Publications

The following publications were published exclusively under the affiliation of the Max Planck Society. For publications by the principal investigator outside of the Max Planck Society, see the links on the lower left.

Publications by the Bulut-Karslıoğlu Lab

Preprints

If preprints are available, they will be listed here.

2026
Akbari-Omgba, P.; Patil, G.; Stötzel, M.; Cheng, C.-Y.; Niskanen, H.; Ruwolt, M.; Fernandez, A. E.; Blackledge, N. P.; Grimme, A.; Liu, F. et al.; Hnisz, D.; Klose, R. J.; Akbari-Omgba, P.: Nuclear mTOR-Polycomb synergism at developmental gene promoters prone to activation. bioRxiv: the preprint server for biology (2026)
MPG.PuRe
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2025
Balaskas, A.; Kraus, I.; Özgüldez, H. Ö.; Akbari-Omgba, P.; Buschow, R.; Berlad, I.; Hanna, J. H.; Kretzmer, H.; Bulut-Karslioglu, A.; Bolondi, A.: An advanced head-to-tail mouse embryo model with hypoxia-mediated neural patterning. bioRxiv (2025)
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pre-print

Published

2026
Braun, S.; Kilchert, C.; Bulut-Karslioglu, A.; Ruault, M.; Taddei, A.; Rabbani, F.; Włoch-Salamon, D.: Nuclear Dynamics in Quiescent Cells: Conserved Mechanisms from Yeasts to Mammals. Biomolecules 16, p. 203 (2026)
MPG.PuRe
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Iyer, D. P.; Heidari Khoei, H.; Rivron, N.; Bulut-Karslioglu, A.: Putting mammalian early embryonic cells into dormancy. Nature Protocols (2026)
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2025
Villaronga-Luque, A.; Savill, R. G.; López-Anguita, N.; Bolondi, A.; Garai, S.; Gassaloglu, S. I.; Rouatbi, R.; Schmeisser, K.; Poddar, A.; Bauer, L. et al.; Alves, T.; Traikov, S.; Rodenfels, J.; Chavakis, T.; Bulut-Karslioglu, A.; Veenvliet, J. V.: Integrated molecular-phenotypic profiling reveals metabolic control of morphological variation in a stem-cell-based embryo model. Cell Stem Cell 32 (5), pp. 759 - 777 (2025)
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2024
Iyer, D. P.; Khoei, H. H.; van der Weijden, V. A.; Kagawa, H.; Pradhan, S. J.; Novatchkova, M.; McCarthy, A.; Rayon, T.; Simon, C. S.; Dunkel, I. et al.; Wamaitha, S. E.; Elder, K.; Snell, P.; Christie, L.; Schulz, E. G.; Niakan, K. K.; Rivron, N.; Bulut-Karslioglu, A.: mTOR activity paces human blastocyst stage developmental progression. Cell 187 (23), pp. 6566 - 6583 (2024)
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Stötzel, M.; Cheng, C.-Y.; Ilik, I. A.; Sampath Kumar, A.; Akbari-Omgba, P.; van der Weijden, V. A.; Zhang, Y.; Vingron, M.; Meissner, A.; Aktas, T. et al.; Kretzmer, H.; Bulut-Karslioglu, A.: TET activity safeguards pluripotency throughout embryonic dormancy. Nature Structural & Molecular Biology 31 (10), pp. 1625 - 1639 (2024)
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Özgüldez, H. Ö.; Bulut-Karslioglu, A.: Dormancy, Quiescence, and Diapause: Savings Accounts for Life. Annual Review of Cell and Developmental Biology 40, pp. 25 - 49 (2024)
MPG.PuRe
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van der Weijden, V. A.; Bulut-Karslioglu, A.: Embryos burn fat in standby. Trends in Cell Biology 34 (9), pp. 700 - 702 (2024)
MPG.PuRe
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Iyer, D. P.; Moyon, L.; Ringeling, F. R.; Cheng, C.-Y.; Wittler, L.; Canzar, S.; Marsico, A.; Bulut-Karslioglu, A.: Combinatorial microRNA activity is essential for the transition of pluripotent cells from proliferation into dormancy. Genome Research 34 (4), p. 589 - 589 (2024)
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van der Weijden, V. A.; Stötzel, M.; Iyer, D. P.; Fauler, B.; Gralinska, E.; Shahraz, M.; Meierhofer, D.; Vingron, M.; Rulands, S.; Alexandrov, T. et al.; Mielke, T.; Bulut-Karslioglu, A.: FOXO1-mediated lipid metabolism maintains mammalian embryos in dormancy. Nature Cell Biology 26 (2), pp. 181 - 193 (2024)
MPG.PuRe
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Bulut-Karslioglu, A.: The double-edged sword of bivalency. Nature Reviews Molecular Cell Biology 25 (1), Article 6 (2024)
MPG.PuRe
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publisher-version
2023
Garcia-Ojalvo, J.; Bulut-Karslioglu, A.: On time: developmental timing within and across species. Development 150 (14), dev201045 (2023)
MPG.PuRe
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publisher-version
2022
López-Anguita, N.; Gassaloglu, S. I.; Stötzel, M.; Bolondi, A.; Conkar , D.; Typou, M.; Buschow, R.; Veenvliet, J. V.; Bulut-Karslioglu, A.: Hypoxia induces an early primitive streak signature, enhancing spontaneous elongation and lineage representation in gastruloids. Development 149 (20), dev200679 (2022)
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2021
Bulut-Karslioglu, A.; Jin, H.; Kim, Y.-K.; Cho, B.; Guzman-Ayala, M.; Williamson, A. J. K.; Hejna, M.; Stötzel, M.; Whetton, A. D.; Song, J. S. et al.; Ramalho-Santos, M.: Chd1 protects genome integrity at promoters to sustain hypertranscription in embryonic stem cells. Nature Communications 12 (1), 4859 (2021)
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van der Weijden, V.; Bulut-Karslioglu, A.: Molecular Regulation of Paused Pluripotency in Early Mammalian Embryos and Stem Cells. Frontiers in Cell and Developmental Biology 9, 708318 (2021)
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publisher-version
2018
Percharde, M.; Lin, C.-J.; Yin, Y.; Guan, J.; Peixoto, G. A.; Bulut-Karslioglu, A.; Biechele, S.; Huang, B.; Shen, X.; Ramalho-Santos, M.: A LINE1-Nucleolin Partnership Regulates Early Development and ESC Identity. Cell 174 (2), pp. 391 - 405 (2018)
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Bulut-Karslioglu, A.; Macrae, T. A.; Oses-Prieto, J. A.; Covarrubias, S.; Percharde, M.; Ku, G.; Diaz, A.; McManus, M. T.; Burlingame, A. L.; Ramalho-Santos, M.: The Transcriptionally Permissive Chromatin State of Embryonic Stem Cells Is Acutely Tuned to Translational Output. Cell Stem Cell 22 (3), pp. 369 - 383 (2018)
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Publications by Aydan Bulut-Karslıoğlu before affiliation with the Max Planck Society in 2018

Michelle Percharde, Aydan Bulut-Karslioglu, Miguel Ramalho-Santos
Hypertranscription in Development, Stem Cells, and Regeneration
Developmental Cell. 2017
DOI
Aydan Bulut-Karslioglu, Steffen Biechele, Hu Jin, Trisha A. Macrae, Miroslav Hejna, Marina Gertsenstein, Jun S. Song, Miguel Ramalho-Santos.
Inhibition of mTOR induces a paused pluripotent state.
Nature 2016 Dec 1;540(7631):119-123
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Rossana Foti, Stefano Gnan, Daniela Cornacchia, Vishnu Dileep, Aydan Bulut-Karslioglu, Sarah Diehl, Andreas Buness, Felix A. Klein, Wolfgang Huber, Ewan Johnstone, Remco Loos, Paul Bertone, David M. Gilbert, Thomas Manke, Thomas Jenuwein, and Sara C.B. Buonomo
Nuclear Architecture Organized by Rif1 Underpins the Replication-Timing Program
Molecular Cell. 2016
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Marcela Guzman-Ayala, Michael Sachs, Fong Ming Koh, Courtney Onodera, Aydan Bulut-Karslioglu, Chih-Jen Lin, Priscilla Wong, Rachel Nitta, Jun S. Song, Miguel Ramalho-Santos
Chd1 is essential for the high transcriptional output and rapid growth of the mouse epiblast
Development (2015) 142 (1): 118–127.
DOI
Aydan Bulut-Karslioglu, Inti A. De La Rosa-Velázquez, Fidel Ramirez, Maxim Barenboim, 
Megumi Onishi-Seebacher, Julia Arand, Carmen Galán, Georg E. Winter, Bettina Engist, Borbala Gerle, Roderick J. O’Sullivan, Joost H.A. Martens, Jörn Walter, Thomas Manke, Monika Lachner, Thomas Jenuwein.
Suv39h-Dependent H3K9me3 Marks Intact Retrotransposons and Silences LINE Elements in Mouse Embryonic Stem Cells.
Molecular Cell 2014 Jul 17;55(2):277-90
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Aydan Bulut-Karslioglu, Valentina Perrera, Manuela Scaranaro, Inti Alberto de la Rosa-Velazquez, Suzanne van de Nobelen, Nicholas Shukeir, Johannes Popow, Borbala Gerle, Susanne Opravil, Michaela Pagani, Simone Meidhof, Thomas Brabletz, Thomas Manke, Monika Lachner, Thomas Jenuwein.
A transcription factor–based mechanism for mouse heterochromatin formation.
Nature Structural and Molecular Biology 2012 Oct;19(10):1023-30
Source
DOI
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