Programmes

testing access to fairdom hub documents. data files etc via the API in various programming languages

Projects: Fairdom Hub documents, RStudio-Shiny and Java_API connection testing

Web page: Not specified

The objective of this project is to overcome current limitations for antibody production that are inherent to the extant immune system of vertebrates. This will be done by creating an all-in-one artificial/synthetic counterpart based exclusively on prokaryotic parts, devices and modules. To this end, ARISYS will exploit design concepts, construction hierarchies and standardization notions that stem from contemporary Synthetic Biology for the assembly and validation of (what we believe is) the
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Projects: Not specified

Web page: https://cordis.europa.eu/project/rcn/107706/factsheet/es

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Web page: Not specified

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Projects: Auromega

Web page: Not specified

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BioModelKit is a database for modular modeling, where modules describe the functionality of single biomolecular entities and their interactions with other molecules in terms of Petri nets. All modules adhere to the guidelines of the modular Petri net modeling concept, which has been developed in need of a sophisticated reconstruction of growing biomolecular models. The database allows to browse to single modules and to intuitively gather the functionality of a biomolecular entity by its corresponding
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Projects: Not specified

Web page: http://www.biomodelkit.de

No description specified

Projects: BioZEment 2.0

Web page: Not specified

This is the exchange platform of the COMBINE network.

COMBINE is an initiative to coordinate the development of various community standards and formats for computational models: BioPax, CellML, NeuroML, Synthetic Biology Open Language (SBOL), Systems Biology Graphical Notation (SBGN), Systems Biology Markup Language (SBML), Simulation Experiment Description Markup Language (SED-ML).

Projects: COMBINE Multicellular Modelling

Web page: http://co.mbine.org

Research of Computational Systems Biology Group, Institute of Microbiology and Biotechnology, University of Latvia and Biosystems group at Latvia University of Agriculture is funded by several programmes in several projects. This program is an umbrella for the projects.

Projects: Not specified

Web page: http://biosystems.lv/

Increasing temperature in the European wine producing regions is having a negative impact on this key sector. Climate change results in a lack of balance between technological and phenolic ripening of wine grapes and, as a consequence, alcohol increase in wines. This trend is of great concern for the European wine industry because it has a negative impact on wine quality, becomes a hurdle for international trade, and jeopardizes compatibility of moderate wine consumption with a healthy lifestyle.
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Projects: CoolWine

Web page: Not specified

Centre for Digital Life Norway (DLN) project OXYMOD - Optimized oxidative enzyme systems for efficient conversion of lignocellulose to valuable products

Projects: OXYMOD

Web page: https://digitallifenorway.org/gb/projects/oxymod

No description specified

Projects: Not specified

Web page: Not specified

The DrugLogics initiative comprises a number of different subprojects, all geared towards the development of personalised medicine, or precision medicine

Projects: CausalDB, Colosys, Crossover Research 2.0, NTNU Health Druglogics

Web page: http://druglogics.eu/

The main objective of the ERANET proposal Systems Biology Applications - ERASysAPP (app = application = translational systems biology) is to promote multidimensional and complementary European systems biology projects, programmes and research initiatives on a number of selected research topics. Inter alia, ERASysAPP will initiate, execute and monitor a number of joint transnational calls on systems biology research projects with a particular focus on applications - or in other words so called
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Projects: SysVirDrug, SysMilk, SysMetEx, MetApp, IMOMESIC, WineSys, CropClock, SYSTERACT, XyloCut, RootBook, ROBUSTYEAST, LEANPROT, ErasysApp Funders

Web page: https://www.erasysapp.eu/

Earth and Life Institute at UCLouvain

Projects: Lobet's group

Web page: http://www.uclouvain.be/eli

This is a workspace for the EnzymeML consortium

Projects: EnzymeML

Web page: Not specified

ERA CoBioTech is an ERA-Net Cofund Action under H2020, which aims to strengthen the European Research Area (ERA) in the field of Biotechnology through enhanced cooperation and coordination of different national and regional research programs, promoting systems biology and synthetic biology as technology driversto speed up research and innovation in industrial biotechnology.

Projects: Sustainable co-production, BESTER, Rhodolive, HOTSOLUTE, TRALAMINOL, C1Pro

Web page: https://www.cobiotech.eu/

FAIRDOM is establishing a support and service network for European Systems Biology. FAIRDOM is a joint action of ERA-Net ERASysAPP and European Research Infrastructure ISBE to establish a data and model management service facility for Systems Biology. Our prime mission is to support researchers, students, trainers, funders and publishers by enabling Systems Biology projects to make their Data, Operating procedures and Models, Findable, Accessible, Interoperable and Reusable (FAIR).

Projects: FAIRDOM, FAIRDOM user meeting

Web page: http://fair-dom.org

The Collaborative Research Center / Transregio 124 Pathogenic fungi and their human host: Networks of Interaction - FungiNet studies the interaction of the human pathogenic fungi Candida albicans and Aspergillus fumigatus with their host using a Systems Biology approach. The yeast Candida albicans and the filamentous fungus Aspergillus fumigatus are by far the most important causes of life-threatening invasive mycoses in Europe. Despite the increasing incidence of these infections, the current
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Projects: Not specified

Web page: http://www.funginet.de/

Testing of FAIRDOMHUB functionality and APIs

Projects: GPSLab testing

Web page: Not specified

The GMDS (Deutsche Gesellschaft für Medizinische Informatik, Biometrie und Epidemiologie) is the German Association for Medical Informatics, Biometry and Epidemiology and is the only scientific organization in this field in Germany. It is the official national member society within the EFMI and IMIA and closely cooperates with related scientific societies.

Projects: GMDS Project Group "FAIRe Dateninfrastrukturen für die Biomedizinische Informatik"

Web page: https://gmds.de

Consortium of European research groups that aim to develop - in the forthcoming 10 years - a cluster of interlinked models that describe the whole-body human energy metabolism and its multi-dimensional regulation. Regulation includes interations with the brain, the immune system and the gut.

Projects: HUMET Startup

Web page: Not specified

My lab studies how plants sense and respond to their environment. We specialise in signal integration. Learn more about what we do by exploring the web pages.

Projects: Light control of leaf development

Web page: http://hallidaylab.bio.ed.ac.uk/

No description specified

Projects: Not specified

Web page: Not specified

This programme is used to store published data files that are not available in other FAIRDOM projects. We specifically store information for journals that we collaborate with for technical curation of mathematical models. These files are used in COMBINE archives to reproduce journal figures.

Projects: Molecular Systems Biology

Web page: Not specified

No description specified

Projects: BIOMICRO PROJECT

Web page: Not specified

A storage of the data #for the first time

projects
difference in non-chromosomal genomes of the alloplasmic lines of barley &
detection of pathogenic mutations in the patients with non-coronary heart diseases
through NGS using

Projects: DCM

Web page: Not specified

LiSyM (Liver Systems Medicine) represents a research network of German centers and institutions, brought together by a 20 Million Euro funding program of the German Government, in which mathematicians, modelers, pharmacologists, molecular biologists and clinical scientists work together to develop a Systems Medicine approach to study early and advanced liver disease. The aim of this unique research program is to acquire and use new experimental data and data from existing data bases to build
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Projects: Early Metabolic Injury (LiSyM-EMI - Pillar I), Chronic Liver Disease Progression (LiSyM-DP - Pillar II), Regeneration and Repair in Acute-on-Chronic Liver Failure (LiSyM-ACLF - Pillar III), LiSyM Core Infrastructure and Management (LiSyM-PD), Liver Function Diagnostics (LiSyM-LiFuDi - Pillar IV), Model Guided Pharmacotherapy In Chronic Liver Disease (LiSyM-MGP), Multi-Scale Models for Personalized Liver Function Tests (LiSyM-MM-PLF), The Hedgehog Signalling Pathway (LiSyM-JGMMS), Molecular Steatosis - Imaging & Modeling (LiSyM-MSIM), FAIRDOM & LiSyM & de.NBI Data Structuring Training, New LiSyM project

Web page: http://www.lisym.org

No description specified

Projects: MS_DILI

Web page: Not specified

Plant development is strongly influenced by external light cues, yet we know very little of how this is mediated at a molecular level. This BBSRC funded project seeks to determine how phytochrome light receptor signalling connects with the developmental pathways to control plant architecture.

Projects: Light and plant development

Web page: http://hallidaylab.bio.ed.ac.uk

Genomics, proteomics and molecular epidemiology of avian influenza.

Projects: Not specified

Web page: http://www.wageningenur.nl/bioveterinary-research

Development of a NetLogo simulation and RStudio-Shiny web application surrounding cellular senescence for outreach. Aimed at GCSE/A-level students

Projects: Not specified

Web page: Not specified

Test

Projects: Test

Web page: Not specified

Modeling of presynaptic dopamine homeostasis

Projects: Not specified

Web page: Not specified

This programme will provide infrastructure to several projects performed by the team of the proteome centre tuebingen. Our team and collaborators will be able to share/homogenise protocols, methods and raw data from genomics and proteomics measurements.

Projects: Proteogenomics of melanoma

Web page: http://www.pct.uni-tuebingen.de/home.html

SAFE-Aqua (SustainAble Farming for Effective Aquaculture) is an international consortium research project, consisting of a group of multidisciplinary experts from leading research institutes in France, UK, Thailand and a private-company in Spain.

Projects: SAFE-Aqua

Web page: http://www.safeaqua-project.net

The currently used mathematical models for medical treatment at the individual or population level are largely phenomenological and have limited quantitative predictive power. It is usually not possible to predict the effect of an intervention in a specific process or to predict the effect of a pharmaceutical drug since the step or enzyme on which the intervention/drug works is not explicit in the model.

Taking HIV pathogenesis as an example, the immune system response, vaccine exposure, and drug
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Projects: Whole body modelling of glucose metabolism in malaria patients, Steroid biosynthesis, Yeast glycolytic oscillations, Computational pathway design for biotechnological applications

Web page: http://sacemaquarterly.com/mathematical-modelling/sarchi-project-mechanistic-modelling-health-epidemiology.html

SBRC Nottingham focuses on the sustainable and economically viable production of platform/speciality chemicals through SynBio-engineered, gas fermenting microbes capable of using single carbon (C1) feedstocks.

Projects: Not specified

Web page: http://sbrc-nottingham.ac.uk/

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Web page: Not specified

SynthSys is the University of Edinburgh's research organisation in interdisciplinary, Synthetic and Systems Biology, founded in 2012 as the successor to the Centre for Systems Biology at Edinburgh (CSBE).

Projects: Millar group, PHYTOCAL: Phytochrome Control of Resource Allocation and Growth in Arabidopsis and in Brassicaceae crops, TiMet, POP - the Parameter Optimisation Problem, Regulation of flowering time in natural conditions, PlaSMo model repository

Web page: http://www.synthsys.ed.ac.uk

SysMO is a European transnational funding and research initiative on "Systems Biology of Microorganisms".

The goal pursued by SysMO was to record and describe the dynamic molecular processes going on in unicellular microorganisms in a comprehensive way and to present these processes in the form of computerized mathematical models.

Systems biology will raise biomedical and biotechnological research to a new quality level and contribute markedly to progress in understanding. Pooling European research
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Projects: BaCell-SysMO, COSMIC, SUMO, KOSMOBAC, SysMO-LAB, PSYSMO, SCaRAB, MOSES, TRANSLUCENT, STREAM, SulfoSys, SysMO DB, SysMO Funders, SilicoTryp, Noisy-Strep

Web page: http://sysmo.net/

The coordinated project TREASURE has as main objective the development and evaluation of a modular treatment train comprising two lines operated in parallel to valorize and treat the wastewater (WW) produced in the fish-canning industry.

Biogroup will be responsible for the Sub-Project 1 TECHNOSALT "Unravelling salt and temperature effects on the performance of an integrated modular system for fish canning wastewater treatment and valorization" Its objective is the development and evaluation of
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Projects: Not specified

Web page: http://www.usc.es/biogroup/treasure

Salmon farming in the future must navigate conflicting and shifting demands of sustainability, shifting feed prices, disease, and product quality. The industry needs to develop a flexible, integrated basis of knowledge for rapid response to new challenges. The Digital Salmon will be an ensemble of mathematical descriptions of salmon physiology, combining mathematics, high-dimensional data analysis, computer science and measurement technology with genomics and experimental biology into a concerted
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Projects: GenoSysFat, DigiSal, SEEK tutorial for DigiSal

Web page: http://tinyurl.com/digisal

PhD Thesis of Angeles Hueso Gil

Projects: Thesis

Web page: Not specified

WooBAdh project aims to study the feasibility of replacing formaldehyde in wood adhesives by natural components derived from wood or other vegetable matter. The consortium will develop new bioadhesives which are able to provide a holistic solution to the current emissions challenges facing the wood-based composites industry. The proposed solution is focused on different modifications of polyphenols, namely lignin and tannins, for producing bioadhesives that do not contain formaldehyde in its
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Projects: Environmentally-friendly bioadhesives from renewable resources (WooBAdh)

Web page: Not specified

The computational identification of Zinc Finger genes in genomes. The computational identification of the DNA binding profile of Zinc Finger genes.

Projects: Not specified

Web page: Not specified

The goal of the dCod-project is to combine the competencies in environmental toxicology, biology, bioinformatics and mathematics across the traditional department boundaries, to create a deeper understanding of cods' adaptations and reactions to stressors in the environment.
Building on the thoroughly studies and mapping of the cod genome at UiO and the long research traditions on cod at the Department of Biology at UiB, the dCod project will expand our knowledge with methods based on genomics;
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Projects: Systems toxicology of Atlantic cod

Web page: http://dcod.no

The German Network for Bioinformatics Infrastructure - de.NBI offers first class bioinformatics services including training and education to users in basic and applied life sciences research. In this network 40 projects belonging to eight service centers provide services that cover a wide variety of methods (genomics, proteomics, ...) and applications (from plants to humans).
de.NBI-SysBio is the Systems Biology Service Center of de.NBI. In collaboration with FAIRDOM, de.NBI-SysBio serves the
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Projects: de.NBI-SysBio, ExtremoPharm, ZucAt, Kinetics on the move - Workshop 2016, Example use cases, ScyCode

Web page: http://www.denbi.de

e:Bio - Innovations Competition Systems Biology

Projects: SulfoSys - Biotec, SBEpo - Systems Biology of Erythropoietin

Web page: http://www.fona.de/en/14276

No description specified

Projects: WG Infrastructure for Translational Research, INCOME

Web page: Not specified

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