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Marlies Oomen

@marliesoomen

Studying regulation of and by TEs in early mammalian development. Postdoc in Torres-Padilla lab @HelmholtzMunich. PhD in Dekker lab @UmassMedical

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20.11.2024
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Latest posts by Marlies Oomen @marliesoomen

Incredibly proud to share our new preprint, lead by the Incomparable Rithika Sankar.
Here we temporally dissect the role of FACT in mES cells, finding that FACT loss drives progressive deterioration of chromatin architecture, leading to transcriptional collapse.
www.biorxiv.org/content/10.6...

27.02.2026 21:27 πŸ‘ 43 πŸ” 26 πŸ’¬ 1 πŸ“Œ 1
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The molecular evolution of vertebrate organs Nature Ecology & Evolution - This Review discusses recent advances in the molecular evolution of vertebrate organs, including rates of evolution of organs and cell types, molecular mechanisms...

Our internal organs are evolutionary marvels. New technologies are transforming our understanding of the evolution of vertebrate organs. You can find more by reading here:
rdcu.be/e5EgU
#EvoBio #EvoDevo πŸŸπŸ¦ŽπŸ’πŸ¦‡πŸŠπŸ¦œ

25.02.2026 12:29 πŸ‘ 140 πŸ” 52 πŸ’¬ 2 πŸ“Œ 5

I had a lot of fun putting this together with @suminkim.bsky.social and @andersshansen.bsky.social! Glad to have had the chance to work on it!

19.02.2026 01:37 πŸ‘ 27 πŸ” 9 πŸ’¬ 1 πŸ“Œ 2

I am also (i) very stressed, (ii) very thrilled and (iii) on the job market

16.02.2026 14:47 πŸ‘ 12 πŸ” 2 πŸ’¬ 1 πŸ“Œ 0

PEOPLES OF EARTH: BE PREPARED πŸ§ͺ

16.02.2026 14:20 πŸ‘ 48 πŸ” 13 πŸ’¬ 1 πŸ“Œ 1

New preprint!! 🚨 Did you know that many vertebrate species determine sex based on environmental conditions rather than chromosomes? Some turtles, like Trachemys scripta, rely on temperature. We learned more about how this happen molecularly.πŸ‘‡
www.biorxiv.org/content/10.6...

02.02.2026 11:18 πŸ‘ 20 πŸ” 13 πŸ’¬ 1 πŸ“Œ 3

The final (and my favorite) chapter of my PhD is now officially published!

Extremely grateful to all our collaborators, especially to @marisepp.bsky.social and @tyamadat.bsky.social for their hard work, and to @steinaerts.bsky.social and @kaessmannlab.bsky.social for their guidance and advice!

30.01.2026 18:43 πŸ‘ 16 πŸ” 1 πŸ’¬ 0 πŸ“Œ 0
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Tissue-specific restriction of transposon-derived regulatory elements safeguards cell-type identity Milovanović et al. uncover a mechanism by which KZFPs restrict the activity of transposon-derived cis-regulatory elements to safeguard cardiomyocyte functionality. This work extends the classical TE-K...

It is finally out! If you are interested in TE-derived CREs, and newly described, but evolutionary old KZFP-TE mechanistic modalities, read it at www.cell.com/cell-reports....
Thankful to everyone who took part in this work, namely @orpsf.bsky.social and other @trono-lab.bsky.social members. πŸ«€πŸ§¬βœ¨

29.01.2026 14:20 πŸ‘ 40 πŸ” 14 πŸ’¬ 0 πŸ“Œ 1

Very excited to receive this award and truly grateful to the @bscb-official.bsky.social who have been supporting me throughout my postdoc since I moved to the UK!

22.01.2026 10:51 πŸ‘ 37 πŸ” 2 πŸ’¬ 3 πŸ“Œ 1
Post image Post image

Cow Tools!

We have lived alongside cows for nearly 10,000 years.
We breed them and exploit them

It is now, only now, that we have discovered THEY CAN USE TOOLS

Here I describe our study

(paper) www.sciencedirect.com/science/arti... in @currentbiology.bsky.social
with @auersperga.bsky.social

19.01.2026 17:23 πŸ‘ 1312 πŸ” 535 πŸ’¬ 26 πŸ“Œ 110
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4D Nucleome Consortium produces detailed models of the 3D genome over time in cells The 4D Nucleome Consortium has extensively mapped and analyzed the 3-D folding of the human genome in human embryonic stem cells and immortalized fibroblasts over time.

Work by the 4D Nucleome Consortium, led by Job Dekker, PhD, reveals a systematic map of the structure and function of the human: direc.to/ooab

#genome @jobdekker.bsky.social @hhmi-science.bsky.social @nature.com @marionicodemi.bsky.social @creminslab.bsky.social @gladstoneinst.bsky.social

12.01.2026 17:43 πŸ‘ 8 πŸ” 3 πŸ’¬ 0 πŸ“Œ 0

I’ve been so lucky to be part of the PI Programme by @biologists.bsky.social this past year and met so many incredible people! Come hear us talk about what keeps us up at night this Wednesday!

11.01.2026 07:48 πŸ‘ 5 πŸ” 3 πŸ’¬ 0 πŸ“Œ 0
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"It is crucial for us, young scientists, to come together from different countries and build a network," says Marlies Oomen, EMBO Postdoctoral Fellow at Helmholtz Munich. πŸ§ͺ

https://www.embo.org/people/global-mobility-sparks-scientific-creativity/
#networking #LifeSciences #research #funding

07.01.2026 15:05 πŸ‘ 7 πŸ” 2 πŸ’¬ 0 πŸ“Œ 1
Development presents…
Wednesday 14 January 15:00 GMT/UTC
Chair: Priti Agarwal
Chee Kiang (Ethan) Ewe Tel AvivΒ University
β€˜Neuronal oversight of germline small RNAs prevents heat-induced sterility in Caenorhabditis elegans’
Max Farnworth University of Bristol
β€˜How the evolution of spatial foraging shaped centres of cognition in Heliconiini butterflies’
Sonya Widen IMBA, Vienna BioCenter 
β€˜β€œUnpacking” eukaryotic horizontal gene transfer: Mavericks transfer novel β€œcargo” genes across the globe’
#DevPres | @dev-journal.bsky.social
thenode.biologists.com/devpres

Development presents… Wednesday 14 January 15:00 GMT/UTC Chair: Priti Agarwal Chee Kiang (Ethan) Ewe Tel AvivΒ University β€˜Neuronal oversight of germline small RNAs prevents heat-induced sterility in Caenorhabditis elegans’ Max Farnworth University of Bristol β€˜How the evolution of spatial foraging shaped centres of cognition in Heliconiini butterflies’ Sonya Widen IMBA, Vienna BioCenter β€˜β€œUnpacking” eukaryotic horizontal gene transfer: Mavericks transfer novel β€œcargo” genes across the globe’ #DevPres | @dev-journal.bsky.social thenode.biologists.com/devpres

Join us next week for #DevPres to hear 3 of our PI fellows talk about the environment & evolution

14 January 15:00 GMT/UTC

With talks from @ethanewe.bsky.social, @maxfarnworth.bsky.social & @sonyawiden.bsky.social, chaired by @pritiagarwal.bsky.social.

us02web.zoom.us/webinar/regi...

#DevPres

05.01.2026 12:38 πŸ‘ 18 πŸ” 14 πŸ’¬ 1 πŸ“Œ 1
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Interphase chromosome conformation is specified by distinct folding programmes inherited through mitotic chromosomes or the cytoplasm Nature Cell Biology - Schooley et al. find that mitotically bookmarked loci drive a transient chromosome folding state during G1 entry that is subsequently modulated by factors inherited through...

Happy to share that my postdoc work with @jobdekker.bsky.social is out!
rdcu.be/eWHD2

We characterize interphase chromatin folding programs with distinct modes of mitotic inheritance and identify the chromosome-intrinsic capacity to form a microcompartment of active CREs during mitotic exit.

29.12.2025 12:39 πŸ‘ 33 πŸ” 12 πŸ’¬ 4 πŸ“Œ 0

After a long journey, I'm happy to share that my PhD work is finally published in Nature Communications. Grateful to all my co-authors!

22.12.2025 16:01 πŸ‘ 8 πŸ” 4 πŸ’¬ 0 πŸ“Œ 0

🚨Our story is published! Same bones but + dissection of MERVL’s role integrating signals from #ZGA factors, & + about pathological DUX4 activation of NOXA #TEsky. Thanks to all revs for their helpful comments improving the ms. Even #rev3 - until they ghosted us 😜

www.science.org/doi/epdf/10....

22.12.2025 12:32 πŸ‘ 30 πŸ” 12 πŸ’¬ 0 πŸ“Œ 0
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Interphase chromosome conformation is specified by distinct folding programmes inherited through mitotic chromosomes or the cytoplasm - Nature Cell Biology Schooley et al. find that mitotically bookmarked loci drive a transient chromosome folding state during G1 entry that is subsequently modulated by factors inherited through the cytoplasm.

Exciting new paper out! @allanaschooley.bsky.social and Sergey Venev led this project that let to the discovery of two chromosome folding programs: one inherited via mitotic chromosomes and one mitotic inherited through the cytoplasm!

www.nature.com/articles/s41...

22.12.2025 11:45 πŸ‘ 75 πŸ” 39 πŸ’¬ 1 πŸ“Œ 1
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Apply for Development's Pathway to Independence programme - the Node Development are currently welcoming applications for our Pathway to Independence (PI) programme, which aims to support a small number of researchers in

Apply for Development's Pathway to Independence programme

The programme aims to support a small number of researchers in the fields of developmental biology, stem cells and regeneration as they transition from postdoc to group leader. Read more ⬇️

thenode.biologists.com/apply-for-de...

18.12.2025 21:22 πŸ‘ 9 πŸ” 14 πŸ’¬ 0 πŸ“Œ 1

I recommend any Developmental biologists planning to start the road to becoming a PI next year to apply! The help and guidance you will receive are valuable but being a part of a cohort of people living through the same experiences is worth its weight in Gold!

18.12.2025 09:28 πŸ‘ 17 πŸ” 7 πŸ’¬ 0 πŸ“Œ 0

Join us at SMBE26! We are in a golden period for understanding the evolution of gene regulation.

17.12.2025 10:42 πŸ‘ 18 πŸ” 9 πŸ’¬ 0 πŸ“Œ 0
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An integrated view of the structure and function of the human 4D nucleome - Nature The 4D Nucleome Project demonstrates the use of genomic assays and computational methods to measure genome folding and then predict genomic structure from DNA sequence, facilitatin...

A major output of the 4D Nucleome project appeared today. This is the joint effort of many scientists working together and (publicly) sharing data and results for several years. We hope this is of interest to many genome biologists!

www.nature.com/articles/s41...

17.12.2025 20:59 πŸ‘ 107 πŸ” 55 πŸ’¬ 2 πŸ“Œ 5

Just got back to Munich after a wonderful Pathway to Independence retreat to the @biologists.bsky.social @dev-journal.bsky.social headquarters. Highly recommend applying to the program; you will find an amazing group of peers and get training + support throughout your transition to independence!

12.12.2025 10:04 πŸ‘ 14 πŸ” 0 πŸ’¬ 0 πŸ“Œ 0
Anzy Miller, Martina Cerise, Giulia Paci, Max Farnworth, Sonya Widen, Marlies Oomen, Ethan Ewe, JoaquΓ­n Navajas Acedo and Toshimichi Yamada.

Anzy Miller, Martina Cerise, Giulia Paci, Max Farnworth, Sonya Widen, Marlies Oomen, Ethan Ewe, JoaquΓ­n Navajas Acedo and Toshimichi Yamada.

We were delighted to welcome our most recent Pathway to Independence (PI) fellows to our offices at @biologists.bsky.social for leadership training.

Find out more about our PI fellows and how to apply here:
journals.biologists.com/dev/pages/pi...

Application deadline: 2 February 2026.

11.12.2025 10:49 πŸ‘ 40 πŸ” 5 πŸ’¬ 0 πŸ“Œ 5
We are sitting around a busy, long dinner table, all wearing color paper crowns and smiling

We are sitting around a busy, long dinner table, all wearing color paper crowns and smiling

Great day with these certified knuckleheads that are absolutely the best (and future) of their fields πŸ§ͺ @ethanewe.bsky.social @marliesoomen.bsky.social @giuliapaci.bsky.social @amjeve.bsky.social @maxfarnworth.bsky.social @anzymiller.bsky.social Martina and Toshi

08.12.2025 20:41 πŸ‘ 45 πŸ” 4 πŸ’¬ 1 πŸ“Œ 1
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Development's Pathway to Independence Programme Our grants support and encourage the sharing of knowledge throughout the community by facilitating international collaboration, event attendance and the organisation of scientific meetings, conference...

Applications are open for @dev-journal.bsky.social 2026 Pathway to Independence (PI) programme, supporting postdocs applying for group leader positions:

Mentoring
Profile raising
Leadership training
Network building

Spread the word...

www.biologists.com/grants/devel...

03.12.2025 06:56 πŸ‘ 73 πŸ” 83 πŸ’¬ 0 πŸ“Œ 1
Pathway to Independence
Support postdocs on the job market
Line drawing of a person at a bench transitioning to working at a desk
Development

Pathway to Independence Support postdocs on the job market Line drawing of a person at a bench transitioning to working at a desk Development

Apply for our Pathway to Independence (PI) programme, supporting postdocs in #devbio and #stemcell research during the transition to their first group leader position: www.biologists.com/grants/devel...

Application deadline: 2 February 2026.

02.12.2025 14:53 πŸ‘ 38 πŸ” 36 πŸ’¬ 2 πŸ“Œ 6

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...

15.11.2025 17:23 πŸ‘ 54 πŸ” 19 πŸ’¬ 0 πŸ“Œ 1
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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...

Having a lot of fun at #EMBOMobileGenome πŸ˜ƒ
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...

06.11.2025 09:40 πŸ‘ 51 πŸ” 17 πŸ’¬ 1 πŸ“Œ 1
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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...

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!

29.10.2025 13:40 πŸ‘ 114 πŸ” 36 πŸ’¬ 7 πŸ“Œ 1