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 the overall concept, methodology and approach for the project 'Designing synthetic regulatory domains to understand gene expression' (SYNREG).

assistant: **Concept**

How the genome controls precise, cell-type specific gene expression is crucial for cell identity and differentiation. Short cis-regulatory elements, such as enhancers, are distributed in extended regulatory domains surrounding their target gene, which in mammals typically span hundreds of kilobases. Although all evidence indicates that gene regulation is controlled by the combined action of large domains, our current understanding mostly focuses on enhancers. If and how intervening DNA sequences, enhancer order, or spacing within regulatory domains contribute to gene regulation is unknown. The reason for this largely unexplored aspect lies in our limited ability to systematically alter large genomic regions. In this study, we will use recent advances in synthetic biology to overcome this limitation. From synthetic DNA, we will create variants of entire gene regulatory domains and integrate these into mouse embryonic stem cells. We will test synthetic regulatory domain function in tailored gene expression analyses using cell culture, organoid, and in vivo models. By investigating regulatory elements with respect to their surrounding regulatory domain, we will uncover hidden rules of gene regulation.In variant regulatory domains we will systematically assay understudied parameters, such as enhancer spacing, order, or inter-enhancer sequences. We will use single-molecule methods to measure gene expression level; use organoid and in vivo systems to profile cell-type specific changes in expression patterns, and we will use the unique potential of synthetic DNA to understand the fundamental link between DNA sequence and chromatin composition of regulatory domains. With this interdisciplinary approach, we aim to uncover previously hidden layers of genomic information. The insi
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 'Role of serpinB1 in cellular homeostasis in the bone marrow and the lung' (SERPINB1).

assistant: **Concept**

Neutrophils are short-lived leukocytes with vital functions in host defense. Neutrophils are massively recruited to extravascular sites in response to danger signals. This immediate, life saving, inflammatory response can turn against the host if its intensity and duration are dysregulated leading to tissue injury and/or failed immune response to pathogens. The dual protective/pathologic role of neutrophils is reflected by the functions of neutrophil serine proteases, potent granule enzymes that hydrolyze other proteins. Neutrophil serine proteases (or NSPs) directly kill pathogens after fusion of the NSP-rich granules with the microbe-containing phagosome. However, when released extracellularly and in excess of the anti-protease shield, NSPs are harmful by fueling the inflammatory response and by destroying extracellular matrix proteins and immune defense proteins. The aim of the proposed work is to investigate the regulation of NSPs by the serpin (SERine Protease INhibitors) family of proteins in health and disease. Specifically, we will study the role of serpinB1, one of the best inhibitors of the three NSPs: neutrophil elastase, cathepsin G and proteinase-3. We have previously shown that (i) serpinB1, a cytoplasmic inhibitor of NSPs carried at high levels in neutrophils, provides a physiological and vital shield against pathologic actions of NSPs during lung infection, and (ii) serpinB1 prevents the early death of neutrophils during infection. Our preliminary data now indicates that serpinB1 is required to preserve the size of the neutrophil reservoir in bone marrow and protects lung epithelial cells against NSPs. The proposed work will elucidate the protective functions of serpinB1 in myeloid cells and lung epithelial cells. Overall, these studies will provide high
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 'Ethological and endocrinological aspects of the female reproductive behaviour of the Eurasian badger - meles meles' demonstrating excellence, impact and implementation quality for a Fourth Framework call.

assistant: **Abstract**

Badgers are among Europe's most endangered mammals. For effective conservation and understanding their role in transmitting bovine tuberculosis detailed knowledge of their reproductive and social system is essential. But so far little is known about their reproductive biology. This will be the first study concentrating on behavioural changes of individual females in relation to their reproductive state. Female behaviour will be observed by radiotracking and IR-light sensitive video cameras. The main sett area above ground will be video-monitored continuously and very small cameras will be installed inside the dens. As badgers were never observed before in their natural dens, these recordings will provide new insights in their social life and reproductive behaviour. New non-invasive methods will be applied to quantify levels of sex-hormones and corticosteroids in faeces to determine the reproductive state (oestrus-cycle/gravidity) and levels of social stress in breeding and nonbreeding females, thus investigating the mechanisms of reproductive suppression.
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 a project proposal abstract for 'Cellular crosstalk driving Tertiary Lymphoid Structure formation across tissues' to be submitted under Horizon Europe.

assistant: **Abstract**

Formation of Tertiary Lymphoid Structures (TLS) is a recurring consequence of chronic tissue inflammation and autoimmunity, as well as several solid tumours. TLS originate in various tissues from infiltrating cells attracted by local signalling cascades. These structures can enhance local immune response by, similarly to Secondary Lymphoid Organs (SLO), functioning as spots for lymphocyte activation upon antigen recognition. However, the cellular interactions driving TLS emergence and function across tissues are not fully known. This proposal aims to unravel and characterise the cell-cell interactions involved in the formation and maintenance of TLS, in particular their tissue specificity and relationship to autoimmune diseases. A comprehensive understanding of intercellular interactions will be obtained from publicly available and newly generated single-cell RNA-sequencing (scRNA-seq) datasets from TLS-containing tissues of autoimmunity patients. Molecules involved in key signalling interactions will be spatially resolved by assessing their tissue expression using spatial transcriptomics. Then, using mouse models where TLS triggering can be controlled, scRNA-seq data will be obtained to outline a time course of TLS formation in different tissues, revealing the temporal role of the discovered interactions and their specific function in each tissue and when compared with SLOs. Finally, regulation and downstream effects of ligands and receptors will be unraveled with multiome (RNA+open chromatin) sequencing using human tonsil organoids. The observed effects will be generalised to other tissues using machine learning and deep learning models, resulting in a tissue-specific reference of signalling and regulatory genes controlling TLS biogenesis. Overall, this project aspire
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 a project proposal abstract for 'Optical Imaging and Laser TEchniques for BIomedical Applications' to be submitted under Seventh Framework.

assistant: **Abstract**

OILTEBIA (Optical Imaging and Laser TEchniques for BIomedical Applications) is an Initial Training Network (ITN) that seeks to train researchers in a multidisciplinary environment where pulsed laser technology, sensor and signal processing techniques meet in the biomedicalenvironment to achieve novel optical imaging technologies from bench to bedside, spanning from basic research and drug discovery to preclinical imaging and clinical translation.Our particular focus is the development of novel probes and tomographic techniques using the broad range of information obtained from scattered light, diffuse light, the optoacoustic effect and fluorescence of targeted tracers. This will be accomplished by advances in new imaging  modalities that allow non-invasive or minimally invasive interrogations of function and gene-expression in living subjects on different scales from tissue samples to vertebrae laboratory animal models to humans.The trainees will take advantage of the unique combination of physics, bioengineering, biology and medical training. Their careers will be opened up to multiple paths within academia, research laboratories and industry. The activities of the network will be closely followed by industry, represented in OILTEBIA by leading industry full partners (VERMON, SACHER and PHILIPS) and several associated industrial partners.OILTEBIA has set-up a sophisticated and well coordinated programme in Optical Biomedical Imaging at a European Level. The programme training activities include on-site courses, joint laboratory training platforms, common training courses at summer schools as well as shortcourses. Since the cooperation between academia and industry is the priority of OILTEBIA, Vermon, Sacher and Philips and the associated partners will actively particip
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 'Software Process Improvement and Capability determination for object-oriented / COmponent-based software dEvelopment' (OOSPICE).

assistant: **Concept**

Component Based development (CBD) is a key for improving time-to-market, productivity, quality and re-use in software development. OOSPICE focuses on the processes, technology and quality in software development using component-based development (CBD). Based on principles of empirical software engineering it combines in innovative way four major concepts: CBD, object-orientated development, process assessment and software process improvement. Its main objectives are therefore a unified CBD process metamodel, a CBD assessment methodology, delivering component-provider capability profiles, a new CBD methodology and extensions to the ISO 15504 process assessment standard. The project involves pre-eminent world experts. It will help to a foundation of a component market for enabling Europe, also its SME's, to better compete globally.Work description:A 'CBD Process Model' will be defined, broad enough to accommodate differing CBD techniques used in both commercial and public procurement. It will be based on the partner's own experience, the experience of the user partners in the project, as well through extracting from existing best practices, tools, and approaches those elements which are common and widely used. The 'Assessment Model' will expand the reference model by adding the definition and use of indicators of process performance and process capability. The indicator set will define the practices, generic work products and their characteristics that will be used as a basis for assessing the processes and their capability. The result of an assessment will be a profile of processes where each major process within CBD is evaluated and ranked according to its maturity, providing benchmarks for identifying and monitoring improvements. A 'Generalised Assessment Method' will
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 'Concept and Approach' section for a Seventh Framework proposal on 'A physical basis for wing morphogenesis and planar cell polarity'.

assistant: **Concept**

During development, physical forces are generated in precise patterns and produce elegant choreography of cell movements that determine tissue shape. The function of many tissues depends not only on their shape, but on the correct alignment of planar cell polarity within the tissue. Remarkably, recent evidence from my lab has suggested that physical forces not only shape the wing, but also align the planar polarity of its constituent cells with the proximal distal wing axis. The wing blade is remodeled at pupal stages by proximal-distal stretching caused by contraction of the wing hinge. Hinge contraction produces precise patterns of oriented cell rearrangements and cell divisions in the wing blade that lengthen it proximo-distally and refine its shape. The polarity of cell rearrangements also re-orients intracellularly polarized complexes of Planar Cell Polarity (PCP) proteins to face the distal side of the wing. This occurs because these complexes turn over very slowly, compared with the rate of cell rearrangement. We will investigate three problems defined by this work. First, how does polarized cell stretching cause epithelial remodeling? The pupal wing is the first in vivo example of this process in a genetically and physically accessible model. Second, what are the genetic, cellular, and physical mechanisms that specify the pattern of cellular flow occuring in the wing blade? Third, what signals orient PCP during early wing development? This previously undescribed early polarity is oriented roughly perpendicular to the final direction, is a critical starting point for the later development of proximal-distal polarity. This work will provide important insight into genetic, cellular and physical mechansisms that shape and polarize tissues.
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 'The Perturbative Scattering Amplitude Bootstrap' (AmpBoot) targeting Horizon Europe.

assistant: **Abstract**

The Standard Model of particle physics represents one of the major achievements of modern science, and with the discovery of the Higgs boson at the Large Hadron Collider its predictions have been tested to unprecedented levels of precision. These measurements will continue to improve as more data is collected in the coming years, allowing us to probe the fundamental laws of physics to an unparalleled degree. However, to benefit from these measurements, the precision with which we can make theoretical predictions in quantum field theory must also be drastically improved. This in particular requires improving our understanding of scattering amplitudes, which provide essential input for these calculations.While scattering amplitudes are notoriously difficult to compute, they have been found to exhibit an immensely rich mathematical structure, with deep ties to number theory, algebraic geometry, and string theory. These connections have recently fueled a revolution in our ability to compute highly nontrivial amplitudes in supersymmetric theories to unprecedented levels of precision. Building on this progress, I propose three lines of investigation for developing the same level of insight into the mathematical structure of Standard Model amplitudes, and for bypassing the difficult integration problems that have traditionally been required for their evaluation:1) the derivation of new constraints on the analytic structure of amplitudes from basic physical requirements such as causality and locality2) an in-depth study of the types of special functions that appear in amplitudes and the development of new tools for working with them3) the development of perturbative bootstrap methods for Standard Model amplitudesThese lines of research will give rise to deep new insights into t
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 the 'Objectives and Scope' section of a Horizon 2020 proposal for the project 'An Open Superconducting Quantum Computer'.

assistant: **Objectives**

OpenSuperQ aims at developing a full-stack quantum computing system of up to 100 qubits and to sustainably make it available at a central site for external users. This system will be applied to tasks of quantum simulation in quantum chemistry which serve as a high-level benchmark, and to problems related to optimization and machine learning. The core of the system will be a processor of superconducting qubits of the planar transmon type, with a square 2D layout and nearest-neighbour connectivity. The processor will be packaged with a control chip and integrated in a custom-made cryogenic system. This quantum computing system will be equipped with integrated control soft- and hardware ready for applications. The computer will be among the leading platforms in the world, and the first of its kind in Europe. A distinguishing and globally unique feature of OpenSuperQ is its open approach ready to serve a large community of users of the system as well as of underlying technologies.  The OpenSuperQ consortium works in a collaborative way with broad distribution of tasks and brings together theoretical and experimental teams, a central site including a high-performance computing center, and technology companies. It is supported by an advisory board, a basic science group, and a user board.  This broad approach will lead to near-term exploitation, multi-level communication and will develop interfaces and standards made available to the quantum technology community at large.


**Keywords:** Quantum computing, quantum simulation, quantum control, quantum algorithms, quantum engineering, cryogenics, quantum-limited amplification, Josephson junctions, superconductivity, cryoelectronics
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 'New Life for Biowaste as a sustainable Soil Improver' (FENIX) targeting Horizon Europe.

assistant: **Abstract**

With a share of 34 %, bio-waste is the largest single component of municipal waste in the EU. Recycling of bio-waste is key for meeting the EU target to recycle 65 % of municipal waste by 2035.Bio-waste can significantly contribute to a more circular economy, delivering valuable soil-improving material and fertiliser as well as biogas, a source of renewable energy. Biochar is a pure, high carbon form of charcoal, obtained through the pyrolysis of biomass, such as bio-waste. Biochar helps regenerate soils by enhancing water-holding capacity, nutrient uptake, soil fertility stimulating microbial activity and diversity and acts as a carbon sink.However, a lack of understanding and evidence of the agronomic benefits and economic returns mean that biochar faces barriers to become a widespread soil improver.  Biogas from anaerobic digestion (AD) is a renewable energy source. Yet the cost of disposal of its effluents (digestates) reduces profitability and uptake of new AD projects, even though the digestate is rich in nutrients and can be used as a biofertilizer. Research shows that the combination of digestate and biochar creates a biofertilizer with increased fertility, improved stability and excellent soil regeneration properties. Furthermore, biochar could be a powerful additive to enhance microbiological activity in AD plants. The FENIX project will optimise Biochar for different soils using AD digestate. FENIX will demonstrate the agronomic and economic returns of its soil improver in field tests (TRL 8) in three countries in the West and South of Europe. FENIX brings together partners that cover the full value chain and with entrepreneurs that will be ready to take up the project results. Successful completion of the project will contribute to the recovery of abandoned