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CanPathPro SIGNED

Generation of the CanPath prototype - a platform for predictive cancer pathway modeling

Total Cost €

EC-Contrib. €

Partnership

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Outcomes and
results

CanPathPro project word cloud

Explore the words cloud of the CanPathPro project. It provides you a very rough idea of what is the project "CanPathPro" about.

experimental missing cancer practical comprise competitive integrative utilized validate bioinformatics recent predictions medicine read life biological personalised single mouse talk evaluation participating prerequisite signalling biotechnological omics validated refining model interpretation components biology experimentally hypotheses sciences industry academic testable expanding commercial technologies biomedical data proteomics integration quantitative pattern deriving canpathpro recognition drug translation biotechnology smes datasets combined confined clinical platform systematic demand made ngs progression companies tools signaling preclinical bioinformatic cross

Project "CanPathPro" data sheet

The following table provides information about the project.

Coordinator	ALACRIS THERANOSTICS GMBH Organization address address: MAX PLANCK STRASSE 3 city: BERLIN postcode: 12489 website: www.alacris.de contact info title: n.a. name: n.a. surname: n.a. function: n.a. email: n.a. telephone: n.a. fax: n.a.
Coordinator Country	Germany [DE]
Project website	http://www.canpathpro.eu
Total cost	10˙713˙058 €
EC max contribution	9˙862˙545 € (92%)
Programme	1. H2020-EU.2.1.4. (INDUSTRIAL LEADERSHIP - Leadership in enabling and industrial technologies – Biotechnology)
Code Call	H2020-LEIT-BIO-2015-1
Funding Scheme	RIA
Starting year	2016
Duration (year-month-day)	from 2016-03-01 to 2021-02-28

Partnership

Take a look of project's partnership.

#	participants	country	role	EC contrib. [€]
1	ALACRIS THERANOSTICS GMBH ALACRIS THERANOSTICS GMBH Organization address address: MAX PLANCK STRASSE 3 city: BERLIN postcode: 12489 website: www.alacris.de contact info title: n.a. name: n.a. surname: n.a. function: n.a. email: n.a. telephone: n.a. fax: n.a.	DE (BERLIN)	coordinator	3˙414˙975.00
2	LEIBNIZ-INSTITUT FUR ALTERNSFORSCHUNG - FRITZ-LIPMANN-INSTITUT EV (FLI) LEIBNIZ INSTITUTE ON AGING - FRITZ LIPMANN INSTITUTE EV (FLI) LEIBNIZ-INSTITUT FUR ALTERNSFORSCHUNG - FRITZ-LIPMANN-INSTITUT EV (FLI) LEIBNIZ INSTITUTE ON AGING - FRITZ LIPMANN INSTITUTE EV (FLI) Organization address address: BEUTENBERGSTRASSE 11 city: JENA postcode: 7745 website: www.fli-leibniz.de contact info title: n.a. name: n.a. surname: n.a. function: n.a. email: n.a. telephone: n.a. fax: n.a.	DE (JENA)	participant	1˙810˙723.00
3	CENTRE EUROPEEN DE RECHERCHE EN BIOLOGIE ET MEDECINE CENTRE EUROPEEN DE RECHERCHE EN BIOLOGIE ET MEDECINE Organization address address: Rue Laurent Fries 1 city: ILLKIRCH GRAFFENSTADEN postcode: 67404 website: www.igbmc.fr contact info title: n.a. name: n.a. surname: n.a. function: n.a. email: n.a. telephone: n.a. fax: n.a.	FR (ILLKIRCH GRAFFENSTADEN)	participant	1˙052˙103.00
4	STICHTING HET NEDERLANDS KANKER INSTITUUT-ANTONI VAN LEEUWENHOEK ZIEKENHUIS STICHTING HET NEDERLANDS KANKER INSTITUUT-ANTONI VAN LEEUWENHOEK ZIEKENHUIS Organization address address: PLESMANLAAN 121 city: AMSTERDAM postcode: 1066 CX website: www.nki.nl contact info title: n.a. name: n.a. surname: n.a. function: n.a. email: n.a. telephone: n.a. fax: n.a.	NL (AMSTERDAM)	participant	883˙324.00
5	SIMULA RESEARCH LABORATORY AS SIMULA RESEARCH LABORATORY AS Organization address address: MARTIN LINGES VEI 17 city: FORNEBU postcode: 1364 website: www.simula.no contact info title: n.a. name: n.a. surname: n.a. function: n.a. email: n.a. telephone: n.a. fax: n.a.	NO (FORNEBU)	participant	782˙900.00
6	HELMHOLTZ ZENTRUM MUENCHEN DEUTSCHES FORSCHUNGSZENTRUM FUER GESUNDHEIT UND UMWELT GMBH HELMHOLTZ ZENTRUM MUENCHEN DEUTSCHES FORSCHUNGSZENTRUM FUER GESUNDHEIT UND UMWELT GMBH Organization address address: INGOLSTADTER LANDSTRASSE 1 city: NEUHERBERG postcode: 85764 website: www.helmholtz-muenchen.de contact info title: n.a. name: n.a. surname: n.a. function: n.a. email: n.a. telephone: n.a. fax: n.a.	DE (NEUHERBERG)	participant	751˙461.00
7	AGENCIA ESTATAL CONSEJO SUPERIOR DEINVESTIGACIONES CIENTIFICAS AGENCIA ESTATAL CONSEJO SUPERIOR DEINVESTIGACIONES CIENTIFICAS Organization address address: CALLE SERRANO 117 city: MADRID postcode: 28006 website: http://www.csic.es contact info title: n.a. name: n.a. surname: n.a. function: n.a. email: n.a. telephone: n.a. fax: n.a.	ES (MADRID)	participant	602˙369.00
8	RHEINISCHE FRIEDRICH-WILHELMS-UNIVERSITAT BONN RHEINISCHE FRIEDRICH-WILHELMS-UNIVERSITAT BONN Organization address address: REGINA PACIS WEG 3 city: BONN postcode: 53113 website: www.uni-bonn.de contact info title: n.a. name: n.a. surname: n.a. function: n.a. email: n.a. telephone: n.a. fax: n.a.	DE (BONN)	participant	300˙000.00
9	FINOVATIS FINOVATIS Organization address address: COURS LAFAYETTE 68 city: LYON postcode: 69003 website: www.finovatis.com contact info title: n.a. name: n.a. surname: n.a. function: n.a. email: n.a. telephone: n.a. fax: n.a.	FR (LYON)	participant	264˙687.00
10	BIOGNOSYS AG BIOGNOSYS AG Organization address address: WAGISTRASSE 25 city: SCHLIEREN postcode: 8952 website: n.a. contact info title: n.a. name: n.a. surname: n.a. function: n.a. email: n.a. telephone: n.a. fax: n.a.	CH (SCHLIEREN)	participant	0.00

Map

Project objective

Recent developments in omics technologies demand implementation of systems biology approaches to facilitate analysis and interpretation of the generated complex datasets.This is essential for biotechnological as well as preclinical and clinical applications. In comparison to previous approaches, most cancer relevant studies are confined to pattern recognition or at best modelling of single pathways, rather than the complex pathways and cross-talk determining cancer progression and drug response. Systematic tools that evaluate and validate personalised medicine approaches on a preclinical level are missing; an important prerequisite for translation into clinical practice. The overall objective of CanPathPro is to build and validate a new biotechnological application: a combined experimental and systems biology platform, which will be utilized in testing cancer signaling hypotheses in biomedical research and life sciences. Thus, the proposed project will focus on developing and refining bioinformatic and experimental tools for the evaluation of systems biology modelling predictions. Components comprise a highly controlled mouse experimental system, NGS, a quantitative proteomics based read-out of changes in pathway signalling and an integrative systems biology model for data integration. Testable hypotheses about biological systems will be generated and experimentally validated. The developed system tools will be made available to researchers, SMEs and industry for practical applications. Following this project, a commercial platform for interpretation and analysis of complex omics data and for deriving and testing new hypotheses will be set up by the participating companies and academic partners. CanPathPro will enhance the competitive potential of the SMEs involved expanding in the field of biotechnology, personalised medicine and drug development and also provide new opportunities for other SMEs working in the field of bioinformatics and biomedical applications.

Deliverables

List of deliverables.
Dissemination Plan	Documents, reports	2020-03-03 14:48:19
Management Guide	Documents, reports	2020-03-03 14:48:19

Take a look to the deliverables list in detail: detailed list of CanPathPro deliverables.

Publications

List of publications.
year	authors and title	journal	last update
2019	Leonard Schmiester, Yannik SchÃ¤lte, Fabian FrÃ¶hlich, Jan Hasenauer, Daniel Weindl Efficient parameterization of large-scale dynamic models based on relative measurements published pages: , ISSN: 1367-4803, DOI: 10.1093/bioinformatics/btz581	Bioinformatics	2020-04-03
2019	Alejandro F. Villaverde, Elba RaimÃºndez, Jan Hasenauer, Julio R. Banga A Comparison of Methods for Quantifying Prediction Uncertainty in Systems Biology published pages: 45-51, ISSN: 2405-8963, DOI: 10.1016/j.ifacol.2019.12.234	IFAC-PapersOnLine 52/26	2020-04-03
2020	David Hoksza, Piotr Gawron, Marek Ostaszewski, Jan Hasenauer, Reinhard Schneider Closing the gap between formats for storing layout information in systems biology published pages: , ISSN: 1467-5463, DOI: 10.1093/bib/bbaa030	Briefings in Bioinformatics	2020-04-03
2019	Alejandro F. Villaverde, Nikolaos Tsiantis, Julio R. Banga Full observability and estimation of unknown inputs, states and parameters of nonlinear biological models published pages: 20190043, ISSN: 1742-5689, DOI: 10.1098/rsif.2019.0043	Journal of The Royal Society Interface 16/156	2020-04-03
2019	Glenn Terje Lines, Åukasz Paszkowski, Leonard Schmiester, Daniel Weindl, Paul Stapor, Jan Hasenauer Efficient computation of steady states in large-scale ODE models of biochemical reaction networks published pages: 32-37, ISSN: 2405-8963, DOI: 10.1016/j.ifacol.2019.12.232	IFAC-PapersOnLine 52/26	2020-04-03
2019	Eva-Maria Kapfer, Paul Stapor, Jan Hasenauer Challenges in the calibration of large-scale ordinary differential equation models published pages: 58-64, ISSN: 2405-8963, DOI: 10.1016/j.ifacol.2019.12.236	IFAC-PapersOnLine 52/26	2020-04-03
2018	Paul Stapor, Fabian FrÃ¶hlich, Jan Hasenauer Optimization and profile calculation of ODE models using second order adjoint sensitivity analysis published pages: i151-i159, ISSN: 1367-4803, DOI: 10.1093/bioinformatics/bty230	Bioinformatics 34/13	2020-03-03
2018	Alejandro F Villaverde, Fabian FrÃ¶hlich, Daniel Weindl, Jan Hasenauer, Julio R Banga Benchmarking optimization methods for parameter estimation in large kinetic models published pages: 830-838, ISSN: 1367-4803, DOI: 10.1093/bioinformatics/bty736	Bioinformatics 35/5	2020-03-03
2018	Yannik SchÃ¤lte, Paul Stapor, Jan Hasenauer Evaluation of Derivative-Free Optimizers for Parameter Estimation in Systems Biology published pages: 98-101, ISSN: 2405-8963, DOI: 10.1016/j.ifacol.2018.09.025	IFAC-PapersOnLine 51/19	2020-03-03
2018	Justin Feigelman, Daniel Weindl, Carsten Marr, Jan Hasenauer LNA++: Linear Noise Appr oximation with First and Second Order Sensitivities published pages: 300-306, ISSN: , DOI: 10.5281/zenodo.1287771	Springer Verlag Proceedings of the 16th Interna	2020-03-03
2019	Alejandro F. Villaverde Observability and Structural Identifiability of Nonlinear Biological Systems published pages: 1-12, ISSN: 1076-2787, DOI: 10.1155/2019/8497093	Complexity 2019	2020-03-03
2017	Thomas S Ligon, Fabian FrÃ¶hlich, Oana T ChiÅŸ, Julio R Banga, Eva Balsa-Canto, Jan Hasenauer GenSSI 2.0: multi-experiment structural identifiability analysis of SBML models published pages: 1421-1423, ISSN: 1367-4803, DOI: 10.1093/bioinformatics/btx735	Bioinformatics 34/8	2020-03-03
2019	Alejandro F. Villaverde, Neil D. Evans, Michael J. Chappell, Julio R. Banga Input-Dependent Structural Identifiability of Nonlinear Systems published pages: 272-277, ISSN: 2475-1456, DOI: 10.1109/lcsys.2018.2868608	IEEE Control Systems Letters 3/2	2020-03-03
2018	Hasenauer, Jan; Loos, Carolin; Krause, Sabrina Hierarchical optimization for the efficient parametrization of ODE models published pages: 4266-4273, ISSN: 1460-2059, DOI: 10.1101/247924	Bioinformatics Journal 2	2020-03-03
2018	Fabian FrÃ¶hlich, Thomas Kessler, Daniel Weindl, Alexey Shadrin, Leonard Schmiester, Hendrik Hache, Artur Muradyan, Moritz SchÃ¼tte, Ji-Hyun Lim, Matthias Heinig, Fabian J. Theis, Hans Lehrach, Christoph Wierling, Bodo Lange, Jan Hasenauer Efficient Parameter Estimation Enables the Prediction of Drug Response Using a Mechanistic Pan-Cancer Pathway Model published pages: 567-579.e6, ISSN: 2405-4712, DOI: 10.1016/j.cels.2018.10.013	Cell Systems 7/6	2020-03-03
2018	Alejandro F. Villaverde, Neil D. Evans, Michael J. Chappell, Julio R. Banga Sufficiently Exciting Inputs for Structurally Identifiable Systems Biology Models published pages: 16-19, ISSN: 2405-8963, DOI: 10.1016/j.ifacol.2018.09.015	IFAC-PapersOnLine 51/19	2020-03-03
2018	Benjamin Ballnus, Steffen Schaper, Fabian J Theis, Jan Hasenauer Bayesian parameter estimation for biochemical reaction networks using region-based adaptive parallel tempering published pages: i494-i501, ISSN: 1367-4803, DOI: 10.1093/bioinformatics/bty229	Bioinformatics 34/13	2020-03-03
2016	Alejandro F. Villaverde, Kolja Becker, Julio R. Banga PREMER: Parallel Reverse Engineering of Biological Networks with Information Theory published pages: 323-329, ISSN: , DOI: 10.1007/978-3-319-45177-0_21	Lecture Notes in Computer Science	2020-03-03
2016	Alejandro F. Villaverde, Antonio Barreiro, Antonis Papachristodoulou Structural Identifiability Analysis via Extended Observability and Decomposition published pages: 171-177, ISSN: 2405-8963, DOI: 10.1016/j.ifacol.2016.12.121	IFAC-PapersOnLine 49/26	2020-03-03
2016	Oana-Teodora Chis, Alejandro F. Villaverde, Julio R. Banga, Eva Balsa-Canto On the relationship between sloppiness and identifiability published pages: 147-161, ISSN: 0025-5564, DOI: 10.1016/j.mbs.2016.10.009	Mathematical Biosciences 282	2020-03-03
2016	Alejandro F. Villaverde, Antonio Barreiro, Antonis Papachristodoulou Structural Identifiability of Dynamic Systems Biology Models published pages: e1005153, ISSN: 1553-7358, DOI: 10.1371/journal.pcbi.1005153	PLOS Computational Biology 12/10	2020-03-03

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