Opendata, web and dolomites

CanPathPro SIGNED

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

Total Cost €

0

EC-Contrib. €

0

Partnership

0

Views

0

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 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) DE (JENA) participant 1˙810˙723.00
3    CENTRE EUROPEEN DE RECHERCHE EN BIOLOGIE ET MEDECINE FR (ILLKIRCH GRAFFENSTADEN) participant 1˙052˙103.00
4    STICHTING HET NEDERLANDS KANKER INSTITUUT-ANTONI VAN LEEUWENHOEK ZIEKENHUIS NL (AMSTERDAM) participant 883˙324.00
5    SIMULA RESEARCH LABORATORY AS NO (FORNEBU) participant 782˙900.00
6    HELMHOLTZ ZENTRUM MUENCHEN DEUTSCHES FORSCHUNGSZENTRUM FUER GESUNDHEIT UND UMWELT GMBH DE (NEUHERBERG) participant 751˙461.00
7    AGENCIA ESTATAL CONSEJO SUPERIOR DEINVESTIGACIONES CIENTIFICAS ES (MADRID) participant 602˙369.00
8    RHEINISCHE FRIEDRICH-WILHELMS-UNIVERSITAT BONN DE (BONN) participant 300˙000.00
9    FINOVATIS FR (LYON) participant 264˙687.00
10    BIOGNOSYS AG 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

year authors and title journal last update
List of publications.
2019 Leonard Schmiester, Yannik Schälte, Fabian Fröhlich, 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 Raimúndez, 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, Łukasz 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 Fröhlich, 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 Fröhlich, 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 Schälte, 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 Fröhlich, Oana T Chiş, 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 Fröhlich, Thomas Kessler, Daniel Weindl, Alexey Shadrin, Leonard Schmiester, Hendrik Hache, Artur Muradyan, Moritz Schütte, 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

Are you the coordinator (or a participant) of this project? Plaese send me more information about the "CANPATHPRO" project.

For instance: the website url (it has not provided by EU-opendata yet), the logo, a more detailed description of the project (in plain text as a rtf file or a word file), some pictures (as picture files, not embedded into any word file), twitter account, linkedin page, etc.

Send me an  email (fabio@fabiodisconzi.com) and I put them in your project's page as son as possible.

Thanks. And then put a link of this page into your project's website.

The information about "CANPATHPRO" are provided by the European Opendata Portal: CORDIS opendata.

More projects from the same programme (H2020-EU.2.1.4.)

MIAMi (2019)

Refactoring monoterpenoid indole alkaloid production in microbial cell factories

Read More  

BioRoboost (2018)

Fostering Synthetic Biology standardisation through international collaboration

Read More  

MIX-UP (2020)

MIXed plastics biodegradation and UPcycling using microbial communities

Read More