Dragon09/odtu_chatbot huggingface dataset:
removing nonco2 greenhouse gas emissions to support ambitious climate transitions

nonco2 greenhouse gases are responsible for 28 of total anthropogenic emissions of which ch4 16 and n2o 6 are major contributors these gases are hard to abate due to their diverse and inherently distributed sources with concentration 1vol for example the agricultural sector livestock and farming which is the main source of anthropogenic ch4 emissions moreover their very low concentrations in the atmosphere ppb or ppm level make the recovery particularly challenging however mitigating these gases can significantly accelerate the transition towards a netzero greenhouse gas eu economy by 2050 and achieve sustainable negative emissions thereafter in this context repair will develop firstofits kind technological proof of concept to remove nonco2 gases like ch4 and n2o from diluted sources including from the atmosphere two process routes are proposed i capture concentration and storageconversion ii direct catalytic conversion the proposed processes can be easily integrated with direct air capture and storage andor use of co2 thereby removing multiple greenhouse gases ch4 n2o and co2 in a single system with lower energy and cost the potential of the technologies developed in the repair project will be evaluated through i technoeconomic analysis ii scenariobased assessment to evaluate impact on climate iii impact case studies in agricultural and farming sector results will enable making decisions about upscaling of the technology in agricultural farms by 2035 in addition to increasing knowledge about plausibility of removing nonco2 gases from diluted sources it will also help the european commission to make informed decisions about regulations for nonco2 greenhouse gas emissions from 2030 as indicated in the fit for 55 plan the project consortium has expertise and experience to develop emerging and breakthrough technologies with high potential to achieve climate neutrality and create socioeconomic impact
the sympatric lifestyle of giant viruses contact tracing and fitness through mobile genetic elements

giant viruses appear to be ubiquitous in soil and aquatic environments infecting a wide range of protist hosts as lytic viruses they are important regulators in nutrient and energy cycles and key influencers of microbial community composition the recent discovery of giant viruses challenged previous assumptions and blurred the sharp division between viruses and cellular life besides large particle sizes giant viruses possess complex chimeric genomes including genes that were likely acquired from their hosts and bacteria that parasitise the same hosts unique is the presence of prokaryoticlike mobile genetic elements mges that are speculated to aid giant viruses in defence against the host immune system or in direct competition for resources with other viruses or bacteria contrarily bacteria may use mges to help the hosts counteract viral infections our current knowledge on the factors promoting giant virus diversity and maintenance of the virushost balance in nature are largely unknown in the proposed project i will investigate the role of mges in the evolution and ecology of giant viruses i postulate that the presence of mges plays a crucial role in the competition between giant viruses and other parasites infecting the same hosts using coinfection experiments as well as cuttingedge molecular microscopy and sequencing techniques i will investigate viral competitive fitness as well as physical and molecular interactions between selected partners by developing a highly specific giant virus genome editing tool i will rigorously test whether mges can provide giant viruses with higher fitness moreover i will combine cell sorting with metagenome analysis of two selected habitats to unravel how mges are distributed in a natural ecosystem my overarching goal is to elucidate the molecular dialogue between viruses bacteria and their hosts and to use mges as a tool to trace the evolutionary history of this unique group of viruses
4d microscopy of biological materials by short pulse terahertz sources mimosa

cryoelectron microscopy and tomography have been among the greatest achievements in biological imaging but these techniques suffer from insufficient chemical resolutionthe ultimate goal of mimosa is to provide an alternative to tomography at the nanoscale with a high chemical resolution for biological and medical systems based on tomographic atom probe tapmimosa aims to prototype a new tap triggered by intense terahertz thz pulses that are stable at high repetition rates and exhibit versatile and tailored propertiesmimosa relies on the integration of transdisciplinary fields in bioimaging optics ultrafast lasers and intense thz sources bigdata treatment and physics of the interaction between thz waves and mattermimosa aims to prototype in parallel an efficient intense thz source based on a new technology with ultrafast highenergy fiber lasers this source can be used in nanotomography for biological and medical applications but also as a test platform for a foreseeable commercialization of the thztriggered tapthe mimosa team members are leaders in tap development 3d medical and bioimaging ultrafast lasers development with advanced techniques for shaping and control of the optical beams properties and theoretical physics with mimosa we are uniquely positioned to succeed and to raise the competitiveness of europe in microscopy development on the international scene
designing allosteric protein switches by in vivo directed evolution and computational inference

proteins are molecular machines that drive all major functions in cells controlling the activity of proteins in real time via light or chemicals is a central goal in synthetic biology the design of switchable proteins in particular singlechain allosteric variants however is a challenging engineering problem thusfar mostly addressed by trialanderror davinciswitches takes a radically new datadriven perspective to fundamentally advance our understanding of protein allostery and accelerate and eventually rationalize the engineering of switchable proteins by interfacing synthetic biology with machine learning we will establish a design by directed evolution approach to create switchable proteins through receptor and effector fusion followed by phageassisted in vivo directed evolution using synthetic gene circuits for selection we will apply this novel pipeline to a diverse set of effector proteins and monitor the evolutionary process by nextgeneration sequencing objective 1 in parallel we will perform an indepth computational analysis of domain insertions within the natural protein repertoire the combined rich datasets will be used to train machine learning models to infer sequence patterns predictive of domain insertion tolerance and allosteric coupling between receptoreffector pairs objective 2 finally we will employ this unique model to design light and druginducible variants of the yamanaka cell reprogramming factors these will provide the foundation of an adenoassociated virusbased platform for cyclic partial in vivo reprogramming of somatic cells with enormous potential for regenerative medicine which will be evaluated in a murine model of druginduced liver injury objective 3 davinciswitches harnesses our key competences in protein engineering synthetic biology and computation to reveal fundamental principles of allostery and enable transformative advances in the design of switchable proteins for research and medicine
destabilizing vascular colonization to stop meningitis

before the antibiotic era chances of survival to bacterial meningitis were minimal nevertheless nearly 100 years later surprisingly little progress has been made and mortality rates currently remain unacceptably high 1025 supported by clinical and experimental data the central concept of the destop project is that bacteria rapidly become insensitive to antibiotics during infection which leads to treatment failure we hypothesize that the emergence of such antibiotic insensitivity results from vascular colonization by neisseria meningitidis ie when the bacteria adhere to the surface of the endothelium proliferate and progressively occlude the vessel lumen we propose to explore the mechanisms underlying four steps of vascular colonization that potentially alter bacterial sensitivity to antibiotics i bacterial adhesion to the endothelium and autoaggregation ii colonization dependent changes in bacterial physiology iii bacteriainduced plasma membrane deformation shielding adhering bacteria and iv bacteriatriggered intravascular coagulation for this we will develop a multidisciplinary approach that involves an in vivo humanized mouse model and innovative microfluidic devices vesselonachip model and a bacterial confinement chamber the destop project will not only provide novel mechanistic insights in the meningitis pathogenesis process and allow to develop novel strategies to combat bacterial meningitis but also have broader impact by providing a better understanding of how tissues as a context for infections reduce the efficiency of treatment of numerous other bacterial pathogens
identification and characterization of cellular deurmylases

ubiquitinrelated modifier 1 urm1 is known for its dual role as sulfur carrier protein scp in trna thiolation and as an ubiquitinlike protein ubl that leads to an oxidantinduced posttranslational protein modification ptm we recently managed to recapitulate the urm1conjugation reaction for various targets in vitro and characterize the underlying molecular principles in most ubiquitin ub and ubiquitinlike conjugation systems the active removal of the ptm constitutes a key feature of the regulatory mechanisms although various targets of urmylation have been reported not a single enzyme that could reverse the modification has been identified in this project i plan to incorporate different complementary discovery strategies to ultimately identify possible deurmylation enzymes in yeast and human and assess their biological significance foremost i aim to uncover the guiding principles that regulate the evolutionary most ancient ubl system in eukaryotes hence the expected results will not only answer one of the most intriguing questions related to urm1 but have farreaching consequences for our understanding of all ubl systems in eukaryotes last but not least several studies hint at the critical function of urm1 conjugation in oxidative stress response and at its direct involvement in severe human diseases as various deubiquitylating enzymes dubs are successfully developed as potent targets for smallmolecule based drug therapies the identified enzymes could be well suited for novel therapeutic and diagnostic strategies
structuring spatial knowledge through domaingeneral nonspatial learning mechanisms

is space the main organizer of our mental reality the answer to this question is apparently yes according to recent views nearly any type of knowledge would be organized through lowdimensional geometries relying on the same computations that are at play in the navigation of the physical space as attested by the involvement of the hippocampalentorhinal region in highlevel cognition from an evolutionary standpoint spatial processing mechanisms might have thus developed from originally mapping the navigable environment to representing cognitive spaces moving beyond this spatiocentric view of the human mind outofspace will test the fascinating yet apparently counterintuitive hypothesis that nonspatial associative learning mechanisms are active if not the main ingredients in structuring spatial representations to pursue this aim outofspace will employ cognitively plausible computational models ie distributional semantic models based on nonspatial associative learning mechanisms to extract latent knowledge from natural language
constrained convergence does pleiotropy constrain convergent alpine adaptation

is evolution predictable in constrainconverge i aim to understand evolutionary mechanisms governing predictability in adaptive evolution by asking why some genes are more likely reused by adaptation than others despite a rich theoretical background systematic analysis of the mechanisms underlying convergence is lacking in complex multicellular organisms that limits application of convergent evolutionary concepts in repeated evolution of socioeconomically relevant traits such as resistance to pathogens pesticides or pollution to fill in this gap i will study genetic constraints of convergent adaptation towards stressful alpine environments in plant model genus arabidopsis eight independently evolved populations of alpine arabidopsis provide a unique model of environmental adaptation allowing to leverage an unprecedented range of genetic and experimental resources to address fundamental evolutionary questions during my phd i characterized this system from a population genomic point of view preparing a ground for experimental genetic validations in the outgoing phase i will bring this experience to the host lab of prof peichel at the university of bern ubern an expert in the evolutionary genetics of convergence in fishes systematic training in the host lab and three international research visits will broaden my bioinformatics and experimental skills i will learn new multidisciplinary approaches bridging the fields of evolutionary genomics and molecular genetics through the combination of transcriptomics statistical genomics and functional experiments i will return to charles university cu to share the newly gained skills with local researchers and gain further training in functional genetics and transferable skills under the supervision of prof lafon placette aiming to improve my teaching and leadership skills and establish my own research group in evolutionary genetics a virtually nonexistent field in czech research environment
tracking galaxy evolution with precise and accurate metal abundances in the interstellar medium

the introduction of heavy elements metals into the interstellar medium ism via stellar feedback processes is crucial for the regulation of star formation and thus galaxy evolution metals set the heating and cooling balance in starforming regions and establish the carbon chemistry that is necessary for life on our planet the gasphase metal abundance metallicity is the most accessible measure of the buildup of chemical enrichment over cosmic time however there are large systematic uncertainties in our metallicity measurements to the extent that we do not know if most galaxies are metalrich or metalpoor compared to the milky way these longstanding uncertainties plague our understanding of metal variations but can now be addressed by vast new homogeneous data sets resolving tens of thousands of individual hii regions across nearby galaxies this ambitious erc starting grant tackles this problem by applying a datadriven approach to emission line measurements in our own milky way local group galaxies sdssvlvm and more distant local volume galaxies phangsmuse this project aims to resolve longstanding discrepancies in absolute metallicity calibrations and develop new and robust prescriptions that directly address electron temperature uncertainties we will apply our methods to map out metallicity variations across more than 50 galaxies providing quantitative constraints on the mixing scale and correlations with local physical conditions in the ism my leadership roles in lvm and phangs uniquely qualify me to lead this proposed erc project by establishing a new homogeneous local benchmark for absolute metallicity measurements the ismmetals project will build a foundation for future studies of galaxy metallicities enabling the robust interpretation of metallicity variations soon to be measured across cosmic time with upcoming new facilities jwst elt
arcs of time zoroastrian philosophical anthropology

the project arcs of time zoroastrian philosophical anthropology aot explores a new area of zoroastrian thought by combining philological and philosophical methodologies to a more holistic understanding of the textual sources zoroastrian philosophical anthropology analyses the person as an historical composite whose spiritual and material parts change over time so the aot project analyses both the historical part of this theory including debates on the origin of humanity and on the cyclical nature of human history and it also analyses the constitutive part including debates on psychophysical composition and on human wisdom its objective is to produce philosophically precise translations of 40 chapters from dnkard iii that exhaust both parts of zoroastrian philosophical anthropology dnkard iii is a medieval encyclopedia of zoroastrian thought and it is preserved in a single problematic manuscript contemporary scholars are now turning their attention to the dnkardthe method is a philosophicallyinformed philology it will first produce critical editions from the problematic manuscript and adduce linguistic parallels within the wider zoroastrian literature from this period in order to ensure philological accuracy it will second produce a rational reconstruction of the philosophical worldview expressed in the texts and adduce conceptual parallels within both the zoroastrian literature and the literature in arabic contemporary to the authors of the dnkard in order to ensure philosophical accuracy the philological work will be uploaded to an openaccess online database for scholarly collaboration and for the general public the philosophical work will result in two openaccess articles meant to explain the technical details of the translations to audiences not specialized in the dnkard or zoroastrian thought
the indx cmc implant a new treatment for thumb base joint arthritis

the indx cmc implant is for the treatment of thumb base joint arthritis it is the first evidencebased surgeonled innovation implant solution for this major clinical problem the potential market is estimated at over 700m per yearthe implant meets a major unmet clinical need for an ageing eu population the implant recreates the natural joint biomechanics to give a more reliable and clinically superior outcome for patients this disruptive technology can change the treatment landscape for this condition the implant provides an exciting new treatment option for an underserved population it has been shown to eliminate pain and restore full joint mobility the indx implant is smarter safer and simpler to insert than any current treatment optionsthe indx implant is patented with a clear pathway to regulatory clearance in the eu and us the company is led by a physicianinnovator and is supported by medical device industry veterans and worldleading hand surgeons
adpative dbs

differently from other dbs systems on the market the alphadbs can be programmed with two different types of stimulation conventional dbs which is implemented also by other dbs systems and adaptive dbs adbs that automatically adjusts the energy delivered to patient using a biosignal local field potential lfp in a close loop configuration lfps represent the synchronous presynaptic and postsynaptic activity of neuronal populations and can be recorded with the macroelectrodes routinely implanted for cdbs in parkinson disease lfps especially in betaband are specifically modulated by dopamine intake movement execution and preparation and that they encode nonmotor functions such as decision making the beta band power represents the input variable to the adaptive algorithm implemented by the alphadbs system which every second computes a new stimulation value
fostering excellence in advanced genomics and proteomics research at comenius university in bratislava

genomics proteomics and bioinformatics play an increasingly important role in the current societal challenges these scientific fields bring tools and technologies that can significantly improve the health of citizens in personalized medicine it contributes to the development of more targeted personalized drugs therapies and interventions for serious diseases cancer rare diseases genomics has also a significant role in the datadriven covid19 pandemic response genomics and bioinformatics in slovakia has rapidly developed also thanks to the comenius university in bratislava cu nevertheless the cus capacity and expertise still lags behind the leading research institutions the main aim of the twinning project forgenom is to improve access to excellence at the comenius university science park cusp and raising the research profile of the institution and its staff in the field of biomedical genomics proteomics and bioinformatics via targeted networking and mentoring and training activities with internationally leading research institutions in the area of genomics proteomics and bioinformatics european molecular biology laboratory and milanobicocca university by networking activities with global leaders will be developed the potential of the comenius university to become europeanwide known centre with increasing ri contributions and achievements these will increase the participation of the teams from cu in european and international projectsforgenom project will help to increase the scientific level research quality international visibility and competitiveness of thecomenius university through targeted twinning activities aimed at career development transfer of knowledge institutionaldevelopment exchange of best practices and networking enhancing the scientific excellence of cu and transfering of knowhow from experienced countries will have a systemic impact on the entire slovak ri system
smart design of wellfunction algaeplantbased powder green spraydrying characterization and rehydration

algae protein and plant protein are considered as novel and primary source of protein for the human being in future as it is now crucial to reduce our dependence on animalbased protein notably to reduce greenhouse gas emissions also among varied food structure the powder matrix of the algaeplantbased formula will reduce transportation and storage costs due to lower water content which is interesting for food industry moreover the algaeplantbased powder can be a replacer to traditional dairy powder which is namely milkanalogue powder however the formula of algaeplantbased solution and its powder has not been studied yet this project therefore aims to 1investigate the powder matrix of algaeplant based formula influenced by drying protocol 2demonstrate the rehydration profile of the powder matrix and 3improve the sustainable production of this powder technological and health potentiality of plant and algae protein for the production of functional food powders by spray drying will be investigated focusing on milkanalogue powder as a model to achieve the sustainability of the process mass and energy transfer will be modelled to identify optimal conditions for greener production the physical characteristics of algaeplantbased initial liquid feed and final powder will be investigated both are linked and are of great significance on the development of powder structure during drying and on the final powder functional properties especially the rehydration of algaeplantbased powder will be studied stepwise in comparison with the characteristics of feed solution and spray drying conditions which can enlighten the smart design of powder matrix for instant breakage during rehydration lastly the digestion of algaeplantbased powder and nutrition analysis pave path to alternate the real milk as a fresh researcher my career can be facilitated by this advanced research at agroparistech internationally recognized institute on future food