RCaz/eu-funding-proposals-sft huggingface dataset:
system: You are an expert grant writer specializing in European Union research funding proposals. You write compelling, well-structured proposal sections that demonstrate excellence, impact, and implementation quality, using precise EU terminology and following best practices for Horizon Europe, Horizon 2020, and earlier framework programmes.

user: Explain how 'Knowledge graph completion using Artificial Neural Networks for Herb-Drug Interaction discovery' goes beyond current state-of-the-art under Horizon 2020.

assistant: **Innovation**

With the growing popularity of herbal drugs an increasing number of scientific studies report information about herb-drug interactions that can significantly alter the effects of a drug. Keeping up with the current publication rate is not feasible, therefore there is a clear need for computational methods for early detection of herb-drug interactions that will enable better public and physician understanding of herbal products. But the costs of manually representing knowledge about herb-drug interactions in a machine processable way are prohibitive, therefore domain expertise has to be leveraged indirectly from domain-specific corpora using Information Extraction. This Marie Curie European Fellowship proposes a Deep Learning approach based on Artificial Neural Networks (ANN) and Information Extraction to monitor medical literature and construct a knowledge base of herb-drug interactions together with supporting evidence in the form of interaction mechanisms. To cope with the problem of incorrect or missing information we will consolidate the resulting knowledge graph using knowledge graph completion that predicts the probability of existence or correctness of typed edges in the graph. Advanced graph visualization techniques will be employed to develop intuitive interfaces for analyzing and comparing herb-drug interactions and underlying mechanisms. The Fellowship is expected to increase knowledge on clinically significant herb-drug interactions which will contribute to improved public safety. The Host will provide training on Deep Learning approaches for knowledge extraction which will open opportunities for a senior researcher position, in turn the Fellow will transfer Natural Language Processing skills and European collaborations to the host.
system: You are an expert grant writer specializing in European Union research funding proposals. You write compelling, well-structured proposal sections that demonstrate excellence, impact, and implementation quality, using precise EU terminology and following best practices for Horizon Europe, Horizon 2020, and earlier framework programmes.

user: Compose a compelling abstract for 'Gut Microbiota in Nervous System Autoimmunity: Molecular Mechanisms of Disease Initiation and Regulation' demonstrating excellence, impact and implementation quality for a Horizon 2020 call.

assistant: **Abstract**

Multiple Sclerosis (MS), an autoimmune demyelinating disease affecting the central nervous system (CNS), causes tremendous disability in young adults and inflicts huge economic burden on the society. The incidence of MS is steadily increasing in many countries arguing for environmental factors driven changes in disease induction. How and which environmental factors contribute to disease initiation and progression is unknown. Using a spontaneous mouse model of MS, we have shown that the gut microbiota is essential in triggering CNS autoimmunity. In contrast to the mice housed in conventional housing conditions, germ free (GF) mice, devoid of gut bacteria, were protected from spontaneous experimental autoimmune encephalomyelitis (sEAE). Re-colonization of GF mice with a complex regular gut flora derived from specific pathogen free (SPF) mice resulted in sEAE within 2-3 months. The re-colonization also triggered pro-inflammatory T and B cell responses. However, colonization of GF mice with a reduced gut flora failed to induce sEAE during our observation period suggesting a “specific” rather than a “broader” microbial trigger. In this proposal, I want to study the role of gut microbiota in CNS autoimmunity with the following aims:Aim 1: CNS autoimmunity triggering/protecting gut microbes and host immune responses I want to study how and which gut bacterial species are modulating CNS autoimmunity to better  understand the origin of autoimmune responses and their relation to host immune responses.Aim 2: Molecular mechanisms of sensing of gut microbiota and microbial metabolites during CNS autoimmunity I want to identify the molecular pathways that are involved in sensing the gut microbiota and its metabolites which are relevant to CNS autoimmunity.Aim 3: Therapeutic applicati
system: You are an expert grant writer specializing in European Union research funding proposals. You write compelling, well-structured proposal sections that demonstrate excellence, impact, and implementation quality, using precise EU terminology and following best practices for Horizon Europe, Horizon 2020, and earlier framework programmes.

user: Compose the 'State of the Art and Innovation' section for a Horizon Europe proposal on 'Historical Dynamics and the Extraordinary Biodiversity of Asian Mountains'.

assistant: **Innovation**

Mountain ranges support about 25% of all terrestrial species in the world and are hotspots of biodiversity and endemism with high conservation value. Despite mountains being among the most species-rich regions in Asia, they are one of the world's most fragile ecosystems due to habitat destruction and global climate change. Little is known about the historical (evolutionary) processes underpinning the unique plant diversity in Asian mountains. So far, most studies have focused on the Himalayan and Hengduan mountains, suggesting the elevated plant diversity results from the interaction between the Asian monsoon, geological history, and high immigration. However, existing studies in the Malay Archipelago suggest that species richness results from long-distance dispersal, immigration of lineages from local lowland ancestors, and complex geological history. Therefore, an integrated hypothesis-driven framework to test the relative importance of such drivers, including how functional traits innovations may have contributed to such radiations in the Asian mountains, is needed. The overarching aim of ASIA is to understand the evolutionary and biogeographical processes that govern the plant biodiversity of the tropical Asian mountains using the model plant group Rhododendron (heather family, or Ericaceae). This species-rich lineage is widely represented across almost all Asian biodiversity hotspots. The ASIA project will unravel the most important drivers of high plant diversity in Asian mountains by developing a well-resolved phylogenetic hypothesis using high-throughput sequencing technologies, biogeography, macroevolutionary models, geological history, and species ecology. ASIA will provide insights onthe adaptability of a widespread plant clade and identify areas of high exta
system: You are an expert grant writer specializing in European Union research funding proposals. You write compelling, well-structured proposal sections that demonstrate excellence, impact, and implementation quality, using precise EU terminology and following best practices for Horizon Europe, Horizon 2020, and earlier framework programmes.

user: Compose the 'State of the Art and Innovation' section for a Seventh Framework proposal on 'Genomic of adaptation in selfing polyploid species: the case of Capsella bursa-pastoris'.

assistant: **Innovation**

The main goal of this IEF proposal is to allow the fellow to acquire all the competencies to develop, carry out, and lead his own research group in plant population genomics integrating functional approaches, with a special emphasis on the use of next generation sequencing (NGS) data. The fellow will complement his skills in theoretical population genetics and evolutionary genomics by acquiring new skills in the analyses of population genomic data, gene expression, and association mapping. Thanks to NGS technologies, the combination of these approaches is becoming pivotal in the study of natural populations.  This will be done through an innovative research project, which aim is to tackle the paradox of adaptation in selfing species, which can be successful on the short term, though selfing is expected to be a evolutionary dead-end strategy on the long term. Polyploidy and efficient local adaptation could be key issues to resolve this paradox. We propose to address this question by combining population genomics, gene expression and association mapping to analyse the genetic bases and the geographical scales of adaptation in Capsella bursa-pastoris, a polyploid selfing that has a large distribution and has adapted to contrasted environments, despite its low genetic diversity. Genomic data are increasingly available in the genus Capsella and the host’s lab has strongly contributed in establishing C. bursa-pastoris as a wild model species. The project will strengthen collaborations between European partners on plant population genomics, an important field in the context of the knowledge-based bio-economy. Importantly, as many crops and weeds are selfers and/or polyploids (eg. wheat, potato), the results should be easily transferable for the identification of genes of inter
system: You are an expert grant writer specializing in European Union research funding proposals. You write compelling, well-structured proposal sections that demonstrate excellence, impact, and implementation quality, using precise EU terminology and following best practices for Horizon Europe, Horizon 2020, and earlier framework programmes.

user: Write the concept and methodology overview for 'The new ischaemic syndromes: stunning, hibernation, remodelling and preconditioning: molecular biology, pathophysiology and clinical relevance' under Fourth Framework.

assistant: **Concept**

To create a network resource between european scientists already involved in the investigation of the basic molecular and cellular mechanisms of precondition, stunning, hibernation and remodelling. The network will be utilized to define a unified terminology and protocols, as well as experimental and clinical procedures to be followed by the partners. This will provide a large database and registry of scientific information, including a bank of experimental sources for specialized analysis in individual laboratories.There are several possible outcomes of myocardial ischaemia which have been named 'stunning', 'hibernation' and 'remodelling'. Although all these new ischaemic syndromes have in common a left ventricular dysfunction, the underlying pathophysiology is different and not yet fully understood. Treatment is also different. It has been recognized that a short period of ischaemia can protect the heart against subsequent lethal ischaemic injury. This condition has been termed 'ischaemic preconditioning'. The pathophysiology behind this syndrome is also unknown. Lack of understanding is in large part due to the immense complexity of these different and yet related conditions.In particular it will be determined: 1) for ischaemic preconditioning: the role of adenosine, Protein Kinase C (PKC), myocardial G proteins, K+-ATP channels, heat-stress proteins, stretch, microvascular dysfunction, endothelium-derived substances, bradikinines, platelet and leucocyte accumulation; 2) for stunning: the role of oxygen free radicals, mitochondrial DNA damage, reduced sensitivity of the myofilaments to calcium, abnormalities of the GAP junction and of cell surface; 3) for hibernation: it will be determined whether this represents an adaptive or a degenerative phenomenon and what are
system: You are an expert grant writer specializing in European Union research funding proposals. You write compelling, well-structured proposal sections that demonstrate excellence, impact, and implementation quality, using precise EU terminology and following best practices for Horizon Europe, Horizon 2020, and earlier framework programmes.

user: Describe the novelty, innovation potential and advance beyond the state of the art for 'Antarctic Research, a European Network for Astrophysics' (ARENA).

assistant: **Innovation**

The Antarctic Plateau provides unique environmental conditions for astronomical observations. Astronomers are seriously considering Antarctica as a possible site for the construction of a new large observatory mainly dedicated to infrared and very high angular resolution observations to investigate extra-solar planets, the formation and evolution of planets, stars and galaxies, and cosmology. Two member states, Italy and France, have recently completed the all-year round operated station CONCORDIA at Dome C, in the heart of Antarctica. The present programme is aimed to structure, reinforce and network several European laboratories and operators involved or willing to be involved in Antarctic astronomical investigations with the final objective to set up front-edge large instruments and focal equipments in the coming decade. The network consists of 4 activities in addition of the overall management. Number one concerns the site qualification, #2 aims to identify the technical polar constraints on the design of large astronomical instruments emphasising robotisation; #3 will foster collaborations between the operators of CONCORDIA and their users to add value to CONCORDIA, and #4 will focus on the selection of appropriate scientific key programs, implemented in synergy with ground based and space missions. Requested funds will contribute to the currently on-going site qualification, and will help structuring the still dispersed and scarce teams of European astronomers through organizing specialized workshops putting in close contact operators, users and industrial partners, and annual large international Conferences. The networks will deliver a detailed report on the site qualification over a period of 3 years,industrial reports and studies addressing the problematic of b
system: You are an expert grant writer specializing in European Union research funding proposals. You write compelling, well-structured proposal sections that demonstrate excellence, impact, and implementation quality, using precise EU terminology and following best practices for Horizon Europe, Horizon 2020, and earlier framework programmes.

user: Draft an executive summary for the EU project 'Why does Clostridium botulinum kill? – In search for botulinum neurotoxin regulators' (2014-2020) targeting Horizon 2020.

assistant: **Abstract**

Bacterial toxins cause devastating diseases in humans and animals, ranging from necrotic enteritis to gas gangrene and tetraplegia. While toxin synthesis probably endows these bacteria with a selective advantage in their natural habitats, toxigenesis is likely to represent a fitness cost. It is thus plausible that mild environments encourage bacteria to give up toxin production, or reduce the number of toxigenic cells in populations. The cellular strategies bacteria use to silence toxin production and to establish stably non-toxigenic subpopulations represent targets for innovative antitoxin and vaccine strategies that can be utilized by the food, feed, medical, and agricultural sectors. I have found the first repressor that blocks the production of the most poisonous substance known to mankind, botulinum neurotoxin (BOT). This toxin, also known as “botox”, kills in nanogram quantities and is produced by the notorious food pathogen, Clostridium botulinum. In whyBOTher, I will extend the knowledge from this single regulator to comprehensive understanding of how C. botulinum cultures coordinate BOT production between single cells and cell subpopulations in response to their physical and social environment, and which genetic and plastic cellular strategies the cells take to attenuate BOT production in short and long term. I will experimentally force evolution of BOT-producing and non-producing cell lines, and explore the genetic, epigenetic, and cellular factors that explain the emergence of the two cell lines. To achieve this goal, I will extend the research on C. botulinum biology in two dimensions: from population level to fluorescent single-cell biology, and from genomic information to functional analysis of regulatory and metabolic networks controlling BOT production.
system: You are an expert grant writer specializing in European Union research funding proposals. You write compelling, well-structured proposal sections that demonstrate excellence, impact, and implementation quality, using precise EU terminology and following best practices for Horizon Europe, Horizon 2020, and earlier framework programmes.

user: Write clear, measurable objectives and define the scope for the project 'Stilbene and entomopathogenic nematodes: Unlocking the potential' (STEPN-UP) under Horizon 2020.

assistant: **Objectives**

Bacteria frequently form intimate associations with a eukaryotic host where they may have critical roles in the development, behavior, and/or functions of their animal symbiont. While the underlying molecular mechanisms are poorly understood there is increasing evidence that the bacteria are employing proteins or molecules to send signals to their host. My goal is to understand the inter-kingdom signalling that occurs between a bacterium and its animal host using, as a model, the interaction between an entomopathogenic nematode (EPN) called Heterorhabditis and its symbiotic bacterium, Photorhabdus.EPNs are soil-dwelling organisms that utilize a bacterial symbiont to kill their insect targets. Photorhabdus produces a bioactive secondary metabolite called stilbene (ST). ST is used as an antibiotic and a virulence factor. Furthermore, ST is required for nematode growth and development suggesting that ST may be an important inter-kingdom signalling molecule. In this vein, the proposed project will investigate fundamental aspects pertaining to host-symbiont evolution and interactions by: 1) investigating the evolutionary history of ST synthesis proteins, 2) determining the nematode response to ST, and 3) engineering increased ST production.Aside from scientific advances, this fellowship would enable me to attend University College Cork (UCC) where beneficial training and knowledge will be obtained. For example, UCC provides training workshops on presentation skills, project management, and grant writing among others and aids in career management plans. Furthermore, I will learn new laboratory techniques and knowledge from this project. On the other hand, I will be able to bring my expertise in bacterial research to the host laboratory. This fellowship will have a significant
system: You are an expert grant writer specializing in European Union research funding proposals. You write compelling, well-structured proposal sections that demonstrate excellence, impact, and implementation quality, using precise EU terminology and following best practices for Horizon Europe, Horizon 2020, and earlier framework programmes.

user: Compose a compelling abstract for 'MOLEMAX TVP TECHNOLOGY VALIDATION OF DIGITAL EPILUMINESCENCE' demonstrating excellence, impact and implementation quality for a Fourth Framework call.

assistant: **Abstract**

The project target of MOLEMAX is the validation of the new concept of Digital Epiluminescence Microscopy System (DELM) for early detection of melanomas with application partners in Austria and Sweden. In all participating countries local intermediaries will train and monitor the process and perform the dissemination activities leading to subsequent diffusion of the system. The innovative MOLEMAX system allows the performance of computerised melanoma detection.
system: You are an expert grant writer specializing in European Union research funding proposals. You write compelling, well-structured proposal sections that demonstrate excellence, impact, and implementation quality, using precise EU terminology and following best practices for Horizon Europe, Horizon 2020, and earlier framework programmes.

user: Explain the overall concept, methodology and approach for the project 'Oceanic seamounts: an integrated study' (OASIS).

assistant: **Concept**

Seamounts are of great interest to science, industry and conservation because of their potential role as 'stirring rods' of the oceans, their enhanced productivity, their high local biodiversity, and the growing exploitation of their natural resources. This is accompanied by rising concern about the threats to seamount ecosystems, e.g. through over-fishing and the impact of trawling. Based on two case studies, OASIS will make a holistic approach to yield an advanced understanding of the processes characterizing seamount ecosystems. The scientific knowledge gained, condensed in a conceptual ecosystem model will be applied to outline a model management plan as well as site-specific management plans for the study sites. The scientific results and the management options derived will be made available to policy makers and stakeholders, to facilitate measures for the conservation and sustainable exploitation of these biodiversity hot spots"."
system: You are an expert grant writer specializing in European Union research funding proposals. You write compelling, well-structured proposal sections that demonstrate excellence, impact, and implementation quality, using precise EU terminology and following best practices for Horizon Europe, Horizon 2020, and earlier framework programmes.

user: Explain the overall concept, methodology and approach for the project 'Visualizing Death Inducing Protein Complexes' (VIDEC).

assistant: **Concept**

Every day billions of cells die in our bodies as part of normal healthy processes. These cell deaths are called “regulated cell deaths” as they occur through the activation of genetically encoded molecular machinery.  However, too little or too much cell death is the cause of various diseases and of illness caused by exposure to chemicals. Understanding these cell death processes and how they are controlled may lead to new treatments for disease as well as explaining why some chemicals are hazardous. Regulated cell deaths as exemplified by apoptosis, necroptosis, and pyroptosis are induced by the formation of protein complexes. Here, we will develop new molecular tools to visualize the formation of the protein complexes in live cells and tissues and then use these tools to study cell death in normal and disease processes.  Our consortium includes cell death experts, bioluminescence experts, zebrafish experts, as well as structural, developmental, molecular and cell biologists in industry and academia. The proposed research network will provide intersectoral mobility between laboratories expert in complementary skills. This will drive the development of the new tool and enhance the researchers’ career prospects. The research is of importance to many citizens of the EC; it will contribute to increasing food security by improving aquaculture, improving the health of aging populations through the study of degenerative diseases, improving toxicity assessment to better protect citizens from chemical hazards and improving the drug-development by better identification of adverse effects. Moreover, the assays emerging from the research will be commercialized by the industrial partners in the network, so supporting economic development within the EU.


**Keywords:** Apoptosis, Ne