Research
Our primary focus is on optical cell biology, where we deploy open-technology we prototype to address standing biological problems. To do so, we focus on the development of novel optical imaging technologies and their application to the study of biological systems. We are particularly interested in the development of super-resolution microscopy methods and their application to the study of host-pathogen interactions, cell signaling, and immunology. Additionally, we are exploring the use of machine learning methods for the analysis of biological images. Our research lines touch the themes:
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Super-resolution microscopy: The lab has developed methods and algorithms for super-resolution microscopy such as SRRF, QuickPALM, NanoJ, and SQUIRREL. These are widely used analytical tools in the field.
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Cell biology: Several projects apply super-resolution microscopy to study cell signaling, T-cell immunology, and viral infection.
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Structural biology: The lab deploys super-resolution microscopy to study the structure of biological systems, such as viruses and the cytoskeleton.
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Image analysis: The lab develops tools like ZeroCostDL4Mic for analysis and quantification of complex 3D fluorescence microscopy data.
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Technology development: A core focus is developing new imaging technologies and making them accessible and open-source for the research community.
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Interdisciplinary research: Collaborations span areas like biotechnology, immunology, virology, and structural biology.
Current Projects
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SMALS - Smart Microscopy for Adaptative Live Super-resolution imaging to elucidate the initial steps of the HIV viral transmission Estibaliz Gómez-de-Mariscal Alias: SMALS Funded by: FCT - CEEC Individual Duration: Abril 2024 - Março 2027 |
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3D Nanoscope - a highly accessible, high-performance device for live cell nanoscopy Arturo G. Vesga Alias: 3DNanoScope4All Funded by: Marie Curie - HORIZON TMA MSCA Postdoctoral Fellowships Duration: Março 2024 - Fevereiro 2026 |
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Sub-cellular Metabolic Compartmentalization During Oocyte Development Zita Carvalho dos Santos, Ricardo Henriques, Jorge Carvalho Funded by: CZI - Measuring Metabolism Across Scales Duration: Janeiro 2024 - Dezembro 2026 |
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Decoding T cell receptor signalling and membrane topology Simao Coelho Funded by: FCT - Concurso Estímulo ao Emprego Científico Duration: Julho 2022 - Junho 2028 Publications: 1 |
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Real-Time high-content Super-Resolution Imaging of ES Cell States Eran Meshorer, Ricardo Henriques, Anna Kreshuk, Sandrine Lévêque-Fort, Nicolas Bourg, Genevieve Almouzni Alias: RT-SuperES Funded by: H2022 - EIC Pathfinder Open Duration: Abril 2022 - Março 2027 Publications: 16 |
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Enabling Live-Cell 4D Super-Resolution Microscopy Guided by Artificial Intelligence Ricardo Henriques Alias: SelfDriving4DSR Funded by: ERC - Consolidator Duration: Setembro 2021 - Setembro 2026 Publications: 35 |
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Mapping HIV-1 infection by 4D Super-Resolution Microscopy Hannah Heil Funded by: FCT - CEEC Individual Duration: Julho 2021 - Junho 2027 Publications: 4 |
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Unveiling live-cell viral replication at the nanoscale Ricardo Henriques Funded by: EMBO - Installation Grant Duration: Janeiro 2021 - Janeiro 2026 Publications: 28 |
Past Projects
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Quinoline-Derived Foldamers - A novel approach to combat antibiotic multiresistant and persistent Pedro M. Mateus, Pedro Matos Pereira, Ricardo Henriques Funded by: FCT - LS4Future Seed Funding Duration: Março 2024 - Setembro 2024 |
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How does membrane topology influence T-cell activation and HIV infection? Simao Coelho Funded by: FCT - Exploratory Research Projects Duration: Março 2023 - Setembro 2024 |
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Cutting-edge super-resolution image analysis in napari through NanoJ Bruno Saraiva, Ricardo Henriques Funded by: CZI - Applications - napari Plugin Foundations grants Duration: Janeiro 2023 - Dezembro 2023 Publications: 3 |
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High-resolution single-molecule imaging via 3D printing Simao Coelho, Ricardo Henriques, Pedro Matos Pereira Funded by: InnOValley - Proof of Concept Duration: Julho 2022 - Dezembro 2023 Publications: 1 |
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VP-CLEM-KIT - a pipeline for democratising volumetric visual proteomics Lucy Collinson, Ricardo Henriques, Paul French Funded by: CZI - Visual Proteomics Imaging Duration: Dezembro 2021 - Junho 2024 Publications: 19 |
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Mapping the early stages of HIV-1 infection by live-cell 4D Super-Resolution Microscopy Hannah Heil Funded by: EMBO - Postdoctoral Fellowships Duration: Setembro 2021 - Agosto 2023 Publications: 5 |
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Artificial Intelligence for Image Data Analysis in the Life Sciences Anna Kreshuk, Florian Jug, Ricardo Henriques, Wei Ouyang, Arrate Muñoz-Barrutia, Emma Lundberg, Matthew Hartley Alias: AI4Life Funded by: H2021 - INFRA Duration: Setembro 2021 - Agosto 2025 Publications: 20 |
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Optial Biology PhD programme Michael Hausser, Ricardo Henriques, Antonella Riccio Funded by: Wellcome Trust - 4-year PhD Programme in Science Duration: Agosto 2021 - Agosto 2025 |
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Investigating the mechanisms underpinning the interaction between autonomous immunity and intracellular S. aureus cell division and persistence Pedro Matos Pereira, João Paulo Santos Fadista, Mário José Ferreira, Moritz Sorg, Patricia Reed, Pedro Fernandes, Ricardo Henriques Funded by: FCT - R&D Projects Duration: Março 2021 - Fevereiro 2024 Publications: 3 |
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Benchtop, turnkey super-resolution microscopy for biology, biophysics and biotechnology Bart Hoogenboom, Philip Robinson, Graeme King, Stefan Howorka, Alan Lowe, Ricardo Henriques, Anthony Roberts, Kenth Gustafsson, Gary Parkinson, Franck Pichaud Funded by: BBSRC - Research Grant Duration: Julho 2020 - Junho 2021 |
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Beyond protein localization - monitoring molecular function with nanometer sensitivity Ricardo Henriques, Romain Laine, Takeharu Nagai, Kai Lu Funded by: UCL - Strategic Partner Fund - Establishing collaborative research between UCL and Osaka University Duration: Setembro 2019 - Agosto 2020 |
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Establishing collaborative research between UCL and Institut Curie Ricardo Henriques, Romain Laine, Bassam Hajj Funded by: UCL - Cities Partnership Programme Duration: Junho 2019 - Junho 2019 |
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4D Super-Resolution Proteomics Ricardo Henriques Funded by: UCL - Capital Equipment Fund Duration: Junho 2019 - Maio 2020 |
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High-speed 3D super-resolution microscopy Ricardo Henriques Funded by: UCL - Impact Acceleration Account Duration: Abril 2019 - Setembro 2019 |
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Democratising Live-Cell Adaptive Super-Resolution Microscopy based on SRRF Ricardo Henriques, Buzz Baum Funded by: BBSRC - Tools and Resources Development Fund Duration: Janeiro 2019 - Fevereiro 2020 Publications: 4 |
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Developing AI for Microscopy Ricardo Henriques Funded by: NVIDIA - NVIDIA Academic Hardware Grant Program Duration: Dezembro 2018 - Dezembro 2018 |
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Content Aware AI Driven Driven Super Resolution Microscopy Ricardo Henriques Funded by: BBSRC - Training Grant Duration: Setembro 2018 - Abril 2024 Publications: 8 |
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An accessible framework to achieve multi-dimensional live-cell super-resolution high-content screening Ricardo Henriques, Robin Ketteler Funded by: BBSRC - Tools and Resources Development Fund Duration: Dezembro 2017 - Dezembro 2018 Publications: 12 |
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Minimal Model of Poxvirus Infection David Albrecht Funded by: Marie Curie - Postdoctoral Fellowships Duration: Setembro 2017 - Agosto 2019 |
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Enabling Live-Cell Super Resolution Imaging Through Lattice Light Sheet Microscopy Franck Pichaud, Karl Matter, Alan Lowe, Guillaume Charras, Ricardo Henriques, Buzz Baum Funded by: BBSRC - ALERT Duration: Janeiro 2017 - Maio 2018 Publications: 14 |
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Understanding cellular organisation - from archaea to eukaryotes Buzz Baum, Mohan Balasubramanian, Jan Löwe, Ricardo Henriques, Ann-Christin Lindas, Thijs Ettema, Ethan Garner Funded by: Wellcome Trust - Collaborative Award in Science Duration: Dezembro 2016 - Dezembro 2021 Publications: 28 |
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Super-Beacons and Beacon-STORM - a new generation of small tunable photoswitching probes and Super-Resolution approaches Ricardo Henriques Funded by: BBSRC - New Investigator Research Grant Duration: Janeiro 2016 - Dezembro 2018 Publications: 25 |
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Understanding virus cell entry Caron Jacobs Funded by: UK-SA Commonwealth Commission - PhD Scholarship Duration: Janeiro 2014 - Dezembro 2018 |
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Imaging the structure and dynamics of molecules and complexes in living organisms Nuno Moreno, Adan Guerrero Cardenas, Adriano Henriques, Antonio Jacinto, Beatriz García Fernández, Emilio José Gualda Manzano, Florence Janody, José Feijó, Lars Jansen, Mariana Pinho, Monica Bettencourt Carvalho Dias, Pedro Almada, Raquel Oliveira, Ricardo Henriques, Sérgio Filipe, Susana Gouveia, Teresa Costa Funded by: FCT - Projectos de IC&DT de Consolidação de Competências e Recursos em Investigação Duration: Julho 2013 - Dezembro 2016 |
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Enhancing single-molecule localization super-resolution microscopy Ricardo Henriques Funded by: Pasteur-Roux-Cantarini - Postdoctoral Fellowships Duration: Janeiro 2012 - Agosto 2013 |
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Spatio-temporal tracking of gene expression in living cells via super-resolution microscopy Ricardo Henriques Funded by: FCT - PhD Fellowship Duration: Janeiro 2010 - Outubro 2011 |
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Super-resolution imaging of gene expression and nuclear architecture Musa Mhlanga, Ricardo Henriques Funded by: FCT - R&D Projects Duration: Janeiro 2009 - Dezembro 2012 Publications: 1 |
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Identification and characterization of the supercomplexes from the bacterial aerobic respiratory chain of Escherichia coli and Bacillus subtilis Ana Margarida Carvalho Melo, Ana Paula Gonçalves Batista, Joao Nuno Carita, Ligia M Saraiva, Miguel Teixeira, Ricardo Henriques Funded by: FCT - R&D Projects Duration: Janeiro 2008 - Dezembro 2011 |