternoon: thenode.biologists.com/development-...
Interested in my research? I'll be presenting my postdoc work at the 'Development presents' webinar, tomorrow afternoon: thenode.biologists.com/development-...