IBISBA
IBISBA is designed to accelerate end-to-end bioprocess development, linking best-in-class R&D facilities to provide seamless multi-technology services.
Focusing on the different R&D phases in bioprocess development, IBISBA offers services related to computer-assisted design of biocomponents, construction of enzymes and microbial strains, the fermentation, downstream processing and project knowledge asset management.
Web page: http://www.ibisba.eu
Funding codes:- EU H2020
This project has received funding from the EU's H2020 research and innovation programme under grant agreements No 730976 and 871118
Related items
Projects: Uncurated Protocols Library, TRANSCRIPTPROM - Integrative and comparative analyses of response of Pichia pastoris, FLOX: FLavin-containing OXidoreductases, PlanOvac, Muconic Acid Production, HIGHFLUX, Promoters 4 Pichia, An inventory of the Aspergillus niger secretome by combining in silico predictions with shotgun proteomics data, Template library, Evocolour - The evolution and genetics of Flavobacteria forming structurally coloured colonies for sustainable biomaterials, Extreme - Genomic approach for extremozymes screening of thermophilic/anaerobic Caldicoprobacter algerensis strain, HMOzyme, PILOT-MP - Pilot scale process development for microbial proteins, UMB - Upscaling and optimisation of microalgae production for bivalves hatchery, Public announcements and documents, IBISBA Library, Biocare, MEOX, Coculture, YarroFuels, PlasticPutida, Lipro-alga, Curated Protocols Library, IBISBA 1.0 deliverables, PREP-IBISBA deliverables, Cyanofcs, Example testing project
Institutions: Administration, UNIMAN - The University of Manchester
https://orcid.org/0000-0001-5626-429X
Projects: Uncurated Protocols Library
Institutions: CSIC - Agencia Estatal Consejo Superior de Investigaciones Cientificas
Projects: Uncurated Protocols Library, FLOX: FLavin-containing OXidoreductases, PlanOvac, HIGHFLUX, SporeDel, Yeast Glycerol, Galambr, SULFOCEL, An inventory of the Aspergillus niger secretome by combining in silico predictions with shotgun proteomics data, Template library, Muconic Acid Production in Yeast, IBISBA 1.0 deliverables, PREP-IBISBA deliverables, Biocare, test, DBTL-P, Upscale of the biocatalytic transformation of Free Fatty Acids into high-value products (BIOFFA), B-PAC, BIOFFA, GLYCOMICS, KorallionBio, MAROX, PROTEIFROM, SUPI
Institutions: UNIMAN - The University of Manchester, UAB - Universitat Autònoma de Barcelona, CNR - Consiglio Nazionale delle Ricerche, INSAT - Institut National des Science Appliquees de Toulouse, VTT - Teknologian tutkimuskeskus VTT Oy, VITO - Vlaamse Instelling voor Technologisch Onderzoek N.V.
Projects: Uncurated Protocols Library
Institutions: INRA - Institut National de la Recherche Agronomique
This a test for future uploads of datasets related to a project.
Programme: IBISBA
Public web page: Not specified
Submitter: Konstantinos Pyrgakis
Studies: Calculation of process variables
Assays: Calculate process variables
Submitter: Konstantinos Pyrgakis
Studies: Bioprocess Integration, Bioprocess synthesis
Assays: Downstream processing, Energy integration, Material and water integration, Upstream operations
Submitter: Konstantinos Pyrgakis
Studies: Life-Cycle Analysis, Techno-Economic Analysis
Assays: No Assays
Submitter: Konstantinos Pyrgakis
Studies: Calculation of process variables
Assays: Calculate process variables
Submitter: Konstantinos Pyrgakis
Investigation: Create/Update model
Assays: Conceptual and unit and process representation, Data collection on mass and energy balances, chemical and physical equil..., Modeling of unit processes (reactions, separations recycles), Process flowsheeting (process integration and recycles), Superstructure modeling and optimization
Submitter: Konstantinos Pyrgakis
Investigation: Bioprocess design
Assays: Downstream processing, Upstream operations
Submitter: Konstantinos Pyrgakis
Investigation: Bioprocess design
Submitter: Konstantinos Pyrgakis
Assay type: Experimental Assay Type
Technology type: Technology Type
Investigation: Computational strain design
Submitter: Konstantinos Pyrgakis
Assay type: Experimental Assay Type
Technology type: Technology Type
Investigation: Data processing
Submitter: Konstantinos Pyrgakis
Assay type: Experimental Assay Type
Technology type: Technology Type
Investigation: Create/Update model
Study: Bioprocess modeling
Submitter: Konstantinos Pyrgakis
Assay type: Experimental Assay Type
Technology type: Technology Type
Investigation: Bioprocess design
Study: Bioprocess synthesis
Submitter: Konstantinos Pyrgakis
Assay type: Experimental Assay Type
Technology type: Technology Type
Investigation: Bioprocess design
Study: Bioprocess Integration
The unlock metadata template using a modified version of the ISA structure.
This is superseded by https://hub.ibisba.eu/file_templates/1
Creator: Jasper Koehorst
Submitter: Jasper Koehorst
Download
Template to collect input data for LEARN step
Creator: Konstantinos Pyrgakis
Submitter: Konstantinos Pyrgakis
Execution of a LEARN step: The case of growth coupled production hydrocarbons using S. cerevisiae
Creators: Konstantinos Pyrgakis, Ioannis Ntekas, ANTONIS KOKOSSIS
Submitter: Konstantinos Pyrgakis
Creator: Konstantinos Pyrgakis
Submitter: Konstantinos Pyrgakis
Creator: Konstantinos Pyrgakis
Submitter: Konstantinos Pyrgakis
This protocol describes the procedure of conjugation of pK18mobSacB suicide plasmid containing fragments UP and DOWN that delimit the recombination region from E. coli S17λpir to P. putida cells.
Creators: Felipe de Salas, Laura de Eugenio, Beatriz Galán
Submitter: Felipe de Salas
This is a Protocol for transforming plasmid DNA into P. putida cells by electroporation. This is a fast and easy-to-use method of introducing plasmid DNA in P. putida cells with high transformation efficiency. This Protocol is adapted from [1] and encompasses the steps for the preparation of competent cells and transformation of plasmid DNA by electroporation.
All Inputs of the Protocol, listed in the section 4.1., can be acquired either from other IBISBA Protocols or purchased from commercial ...
Creator: Rita Volkers
Submitter: Rita Volkers
Template to collect input data for execution of LEARN step
Creator: Konstantinos Pyrgakis
Submitter: Konstantinos Pyrgakis
Scale-up
Creators: Konstantinos Pyrgakis, Ioannis Ntekas, ANTONIS KOKOSSIS
Submitter: Konstantinos Pyrgakis
Pathways elimination
Creators: Konstantinos Pyrgakis, Ioannis Ntekas, ANTONIS KOKOSSIS
Submitter: Konstantinos Pyrgakis
Abstract
Authors: Melchior du Lac, Thomas Duigou, Joan Hérisson, Pablo Carbonell, Neil Swainston, Valentin Zulkower, Forum Shah, Léon Faure, Mostafa Mahdy, Paul Soudier, Jean-Loup Faulon
Date Published: 15th Jun 2020
Publication Type: Journal
Abstract (Expand)
Authors: T. Duigou, M. du Lac, P. Carbonell, J. L. Faulon
Date Published: No date defined
Publication Type: Not specified
Abstract (Expand)
Authors: B. Delepine, T. Duigou, P. Carbonell, J. L. Faulon
Date Published: No date defined
Publication Type: Not specified
This meeting brought together ministerial level representatives from 7 European member states to appraise and discuss progress towards launching IBISBA.
Country: 
France
City: Not specified
2nd IBISBA Webinar on Protein Engineering and Biocatalysis
Thu, Mar 26, 2020 9:00 AM - 11:00 AM GMT
This second course is about Protein Engineering and Biocatalysis and will be focused on 4 main topics:
How computational protein design help to predict sequences for new and improved functions How their catalytic activity can be measured through high-throughput enzyme screening How engineered proteins/enzymes can be produced at large scale using eukaryotic microbes How enzymes can be used in ...
Start Date: 26th Mar 2020
End Date: 26th Mar 2020
Event Website: https://register.gotowebinar.com/register/368897551763934987
Country: Not specified
City: Not specified
IBISBA 1.0 First Webinar Series
How to accelerate your research or technology and get subsidised access to top research infrastructure
The first webinar out of a series of four will illustrate:
- What IBISBA 1.0 is
- How you can gain Transnational Access to this Pan-European Research Infrastructure for Industrial Biotechnology
- How to create metabolic models at genomic scale and develop Synthetic Biology tools
This is the agenda:
Start Date: 12th Sep 2019
End Date: 12th Sep 2019
Event Website: https://www.ibisba.eu/Home/Latest-updates/IBISBA-1.0-First-Webinar-Series
Country: Not specified
City: Not specified
f2f meeting held in Manchester
Start Date: 3rd Apr 2019
End Date: 5th Apr 2019
Event Website: Not specified
Country: 
United Kingdom
City: Manchester
This reprot describes achievements so far regarding the construction of IBISBA, a European distributed initiative that aims to provide a world-class infrastructure, enabling cutting-edge research and supporting the development of biotechnology towards a circular economy.
The report was prepared as a support docuement for the 1st Steering Committee meeting that took place online on the 17th June 2021. The document reports progress and provides some indications of next steps in the conception and ...
Creators: Michael O'Donohue, Mauro Di Fenza
Submitter: Michael O'Donohue
This document constitutes deliverable 4.4 of the IBISBA 1.0 project. IBISBA 1.0 receives funding from the EU H2020 research and innovation programme under grant agreement No 730976.
Creators: Michael O'Donohue, Julieta Cabello; Laurie Rey; Olivier Rolland
Submitter: Michael O'Donohue
Formats agreed to be used in IBISBA
External LinkList of IBISBA tools
Creator: IBISBA Admin
Submitter: IBISBA Admin
A vision paper describing the founding principles behind IBISBA
Design plasmids encoding predicted pathways by using the BASIC assembly method.
Given one or a collection of heterolgous pathways in SBML files, generate the SBOL for the constructs and the assembly protocols to build them
Given a collection of SBML files with the heterologous pathways, calculate the FBA and the Gibbs free energy of the pathways.
Perform retrosynthesis using RetroPath2.0 and convert the heterologous pathways to SBML files
