AI for Life

The AI for Life research program harnesses artificial intelligence to deepen our understanding of living organisms, from healthy states to complex diseases. Our research integrates diverse, longitudinal, and interventional data with expert knowledge to develop AI-driven technologies which improve biological understanding, facilitates diagnosis, open new treatment pathways, and support patients.

By collaborating with biomedical experts and healthcare professionals, we design models that help uncover disease mechanisms, from cancer and neurodegenerative conditions to mental health disorders and rare diseases. Through industrial partnerships, we build models and systems which support the discovery of new treatments and optimize drug discovery pipelines. We also create assistive technologies that enhance quality of life, improve communication, and foster more inclusive healthcare solutions. By enabling individuals to engage with their own health data, our research bridges knowledge gaps in disease understanding and generates compelling evidence for novel therapeutic approaches.

Ongoing projects

AI2PUB

Artificial Intelligence (AI) has become a powerful and pervasive technology in recent years, influencing numerous aspects of our daily lives. We encounter AI through recommendation algorithms in online stores, voice-activated smartphone assistants, or the widespread use of technologies like ChatGPT. However, its rapid growth and integration into society raise complex questions and concerns among the public. Public opinions on AI vary widely; while some people are enthusiastic about its potential to revolutionize industries and enable breakthroughs in fields such as medicine, others fear that AI could lead to undesirable outcomes, such as a loss of human control or privacy. These views are often shaped by media narratives and the competing interests of different stakeholders, which play a significant role in influencing both public opinion and policy decisions.

Our team of scientists and communication experts aims to enhance the understanding of AI technologies among the Swiss people, with a particular focus on teenagers and female students, to create a positive societal impact. Building on the foundations of our previous project, NewsOnAI, we will expand beyond traditional media such as newspapers and employ diverse methods, including artistic performances and interactive exhibitions. We will design these activities to be highly interactive, encouraging active participation and dialogue. Activities will include themed theater plays that explore AI’s impact on everyday life, exhibitions where participants can interact with AI tools, and workshops specifically designed for teenagers and female students to discuss AI’s future role in society. Feedback collected will include real-time audience reactions, structured questionnaires, and focus group discussions, which will be analyzed to continuously refine and adapt our engagement strategies.

Our primary audience includes Swiss citizens interested in cultural activities, particularly teenagers who are keen to follow new trends. Additionally, we are committed to addressing gender aspects by designing content and activities that specifically appeal to female students. We aim to inspire and empower young women to take on more prominent roles in shaping the digital world, acknowledging that they have historically been underrepresented in these fields. As societal attention shifts toward greater inclusion, our project will contribute to fostering a more balanced and equitable digital future.

While many individuals in our target groups may lack in-depth technical knowledge of AI, they often encounter new AI products, companies, and social issues through various media channels, including newspapers and science fiction movies. As a result, they may be aware of recent developments but also susceptible to misunderstandings and controversies related to technologies such as ChatGPT, Elon Musk's brain-chip startup, and other emerging AI applications. It is crucial to recognize that media portrayal significantly influences public opinion on AI, both positively and negatively. Media creators, even if they are not experts in AI, often produce content that captures public attention, which high-profile figures, including entrepreneurs, CEOs, and politicians, may leverage to advance their agendas. This can sometimes lead to skewed public perceptions, whether intentionally or unintentionally. Given this landscape, it is essential for AI scientists to collaborate with media creators, providing evidence-based insights to ensure accurate and balanced information is shared with the public. Our project fosters such collaboration, ensuring that both the potential and limitations of AI are clearly communicated. By sharing our findings through diverse media outlets, we aim to reach a broad audience, extending beyond Switzerland. Furthermore, our proactive engagement efforts will foster dynamic, two-way communication between scientists and the public, using interactive methods in exhibitions and theater plays to engage teenagers and female students specifically. Analyzing the feedback from these initiatives will provide invaluable insights into public perspectives on emerging technologies. This understanding will guide scientists in pursuing research directions that effectively address societal concerns, demonstrating the tangible benefits of our project for both scientific advancement and societal well-being. We anticipate that our efforts will have a multiplying social impact over time, promoting informed public discourse and a deeper understanding of AI technologies.

CHASPEEPRO

Oral verbal communication represents the main communication channel among humans. In most communication contexts, speakers must speak clearly and accurately in order to be intelligible. Intelligible speech can be disrupted in a variety of conditions of motor speech disorders (MSD). MSD in adults refers to a broad set of altered speech dimensions (articulation, speech rate, voice, prosody) in the course of several neurological diseases, which can dramatically impact patients’ communication. MSDs are due to disruption in the processes transforming a linguistic message intoarticulated speech, i.e., (a) the retrieval/encoding, contextualization and coordination of speech goals into a speech plan, (b) the preparation of motor programs with detailed neuromuscular specifications, and (c) the execution of these programs. Impairments atthese different stages have been associated with different MSDs, with apraxia of speech(AoS) associated with impairments at the first stage, i.e., the planning stage, and dysarthria associated with impairments at the programming or at the execution stage. Nonetheless, defining planning and programming stages, as well as distinguishing impairments at these two levels in terms of speech features and clinical differential diagnosis, is far from being clear-cut. This proposal builds on the successful outcomes of the Sinergia MoSpeeDi project (2017-2021, https://www.unige.ch/fapse/mospeedi/) led by the same multidisciplinary consortium. Thanks to the complementary expertise in speech and language pathology, psycholinguistics, neurology, phonetics, and speech engineering, we have collected an impressive database of MSD speech, have developed procedures sensitive enough to assess and classify mild and moderate MSD, and have obtained converging experimental evidences for the characterization of processes occurring at the planning and motor programming stages. This knowledge gained from carefully designed experiments and laboratory settings should now be expanded to speech production elicited in a more natural clinical setting. The distinction between speech planning and programming processes should also be further tackled to overcome the difficulty in defining and operationalizing processes at these two stages. With the overarching goal of understanding and modelling speech planning and programming and their related disorders, we will pursue our synergic approach based on the integration of methods and on the convergence of evidence obtained with experimentally induced speech behaviours, electrophysiological brain signals, and acoustic analyses of typical and impaired speech. Based on the results and expertise developed in the ongoing project to pinpoint speech planning and programming and to classify speakers and speech samples, in this project we propose to (a) develop assessment and classification methods applicable to realistic clinical constraints and needs, (b) build on the convergence of phonetic knowledge-based approaches and knowledge-free approaches, (c) enrich our set of acoustic descriptors in order to capture alterations at different scales of speech organization, and (d) complement acoustic-based characterization of speech planning, programming, and MSD classification with EEG signals. The outcomes of the project will rely on substantial data of disordered speech collected from over 180 French speaking participants with different types of MSDs including AoS and subtypes of dysarthria following stroke or neurodegenerative diseases. Results will be used to challenge current models of speech production which need to integrate data from MSD and will contribute to the development of speech assessment systems adapted to atypical speech and to the needs of clinical practice.

DREAM

Project DREAM aims to develop a scalable foundation model for multi-channel EEG signal analysis, spanning from basic polysomnography to high-density and intracranial recordings. The goal is to create a unified AI model capable of adapting to various EEG configurations while maintaining simplicity, interpretability, and computational efficiency. By leveraging convolutional neural networks and attention mechanisms, the model will extract robust features for diverse tasks, including sleep stage classification, epilepsy detection, and cognitive function assessment. Collaborations with leading hospitals will provide real-world datasets for validation, ensuring the model’s generalization. Ultimately, this project seeks to advance AI-driven biomedical signal processing, enhancing diagnostic and monitoring capabilities in neurology and sleep medicine.

DROSOPHILAFBA

This project aims to understand how evolution shapes animal physiology in response to prolonged exposure to juvenile undernutrition, whereby juvenile animals are forced to grow and develop in spite of chronic nutrient shortage. It will address four general questions:(1) In what way can evolution modify metabolism of a growing juvenile animal to alleviate consequences of undernutrition for Darwinian fitness?(2) What changes in allocation of metabolic resources does this adaptation entail?(3) To what degree are these changes mediated by genetic variants in 'master' genes with large effects on multiple aspects of the adaptation?(4) To what degree is evolution of tolerance to poor diet mediated by genetic variants in genes that regulate growth (i.e., the 'demand' for biomass building blocks) versus genes whose products catalyze and regulate their acquisition and allocation (i.e., the 'supply' side of growth)? The project will use lines of Drosophila melanogaster characterized by extraordinary genetically-based tolerance to larval undernutrition, a unique resource generated through >17 years of laboratory experimental evolution. To address the above questions, we will elucidate causal changes in growth regulation and metabolism underlying this highly polygenic and phenotypically complex evolutionary adaptation. First, we will quantify the rate of amino acid turnover and the allocation of resources to different components of biomass (proteins, triglycerides, glycogen, etc.) in the 'Selected' (malnutrition-tolerant) and 'Control' (unselected) larvae. Together with gene expression data, these data will be used to model the core metabolic network of Drosophila. This will generate testable predictions about differences in metabolic fluxes underlying malnutrition tolerance and identify nodes of the metabolic network critical for differential fluxes and resulting allocation patterns (question 1 and 2). It will also be used to evaluate the roles of nutrient supply versus demand on metabolic output in shaping the patterns of metabolic flux (question 4).Second, we will verify the contribution of a cis-regulatory variant in an ecdysone oxidase gene fiz to enhanced tolerance to undernutrition, and test whether the adaptive value of this variant is contingent on the presence of other elements of this complex adaptation. fiz emerged as a candidate with potential large effects on this adaptation (questions 3); it is thought to regulate growth by deactivating ecdysone, but this hypothesis appears incompatible with the direction of its effects on growth. To elucidate the effect of variation in fiz on ecdysteroid signaling we will study its effect on the abundance of different ecdysteroid species, identifying those most likely to mediate its growth-regulating effect. Third, we will combine the two above threads by investigating how fiz expression affects the rate of nutrient acquisition, metabolite abundance and the allocation of metabolic resources. Given that fiz is thought to act by modulating the demand for key metabolites, we will be able to ascertain to what degree increased demand for biomass building blocks has effects that propagate through metabolism and affect resource allocation question 4). To achieve these aims, we will combine experimental evolution with state-of-the art approaches, including genome editing, metabolomics, isotope tracing, high resolution mass spectroscopy and genome-scale flux balance analysis. This project will advance our understanding of a poorly understood and ecologically important evolutionary adaptation. It will also throw light on the broader fundamental question of how changes indifferent metabolic and regulatory elements interact to generate complex adaptations that enhance Darwinian fitness under conditions of environmental stress. Through novel application of recent experimental techniques and system-scale computational models the project will expand the boundaries of dissecting this complexity.

Past projects

ABROAD

Construction of a Natural Language Processing (NLP) infrastructure to support domain experts in biomedical discovery over large scientific textual bases (papers and patents). ABRoad aims to develop an NLP software infrastructure which will support biomedical discovery using large-scale textual interpretation over scientific text (papers and patents). The project will use state-of-the-art methods in Deep Learning based text representation, such as transformers and graph neural networks, to support specialised inferences over large-scale corpora. The project aims to provide a universal (embeddings-based) textual interpretation platform to support the identification of new hypotheses in the life science space. The platform will integrate two main data modalities: textual and molecular representations. More specific target scenarios include support for drug discovery (e.g. drug repurposing), the determination of bioequivalent substances and the identification of novel antibiotics.

AI4AUTISM2

Nowadays, 1 in 59 children is diagnosed with autism spectrum disorders (ASD), which makes this condition one of the most prevalent neurodevelopmental disorders. The hereby project is grounded on the recognition that, on the one hand, early diagnosis at scale of autism in young children requires the development of tools for digital phenotyping and automated screening, through computer vision and Internet of Things sensing. On the other hand, current gold-standard approaches in autism are not intended to provide a precise quantitative estimate of ASD symptoms in children. We therefore aim to examine the potential of digital sensing to provide automated measures of the extended autism phenotype, for the purpose of stratifying autism subtypes in ways that would allow for precision medicine. Recent developments in digital sensing, big data and machine-learning have offered unforeseen opportunities for seamless sensing of body movement, social scene capture, and measure of object manipulation. Together, these tools are key for modeling social interactions and offer avenues for both improving screening and fine-grained characterization of autistic symptoms in young children. Despite considerable efforts invested to explore such automatic behavioral analysis, most studies in ASD digital phenotyping have been conducted on modest samples sizes, used mono-modal approaches, were focused on eliciting very specific behaviors by largely controlled prompts, and have suffered from technical difficulties in behavior sensing (view points, children population, image resolution for gaze). To address these limitations, we propose an interdisciplinary project combining the skills of experts in clinical research, engineering and computational social sciences in order to address these clinical, scientific, and technical challenges. It is grounded on the Geneva Autism Cohort consisting of young children with ASD and their age-matched typically developing peers, extensively assessed with gold standard standardized clinical and cognitive assessments, as well as neuroscience tools. Further, our preliminary results demonstrated that relying on a substantial dataset it is feasible to successfully train a deep neural network directly from on a global scene representation (people poses) to predict ASD with above 80% accuracy. This Sinergia proposal is set to stretch a giant leap forward, by investigating three key research directions. First, from a clinical research perspective, we will design digital tools for screening and automated profiling of autism phenotype. We will test these tools in a structured setting with well-established clinical protocol, as well as in a less structured environment (free play in day-care centers). Second, with Internet of Things (IoT) sensors, we will investigate the motor skills of very young children, through the integration of inertial and low-cost UWB indoor localization data. Additionally, we will develop a solution for the longitudinal monitoring of fine-grained motor skills development. Last but not least, our project is rooted in modern computational perception and machine learning. We will investigate novel deep learning and computer vision techniques by leveraging the availability of large behavioral and clinical annotation data. At the core of this effort, we will develop multimodal machine-learning methods and models for the analysis of motor and gaze coordination patterns which are at the core of ASD, and for ASD diagnosis and profiling with a focus towards interpretable models.

AI4MEDIA

Motivated by the challenges, risks and opportunities that the wide use of AI brings to media, society and politics, AI4Media aspires to become a centre of excellence and a wide network of researchers across Europe and beyond, with a focus on delivering the next generation of core AI advances to serve the key sector of Media, to make sure that the European values of ethical and trustworthy AI are embedded in future AI deployments, and to reimagine AI as a crucial beneficial enabling technology in the service of Society and Media. The AI4Media consortium, comprising 30 leading partners in the areas of AI and media (9 universities, 9 research centres, 12 industrial partners) and 35 associate members, will establish the networking infrastructure to bring together the currently fragmented European AI landscape in the field of media, and foster deeper and long-running interactions between academia and industry, including Digital Innovation Hubs. It will also shape a research agenda for media AI research, and implement research and innovation both with respect to cutting-edge technologies at the core of AI research, and within specific fields of media-related AI. AI4Media will provide a targeted funding framework through open calls, to speed up the uptake of innovations developed within the network. A PhD programme will further enhance links to the industry and the fostering and exchange of talent, while providing motivation to prevent brain drain, and a set of use cases will be developed by the network to demonstrate the impact of the achieved advances in the media sector. The Excellence Centre that is established during the AI4Media project, and the ecosystem that will grow around it, will provide a long-term basis for the support of AI excellence in Europe, long after the project end, with the aim of ensuring that Ethical AI guided by European values assumes a global leading role in the field of Media.

BIPED

Self-driving cars are around the corner. Biped uses such technology to help the blind and visually impaired walk safely and understand their environment. This project aims to build a completely novel deep learning architecture to reach improved performance, better scalability, and lower maintenance.

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