Author

Ibrahim I. Cissé

Max Planck Institute of Immunobiology and EpigeneticsORCID 0000-0002-8764-1809Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Biophysics· 2 Genomics· 2 Molecular Biology· 2

Signature Assays, Organisms & Methods

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Research Focus:differential expression· 5 Approach:experimental assay· 4 Research Focus:cell type annotation· 3 Organism:human· 3 Assay:bulk RNA-seq· 2 Assay:ChIP-seq· 2 Research Focus:clustering· 2 Organism:mouse· 2

Frequent Co-Authors

Arjun NarayananiD· 2 shared Alexander L. AuldiD· 1 shared Anatoli B. MeriiniD· 1 shared Andreas JanshoffiD· 1 shared Argyris PapantonisiD· 1 shared Asifa AkhtariD· 1 shared Carmelo FerraiiD· 1 shared Carsten SchulteiD· 1 shared

Activity by Year

2017-2026 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 12 mutual co-author links

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2 shared papersBiophysics

Arjun NarayananORCID

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Author profile →

6 papers

Recent·Most cited

The Interaction with Nanotopographical Environment regulates nuclear mechanoresponse in mESCs via Histone Demethylase KDM3A

Yomna Gohar, Eirini Kalogerakou, Matthias Akyel, Priya Kumar, Margarita Darna, Simon Hendrik Stitzinger, Jannis Gottwald, Konstantina Kaplani, Claudio Piazzoni, Manyu Du, Andreas Janshoff, Ibrahim I. Cissé, Eugenio F. Fornasiero, Paolo Milani, Argyris Papantonis, , Carmelo Ferrai

This study shows that nanotopography regulates pluripotency in mESCs by altering chromatin state through the mechanosensitive demethylase KDM3A.

bioRxiv · Feb 13, 2026 · PreprintMolecular Biology

Acetylation-dependent clustering of BRD2 instructs transcription dynamics

Niyazi Umut Erdogdu, Sukanya Guhathakurta, Maria Shvedunova, Ronald Oellers, Eric M. Patrick, Jose Alberto Morin Lantero, Janine Seyfferth, Ward Deboutte, Ibrahim I. Cissé, Asifa Akhtar

This study shows BRD2 clustering on acetylated chromatin is critical for RNA Polymerase II recruitment and transcription initiation.

bioRxiv · Sep 22, 2025 · PreprintGenomics

RNA Dynamics Regulate Transcriptional Condensate Vivacity to Drive Gene Coordination

Koichi Ogami, Ming Zheng, Seiko Yoshino, Yohei Sugimoto, Mayu Seida, Toshiki Mori, Ryo Yoshizawa, Koh Onimaru, Mitsutaka Kadota, Shigehiro Kuraku, Kenichi G. N. Suzuki, Ibrahim I. Cissé, Phillip A. Sharp, Hiroshi I. Suzuki

The paper shows RNA exosome activity maintains transcriptional condensate stability and fluidity, which is essential for coordinated gene expression and cellular homeostasis.

bioRxiv · Jun 6, 2025 · PreprintMolecular Biology

A dual role for H2A.Z.1 in modulating the dynamics of RNA Polymerase II initiation and elongation

Constantine Mylonas, Choongman Lee, Alexander L. Auld, Ibrahim I. Cissé, Laurie A. Boyer

This study investigates how H2A.Z.1 modulates RNA Polymerase II dynamics during transcription initiation and elongation in embryonic stem cells, revealing its role in pausing and re-initiation.

Nature Structural & Molecular Biology · May 1, 2021Peer-reviewedGenomics

A First Order Phase Transition Underlies the Formation of Sub-Diffractive Protein Aggregates in Mammalian Cells

Arjun Narayanan, Anatoli B. Meriin, Michael Y. Sherman, Ibrahim I. Cissé

The paper uses quantitative imaging to show that sub-diffractive protein aggregates form in mammalian cells and follow a first order phase transition model.

bioRxiv · Jun 19, 2017 · PreprintBiophysics

qSR: A software for quantitative analysis of single molecule and super-resolution data

J. Owen Andrews, Arjun Narayanan, Jan-Hendrik Spille, Won-Ki Cho, Jesse D. Thaler, Ibrahim I. Cissé

The paper introduces qSR, a software tool for quantitative analysis of single molecule and super-resolution microscopy data to study protein clustering and dynamics.

bioRxiv · Jun 5, 2017 · PreprintBiophysics