In Silico Organogenesis
We use image-based modeling to generate 4D models of organogenesis. Here, we focus in particular on lung, kidney, and CNS development.

Lung, Kidney & Pancreas Development
How are reliable symmetry breaks achieved during branching morphogenesis? And how are developmental processes coordinated such that functional units emerge, i.e. the branching of the ureteric tree with the formation of nephrons to achieve efficient drainage? What are the relative contributions of chemical signalling and tissue mechanics?
Coordination of nephrogenesis with branching of the urinary collecting system, the vasculature and the nervous system
Dagmar Iber, Malte Mederacke, Roman Vetter
external page Current Topics in Developmental Biology, edited by Jamie Davies, 2025.
Tracheal Ring Formation
Dagmar Iber and Malte Mederacke
external page Frontiers in Cell and Developmental Biology, 2022.
Editorial: Branching Morphogenesis During Embryonic Lung Development
Elie El Agha, Dagmar Iber and David Warburton
external page Frontiers in Cell and Developmental Biology, 2021.
Organ-Specific Branching Morphogenesis
Christine Michaela Lang, Lisa Conrad and Dagmar Iber
external page Frontiers in Cell and Developmental Biology, 2021.
The control of lung branching morphogenesis
Dagmar Iber
external page Cellular Networks in Development, edited by Affolter, Markus, 2021.
Image-Based In silico Models of Organogenesis
Harold F. Gomez, Lada Georgieva, Odyssé Michos and Dagmar Iber
external page Systems Biology, edited by Nielsen, Jens and Hohmann, Stefan, 2017.
Image-based modelling of organogenesis
Dagmar Iber, Zahra Karimaddini and Erkan Ünal
external page Briefings in Bioinformatics, 2016.
The control of branching morphogenesis
Dagmar Iber, Denis Menshykau
external page Open Biology, 2013.

The emergence of the fractal bronchial tree
Mederacke M, Yamauchi KA, Doumpas N, Schaumann L, Sperl J, Weikert T, Dane DM, Hsia CCW, Pradella M, Bremerich J, Vetter R and Iber D
external page bioRxiv (2025) external page Tweetorial

Geometric Effects Position Renal Vesicles During Kidney Development
Mederacke M, Conrad L, Doumpas N, Vetter R, Iber D
external page Cell Reports (2023) external page Tweetorial

FGF8 induces chemokinesis and regulates condensation of mouse nephron progenitor cells
Abhishek Sharma, Marco Meer, Arvydas Dapkunas, Anneliis Ihermann-Hella, Satu Kuure, Seppo Vainio, Dagmar Iber and Florence Naillat
external page Development (2022), external page Teaser, external page Tweetorial

Identification and implication of tissue-enriched ligands in epithelial-endothelial crosstalk during pancreas development
Moulis et al.
external page Scientific Reports (2022)

Development of a 3D atlas of the embryonic pancreas for topological and quantitative analysis of heterologous cell interactions
Glorieux et al.
external page Development (2022)

The biomechanical basis of biased epithelial tube elongation in lung and kidney development
Lisa Conrad, Steve Runser, Harold F. Gómez, Christine Michaela Lang, Mathilde Sabine Dumond, Aleksandra Sapala, Laura Schaumann, Odyssé Michos, Roman Vetter and Dagmar Iber
external page Development (2021) external page Teaser external page Interview external page Tweetorial

Image-based modeling of kidney branching morphogenesis reveals GDNF-RET based Turing-type mechanism and pattern-modulating WNT11 feedback
Menshykau D, Michos O, Lang C, Conrad L, McMahon AP and Iber D
external page Nature Communications, 2019.

Feedback, receptor clustering, and receptor restriction to single cells yield large Turing spaces for ligand-receptor-based Turing models
Tamás Kurics, Denis Menshykau, Dagmar Iber
external page Phys Rev E Stat Nonlin Soft Matter Phys, 2014

An interplay of geometry and signaling enables robust lung branching morphogenesis
Menshykau M, Blanc P, Unal E, Sapin V and Iber D
external page Development, 2014.

Simulations demonstrate a simple network to be sufficient to control branch point selection, smooth muscle and vasculature formation during lung branching morphogenesis
Géraldine Cellière, Denis Menshykau, Dagmar Iber
external page Biol Open (2012)

Branch Mode Selection during Early Lung Development
Denis Menshykau, Conradin Kraemer, Dagmar Iber
external page Plos Comp Biol (2012)

The protooncogene Ski regulates the neuron-glia switch during development of the mammalian cerebral cortex
Grison A, Karimaddini Z, Breda J, Mukhtar T, Boareto M, Eschbach K, Beisel C, Iber D, van Nimwegen E, Verdon Taylor, Atanasoski S
external page bioRxiv, 2022

Hingepoint emergence in mammalian spinal neurulation.
de Goederen V, Vetter R, McDole K, Iber D
external page bioRxiv (2021) external page Tweetorial, ETH News

A Shh/Gli-driven three-node timer motif controls temporal identity and fate of neural stem cells
Dias JM, Alekseenko Z, Jeggari A, Boareto M, Vollmer J, Kozhevnikova M, Wang H, Matise MP, Alexeyenko A, Iber D, Ericson J
external page Science Advances, 2020.

Temporal and sequential transcriptional dynamics define lineage shifts in corticogenesis
Mukhtar T, Breda J, Boareto M, Grobecker P, Karimaddini Z, Grison A, Eschbach K, Chandrasekhar R, Vermeul S, Okoniewski M, Pachkov M, Atanasoski S, Beisel C, Iber D, van Nimwegen E, Verdon Taylor
external page The EMBO Journal 2022 e111132

Tead transcription factors differentially regulate cortical development
Tanzila Mukhtar, Jeremie Breda, Alice Grison, Zahra Karimaddini, Pascal Grobecker, Dagmar Iber, Christian Beisel, Erik van Nimwegen and Verdon Taylor
external page Scientific Reports, 2020.

Id4 Downstream of Notch2 Maintains Neural Stem Cell Quiescence in the Adult Hippocampus
Zhang R, Boareto M, Engler A, Louvi A, Giachino C, Iber D and Taylor V
external page Cell Reports, 2019.

Differential interactions between Notch and ID factors control neurogenesis by modulating Hes factor autoregulation
Marcelo Boareto, Dagmar Iber and Verdon Taylor
external page Development, 2017.