Projects

Assessing different tools for RDM

As an Innovative Training Network (ITN) , our approach to bringing about innovation is via education. The 15 Early Stage Researchers that join our project will gain multidisciplinary and cutting-edge expertise from our hosting institutions and associated partners, which is required to manipulate biological catalysts for meeting tomorrow’s demanding challenges in sustainable production processes.

CC-TOP is focused on exploiting the potential benefits of C-C bond forming enzymes (“carboligases”) ...

Background- Thermophilic organisms are composed of both bacterial and archaeal species. The enzymes isolated from these species and from other extreme habitats are more robust to temperature, organic solvents and proteolysis. They often have unique substrate specificities and originate from novel metabolic pathways. Thermophiles as well as their stable enzymes (‘thermozymes’) are receiving increased attention for biotechnological applications.

The proposed project will establish thermophilic in ...

project: _p_stRT Short Name: stRT Title: Solanum tuberosum Reference Transcriptomes Description: Cultivar-specific transcriptome and pan-transcriptome reconstruction of tetraploid potato pISA projects path: ../pISA-Projects Local pISA-tree organisation: National Institute of Biology pISA project creation date: 2019-10-22 pISA project creator: Maja Zagorscak, Ziva Ramsak, Marko Petek Project funding code: This project was supported by the Slovenian Research Agency (grants P4-0165, J4-4165, J4-7636, ...

The group around Nicole Radde specializes in the modeling, analysis, and simulation of biochemical systems. This especially includes parameter optimization and identification.

FAIR data storage and annotation for LiceVault

For plants, light is a signal that carries information about the environment, and a source of energy for photosynthesis. PHYTOCAL focuses on the interaction between phytochrome signalling and photosynthesis, and seeks to understand fundamental processes that make carbon (C) and nitrogen (N) resources available for plant growth. These unexplored connections underlie biomass production and plasticity, which contribute significantly to yield variability in the field.

Andrew Millar's research group, University of Edinburgh

The project addresses the generation and establishment of programmed pacemaker cells for an in vitro drug testing possibility to perform predictive tests. This may lead to an improved treatment of cardiac arrhythmias or an accurate identification of potential drug molecules at a very early stage of development. Important benefits will arise in verifying the safety of a wide variety of medicines while reducing animal testing. For more information you may visit our project website at ...

Cyanobacteria are the only prokaryotes performing oxygenic photosynthesis. Theyhad and have tremendous influence on the biogeochemical cycles on Earth. Recently,cyanobacteria are increasingly investigated as cell factories for a sustainableeconomy. Despite their global, environmental and rising economic importance, ourknowledge on the regulation of their primary metabolism is fragmented.Cyanobacteria switch between photoautotrophic and heterotrophic modes ofmetabolism during day/night cycles or ...

Based on the combination of sensor and big data revolutions, PHENET (HE INFRA-TECH) will equip crop and ecosystems RI with innovative services based on tools and methods developed in the frame of the project and allowing enhanced capacity to future-proofing agroecosystems. These services will be excellent tools for users addressing environmental and societal challenges such as climate change adaptation / mitigation and agroecology transition.

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.

This is a project servicing Anna Maria Colangelo of UNIMIB to make models for neural differentiation and the effects of NGF addition and NGF withdrawal

This is the FAIRDOM hub for the Make Me My Model part of ISBE.NL. Various models for ISDBE.NL clients are stored here.

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 ...

Placental dysfunction has been associated with various pregnancy complications leading to both maternal and fetal death and long-term consequences, however, the placenta is one of the least studied organs within the human body. In this pilot study, protein signature of three healthy placentae was measured using label free quantification mass spectrometry. Each placenta was sampled in five sample sites and three sub-anatomical regions. Differentially expressed proteins were identified considering ...

CLIMAQUA results in an innovative process for converting and recirculating aquaculture side-streams (sludge and wastewater) in algae (Arthrospira platensis)-based feed production for aquacultures. In conventional aquaculture, feed production is responsible for 50% of greenhouse gas (GHG) emission. The aim is to substantially reduce GHG emission by considering geographic and site-specific characteristics (temperature, sunshine duration etc.) and to design site-specific phototrophic or heterotrophic ...

Bioprocesses for the optimized, integrated production of butyl esters from sustainable resources (BESTER)

Industrial Biotechnology is a key enabling technology to produce a plethora of different bio-based products from sustainable resources and a driver for developing the bio-based economy in Europe. Systems biology and Synthetic biology are recent additions to the biotechnology toolbox that in interplay with bioprocess and chemical process technology can help developing competitive industrial ...

Identification of genomic variation in perennial ryegrass

Coastal zones and oceans constitute an essential fundament for Norway’s history as well as current economy, providing ecosystem services for fisheries, aquaculture, transport, tourism, and recreation. The petroleum activities in Norwegian waters have been crucial for Norway’s financial growth and in financing the Norwegian welfare state. As the pressure on the oceans continuously increases, both the petroleum industry and the seafood industries have acknowledged that awareness and actions are ...

Silicon cell model for the central carbohydrate metabolism of the archaeon Sulfolobus solfataricus under temperature variation

From thermodynamics through kinetics and non equilibrium thermodynamics to control analysis

Chapter on non equilibrium thermodynamics. The chapter discusses both phenomenological and mechanistic non equilibrium thermodynamics. The phenomenological part has as asset compared to earlier treatments that it also considers the phenomenological stoichiometry as a parameter that may be adjusted by systems to attain optimal performance. In the mechanistic part, this feature of variable stoichiometry and 'slips' as well as redistribution of fluxes over parallel branches of metabolism is discussed. ...

A chapter on generalized thermodynamics. The chapter is not specifically about biology although it uses many examples in biology due to the richness of the topic. It deals with the first and second law of thermodynamics, catalysts, and engines. This includes heat engines, heat pumps, and protonmotive ATP synthase.

Most systems biology deals with Life as we know it on this planet (Earth). This project will focus on how (nonsynthetic) Life may differ from mainstream Life. The ultimate focus thereby rests on extraterrestrial Life, but for lack of definitive evidence of this, the project studies Life found under conditions that may be similar to extraterrestrial conditions enabling Life. The focus is herewith on the systems biology in remote environments on Earth. The project deals both with the systems cell ...