Using deep learning to understand computations in neural circuits with Connectome-constrained Mechanistic Models

Project Information

DeepCoMechTome

Grant agreement ID: 101089288

DOI

10.3030/101089288

EC signature date 15 March 2023

Start date 1 July 2023

End date 30 June 2028

Funded under

• European Research Council (ERC)

Total cost

€ 1 997 321,00

EU contribution

€ 1 997 321,00

Coordinated by

EBERHARD KARLS UNIVERSITAET TUEBINGEN
Germany

CORDIS provides links to public deliverables and publications of HORIZON projects.

Links to deliverables and publications from FP7 projects, as well as links to some specific result types such as dataset and software, are dynamically retrieved from OpenAIRE .

Deliverables

Data Management Plan (1)

Data Management Plan

Drafting of Data Management Plan

Publications

Conference proceedings (6)

Inferring stochastic low-rank recurrent neural networks from neural data

Author(s): Matthijs Pals, A Erdem Sağtekin, Felix Pei, Manuel Gloeckler, Jakob H. Macke
Published in: Conference on Neural Information Processing Systems, 2024, ISBN 9798331314385
Publisher: Curran Associates, Inc.

Latent Diffusion for Neural Spiking Data

Author(s): Jaivardhan Kapoor, Auguste Schulz, Julius Vetter, Felix Pei, Richard Gao, Jakob H. Macke
Published in: Advances in Neural Information Processing Systems, Issue 38, 2024
Publisher: Curran Associates, Inc.

Simultaneous identification of models and parameters of scientific simulators

Author(s): Cornelius Schröder, Jakob H. Macke
Published in: PMLR, Issue 235, 2024
Publisher: PMLR

Sourcerer: Sample-based Maximum Entropy Source Distribution Estimation

Author(s): Julius Vetter; Guy Moss 0001; Cornelius Schröder; Richard Gao; Jakob H. Macke
Published in: Advances in Neural Information Processing Systems 37, 2024
Publisher: Curran Associates, Inc.
DOI: 10.48550/ARXIV.2402.07808

Compositional simulation-based inference for time series

Author(s): Manuel Glöckler; Shoji Toyota; Kenji Fukumizu; Jakob H. Macke
Published in: International Conference on Learning Representations (ICLR), 2025
Publisher: ICLR
DOI: 10.48550/ARXIV.2411.02728

All-in-one simulation-based inference

Author(s): Manuel Gloeckler, Michael Deistler, Christian Weilbach, Frank Wood, Jakob H. Macke
Published in: International Conference on Machine Learning, 2024, ISSN 2640-3498
Publisher: PMLR

Peer reviewed articles (5)

Combined statistical-biophysical modeling links ion channel genes to physiology of cortical neuron types

Author(s): Yves Bernaerts; Michael Deistler; Pedro J. Gonçalves; Jonas Beck; Marcel Stimberg; Federico Scala; Andreas S. Tolias; Jakob Macke; Dmitry Kobak; Philipp Berens
Published in: Patterns, 2023, ISSN 2666-3899
Publisher: Patterns
DOI: 10.1101/2023.03.02.530774

Jaxley: differentiable simulation enables large-scale training of detailed biophysical models of neural dynamics

Author(s): Michael Deistler, Kyra L. Kadhim, Matthijs Pals, Jonas Beck, Ziwei Huang, Manuel Gloeckler, Janne K. Lappalainen, Cornelius Schröder, Philipp Berens, Pedro J. Gonçalves, Jakob H. Macke
Published in: Nature Methods, Issue 22, 2025, ISSN 1548-7091
Publisher: Springer Science and Business Media LLC
DOI: 10.1038/S41592-025-02895-W

sbi reloaded: a toolkit for simulation-based inference workflows

Author(s): Boelts, Jan; Deistler, Michael; Gloeckler, Manuel; Tejero-Cantero, Álvaro; Lueckmann, Jan-Matthis; Moss, Guy; Steinbach, Peter; Moreau, Thomas; Muratore, Fabio; Linhart, Julia; Durkan, Conor; Vetter, Julius; Miller, Benjamin; Herold, Maternus; Ziaeemehr, Abolfazl; Pals, Matthijs; Gruner, Theo; Bischoff, Sebastian; Krouglova, Nastya; Gao, Richard; Lappalainen, Janne; Mucsányi, Bálint; Pei, Felix; Schulz, Auguste; Stefanidi, Zinovia; Coelho Rodrigues, Pedro Luiz; Schröder, Cornelius; Zaid, Faried; Beck, Jonas; Kapoor, Jaivardhan; Greenberg, David; Gonçalves, Pedro; Macke, Jakob
Published in: Journal of Open Source Software, 2025, ISSN 2475-9066
Publisher: The Journal of Open Source Software
DOI: 10.48550/ARXIV.2411.17337

Generating realistic neurophysiological time series with denoising diffusion probabilistic models

Author(s): Julius Vetter; Jakob H. Macke; Richard Gao
Published in: Patterns, Issue 5(9), 2023, ISSN 2666-3899
Publisher: Cell Press
DOI: 10.1016/J.PATTER.2024.101047

Connectome-constrained networks predict neural activity across the fly visual system

Author(s): Janne K. Lappalainen; Fabian D. Tschopp; Sridhama Prakhya; Mason McGill; Aljoscha Nern; Kazunori Shinomiya; Shin-ya Takemura; Eyal Gruntman; Jakob H. Macke; Srinivas C. Turaga
Published in: Nature, Issue 634, 2024, ISSN 1476-4687
Publisher: Nature
DOI: 10.15496/PUBLIKATION-102510

Other (1)

Whole-body physics simulation of fruit fly locomotion

Author(s): Roman Vaxenburg; Igor Siwanowicz; Josh Merel; Alice A. Robie; Carmen Morrow; Guido Novati; Zinovia Stefanidi; Gert-Jan Both; Gwyneth M. Card; Michael B. Reiser; Matthew M. Botvinick; Kristin M. Branson; Yuval Tassa; Srinivas C. Turaga
Published in: Nature, 2025
Publisher: Springer Nature
DOI: 10.1038/S41586-025-09029-4