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One of the tasks of the healthy liver is to store fat. Yet, at some stage, too much fat makes the liver sick. One critical time point occurs when a healthy fatty liver becomes inflamed and progresses to steatohepatitis, or NASH.
LiSyM-Pillar I will identify what events lead to this transition. Does it occur in all parts of the liver? Which molecules indicate that it is taking place? Can the degeneration be stopped or undone - and if so, how?
Programme: LiSyM: Liver Systems Medicine
SEEK ID: https://seek.lisym.org/projects/3
Public web page: http://www.lisym.org/our-work/pillar-research/zones-of-the-liver
Organisms: Mus musculus, Rattus rattus, Rattus norvegicus, Homo sapiens
FAIRDOM PALs: Vincent Moser, Lutz Brusch, Annika Schneider, Mario Brosch
Project start date: 1st Jan 2016
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- Data files (3+16)
- Models (6+2)
- SOPs (0+2)
- Publications (74)
- Presentations (6+11)
- Events (5+1)
- Documents (0+4)
Projects: LiSyM Core Infrastructure and Management (LiSyM-PD), LiSyM Pillar II: Chronic Liver Disease Progression (LiSyM-DP), LiSyM Pillar I: Early Metabolic Injury (LiSyM-EMI), LiSyM Pillar IV: Liver Function Diagnostics (LiSyM-LiFuDi), LiSyM Pillar III: Regeneration and Repair in Acute-on-Chronic Liver Failure (LiSyM-ACLF), LiSyM network, LiSyM Scientific Leadership Team (LiSyM-LT)
Institutions: University of Freiburg - Institute of Physics, LiSyM programme directorate

Projects: LiSyM Pillar I: Early Metabolic Injury (LiSyM-EMI)
Institutions: Universitätsklinikum Dresden - Medizinische Klinik I, Bereich Gastroenterologie & Hepatologie
Expertise: Genetics
Universitätsklinikum Dresden - Medizinische Klinik I, Bereich Gastroenterologie & Hepatologie
BACKGROUND & AIMS: Nonalcoholic fatty liver disease (NAFLD) is the most common chronic liver disorder in industrialized countries. Mouse models of NAFLD have been used in studies of pathogenesis and treatment, and have certain features of the human disease. We performed a systematic transcriptome-wide analysis of liver tissues from patients at different stages of NAFLD progression (ranging from healthy obese individuals to those with steatosis), as well as rodent models of NAFLD, to identify
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Creators: Mario Brosch, Jochen Hampe, Clemens Schafmayer, Witigo von Schönfels
Submitter: Mario Brosch
Investigations: No Investigations
Studies: No Studies
Assays: No Assays
BACKGROUND & AIMS: Nonalcoholic fatty liver disease (NAFLD) is the most common chronic liver disorder in industrialized countries. Mouse models of NAFLD have been used in studies of pathogenesis and treatment, and have certain features of the human disease. We performed a systematic transcriptome-wide analysis of liver tissues from patients at different stages of NAFLD progression (ranging from healthy obese individuals to those with steatosis), as well as rodent models of NAFLD, to identify
...
Creators: Mario Brosch, Jochen Hampe, Clemens Schafmayer, Witigo von Schönfels
Submitter: Mario Brosch
Investigations: No Investigations
Studies: No Studies
Assays: No Assays
Creator: Martin Golebiewski
Submitter: Martin Golebiewski
Investigations: No Investigations
Studies: No Studies
Assays: No Assays
The model is adapted from A.P. Kupinski, I. Raabe, M. Michel, D. Ail, L. Brusch, T. Weidemann, C. Bökel (2013) Phosphorylation of the Smo tail is controlled by membrane localization and is dispensable for clustering, J. Cell Sci., 126, 20, 4684-4697 https://doi.org/10.1242/jcs.128926
The model format is MorpheusML that can readily be loaded and run in Morpheus: https://morpheus.gitlab.io
Creator: Lutz Brusch
Submitter: Lutz Brusch
Model type: Ordinary differential equations (ODE)
Model format: MorpheusML
Environment: Morpheus
Organism: Not specified
Investigations: No Investigations
Studies: No Studies
Modelling analyses: No Modelling analyses
Model for the interaction of Wnt and Hh as published in Kolbe et al.: Mutual Zonated Interactions of Wnt and Hh Signaling Are Orchestrating the Metabolism of the Adult Liver in Mice and Human, Cell Reports, 29,4553,
Creators: Michael Kücken, Lutz Brusch
Submitters: Lutz Brusch, Michael Kücken
Model type: Partial differential equations (PDE)
Model format: MorpheusML
Environment: Morpheus
Organism: Mus musculus
Investigations: No Investigations
Studies: No Studies
Modelling analyses: No Modelling analyses
For the spatio-temporal dynamics of bile transport, bile canalicular dilation, mechanical stimulation and transduction of YAP signaling during liver regeneration see the open access publication and its appendix:
Meyer et al. (2020) Bile canaliculi remodeling activates YAP via the actin cytoskeleton during liver regeneration. Molecular Systems Biology 16:e8985. https://doi.org/10.15252/msb.20198985
The model format is MorpheusML that can readily be loaded and run in the free and open source software
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Creator: Lutz Brusch
Submitter: Lutz Brusch
Model type: Agent based modelling
Model format: MorpheusML
Environment: Morpheus
Organism: Mus musculus
Investigations: No Investigations
Studies: No Studies
Modelling analyses: No Modelling analyses
Morpheus is the modelling and simulation framework for multicellular systems biology developed at Technische Universität Dresden.
Manual, examples and binaries for Windows, Linux, MacOS at: https://morpheus.gitlab.io
Open source code at: https://gitlab.com/morpheus.lab/morpheus
Creators: Lutz Brusch, Jörn Starruß, Walter de Back, Andreas Deutsch
Submitter: Lutz Brusch
Model type: Agent based modelling
Model format: MorpheusML
Environment: Morpheus
Organism: Not specified
Investigations: No Investigations
Studies: No Studies
Modelling analyses: No Modelling analyses
Code for the bile flow model in Segovia-Miranda et al.: Three-dimensional spatially resolved geometrical and functional models of human liver tissue reveal new aspects of NAFLD progression (https://www.nature.com/articles/s41591-019-0660-7)
See the README file in the link for details installing and running the code.
Creators: Michael Kücken, Lutz Brusch
Submitter: Michael Kücken
Model type: Ordinary differential equations (ODE)
Model format: Not specified
Environment: Not specified
Organism: Homo sapiens
Investigations: No Investigations
Studies: No Studies
Modelling analyses: No Modelling analyses
Abstract (Expand)
Authors: A. Scholich, S. Syga, H. Morales-Navarrete, F. Segovia-Miranda, H. Nonaka, K. Meyer, W. de Back, L. Brusch, Y. Kalaidzidis, M. Zerial, F. Julicher, B. M. Friedrich
Date Published: 11th Dec 2020
Publication Type: Journal
PubMed ID: 33301446
Citation: PLoS Comput Biol. 2020 Dec 10;16(12):e1008412. doi: 10.1371/journal.pcbi.1008412. eCollection 2020 Dec.
Abstract (Expand)
Authors: M. Gholizadeh, S. Szelag-Pieniek, M. Post, M. Kurzawski, J. Prieto, J. Argemi, M. Drozdzik, L. Kaderali
Date Published: 6th Oct 2020
Publication Type: Journal
PubMed ID: 33036164
Citation: Int J Mol Sci. 2020 Oct 6;21(19). pii: ijms21197368. doi: 10.3390/ijms21197368.
Abstract (Expand)
Authors: K. Teo, K. W. M. Abeysekera, L. Adams, E. Aigner, Q. M. Anstee, J. M. Banales, R. Banerjee, P. Basu, T. Berg, P. Bhatnagar, S. Buch, A. Canbay, S. Caprio, A. Chatterjee, Y. D. Ida Chen, A. Chowdhury, A. K. Daly, C. Datz, D. de Gracia Hahn, J. K. DiStefano, J. Dong, A. Duret, C. Emdin, M. Fairey, G. S. Gerhard, X. Guo, J. Hampe, M. Hickman, L. Heintz, C. Hudert, H. Hunter, M. Kelly, J. Kozlitina, M. Krawczyk, F. Lammert, C. Langenberg, J. Lavine, L. Li, H. K. Lim, R. Loomba, P. K. Luukkonen, P. E. Melton, T. A. Mori, N. D. Palmer, C. A. Parisinos, S. G. Pillai, F. Qayyum, M. C. Reichert, S. Romeo, J. I. Rotter, Y. R. Im, N. Santoro, C. Schafmayer, E. K. Speliotes, S. Stender, F. Stickel, C. D. Still, P. Strnad, K. D. Taylor, A. Tybjaerg-Hansen, G. R. Umano, M. Utukuri, L. Valenti, L. E. Wagenknecht, N. J. Wareham, R. M. Watanabe, J. Wattacheril, H. Yaghootkar, H. Yki-Jarvinen, K. A. Young, J. P. Mann
Date Published: 31st Aug 2020
Publication Type: Journal
PubMed ID: 32882372
Citation: J Hepatol. 2020 Aug 31. pii: S0168-8278(20)33598-4. doi: 10.1016/j.jhep.2020.08.027.
Abstract (Expand)
Authors: Paula Heinke, Fabian Rost, Julian Rode, Thilo Welsch, Kanar Alkass, Joshua Feddema, Mehran Salehpour, Göran Possnert, Henrik Druid, Lutz Brusch, Olaf Bergmann
Date Published: 7th Aug 2020
Publication Type: Unpublished
DOI: 10.1101/2020.08.07.230086
Citation: biorxiv;2020.08.07.230086v1,[Preprint]
Abstract (Expand)
Authors: J. Karschau, A. Scholich, J. Wise, H. Morales-Navarrete, Y. Kalaidzidis, M. Zerial, B. M. Friedrich
Date Published: 1st Jul 2020
Publication Type: Journal
PubMed ID: 32598356
Citation: PLoS Comput Biol. 2020 Jun 29;16(6):e1007965. doi: 10.1371/journal.pcbi.1007965. eCollection 2020 Jun.
Computational modeling and simulation become increasingly important for Systems Medicine. A number of corresponding software tools have been developed but require scientists to encode their models in an imperative programming language. Morpheus [1,2], on the other hand, is an extensible open-source software framework that is entirely based on declarative modeling. It uses the domain-specific language MorpheusML to define multicellular models through a user-friendly GUI and has since proven
...
Creators: Lutz Brusch, Michael Kücken
Submitter: Lutz Brusch
Shotgun lipidomics of microdissected periportal and pericentral zones; Characterization of NAFLD in Human Liver Biopsies by Shotgun Lipidomics
Creators: Oskar Knittelfelder, Olga Vvedenskaya
Submitter: Oskar Knittelfelder
The meeting will provide a great opportunity for discussion between modellers, experimentalists and clinicians and to organize and harmonize our future work within the LiSyM network on the grassroot level.
Start Date: 20th Nov 2017
End Date: 22nd Nov 2017
Event Website: Not specified
Country: Germany
City: Hünfeld
This summit will cover both the basic and translational / clinical aspects of NAFLD, with a specific focus on novel drug target and prognostic signature development.
Key sessions include all crucial pathophysiological aspects currently known to affect development and progression of NAFLD, such as "lipid metabolism and lipotoxicity" and "insulin resistance, insulin and hormonal signaling". Furthermore, oxidative stress, ER stress, and mitochondrial dysfunction will be addressed. On the second day,
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Start Date: 9th Nov 2017
End Date: 11th Nov 2017
Event Website: https://events.easl.eu/EventPortal/Information/EventInformation.aspx?EventInformationPageCode=HOME&EventCode=nafld2017
Country: Italy
City: Rome
ICSB continues to be the flagship conference of the International Society for Systems Biology (ISSB). The conference will cover a variety of themes from Fundamental Biological Sciences, Network Analysis, to Metabolic Engineering and Cancer Biology. The conference will also include a variety of engaging plenary lectures, parallel sessions, poster sessions, and interactive networking opportunities.
Abstract submission deadline: May 13th, 2017
Country: United States
City: Blacksburg, Virginia
The International Conference on Systems Biology of Human Disease (SBHD) is a transatlantic event and communication platform for scientific exchange that takes place alternately between the United States and Germany.
SBHD 2017 is continuing a conference series launched by Peter Sorger and colleagues from Harvard Medical School in 2008. The conference focus is on mammalian systems biology, particularly on its application to human disease and therapy.
Start Date: 5th Jul 2017
End Date: 7th Jul 2017
Event Website: http://www.sbhd-conference.org/2017/index.php
Country: Germany
City: Heidelberg
This event is a jointly organized Data Management PALs Meeting that involves PALs from the German LiSyM (Liver Systems Medicine) network and from the ERASysAPP (ERA-Net for Systems Biology Applications) initiative. PALs (Project Area Liaisons) are the front line experts of the data management teams of these projects. They act as data management advocates and help gathering user requirements and testing potential data management solutions. An important part of the meeting will be to gather the
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Country: Germany
City: 36088 Hünfeld bei Fulda