Author

Matteo Ciarchi

Max Planck Institute for the Physics of Complex Systems

Listed by name: these papers carry no ORCID for this author, so different people with the same name may be mixed together.

Biology Disciplines

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Biophysics· 1 Cell Biology· 1 Developmental Biology· 1 Neuroscience· 1

Signature Assays, Organisms & Methods

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Approach:statistical model· 4 Research Focus:chromatin & epigenetic regulation· 2 Assay:DNA methylation· 2 Assay:ChIP-seq· 1 Research Focus:gene regulatory network inference· 1 Organism:human· 1 Approach:machine learning (classical)· 1 Assay:scATAC-seq· 1

Frequent Co-Authors

Steffen RulandsiD· 3 shared Aljona KolmogorovaiD· 1 shared Arnaud Delorme AiD· 1 shared Benjamin D. SimonsiD· 1 shared Isabelle HoxhaiD· 1 shared Louis CoussementiD· 1 shared Maria RostovskayaiD· 1 shared Michel‐Ange AmorimiD· 1 shared

Activity by Year

2023-2026 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 17 mutual co-author links

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3 shared papersBiophysics

Steffen RulandsORCID

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Author profile →

4 papers

Recent·Most cited

Dynamical Regimes in Rejuvenation

Matteo Ciarchi, Steffen Rulands

This study identifies three temporal regimes in rejuvenation, showing that an intermediary regime enables successful rejuvenation through epigenetic plasticity and chromatin memory.

bioRxiv · Sep 3, 2026 · PreprintBiophysics

A temporal hierarchy determines epigenetic aging

Matteo Ciarchi, Benjamin D. Simons, Steffen Rulands

The paper shows how DNA methylation aging emerges from a hierarchy of molecular processes across different timescales.

bioRxiv · Aug 13, 2025 · PreprintCell Biology

A transcriptional clock of the human pluripotency transition

Louis Coussement, Matteo Ciarchi, Aljona Kolmogorova, Tim De Meyer, Steffen Rulands, Wolf Reik, Maria Rostovskaya

The paper uses human pluripotent stem cells to study the epiblast development transition, revealing a transcriptional clock mechanism that governs timing and directionality through gene regulatory networks.

bioRxiv · Mar 13, 2025 · PreprintDevelopmental Biology

Accounting for endogenous effects in decision-making with a non-linear diffusion decision model

Isabelle Hoxha, Sylvain Chevallier, Matteo Ciarchi, Stefan Glasauer, Arnaud Delorme A, Michel‐Ange Amorim

This paper introduces a non-linear Drift-Diffusion Model (nl-DDM) that better captures inter-trial dynamics and endogenous influences in decision-making compared to the standard DDM.

Scientific Reports · Apr 18, 2023Peer-reviewedNeuroscience