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- Wolfgang Müller
I am group leader of the SDBV (Scientific Databases and Visualisation) group at the HITS gGmbH, the Heidelberg Institute for Theoretical Studies.
I am interested in finding data. Starting with my master's thesis I have always worked on how to store data in a way that you can find it, and how to make sense out of data that has been stored.
Within FAIRDOM I find interesting to help people to store their data in a way that they make sense even after years.
SEEK ID: https://fairdomhub.org/people/205
Location:
Germany
Expertise: Software Engineering, Information Retrieval, Human-Computer Interaction, Distributed Systems
Tools: Data Management, Databases, Java, Spring, Grails web development framework, Ruby on Rails, Javascript, SABIO-RK database, Python, SEEK




Project roles
Project administrator
- Early Metabolic Injury (LiSyM-EMI - Pillar I)
- The Hedgehog Signalling Pathway (LiSyM-JGMMS)
- Model Guided Pharmacotherapy In Chronic Liver Disease (LiSyM-MGP)
- Multi-Scale Models for Personalized Liver Function Tests (LiSyM-MM-PLF)
- Molecular Steatosis - Imaging & Modeling (LiSyM-MSIM)
- Liver Function Diagnostics (LiSyM-LiFuDi - Pillar IV)
- LiSyM Core Infrastructure and Management (LiSyM-PD)
- Chronic Liver Disease Progression (LiSyM-DP - Pillar II)
- Regeneration and Repair in Acute-on-Chronic Liver Failure (LiSyM-ACLF - Pillar III)
- MESI-STRAT
- INCOME
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SysMO DB (Heidelberg Institute for Theoretical Studies (HITS gGmbH)) ; FAIRDOM (Heidelberg Institute for Theoretical Studies (HITS gGmbH)) ; ICYSB 2015 - International Practical Course in Systems Biology (Heidelberg Institute for Theoretical Studies (HITS gGmbH)) ; de.NBI-SysBio (Heidelberg Institute for Theoretical Studies (HITS gGmbH)) ; Regeneration and Repair in Acute-on-Chronic Liver Failure (LiSyM-ACLF - Pillar III) (Heidelberg Institute for Theoretical Studies (HITS gGmbH)) ; Early Metabolic Injury (LiSyM-EMI - Pillar I) (Heidelberg Institute for Theoretical Studies (HITS gGmbH)) ; Chronic Liver Disease Progression (LiSyM-DP - Pillar II) (Heidelberg Institute for Theoretical Studies (HITS gGmbH)) ; LiSyM Core Infrastructure and Management (LiSyM-PD) (Heidelberg Institute for Theoretical Studies (HITS gGmbH)) ; Liver Function Diagnostics (LiSyM-LiFuDi - Pillar IV) (Heidelberg Institute for Theoretical Studies (HITS gGmbH)) ; Molecular Steatosis - Imaging & Modeling (LiSyM-MSIM) (Heidelberg Institute for Theoretical Studies (HITS gGmbH)) ; Multi-Scale Models for Personalized Liver Function Tests (LiSyM-MM-PLF) (Heidelberg Institute for Theoretical Studies (HITS gGmbH)) ; Model Guided Pharmacotherapy In Chronic Liver Disease (LiSyM-MGP) (Heidelberg Institute for Theoretical Studies (HITS gGmbH)) ; The Hedgehog Signalling Pathway (LiSyM-JGMMS) (Heidelberg Institute for Theoretical Studies (HITS gGmbH)) ; Kinetics on the move - Workshop 2016 (Heidelberg Institute for Theoretical Studies (HITS gGmbH)) ; Example use cases (Heidelberg Institute for Theoretical Studies (HITS gGmbH)) ; SBEpo - Systems Biology of Erythropoietin (Heidelberg Institute for Theoretical Studies (HITS gGmbH)) ; FAIRDOM & LiSyM & de.NBI Data Structuring Training (Heidelberg Institute for Theoretical Studies (HITS gGmbH)) ; MESI-STRAT (Heidelberg Institute for Theoretical Studies (HITS gGmbH)) ; INCOME (Heidelberg Institute for Theoretical Studies (HITS gGmbH)) ; EnzymeML (Heidelberg Institute for Theoretical Studies (HITS gGmbH)) ; PoLiMeR - Polymers in the Liver: Metabolism and Regulation (Heidelberg Institute for Theoretical Studies (HITS gGmbH)) ; MS_DILI (Heidelberg Institute for Theoretical Studies (HITS gGmbH)) ; GMDS Project Group "FAIRe Dateninfrastrukturen für die Biomedizinische Informatik" (Heidelberg Institute for Theoretical Studies (HITS gGmbH)) ; COMBINE Multicellular Modelling (Heidelberg Institute for Theoretical Studies (HITS gGmbH)) ; COVID-19 Disease Map (Heidelberg Institute for Theoretical Studies (HITS gGmbH)) ; COVID-19 related studies and tools in Germany (Heidelberg Institute for Theoretical Studies (HITS gGmbH)) ; nfdi4health - German National Research Data Infrastructure for Personal Health Data (Heidelberg Institute for Theoretical Studies (HITS gGmbH)) ; NMTrypI - New Medicines for Trypanosomatidic Infections (Heidelberg Institute for Theoretical Studies (HITS gGmbH)) ; ModeleXchange initiative (Heidelberg Institute for Theoretical Studies (HITS gGmbH)) ; SNAPPER: Synergistic Neurotoxicology APP for Environmental Regulation (Heidelberg Institute for Theoretical Studies (HITS gGmbH))
Related items
- Projects (30)
- Institutions (1)
- Investigations (1)
- Data files (3+39)
- SOPs (0+1)
- Publications (13)
- Presentations (15+11)
- Documents (0+6)
Here we share resources and best practices to develop a disease map for COVID-19. The project is progressing as a broad community-driven effort. We aim to establish a knowledge repository on virus-host interaction mechanisms specific to the SARS-CoV-2. The COVID-19 Disease Map is an assembly of molecular interaction diagrams established based on literature evidence.
Programme: Disease Maps
Public web page: http://doi.org/10.17881/covid19-disease-map
FAIRDOM will establish a support and service network for European Systems Biology. We will serve projects in standardising, managing and disseminating data and models in a FAIR manner: Findable, Accessible, Interoperable and Reusable.
Organisms: Not specified
MESI-STRAT: Systems Medicine of Metabolic-Signaling Networks -A New Concept for Breast Cancer Patient Stratification.
Breast cancer is a complex disease with high prevalence in the European Union and world-wide. 75%-80 of the patients have estrogen receptor-positive (ER)-positive tumors and are treated with endocrine therapies. Endocrine therapies, which block ER-driven tumor growth, show high efficacy. Yet, a significant proportion of the patients will eventually relapse with metastatic breast
...
Programme: This Project is not associated with a Programme
Public web page: http://www.mesi-strat.eu
Organisms: Homo sapiens, Mus musculus, Rattus norvegicus
nfdi4health aims to create the most comprehensive inventory of German epidemiological, public health and clinical trial data to date. It builds a centralised data catalogue with elaborate search functionalities, sophisticated data access management, and a data analysis toolbox, while respecting stringent requirements for privacy concerning personal health data. Standardisation services ensure a high degree of interoperability. Use cases covering prototypical study types and areas of research show
...
Programme: nfdi4health - German National Research Data Infrastructure for Personal Health Data
Public web page: https://www.nfdi4health.de
Start date: 1st Jul 2020
Organisms: Homo sapiens
The Integrated Platform for Endocrine Disruptor Risk Assessment (SNAPPER) project will propose solutions based around three core philosophies:
Integrated Science: Integration of knowledge from a complete pipeline of systems biology into a holistic yet mechanistic framework that enhances the understanding both of endocrine biology and of adverse effects due to externally induced disruption of the body’s endocrine system. The pipeline includes in vivo, in vitro, and in silico data resulting both
...
Programme: This Project is not associated with a Programme
Public web page: Not specified
Organisms: Homo sapiens
This project bundles information about COVID-19 related studies and tools in Germany. It intends to provide an information hub for the different initiatives, their aims, their processes, standards and study protocols, as well as their available data and metadata.
It is initiated by the German National Research Data Infrastructure for Personal Health Data (nfdi4health), a consortium that plans to establish a concept for a federated research data infrastructure for personal health data in Germany.
...
PoLiMeR is funded through the EU Marie Skłodowska-Curie Innovative Training Network (ITN), which drives scientific excellence and innovation. ITNs bring together universities, research institutes, industry and clinical partners from across the world to train researchers to doctorate level.
Metabolic diseases are a burden on the European population and health care system. It is increasingly recognised that individual differences with respect to history, lifestyle, and genetic make-up affect disease
...
Programme: This Project is not associated with a Programme
Public web page: http://polimer-itn.eu/
Organisms: Homo sapiens, Mus musculus, Rattus norvegicus
Programme: FAIR Biocatalysis
Public web page: Not specified
Organisms: Not specified
Programme: COMBINE (Computational Modeling in Biology Network)
Public web page: Not specified
Organisms: Not specified
Programme: LiSyM - Systems Medicine of the Liver
Public web page: Not specified
Organisms: Homo sapiens, Mus musculus, Rattus norvegicus
Programme: LiSyM - Systems Medicine of the Liver
Public web page: Not specified
Organisms: Homo sapiens, Mus musculus, Rattus norvegicus
We will contribute to the LiSyM Research Network an open source, freely available and reproducible multiscale model of the human liver from single cell metabolism to whole liver function. The model will be available in existing standards of systems biology, provide standardized interfaces for data integration and be fully annotated to available biological, medical and computational ontologies. All data, models and source code will be shared within the LiSyM Research Network and made available to
...
Programme: LiSyM - Systems Medicine of the Liver
Public web page: https://livermetabolism.com
Organisms: Homo sapiens, Mus musculus, Rattus norvegicus
Programme: LiSyM - Systems Medicine of the Liver
Public web page: Not specified
Organisms: Homo sapiens, Mus musculus, Rattus norvegicus
Programme: LiSyM - Systems Medicine of the Liver
Public web page: Not specified
Organisms: Homo sapiens, Mus musculus, Rattus norvegicus
Programme: LiSyM - Systems Medicine of the Liver
Public web page: Not specified
Organisms: Homo sapiens, Mus musculus, Rattus norvegicus
Programme: LiSyM - Systems Medicine of the Liver
Public web page: Not specified
Organisms: Homo sapiens, Mus musculus, Rattus norvegicus
Programme: LiSyM - Systems Medicine of the Liver
Public web page: Not specified
Organisms: Homo sapiens, Mus musculus, Rattus norvegicus
Programme: LiSyM - Systems Medicine of the Liver
Public web page: Not specified
Organisms: Homo sapiens, Mus musculus, Rattus norvegicus
The New Medicines for Trypanosomatidic Infections - NMTrypI project aimed at obtaining new candidate drugs against Trypanosomatidic infections with appropriate efficiency from the lead phase to the final preclinical phase that are more accessible to patients.
Programme: Drug development for neglected parasitic diseases
Public web page: https://fp7-nmtrypi.eu/
Start date: 1st Feb 2014
End date: 31st Jan 2017
Multi-level mathematical modeling of erythropoiesis for optimized expansion of erythroid progenitor cells and improved treatment regimes
Programme: e:Bio
Public web page: Not specified
Organisms: Homo sapiens, Mus musculus
Snapshots: No snapshots
Studies: No Studies
Assays: No Assays
Report of the Data Management Foundry Workshop,
19th-20th of March, 2012, Vienna, Austria
Creators: Natalie Stanford, Katy Wolstencroft, Olga Krebs, Stuart Owen, Carole Goble, Wolfgang Müller
Submitter: Natalie Stanford
Investigations: No Investigations
Studies: No Studies
Assays: No Assays
a test file
Creator: Wolfgang Müller
Submitter: Wolfgang Müller
Investigations: No Investigations
Studies: No Studies
Assays: No Assays
Participants of 2nd FAIRDOM PALs meeting in Munich
Creators: Olga Krebs, Wolfgang Müller, Rostyslav Kuzyakiv
Submitter: Olga Krebs
Investigations: No Investigations
Studies: No Studies
Assays: No Assays
Abstract (Expand)
Authors: P. Linciano, C. Pozzi, L. D. Iacono, F. di Pisa, G. Landi, A. Bonucci, S. Gul, M. Kuzikov, B. Ellinger, G. Witt, N. Santarem, C. Baptista, C. Franco, C. B. Moraes, W. Muller, U. Wittig, R. Luciani, A. Sesenna, A. Quotadamo, S. Ferrari, I. Pohner, A. Cordeiro-da-Silva, S. Mangani, L. Costantino, M. P. Costi
Date Published: 25th Apr 2019
Publication Type: Journal
PubMed ID: 30908048
Citation: J Med Chem. 2019 Apr 25;62(8):3989-4012. doi: 10.1021/acs.jmedchem.8b02021. Epub 2019 Apr 9.
Abstract (Expand)
Authors: C. B. Moraes, G. Witt, M. Kuzikov, B. Ellinger, T. Calogeropoulou, K. C. Prousis, S. Mangani, F. Di Pisa, G. Landi, L. D. Iacono, C. Pozzi, L. H. Freitas-Junior, B. Dos Santos Pascoalino, C. P. Bertolacini, B. Behrens, O. Keminer, J. Leu, M. Wolf, J. Reinshagen, A. Cordeiro-da-Silva, N. Santarem, A. Venturelli, S. Wrigley, D. Karunakaran, B. Kebede, I. Pohner, W. Muller, J. Panecka-Hofman, R. C. Wade, M. Fenske, J. Clos, J. M. Alunda, M. J. Corral, E. Uliassi, M. L. Bolognesi, P. Linciano, A. Quotadamo, S. Ferrari, M. Santucci, C. Borsari, M. P. Costi, S. Gul
Date Published: 21st Feb 2019
Publication Type: Journal
PubMed ID: 30784368
Citation: SLAS Discov. 2019 Mar;24(3):346-361. doi: 10.1177/2472555218823171.
Abstract (Expand)
Authors: U. Wittig, M. Rey, A. Weidemann, R. Kania, W. Muller
Date Published: 4th Jan 2018
Publication Type: Journal
PubMed ID: 29092055
Citation: Nucleic Acids Res. 2018 Jan 4;46(D1):D656-D660. doi: 10.1093/nar/gkx1065.
Abstract (Expand)
Authors: P. Linciano, A. Dawson, I. Pohner, D. M. Costa, M. S. Sa, A. Cordeiro-da-Silva, R. Luciani, S. Gul, G. Witt, B. Ellinger, M. Kuzikov, P. Gribbon, J. Reinshagen, M. Wolf, B. Behrens, V. Hannaert, P. A. M. Michels, E. Nerini, C. Pozzi, F. di Pisa, G. Landi, N. Santarem, S. Ferrari, P. Saxena, S. Lazzari, G. Cannazza, L. H. Freitas-Junior, C. B. Moraes, B. S. Pascoalino, L. M. Alcantara, C. P. Bertolacini, V. Fontana, U. Wittig, W. Muller, R. C. Wade, W. N. Hunter, S. Mangani, L. Costantino, M. P. Costi
Date Published: 30th Sep 2017
Publication Type: Journal
PubMed ID: 28983525
Citation: ACS Omega. 2017 Sep 30;2(9):5666-5683. doi: 10.1021/acsomega.7b00473. Epub 2017 Sep 11.
Abstract
Authors: Wolfgang Müller, Meik Bittkowski, Martin Golebiewski, Renate Kania, Maja Rey, Andreas Weidemann, Ulrike Wittig
Date Published: 1st Mar 2017
Publication Type: Journal
DOI: 10.1007/s13222-016-0243-4
Citation: Datenbank Spektrum 17(1):21-28
Abstract (Expand)
Authors: K. Wolstencroft, O. Krebs, J. L. Snoep, N. J. Stanford, F. Bacall, M. Golebiewski, R. Kuzyakiv, Q. Nguyen, S. Owen, S. Soiland-Reyes, J. Straszewski, D. D. van Niekerk, A. R. Williams, L. Malmstrom, B. Rinn, W. Muller, C. Goble
Date Published: 4th Jan 2017
Publication Type: Journal
PubMed ID: 27899646
Citation: Nucleic Acids Res. 2017 Jan 4;45(D1):D404-D407. doi: 10.1093/nar/gkw1032. Epub 2016 Nov 28.
Abstract (Expand)
Authors: K. Wolstencroft, O. Krebs, J. L. Snoep, N. J. Stanford, F. Bacall, M. Golebiewski, R. Kuzyakiv, Q. Nguyen, S. Owen, S. Soiland-Reyes, J. Straszewski, D. D. van Niekerk, A. R. Williams, L. Malmstrom, B. Rinn, W. Muller, C. Goble
Date Published: 4th Jan 2017
Publication Type: Journal
PubMed ID: 27899646
Citation: Nucleic Acids Res. 2017 Jan 4;45(D1):D404-D407. doi: 10.1093/nar/gkw1032. Epub 2016 Nov 28.
Abstract (Expand)
Authors: D. Nickerson, K. Atalag, B. de Bono, J. Geiger, C. Goble, S. Hollmann, J. Lonien, W. Muller, B. Regierer, N. J. Stanford, M. Golebiewski, P. Hunter
Date Published: 7th Apr 2016
Publication Type: Not specified
PubMed ID: 27051515
Citation: Interface Focus. 2016 Apr 6;6(2):20150103. doi: 10.1098/rsfs.2015.0103.
Abstract (Expand)
Authors: L. Shi, L. Jong, U. Wittig, P. Lucarelli, M. Stepath, S. Mueller, L. A. D'Alessandro, U. Klingmuller, W. Muller
Date Published: 3rd Apr 2013
Publication Type: Journal
PubMed ID: 23549603
Citation: J Integr Bioinform. 2013 Apr 3;10(2):220. doi: 10.2390/biecoll-jib-2013-220.
Abstract (Expand)
Authors: , , Matthew Horridge, Simon Jupp, , , , , Robert Stevens,
Date Published: 1st Feb 2013
Publication Type: Journal
DOI: 10.1002/cpe.2941
Citation: Concurrency Computat.: Pract. Exper. 25(4):467-480
Abstract (Expand)
Authors: Katy Wolstencroft, Stuart Owen, Matthew Horridge, Wolfgang Mueller, Finn Bacall, Jacky Snoep, Franco du Preez, Quyen Nguyen, Olga Krebs, Carole Goble
Date Published: 2012
Publication Type: Journal
DOI: 10.1007/978-3-642-33876-2_42
Citation: Knowledge Engineering and Knowledge Management 7603:438-441,Springer Berlin Heidelberg
Abstract (Expand)
Authors: Ulrike Wittig, , Martin Golebiewski, , Lei Shi, Lenneke Jong, Enkhjargal Algaa, Andreas Weidemann, Heidrun Sauer-Danzwith, Saqib Mir, , Meik Bittkowski, Elina Wetsch, ,
Date Published: 22nd Nov 2011
Publication Type: Journal
PubMed ID: 22102587
Citation: Nucleic Acids Res. 2012 Jan;40(Database issue):D790-6. doi: 10.1093/nar/gkr1046. Epub 2011 Nov 18.
Abstract (Expand)
Authors: , , Matthew Horridge, , , , ,
Date Published: 15th Jul 2011
Publication Type: Journal
PubMed ID: 21622664
Citation: Bioinformatics. 2011 Jul 15;27(14):2021-2. doi: 10.1093/bioinformatics/btr312. Epub 2011 May 26.
SEEK functionalities presented by Olga Krebs
Creators: Olga Krebs, Wolfgang Müller
Submitter: Olga Krebs
Talk given by Olga Krebs at EmPowerPutida project meeting in Bruxeles 23rd November 2016
Creators: Olga Krebs, Carole Goble, Rostyslav Kuzyakiv, Wolfgang Müller, Quyen Nguyen, Stuart Owen, Bernd Rinn, Jacky Snoep, Natalie Stanford
Submitter: Olga Krebs
Written and presented by Wolfgang Müller (HITS) as part of the Reproducible and Citable Data and Models Workshop in Warnemünde, Germany. September 14th - 16th 2015.
Creators: Natalie Stanford, Wolfgang Müller
Submitter: Natalie Stanford
Prepared and presented by Carole Goble (University of Manchester), Wolfgang Mueller (HITS), Dagmar Waltermath (University of Rostock), at the Reproducible and Citable Data and Models Workshop, Warnemünde, Germany. September 14th - 16th 2015.
Creators: Natalie Stanford, Wolfgang Müller, Carole Goble, Dagmar Waltemath
Submitter: Natalie Stanford
Presentation of data management concepts for ERASysAPP projects at IMOMESIC kick off meeting on 8 th of May 2015 in Heidelberg. Part I presented by Olga Krebs
Creators: Olga Krebs, Caterina Barillari, Carole Goble, Peter Kunszt, Rostyslav Kuzyakiv, Wolfgang Müller, Quyen Nguyen, Stuart Owen, Bernd Rinn, Jacky Snoep, Natalie Stanford, Jakub Straszewski
Submitter: Olga Krebs
Creators: Olga Krebs, Caterina Barillari, Carole Goble, Peter Kunszt, Rostyslav Kuzyakiv, Wolfgang Müller, Quyen Nguyen, Stuart Owen, Bernd Rinn, Jacky Snoep, Natalie Stanford, Jakub Straszewski
Submitter: Olga Krebs
Carole Goble's talk at ERASysAPP - EXCHANGE Networking and Info Day for research projects of the first ERASysAPP call (a day before PALs meeting)
Creators: Olga Krebs, Carole Goble, Wolfgang Müller, Peter Kunszt, Bernd Rinn, Stuart Owen, Natalie Stanford, Jacky Snoep
Submitter: Olga Krebs
Poster presented at SWAT4LS - Semantic web applications and tools for life science- in Berlin at 10 of december 2014 by Olga Krebs
Creators: Olga Krebs, Carole Goble, Bernd Rinn, Wolfgang Müller, Quyen Nguyen, Jacky Snoep, Stuart Owen, Natalie Stanford, Peter Kunszt
Submitter: Olga Krebs
Presentation by Carole Goble at the International Semantic Web Conference 2013 in Sydney Australia about the use of semantic web technology in SEEK and RightField.
Creators: Stuart Owen, Carole Goble, Katy Wolstencroft, Jacky Snoep, Wolfgang Müller, Olga Krebs, Quyen Nguyen
Submitter: Stuart Owen
The talk presented by Carole Goble and Wolfgang Mueller at the SysMO evaluation conference 2013 in Berlin.
Creators: Stuart Owen, Carole Goble, Wolfgang Müller
Submitter: Stuart Owen
SEEK at ICSB 2012 (presented by Olga Krebs)
Creators: Olga Krebs, Katy Wolstencroft, Carole Goble, Wolfgang Müller, Quyen Nguyen, Stuart Owen, Jacky Snoep, Franco du Preez, Martin Golebiewski, Andreas Weidemann
Submitter: Olga Krebs