Dragon09/odtu_chatbot huggingface dataset:
exploring the molecular grammar of idp assembly and condensation at ultrahigh throughput

the last years have seen unprecedented breakthroughs in protein structural biology with the resolution revolution in cryoelectron microscopy and the release of alphafold the combination of advanced experimental structural biology machine learning algorithms and molecular simulations has put the fully quantitative description of how the structure and interactions of folded proteins are defined by their amino acid sequence within close reach this leaves us with a final frontier in protein science namely to achieve a similar level of understanding for intrinsically disordered proteins idps the energy landscapes of idps often comprise a multitude of nearly isoenergetic states that include assembled forms such as amyloid fibrils and liquid condensate dropletsmuch effort has been spent in order to achieve an understanding of the molecular grammar of idp assembly and condensation ie how amino acid sequence defines both kinetics and thermodynamics of these processes current state of the art is to evaluate a few dozens of sequence perturbations quantitatively in vitroin emma i propose to develop a fundamentally new approach that will ultimately allow to improve on current methods by more than 8 orders of magnitude this groundbreaking improvement will be achieved by exploiting the power of mrna display in which the biophysical behavior of each individual sequence within large libraries of proteinmrna constructs can be evaluated in a one pot reaction we will combine quantitative screening of the energetics of liquid condensate droplet formation of up to 1010 sequences by mrna display with a multiparametric biophysical toolbox that allows the key thermodynamic and kinetic parameters of binding and assembly to be evaluated for thousands of selected sequence variantsemma will transform our ability to probe the mechanisms and interrelationships of the interactions and assembly processes that define idp function and diseaserelated malfunction
the geometry of higher symmetries

symmetry structures are key to organizing the complexity of physical systems in systems described by quantum field theories qfts symmetries group observables classify phases determine selection rules and give insight into strongly coupled dynamics they are irreplaceable in the study of phenomena such as confinement or duality recently the notion of symmetry in quantum field theories was understood to admit a substantial generalization to higher categorical structures such as ngroups and noninvertible symmetries these realize further nonperturbative data yielding new handles in the study of qfts the goal of this project is to analyze such symmetry structures in geometrically engineered qfts we initially focus on theories in 4d parametrized by spectral curves andor special holonomy spaces and aim to geometrize the symmetry representations and fusion structures related to their higher symmetries building on both past work of the researcher and supervisor this approach unlike recent field theoretic developments does not rely on a lagrangian description of the qft and therefore offers insight into confining properties and phase structures of strongly coupled systems the foremost research objective of this proposal lies in charting these structures for increasingly less supersymmetric theories including theories with no supersymmetry all current evidence suggests that such symmetry structures only depend on topological data of the spectral curves and special holonomy space which we aim to trace through supersymmetry breaking deformations further research objectives include the study of analogous symmetry structures for superconformal theories in 5d and 6d such theories are intrinsically strongly coupled and the geometric methods developed in 4d guided by field theory come into their own as there are now no weakcoupling limits to extrapolate from
severe accident research and knowledge management for lwrs seaknot

severe accidents sa are known to dominate the risk associated with the commercial production of nuclear energy and a vast amount of research has been done for decades in order to practically eliminate sas with the potential for large early releases at present time when some of the knowledge acquired is at risk of being lost as many specialists have already retired or are retiring and new approaches for the sa assessment are being explored it seems appropriate timing to deeply review and document the sound existing background and project it into the future including an update on experimental research on sa mitigation tools by putting in place the best resources possible to conduct any needed additional research and by articulating the most efficient ways possible to bring the young generation on board to face near and midterm research challenges the best use of the current sa background with guarantees to target those issues bearing most uncertainties nowadays might be ensured therefore it is of utmost relevance to conduct a firm assessment of the current stateoftheart and to pass this onto the generation who are inheriting such legacy management exploitation and assessment of this knowledge are the main objectives of the seaknot project in addition new emerging research needs as those concerning small modular light water reactors smlwr and accident tolerant fuels atf will be considered meeting seaknot objectives requires entails carrying out a deep critical assessment of the current state of the art of the experimental infrastructure and analytical tools that would be necessary to efficiently tackle the challenges posedthe main expected outcomes will be a sound and critical analysis of the current knowledge on sa an update of the experimental research needs remaining a strengthening of background and skills of young generations in the field
general principles of representing space and time during automatic formation of visual and auditory chunks and objects

the process by which humans formulate increasingly complex internal representations from sensory stimuli based on their available knowledge has been investigated traditionally by a somewhat disconnected set of approaches under various labels such as feature detection grouping figureground segregation chunking categorization and learning we explore the idea that there might exist some general unconscious mechanisms of this pattern formation process that work similarly and repeatedly across different levels of complexity from basic segmentation to complex chunkingbased learning and across different modalities such as vision typically viewed with spatial processing and audition associated with temporal processing we will follow 4 principles in our work to test this first we will focus a on the auditory and visual modalities b with space and time as the two dependent dimensions of comparison and c we will test the two endpoints of the complexity scale at one end pure tones in audition and single squares in vision easily treated by instantaneous perceptual biases and at the other end complex time and spacevarying patterns requiring learning second we will perform the equivalent version of each experiment in both modalities to check the generality of the mechanisms that establish the representations of the input third we will use the same testing method across experiments measuring behavioral sensitivity induced by the resulting representation to quantify the representations structure and its eeg correlates fourth we will interpret our results by building a new hypothesis about humans internal representation into a hierarchical bayesian model so that we can derive further individual and populationspecific predictions to inspire subsequent empirical work our integrated approach will contribute to a deeper understanding of the general principles of representation forming and its malfunctioning in special populations
collisionfree design of rational singleloop linkages

this project focuses on the collisionfree design of singleloop mechanisms which are customized devices synthesized for a given task with only few degrees of freedom such mechanisms can perform very complex spatial motions which nowadays industrial solutions can achieve for an extensive energy cost or cannot achieve at all although the kinematics of the singleloop mechanisms is a wellinvestigated topic among mechanism scientists there exist very few realworld applications because the synthesized kinematic models do not consider collisions between the links and joints also their structural design is complicated engineering tools struggle when dealing with closedchain mechanisms given algebraically due to numerical rounding the project aims to solve this problem through recent progress on mechanisms constructed by rational motion factorization along with numerical optimization methods rational motion has in addition to the possibility of factorization other benefits such as motion parametrization algebraic collision detection or can approximate even other types of motions making the output of this work widely adaptable this project will provide a simplified mechanism collision model quantify the collision states on a continuous level optimize the rigid body structural design and deal with special cases such as folded states of mechanisms daniel huczala recently finished dissertation at vsbtu of ostrava czech republic where he dealt with the synthesis of serial kinematic structures of robotic manipulators his obtained knowledge in optimization of mechanisms design will be joined with the theoretical kinematics expertise of researchers at the unit of geometry and surveying university of innsbruck austria who participated in the development of the rational motion factorization and can transfer this knowledge to dr huczala which will considerably develop his research profile at the very beginning of his postdoc career
identifying determinants for indoor air quality and their health impact in environments for children measures to improve indoor air quality and reduce disease burdens

inchildhealth will integrate health environmental technical and social sciences research to identify determinants for indoor air quality iaq and evaluate their impact in environments occupied by school children we will focus on chemicals particle concentrations microorganisms and physical parameters in schools homes sports halls and transport the iaq of these environments determines the dose received by the children and may directly influence their health and wellbeing an environmental epidemiological study and controlled interventions conducted in schools in three european cities will assess the health effects of multipollutant airborne exposures on respiratory infections allergies and neurological and cognitional symptoms in addition doseresponse will be evaluated with a novel cytotoxicity testing pipeline using invitro approaches the inchildhealth consortium will cover an impressive variety of geographical and cultural diversity with targeted exposure measurement campaigns and citizen involvement in seven european countries from northern central and southern europe and interventions in australiaall projects results will converge in the inchildhealth integrated risk assessment tool which will provide information on the interactions between the sources emissions concentrations exposure doses and disease for children besides we will develop userfriendly and lowcost monitoring technologies and strategies technical and behavioural to improve iaq and reduce disease burdens inchildhealth will produce many fair datasets on air pollutants and their main sources for indoor environments occupied by children in different climatic and social settings in europe our findings will be disseminated as guidelines recommendations and training material partly developed with children in a citizen science approach such material will support the iaq regulatory framework in schools facilitate iaq management and broadly promote healthier indoors
roll out systemic change to evolve the furniture industry towards ce through the implementation of innovative circular business models material design strategies and the digital product passport

the european furniture industry grapples with challenges such as rising raw material costs escalating energy expenses and declining demand due to inflation despite stakeholder interest in circular design and sustainability the adoption of the espr introduces additional hurdles revolve aims to systematically support the industrys transition emphasizing ceoriented productsystem innovations including ceoriented business models circular material and product design strategies and the use of the digital product passport dppthe consortium ensures broad industry involvement with over a third of partners being european national and regional furniture associations with good connections to the industry other partners are seven furniture sector companies four being smes and seven research organisationsrecognizing the diversity of the european furniture industry revolve will collaborate with stakeholders to develop productsystem innovations private consumers and public procurers will actively participate the developed productsystem innovations along with innovative solutions to support their implementation are tested in nine pilots their sustainability impact will be assessed to catalyze a broader industry transition revolve creates training materials based on the developed productsystem innovations and the results of the piloting in a largescale implementation 50 companies will use the training materials and the support of the project consortium to implement ceoriented business models circular material and design strategies and dppsystems that suit their framework conditions bestadditionally revolve will convene relevant stakeholders initiating a community of practice for a circular furniture industry this collaborative effort aims to foster knowledge exchange and further advance sustainability within the sector
deciphering information encoded on the nanoscale

despite the natural ubiquity of nano and microparticles and their increasing production and emission in anthropogenic processes we struggle to understand their direct impact on environment and health this is anchored in their elusive nature and analytical challenges arising from it although current approaches can retrieve some facets we are blind for a majority of properties or cannot retrieve them coherently we are in a dire need to decipher basic traits of particles and gain more comprehensive insights in their compositions size distributions and abundances only this way we can advance on our understanding on origin implication and fate of particulate entitiesnanoarchive will provide new paradigms and innovations to enable the analysis of particles and aims to close a persistent gap in our understanding of the world at the nano and microscale the technological innovation is based on the convolution of elemental mass spectrometry optical traps and molecular spectroscopy to promote characterisations on a single particle level the hyphenation of newly emerging technologies goes far beyond the current stateoftheart but provides new opportunities to gain complementary and comprehensive perspectives on particles our aim is the empowerment of nontarget particle analyses the identification of integral molecular and elemental information and the bottomup modelling of dispersion parameters using single particle data this way we will be able to bring particle science to a groundbreaking new level allowing us to understand particles in our environment the application potential of nanoarchive will be demonstrated by focussing on glacier ice cores the ideal archive to investigate natural background as well as the chronological evolution of human emission however the full impact of nanoarchive goes much beyond potentially revolutionizing the analytics and understanding of particles in fields like geology biology or medicine
sports megaevents and popular politics a comparative study of mediation and public memory of the uefa 2020 and russia 2018 football championships

the growing interest in interplay between politics and popular culture lacks consideration of mediated sports megaevents smes like football championships this hinders our understanding of how popular sporting events reflect and impact political life and how populations engage with and interpret political meanings through media events this project bridges this gap by investigating the lasting political significance of smes through an assessment of their mediation and public memoryboth comparatively and retrospectivelyin democratic and authoritarian contextsthe projects research objectives are to 1 compare the mediation of smes across political environments during and after the events and visvis prominent political narratives surrounding them 2 understand how members of the public remember the events their mediation and related political developments and 3 explore the implications of the public and mediated memory of smes for their lasting political legacy and how popular events reflect and influence peoples engagement with politicsspecifically the project will comparatively assess the mediation and public memory of two recent football championshipsthe paneuropean uefa 2020 and the russia 2018 fifa world cupin the context of two crises affecting politics and public life in europe the russiaukraine conflict and brexit the two research strands conducted in the comparative english and russian national settings include a an analysis of media coverage of the tournaments and their legacies by national broadcasters and b focus groups with audiences of the smesthis project will develop a novel concept of megaevent political memory ecology which will have scientific economic and societal implications marrying approaches from digital memory studies and popular geopolitics this concept will account for the interrelationship between shifting public and mediated memories of smes and public understandings of the political world
positive geometry in particle physics and cosmology

there are strong indications from physics at both infinitesimal and cosmic distances that our current understanding of the laws of nature is only approximate and must be replaced by deeper principles the universe project seeks a new foundation for fundamental physics ranging from elementary particles to the big bang revealing a hidden world of ideas beyond quantum mechanics and spacetime novel geometric objects recently discovered in theoretical physics hint at new mathematical structures combinatorics algebra and geometry have been connected to particle physics and cosmology in an entirely unexpected way leveraging these advances we will launch the field of positive geometry as a new mathematical framework for describing the laws of physics to this end we bring together the necessary expertise in particle physics arkanihamed henn cosmology baumann and mathematics sturmfels this is the first collaboration of its kind made possible by a recent confluence of critical insights in both mathematics and physics which are now so closely aligned as to propel us forward on a clear trajectory our goals are fiercely ambitious we aim to create a new mathematical language for describing physical phenomena at all scales from the interactions of elementary particles to the largescale structure of the universe
diamond discovering active microorganisms implicated in adverse drug effects

the microbiome plays relevant functions on human health and disease including roles in the efficacy and security of drug treatments capecitabine is a prodrug of 5fluorouracil which is an active metabolite that targets tumor cells this treatment is used for diverse cancers including colon tumors and is commonly associated with diverse adverse reactions such as the handfoot syndrome hfs a skin deterioration for which there has not been discovered its causal mechanism preliminary data suggest that some skin microbes interact with 5flourouracilhere i aim to study the dynamics and features of the skin microbiome of patients treated with capecitabine using massive parallel sequencing methods i will look for microbial taxa genes andor functions associated with the presenceabsence of hfs adverse reaction based on those data i will select appropriate conditions to isolate microbial taxa likely implicated in hfs and i will study their ability to metabolize capecitabine and 5florouracil then with those microbes showing this activity i will analyze their genomes and transcriptomes in presenceabsence of these drugs to select candidate genes involved in this drug metabolism afterwards i will perform docking methods to decipher more precisely the likelihood of the encoded protein to interact with the drug finally i will validate this data with the phenotypic study of knockout mutants lacking selected genes likely implicated in the drug metabolismthis project will provide understanding related with the roles of the skin microbiome in the appearance or protection against a skin adverse drug reaction this knowledge may be used for the advance of a precise and personalized medicine in which the individual microbiome can be considered the proposed project will allow me to gain skills in novel methods of microbiome studies and in project management and will extend my research network boosting my career towards a mature and independent stage
sustainable remediation of radionuclide impacts on land and critical materials recovery

the project sustainable remediation of radionuclide impacts on land and critical materials recovery surri aims to establish a multinational shared research agenda and project pipeline for addressing the challenges radionuclides pose to land remediation and materials recovery with a particular focus on rare earth elements ree and other critical elements in order to facilitate more efficient cycling and management of water soil and material resources the topic is highly relevant to facilitating the circular use of land water and several key materials investigating the mitigation of radionuclide problems has been rather a cinderella subject for land and waste management research where the focus has been on organic and inorganic chemical contamination however radionuclides present widespread and difficult problems for society at large and achieving the green deal in particular the research concept is based on the integration of electrochemical and microbiological interventions which can be applied insitu or exsitu to provide new tools to unlock the remediation of radionuclide affected sites and facilitate the recovery of material resources from radionuclideimpacted wastes and so reduce reliance on virgin and noneu sourcesthe project is coordinated by the technicka univerzita v liberci tul cz with the participation of the universidad de granada es universita degli studi di roma lasapienza it and the university of southampton uk associated partner the three internationally leading partners in the field will help tul to reach five specific objectives to advance its research excellence in radionuclide impact mitigation to develop a shared research vision and supporting research agenda for a virtual ri centre to raise the research profile of tul staff and to develop an international network of supporters contributors and participants in the proposed virtual centre