Research Team
Ricardo is a 12th-year Group Leader in our research group. Worked on 83 publications. Contributed to 25 technologies. Raised 29 grants. Collaborates with 26 labs. Mentored 13 PhD Students, 10 Postdocs, 2 Masters Students, 3 Postdoc (now PI)s, 1 Internship Student, 2 Software Engineers.
By training, I am a Particle Physicist that fell in love with Biological Physics shortly after graduating. I did my PhD in both the Musa Mhlanga and Christophe Zimmer laboratories, carrying out research between iMM (Portugal), Institut Pasteur (France), CSIR (South Africa) and Andor Technology (UK and USA). During this time, I entered the field of Super-Resolution Microscopy, developing technologies that enable imaging of cellular and viral structures at unprecedented resolution. During my PhD and postdoc, I applied the methods I developed to study Cell Signalling, T-cell Immunology and Viral Infection. In 2013 I established my first research group at UCL, with a dual emphasis on Developing new Imaging Technologies and Cell Biology research. In 2017 I was further invited to extend my group into the Francis Crick Institute, where I established a second small laboratory. In 2019 I was promoted to full Professor at UCL. My technological developments are widely disseminated to the Cell Biology and Biomedical research community. My algorithms QuickPALM, NanoJ, SRRF and SQUIRREL are among the most used and cited analytical methods in the Super-Resolution Microscopy field. My core philosophy has been to make my research reproducible, transparent and open-source.
Talks biosketch
Prof. Ricardo Henriques is a group leader at Instituto Gulbenkian de Ciência, moving his laboratory in 2020 from University College London and Francis Crick Institute in the UK. His group uses optical and computational biophysics to study cell biology and host-pathogen interactions. He graduated in Physics, specialising in biophotonics and robotics. He finished his PhD in 2011, where he developed super-resolution microscopy technologies at the Musa Mhlanga lab. He then pursued postdoc research at Institut Pasteur Paris, studying HIV-1 T-cell infection through nanoscale imaging in the Christophe Zimmer lab.
Career biosketch
Prof. Henriques became PhD in 2011 (Mhlanga lab – iMM and Zimmer lab – I. Pasteur), Ass. Prof. at UCL in 2013, PI at UCL-Crick in 2017, Chair at UCL in 2019, Co-Dir. of the Wellcome Trust Optical Biology PhD Progr. in 2019, PI at IGC and Hon. Prof. at UCL in 2020. He is a fellow of the RMS, bioRxiv affiliate, member of the outreach In2ScienceUK, and ScienceForUkraine. His group uses optical and computational biophysics to study cell biology and host-pathogen interactions.
Scientific and Professional Profile and Career
Ricardo Henriques is a distinguished researcher who has significantly contributed to cell biology, super-resolution microscopy and computational imaging. He obtained his Physics Diploma from the University of Lisbon in 2005 and earned his Biophysics PhD in 2011, specialising in real-time super-resolution fluorescence microscopy. This early work laid the foundation for his later breakthroughs in live-cell imaging. Between 2011 and 2013, Ricardo completed postdoctoral work at Institut Pasteur in Paris, where he furthered his understanding of cell biology and infection. In 2013, he joined the MRC Laboratory for Molecular Cell Biology at UCL as an Associate Professor. During his tenure at UCL, he led a research group that pushed the boundaries of optical microscopy, machine learning, and cell mechanisms. His groundbreaking work led to a dual role at the Francis Crick Institute in 2017 and a promotion to Full Professor at UCL in 2019.
Since 2020, Ricardo has returned to Portugal. He is currently a Research Group Leader at Instituto Gulbenkian de Ciência and holds an Honorary Professor Chair position at UCL. In addition to his research, Ricardo has contributed to steering boards and committees, including the IGC-IBB PhD Program, the Wellcome Trust-UCL Optical Biology PhD Program, and the MRC-LMCB Athena Swan Steering Board. He is also a member of scientific advisory boards for organizations such as the European BioImage Archive (EMBL-EBI). He co-founded the FocalPlane initiative (Company of Biologists) and AGRAFr (Associação de Diplomados Portugueses em França).
Ricardo's expertise extends beyond academia, as he has also collaborated with industry partners. From 2008 to 2011, he worked as a Systems Developer and Consultant for Andor Technology, where he applied his knowledge and skills to commercial systems. He continues collaborating with companies like Abbelight and Roche, helping commercialise technologies such as SRRF.
Contributions to the Generation of New Ideas, Tools, Methodologies or Knowledge
Ricardo Henriques has made significant contributions to the fields of super-resolution microscopy, computational imaging, and cell biology. He has pioneered innovative technologies, methodologies, and knowledge that highlight the significance of his work and its broad-reaching implications for the scientific community and beyond.
His work in super-resolution microscopy has positively impacted the field, enabling researchers to visualise dynamic cellular structures at nansocale resolution and precision. One of his notable contributions is the development of QuickPALM (Henriques et al., Nature Methods, 2010; DOI:10.1038/nmeth0510-339), the first open-source software for single-molecule localization microscopy. This approach enables real-time 3D nanoscale imaging in living cells. Since its inception, QuickPALM has become a gold standard in the single-molecule microscopy field, setting a standard for imaging technologies worldwide.
In addition to QuickPALM, Ricardo has introduced a suite of critical open-source software tools, including the large NanoJ toolbox (Laine et al., Journal of Physics, 2019; DOI:10.1088/1361-6463/ab0261). This toolbox encompasses NanoJ-SQUIRREL (Culley et al., Nature Methods, 2018; DOI:10.1088/1361-6463/ab0261) and NanoJ-SRRF (Gustafsson et al., Nature Communications, 2016; DOI:10.1038/ncomms12471), among others, which have been key in analysing super-resolution data, facilitating image reconstruction, artifact reduction, and complex dataset interpretation.
Ricardo's pioneering work extends beyond technology development. He has integrated machine learning into advanced bioimaging, exemplified by his development of ZeroCostDL4Mic (von Chamier et al., Nature Communications, 2021; DOI:10.1038/s41467-021-22518-0) and DL4MicEverywhere platforms (Hidalgo-Cenalmor at al., bioRxiv, 2023:10.1101/2023.11.19.567606). These platforms democratise access to deep learning for microscopy, enabling enhanced analysis and interpretation of imaging data. Ricardo Henriques has made significant contributions in the field of biomedical imaging technology, which he has used to generate new biological knowledge. In his lab, super-resolution microscopy was used to understand the nanoscale distribution and dynamics of HIV cell receptors CD4 and CCR5 during viral binding (Yuan et al., Viruses, 2021; DOI:10.3390/v13010142). Henriques's technology was also used to identify the polarization of the entry fusion complex of poxviruses (Gray et al., Nature Microbiology, 2019; 10.1038/s41564-019-0488-4). To further decipher the nanoscale mechanisms of ESCRT-III-mediated cell division of archaeons (Risa et al., Science, 2020; DOI:10.1126/science.aaz2532 and Harker-Kirschneck et al., PNAS, 2022; DOI:10.1073/pnas.2107763119). In addition, his technology was key in uncovering how closed mitosis requires local disassembly of the nuclear envelope (Dey et al., Nature, 2020; DOI:10.1038/s41586-020-2648-3).
His contributions have been widely disseminated through high-impact publications, with over 67 publications to his name. Over his career, Ricardo has also secured 7 million euros in funding from agencies such as ERC Consolidator, Horizon Europe, and Wellcome Trust, reflecting his global scientific impact and sustained excellence in research, training, and leadership.
Contributions to the Training and Mentoring of Students and Early Career Researchers
Throughout his career, Ricardo Henriques has mentored and supervised numerous researchers with diverse backgrounds, including 14 PhD students, 12 postdocs, 2 Master's students, 1 internship student, and 2 software engineers. He has provided hands-on mentorship and created opportunities for their career progression, supporting their skill development in cell biology, optical physics, and computational biology. His trainees have gone on to secure positions in academia and industry, demonstrating the impact of his mentorship.
Ricardo has also taught specialised graduate courses in cell biology, super-resolution microscopy, and machine learning at University College London and Instituto Gulbenkian de Ciência. He has organized international workshops and training courses, training over 300 researchers worldwide in advanced imaging techniques. Through these activities, he has built an extensive network and provided key skills to accelerate careers.
Contributions to the Scientific Community
Ricardo has made significant contributions to the scientific community throughout his career. As an editor and reviewer, he has ensured the quality and integrity of scientific research published in journals of high-quality standards. He has also served on the editorial boards of Scientific Reports and Royal Society Open Biology.
Furthermore, Ricardo plays an active role in research assessment, having reviewed grants and fellowships for major UK and European funding bodies like the Wellcome Trust, BBSRC, MRC, FCT, and ERC. His valued perspective as an evaluator advances impactful science and supports fellow researchers.
Committed to scientific discourse, Ricardo frequently organizes symposia and workshops in super-resolution microscopy, facilitating idea exchange, new collaborations, and community growth. He also co-directs a PhD training program and teaches specialized imaging courses, significantly expanding microscopy expertise.
Contributions to Society
Ricardo has significantly impacted society through innovative research and a dedication to open science. He champions open research practices, facilitating collaboration and knowledge exchange. Ricardo's dedication to public engagement and outreach is impressive, with a large social media following and active participation in science festivals, lectures, and workshops. He contributes to increasing scientific literacy and appreciation for research by sharing findings and explaining complex concepts. Ricardo's work extends to the private sector, facilitating the translation of scientific discoveries into practical applications. He has contributed to developing new technologies and tools in healthcare, biotechnology, and imaging through collaborations with industry partners. His commitment to society and his passion for making science accessible and impactful have earned him a well-deserved reputation as a leader in his field.
In the news
- 2024-07-09: Ricardo Henriques elected as EMBO Member - Ricardo Henriques [link]
- 2024-06-27: Funding CZI through the Essential Open Source Software for Science program - Ricardo Henriques [link]
- 2024-06-02: News outlet Labonline highlights Hidalgo-Cenalmor et al. Nature Methods 2024
- 2024-05-28: News outlet MSN highlights Hidalgo-Cenalmor et al. Nature Methods 2024
- 2024-05-28: News outlet AZoRobotics highlights Hidalgo-Cenalmor et al. Nature Methods 2024
- 2024-05-27: News outlet Aamuset Kaupunkimedia highlights Hidalgo-Cenalmor et al. Nature Methods 2024
- 2024-05-17: Blog news-medical.net highlights Hidalgo-Cenalmor et al. Nature Methods 2024
- 2024-03-26: Research in AI recognized in the "Mapping ERC Frontier Research" report - Ricardo Henriques [link]
- 2023-12-11: Interviewed by RTP (Portuguese National TV) - Ricardo Henriques [link]
- 2023-11-27: News outlet Photonics.com highlights Laine et al. Nature Methods 2023
- 2023-11-20: News outlet The Science Times highlights Laine et al. Nature Methods 2023
- 2023-11-16: News outlet Optics.org highlights Laine et al. Nature Methods 2023
- 2023-11-14: Blog Springer Nature Protocols and Methods Community highlights Laine et al. Nature Methods 2023
- 2023-11-14: News outlet Phys.org highlights Laine et al. Nature Methods 2023
- 2023-02-09: Interviewed by 90 Segundos de Ciência (Portuguese news) - Ricardo Henriques [link]
- 2022-11-15: News outlet Technology Times highlights Almada et al. Nature Communications 2019
- 2022-09-01: Interviewed by The Microscopists Podcast - Ricardo Henriques [link]
- 2022-06-18: News outlet MSN highlights Almada et al. Nature Communications 2019
- 2022-06-18: News outlet DNYUZ highlights Almada et al. Nature Communications 2019
- 2022-06-18: News outlet Express Informer highlights Almada et al. Nature Communications 2019
- 2022-05-17: News outlet Nanowerk highlights Whitley et al. Nature Communications 2021
- 2021-11-03: Editorial in Nature Methods highlights Chamier et al. Nature Communications 2021
- 2021-10-05: News outlet La Razon (ESP) highlights Spark et al. Nature Methods 2020
- 2021-07-14: News outlet Technology Networks highlights Weigert et al. Nature Methods 2018
- 2021-05-07: News outlet Expresso highlights Chamier et al. Nature Communications 2021
- 2021-04-26: News outlet AZO Life Sciences highlights Chamier et al. Nature Communications 2021
- 2021-04-26: News outlet Drug Target Review highlights Chamier et al. Nature Communications 2021
- 2021-04-24: News outlet Nanotechnology Now highlights Chamier et al. Nature Communications 2021
- 2021-04-24: News outlet The Medical News highlights Chamier et al. Nature Communications 2021
- 2021-04-16: Blog Microbiome Digest - Bik's Picks highlights Chamier et al. Nature Communications 2021
- 2020-12-09: ERC CoG and EMBO IA awards highlighted by Publico (Portuguese news) - Ricardo Henriques [link]
- 2020-11-08: News outlet ZAP highlights Spark et al. Nature Methods 2020
- 2020-11-03: News outlet Medium US highlights Spark et al. Nature Methods 2020
- 2020-10-27: News outlet Mirage News highlights Thevathasan et al. Nature Methods 2019
- 2020-10-21: Blog Qubit highlights Spark et al. Nature Methods 2020
- 2020-10-20: News outlet IEEE Spectrum highlights Spark et al. Nature Methods 2020
- 2020-10-13: Blog Tech Explorist highlights Spark et al. Nature Methods 2020
- 2020-10-12: Blog Whats New highlights Spark et al. Nature Methods 2020
- 2020-09-12: News outlet NRK highlights Risa et al. Science 2020
- 2020-09-02: News outlet Nature Asia highlights Dey et al. Nature 2020
- 2020-08-31: News outlet Azom.com highlights Gustafsson et al. Nature Communications 2016
- 2020-08-28: News outlet Scitech Daily highlights Risa et al. Science 2020
- 2020-08-12: News outlet NCYT - Noticias de la Ciencia y la Technologia highlights Risa et al. Science 2020
- 2020-08-06: News outlet UPI.com highlights Risa et al. Science 2020
- 2020-07-01: News outlet ScienMag highlights Jacquemet et al. Journal of Cell Science 2020
- 2020-07-01: News outlet EurekAlert! highlights Jacquemet et al. Journal of Cell Science 2020
- 2020-04-21: Editorial in Nature highlights Chamier et al. Nature Communications 2021
- 2019-08-19: News outlet This Week in Virology (TWiV) highlights Gray et al. Nature Microbiology 2019
- 2019-07-10: Blog Nature Microbiology Community highlights Gray et al. Nature Microbiology 2019
- 2018-12-10: News outlet VBIO highlights Weigert et al. Nature Methods 2018
- 2018-12-07: News outlet Innovations Report highlights Weigert et al. Nature Methods 2018
- 2018-12-07: News outlet Informationsdienst Wissenschaft highlights Weigert et al. Nature Methods 2018
- 2018-07-17: News outlet The Scientist highlights the lab's research
- 2018-07-01: Made Fellow of the Royal Microscopy Society - Ricardo Henriques
- 2018-06-30: News outlet The Times highlights the lab's research
- 2018-05-16: News outlet The Scientist highlights the lab's research
- 2018-05-14: News outlet physicsworld.com highlights Culley et al. Nature Methods 2018
- 2017-10-03: Lab highlighted as a reference case study for UCL-Consultancy - Ricardo Henriques [link]
- 2017-01-11: News outlet Phys.org highlights Clough et al. PLOS Pathogens 2016
- 2016-11-24: Blog The Toxoplasma Blog highlights Clough et al. PLOS Pathogens 2016
- 2016-11-22: News outlet Bionity highlights Clough et al. PLOS Pathogens 2016
Technologies
Publications with our group (see more on Google Scholar)
Structural Repetition Detector - multi-scale quantitative mapping of molecular complexes through microscopy Afonso Mendes, Bruno M Saraiva, Guillaume Jacquemet, Joao I Mamede, Christophe Leterrier, Ricardo Henriques Preprint published in bioRxiv, September 2024 Technologies: CARE, Nuclear-Pores as references and SReD Funded by: CZI, EMBO, ERC, H2021 and H2022 DOI: 10.1101/2024.09.16.613204 |
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PhotoFiTT - A Quantitative Framework for Assessing Phototoxicity in Live-Cell Microscopy Experiments Mario Del Rosario, Estibaliz Gómez-de-Mariscal, Leonor Morgado, Raquel Portela, Guillaume Jacquemet, Pedro M. Pereira, Ricardo Henriques Preprint published in bioRxiv, July 2024 Technologies: CARE, DL4MicEverywhere, NanoJ-SRRF, PhotoFiTT and ZeroCostDL4Mic Funded by: CZI, EMBO, ERC, FCT, H2021 and H2022 DOI: 10.1101/2024.07.16.603046 |
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DL4MicEverywhere - deep learning for microscopy made flexible, shareable and reproducible Iván Hidalgo-Cenalmor, Joanna W. Pylvänäinen, Mariana G. Ferreira, Craig T. Russell, Alon Saguy, Ignacio Arganda-Carreras, Yoav Shechtman, Guillaume Jacquemet, Ricardo Henriques, Estibaliz Gómez-de-Mariscal Paper published in Nature Methods, May 2024 Technologies: BioImage Model Zoo, DL4MicEverywhere and ZeroCostDL4Mic Funded by: EMBO, ERC, H2021 and H2022 News: Labonline, MSN, AZoRobotics and Aamuset Kaupunkimedia Blogs: news-medical.net DOI: 10.1038/s41592-024-02295-6 |
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Cell constriction requires processive septal peptidoglycan synthase movement independent of FtsZ treadmilling in Staphylococcus aureus Simon Schäper, António D. Brito, Bruno M. Saraiva, Georgia R. Squyres, Matthew J. Holmes, Ethan C. Garner, Zach Hensel, Ricardo Henriques, Mariana G. Pinho Paper published in Nature Microbiology, March 2024 Technologies: CARE and NanoJ Funded by: EMBO and ERC DOI: 10.1038/s41564-024-01629-6 |
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The rise of data‐driven microscopy powered by machine learning Leonor Morgado, Estibaliz Gómez‐de‐Mariscal, Hannah S. Heil, Ricardo Henriques Review published in Journal of Microscopy, March 2024 Technologies: NanoJ and NanoJ-Fluidics Funded by: CZI, EMBO, ERC, FCT, H2021 and H2022 DOI: 10.1111/jmi.13282 |
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Harnessing artificial intelligence to reduce phototoxicity in live imaging Estibaliz Gómez-de-Mariscal, Mario Del Rosario, Joanna W. Pylvänäinen, Guillaume Jacquemet, Ricardo Henriques Perspective published in Journal of Cell Science, February 2024 Technologies: BioImage Model Zoo, CARE, DeepBacs, NanoJ-SRRF and ZeroCostDL4Mic Funded by: CZI, EMBO, ERC, H2021 and H2022 DOI: 10.1242/jcs.261545 |
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CellTracksColab is a platform that enables compilation, analysis, and exploration of cell tracking data Estibaliz Gómez-de-Mariscal, Hanna Grobe, Joanna W Pylvänäinen, Laura Xénard, Ricardo Henriques, Jean-Yves Tinevez, Guillaume Jacquemet Published in PLOS Biology, January 2024 Technologies: CARE, CellTracksColab and ZeroCostDL4Mic DOI: 10.1371/journal.pbio.3002740 |
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Decoding life's inner workings - advances in quantitative bioimaging Ricardo Henriques, Christophe Leterrier, Aubrey Weigel Editorial published in Open Biology, November 2023 DOI: 10.1098/rsob.230329 |
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High-fidelity 3D live-cell nanoscopy through data-driven enhanced super-resolution radial fluctuation Romain F. Laine, Hannah S. Heil, Simao Coelho, Jonathon Nixon-Abell, Angélique Jimenez, Theresa Wiesner, Damián Martínez, Tommaso Galgani, Louise Régnier, Aki Stubb, Gautier Follain, Samantha Webster, Jesse Goyette, Aurelien Dauphin, Audrey Salles, Siân Culley, Guillaume Jacquemet, Bassam Hajj, Christophe Leterrier, Ricardo Henriques Paper published in Nature Methods, November 2023 Technologies: CARE, NanoJ, NanoJ-eSRRF, NanoJ-SQUIRREL, NanoJ-SRRF, NanoPyx and Nuclear-Pores as references Funded by: CZI, EMBO, ERC, FCT, H2021, H2022, InnOValley and Wellcome Trust News: Photonics.com, The Science Times, Optics.org and Phys.org Blogs: Springer Nature Protocols and Methods Community DOI: 10.1038/s41592-023-02057-w |
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Transertion and cell geometry organize the Escherichia coli nucleoid during rapid growth Christoph Spahn, Stuart Middlemiss, Estibaliz Gómez-de-Mariscal, Ricardo Henriques, Helge B. Bode, Séamus Holden, Mike Heilemann Preprint published in bioRxiv, October 2023 Technologies: CARE, DeepBacs and ZeroCostDL4Mic Funded by: EMBO, ERC, H2021 and H2022 DOI: 10.1101/2023.10.16.562172 |
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NanoPyx - super-fast bioimage analysis powered by adaptive machine learning Bruno M. Saraiva, Inês M. Cunha, António D. Brito, Gautier Follain, Raquel Portela, Robert Haase, Pedro M. Pereira, Guillaume Jacquemet, Ricardo Henriques Preprint published in bioRxiv, August 2023 Technologies: CARE, NanoJ, NanoJ-eSRRF, NanoJ-SQUIRREL, NanoJ-SRRF, NanoJ-VirusMapper and NanoPyx Funded by: CZI, EMBO, ERC, FCT, H2021 and H2022 DOI: 10.1101/2023.08.13.553080 |
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CLEM-Reg - An automated point cloud based registration algorithm for correlative light and volume electron microscopy Daniel Krentzel, Matouš Elphick, Marie-Charlotte Domart, Christopher J. Peddie, Romain F. Laine, Ricardo Henriques, Lucy M. Collinson, Martin L. Jones Preprint published in bioRxiv, May 2023 Technologies: CARE and ZeroCostDL4Mic Funded by: CZI and ERC DOI: 10.1101/2023.05.11.540445 |
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Live-cell imaging in the deep learning era Joanna W Pylvänäinen, Estibaliz Gómez-de-Mariscal, Ricardo Henriques, Guillaume Jacquemet Review published in Current Opinion in Cell Biology, January 2023 Technologies: BioImage Model Zoo, CARE, DeepBacs, Fast4DReg, NanoJ, NanoJ-eSRRF, NanoJ-Fluidics, NanoJ-SRRF and ZeroCostDL4Mic Funded by: CZI, EMBO, ERC and H2021 DOI: 10.1016/j.ceb.2023.102271 |
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Fast4DReg–fast registration of 4D microscopy datasets Joanna W Pylvänäinen, Romain F Laine, Bruno MS Saraiva, Sujan Ghimire, Gautier Follain, Ricardo Henriques, Guillaume Jacquemet Paper published in Journal of Cell Science, January 2023 Technologies: CARE, Fast4DReg, NanoJ and ZeroCostDL4Mic Funded by: CZI and ERC DOI: 10.1242/jcs.260728 |
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This microtubule does not exist - Super-resolution microscopy image generation by a diffusion model Alon Saguy, Tav Nahimov, Maia Lehrman, Estibaliz Gómez-de-Mariscal, Iván Hidalgo-Cenalmor, Onit Alalouf, Ricardo Henriques, Yoav Shechtman Preprint published in bioRxiv, January 2023 Technologies: CARE and ZeroCostDL4Mic Funded by: CZI, EMBO, ERC, H2021 and H2022 DOI: 10.1101/2023.07.06.548004 |
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Processive movement of Staphylococcus aureus essential septal peptidoglycan synthases is independent of FtsZ treadmilling and drives cell constriction Simon Schaeper, Antonio D Brito, Bruno M Saraiva, Georgia R Squyres, Matthew J Holmes, Ethan C Garner, Zach Hensel, Ricardo Henriques, Mariana G Pinho Preprint published in bioRxiv, January 2023 Technologies: NanoJ Funded by: EMBO and ERC DOI: 10.1101/2023.06.29.547026 |
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Roadmap on deep learning for microscopy Giovanni Volpe, Carolina Wählby, Lei Tian, Michael Hecht, Artur Yakimovich, Kristina Monakhova, Laura Waller, Ivo F Sbalzarini, Christopher A Metzler, Mingyang Xie, Kevin Zhang, Isaac CD Lenton, Halina Rubinsztein-Dunlop, Daniel Brunner, Bijie Bai, Aydogan Ozcan, Daniel Midtvedt, Hao Wang, Nataša Sladoje, Joakim Lindblad, Jason T Smith, Marien Ochoa, Margarida Barroso, Xavier Intes, Tong Qiu, Li-Yu Yu, Sixian You, Yongtao Liu, Maxim A Ziatdinov, Sergei V Kalinin, Arlo Sheridan, Uri Manor, Elias Nehme, Ofri Goldenberg, Yoav Shechtman, Henrik K Moberg, Christoph Langhammer, Barbora Špačková, Saga Helgadottir, Benjamin Midtvedt, Aykut Argun, Tobias Thalheim, Frank Cichos, Stefano Bo, Lars Hubatsch, Jesus Pineda, Carlo Manzo, Harshith Bachimanchi, Erik Selander, Antoni Homs-Corbera, Martin Fränzl, Kevin de Haan, Yair Rivenson, Zofia Korczak, Caroline Beck Adiels, Mite Mijalkov, Dániel Veréb, Yu-Wei Chang, Joana B Pereira, Damian Matuszewski, Gustaf Kylberg, Ida-Maria Sintorn, Juan C Caicedo, Beth A Cimini, Muyinatu A Lediju Bell, Bruno M Saraiva, Guillaume Jacquemet, Ricardo Henriques, Wei Ouyang, Trang Le, Estibaliz Gómez-de-Mariscal, Daniel Sage, Arrate Muñoz-Barrutia, Ebba Josefson Lindqvist, Johanna Bergman Preprint published in arXiv, January 2023 Technologies: BioImage Model Zoo, CARE and ZeroCostDL4Mic Funded by: CZI, EMBO, ERC and H2021 DOI: 10.48550/arXiv.2303.03793 |
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Mapping molecular complexes with super-resolution microscopy and single-particle analysis Afonso Mendes, Hannah S. Heil, Simao Coelho, Christophe Leterrier, Ricardo Henriques Review published in Open Biology, July 2022 Technologies: NanoJ-VirusMapper, Nuclear-Pores as references and ZeroCostDL4Mic Funded by: EMBO, ERC and Wellcome Trust DOI: 10.1098/rsob.220079 |
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DeepBacs for multi-task bacterial image analysis using open-source deep learning approaches Christoph Spahn, Estibaliz Gómez-de-Mariscal, Romain F. Laine, Pedro M. Pereira, Lucas von Chamier, Mia Conduit, Mariana G. Pinho, Guillaume Jacquemet, Séamus Holden, Mike Heilemann, Ricardo Henriques Paper published in Communications Biology, July 2022 Technologies: BioImage Model Zoo, CARE, DeepBacs, NanoJ, NanoJ-SQUIRREL, NanoJ-SRRF and ZeroCostDL4Mic Funded by: CZI, ERC, FCT and Wellcome Trust DOI: 10.1038/s42003-022-03634-z |
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The LEGO® brick road to open science and biotechnology Etienne Boulter, Julien Colombelli, Ricardo Henriques, Chloé C. Féral Review published in Trends in Biotechnology, March 2022 Technologies: NanoJ, NanoJ-Fluidics and NanoJ-SRRF Funded by: EMBO, ERC and Wellcome Trust DOI: 10.1016/j.tibtech.2022.02.003 |
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Physical mechanisms of ESCRT-III–driven cell division Lena Harker-Kirschneck, Anne E. Hafner, Tina Yao, Christian Vanhille-Campos, Xiuyun Jiang, Andre Pulschen, Fredrik Hurtig, Dawid Hryniuk, Siân Culley, Ricardo Henriques, Buzz Baum, Anđela Šarić Paper published in Proceedings of the National Academy of Sciences, January 2022 Funded by: Wellcome Trust DOI: 10.1073/pnas.2107763119 |
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Trimethine cyanine dyes as NA-sensitive probes for visualization of cell compartments in fluorescence microscopy Daria Aristova, Roman Selin, Hannah Sophie Heil, Viktoriia Kosach, Yuriy Slominsky, Sergiy Yarmoluk, Vasyl Pekhnyo, Vladyslava Kovalska, Ricardo Henriques, Andriy Mokhir Paper published in ACS omega, January 2022 Funded by: EMBO, ERC and H2021 DOI: 10.1021/acsomega.2c05231 |
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Expansion Microscopy on Saccharomyces cerevisiae AG Korovesi, L Morgado, M Fumasoni, R Henriques, HS Heil, M Del Rosario Paper published in microPublication Biology, January 2022 Technologies: CARE Funded by: EMBO, ERC and Wellcome Trust DOI: 10.17912/micropub.biology.000566 |
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Bioimage model zoo - a community-driven resource for accessible deep learning in bioimage analysis Wei Ouyang, Fynn Beuttenmueller, Estibaliz Gómez-de-Mariscal, Constantin Pape, Tom Burke, Carlos Garcia-López-de-Haro, Craig Russell, Lucía Moya-Sans, Cristina de-la-Torre-Gutiérrez, Deborah Schmidt, Dominik Kutra, Maksim Novikov, Martin Weigert, Uwe Schmidt, Peter Bankhead, Guillaume Jacquemet, Daniel Sage, Ricardo Henriques, Arrate Muñoz-Barrutia, Emma Lundberg, Florian Jug, Anna Kreshuk Preprint published in BioRxiv, January 2022 Technologies: BioImage Model Zoo and ZeroCostDL4Mic Funded by: CZI, EMBO, ERC and H2021 DOI: 10.1101/2022.06.07.495102 |
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Nanoscale colocalization of NK cell activating and inhibitory receptors controls signal integration David Tomaz, Pedro Matos Pereira, Nadia Guerra, Julian Dyson, Keith Gould, Ricardo Henriques Paper published in Frontiers in Immunology, January 2022 Technologies: NanoJ and NanoJ-SQUIRREL Funded by: BBSRC, EMBO and ERC DOI: 10.3389/fimmu.2022.868496 |
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eHooke - A tool for automated image analysis of spherical bacteria based on cell cycle progression Bruno M. Saraiva, Ludwig Krippahl, Sérgio R. Filipe, Ricardo Henriques, Mariana G. Pinho Paper published in Biological Imaging, September 2021 Technologies: CARE Funded by: ERC and Wellcome Trust DOI: 10.1017/s2633903x21000027 |
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FtsZ treadmilling is essential for Z-ring condensation and septal constriction initiation in Bacillus subtilis cell division Kevin D. Whitley, Calum Jukes, Nicholas Tregidgo, Eleni Karinou, Pedro Almada, Yann Cesbron, Ricardo Henriques, Cees Dekker, Séamus Holden Paper published in Nature Communications, April 2021 Technologies: CARE and DeepAutoFocus Funded by: BBSRC and Wellcome Trust News: Nanowerk DOI: 10.1038/s41467-021-22526-0 |
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Democratising deep learning for microscopy with ZeroCostDL4Mic Lucas von Chamier, Romain F. Laine, Johanna Jukkala, Christoph Spahn, Daniel Krentzel, Elias Nehme, Martina Lerche, Sara Hernández-Pérez, Pieta K. Mattila, Eleni Karinou, Séamus Holden, Ahmet Can Solak, Alexander Krull, Tim-Oliver Buchholz, Martin L. Jones, Loïc A. Royer, Christophe Leterrier, Yoav Shechtman, Florian Jug, Mike Heilemann, Guillaume Jacquemet, Ricardo Henriques Paper published in Nature Communications, April 2021 Technologies: CARE, FBSR-TFM, NanoJ, NanoJ-SQUIRREL, NanoJ-SRRF and ZeroCostDL4Mic Funded by: EMBO, ERC and Wellcome Trust News: AZO Life Sciences, Drug Target Review, Nanotechnology Now and The Medical News Blogs: Microbiome Digest - Bik's Picks DOI: 10.1038/s41467-021-22518-0 |
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Application of Super-Resolution and Advanced Quantitative Microscopy to the Spatio-Temporal Analysis of Influenza Virus Replication Emma Touizer, Christian Sieben, Ricardo Henriques, Mark Marsh, Romain F. Laine Review published in Viruses, February 2021 Technologies: NanoJ-VirusMapper, Super-Beacons and ZeroCostDL4Mic Funded by: Wellcome Trust DOI: 10.3390/v13020233 |
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Single-Molecule Super-Resolution Imaging of T-Cell Plasma Membrane CD4 Redistribution upon HIV-1 Binding Yue Yuan, Caron A. Jacobs, Isabel Llorente Garcia, Pedro M. Pereira, Scott P. Lawrence, Romain F. Laine, Mark Marsh, Ricardo Henriques Paper published in Viruses, January 2021 Technologies: CARE Funded by: ERC DOI: 10.3390/v13010142 |
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Avoiding a replication crisis in deep-learning-based bioimage analysis Romain F Laine, Ignacio Arganda-Carreras, Ricardo Henriques, Guillaume Jacquemet Perspective published in Nature methods, January 2021 Technologies: CARE and ZeroCostDL4Mic Funded by: EMBO, ERC and Wellcome Trust DOI: 10.1038/s41592-021-01284-3 |
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The field guide to 3D printing in microscopy Mario Del Rosario, Hannah S Heil, Afonso Mendes, Vittorio Saggiomo, Ricardo Henriques Review published in Adv. Biol., January 2021 Technologies: CARE, NanoJ, NanoJ-Fluidics and NanoJ-SRRF Funded by: EMBO, ERC and Wellcome Trust DOI: 10.1002/adbi.202100994 |
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vLUME - 3D virtual reality for single-molecule localization microscopy Alexander Spark, Alexandre Kitching, Daniel Esteban-Ferrer, Anoushka Handa, Alexander R. Carr, Lisa-Maria Needham, Aleks Ponjavic, Ana Mafalda Santos, James McColl, Christophe Leterrier, Simon J. Davis, Ricardo Henriques, Steven F. Lee Paper published in Nature Methods, October 2020 Technologies: Nuclear-Pores as references, QuickPALM and vLume Funded by: BBSRC and Wellcome Trust News: La Razon (ESP), ZAP, Medium US and IEEE Spectrum Blogs: Qubit, , Tech Explorist and Whats New DOI: 10.1038/s41592-020-0962-1 |
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Closed mitosis requires local disassembly of the nuclear envelope Gautam Dey, Siân Culley, Scott Curran, Uwe Schmidt, Ricardo Henriques, Wanda Kukulski, Buzz Baum Paper published in Nature, August 2020 Technologies: CARE, NanoJ, NanoJ-SRRF and Nuclear-Pores as references Funded by: BBSRC and Wellcome Trust News: Nature Asia DOI: 10.1038/s41586-020-2648-3 |
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The proteasome controls ESCRT-III–mediated cell division in an archaeon Gabriel Tarrason Risa, Fredrik Hurtig, Sian Bray, Anne E. Hafner, Lena Harker-Kirschneck, Peter Faull, Colin Davis, Dimitra Papatziamou, Delyan R. Mutavchiev, Catherine Fan, Leticia Meneguello, Andre Arashiro Pulschen, Gautam Dey, Siân Culley, Mairi Kilkenny, Diorge P. Souza, Luca Pellegrini, Robertus A. M. de Bruin, Ricardo Henriques, Ambrosius P. Snijders, Anđela Šarić, Ann-Christin Lindås, Nicholas P. Robinson, Buzz Baum Paper published in Science, August 2020 Technologies: NanoJ and NanoJ-SRRF News: NRK, Scitech Daily, NCYT - Noticias de la Ciencia y la Technologia and UPI.com DOI: 10.1126/science.aaz2532 |
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The cell biologist's guide to super-resolution microscopy Guillaume Jacquemet, Alexandre F. Carisey, Hellyeh Hamidi, Ricardo Henriques, Christophe Leterrier Review published in Journal of Cell Science, June 2020 Technologies: CARE, NanoJ, NanoJ-Fluidics, NanoJ-SRRF, Nuclear-Pores as references and ZeroCostDL4Mic Funded by: BBSRC and Wellcome Trust News: ScienMag and EurekAlert! DOI: 10.1242/jcs.240713 |
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Between life and death - strategies to reduce phototoxicity in super-resolution microscopy Kalina L Tosheva, Yue Yuan, Pedro Matos Pereira, Siân Culley, Ricardo Henriques Review published in Journal of Physics D - Applied Physics, January 2020 Technologies: CARE, NanoJ, NanoJ-Fluidics and NanoJ-SRRF Funded by: BBSRC and Wellcome Trust DOI: 10.1088/1361-6463/ab6b95 |
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An Introduction to Live-Cell Super-Resolution Imaging Siân Culley, Pedro Matos Pereira, Romain F Laine, Ricardo Henriques Book chapter published in Imaging from Cells to Animals In Vivo, January 2020 Technologies: CARE, NanoJ, NanoJ-Fluidics, NanoJ-SQUIRREL, NanoJ-SRRF and QuickPALM DOI: 10.1201/9781315174662-4 |
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Super‐beacons - Open‐source probes with spontaneous tuneable blinking compatible with live‐cell super‐resolution microscopy Pedro M Pereira, Nils Gustafsson, Mark Marsh, Musa M Mhlanga, Ricardo Henriques Paper published in Traffic, January 2020 Technologies: NanoJ, NanoJ-Fluidics, NanoJ-SQUIRREL, NanoJ-SRRF and Super-Beacons Funded by: BBSRC and Wellcome Trust DOI: 10.1111/tra.12728 |
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Live imaging of a hyperthermophilic archaeon reveals distinct roles for two ESCRT-III homologs in ensuring a robust and symmetric division Andre Arashiro Pulschen, Delyan R Mutavchiev, Siân Culley, Kim Nadine Sebastian, Jacques Roubinet, Marc Roubinet, Gabriel Tarrason Risa, Marleen van Wolferen, Chantal Roubinet, Uwe Schmidt, Gautam Dey, Sonja-Verena Albers, Ricardo Henriques, Buzz Baum Paper published in Current Biology, January 2020 Technologies: Sulfoscope Funded by: Wellcome Trust DOI: 10.1016/j.cub.2020.05.021 |
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Fluctuation-based super-resolution traction force microscopy Aki Stubb, Romain F Laine, Mitro Miihkinen, Hellyeh Hamidi, Camilo Guzmán, Ricardo Henriques, Guillaume Jacquemet, Johanna Ivaska Paper published in Nano letters, January 2020 Technologies: CARE, FBSR-TFM, NanoJ, NanoJ-SQUIRREL and NanoJ-SRRF Funded by: BBSRC DOI: 10.1021/acs.nanolett.9b04083 |
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Nuclear pores as versatile reference standards for quantitative superresolution microscopy Jervis Vermal Thevathasan, Maurice Kahnwald, Konstanty Cieśliński, Philipp Hoess, Sudheer Kumar Peneti, Manuel Reitberger, Daniel Heid, Krishna Chaitanya Kasuba, Sarah Janice Hoerner, Yiming Li, Yu-Le Wu, Markus Mund, Ulf Matti, Pedro Matos Pereira, Ricardo Henriques, Bianca Nijmeijer, Moritz Kueblbeck, Vilma Jimenez Sabinina, Jan Ellenberg, Jonas Ries Paper published in Nature Methods, September 2019 Technologies: CARE, NanoJ, NanoJ-SQUIRREL, NanoJ-SRRF and Nuclear-Pores as references Funded by: BBSRC and Wellcome Trust News: Mirage News DOI: 10.1038/s41592-019-0574-9 |
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Artificial intelligence for microscopy - what you should know Lucas von Chamier, Romain F. Laine, Ricardo Henriques Review published in Biochemical Society Transactions, July 2019 Technologies: CARE, NanoJ, NanoJ-Fluidics, NanoJ-SQUIRREL and NanoJ-SRRF Funded by: BBSRC and Wellcome Trust DOI: 10.1042/bst20180391 |
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Nanoscale polarization of the entry fusion complex of vaccinia virus drives efficient fusion Robert D. M. Gray, David Albrecht, Corina Beerli, Moona Huttunen, Gary H. Cohen, Ian J. White, Jemima J. Burden, Ricardo Henriques, Jason Mercer Paper published in Nature Microbiology, July 2019 Technologies: NanoJ and NanoJ-VirusMapper Funded by: BBSRC and Wellcome Trust Blogs: Nature Microbiology Community DOI: 10.1038/s41564-019-0488-4 |
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Super-resolution fight club - assessment of 2D and 3D single-molecule localization microscopy software Daniel Sage, Thanh-An Pham, Hazen Babcock, Tomas Lukes, Thomas Pengo, Jerry Chao, Ramraj Velmurugan, Alex Herbert, Anurag Agrawal, Silvia Colabrese, Ann Wheeler, Anna Archetti, Bernd Rieger, Raimund Ober, Guy M. Hagen, Jean-Baptiste Sibarita, Jonas Ries, Ricardo Henriques, Michael Unser, Seamus Holden Paper published in Nature Methods, April 2019 Technologies: NanoJ-SRRF and QuickPALM Funded by: BBSRC DOI: 10.1038/s41592-019-0364-4 |
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Automating multimodal microscopy with NanoJ-Fluidics Pedro Almada, Pedro M. Pereira, Siân Culley, Ghislaine Caillol, Fanny Boroni-Rueda, Christina L. Dix, Guillaume Charras, Buzz Baum, Romain F. Laine, Christophe Leterrier, Ricardo Henriques Paper published in Nature Communications, March 2019 Technologies: NanoJ, NanoJ-Fluidics, NanoJ-SQUIRREL, NanoJ-SRRF and NanoJ-VirusMapper Funded by: BBSRC and Wellcome Trust News: Technology Times, MSN, DNYUZ and Express Informer DOI: 10.1038/s41467-019-09231-9 |
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NanoJ - a high-performance open-source super-resolution microscopy toolbox Romain F Laine, Kalina L Tosheva, Nils Gustafsson, Robert D M Gray, Pedro Almada, David Albrecht, Gabriel T Risa, Fredrik Hurtig, Ann-Christin Lindås, Buzz Baum, Jason Mercer, Christophe Leterrier, Pedro M Pereira, Siân Culley, Ricardo Henriques Paper published in Journal of Physics D - Applied Physics, January 2019 Technologies: NanoJ, NanoJ-Fluidics, NanoJ-SQUIRREL, NanoJ-SRRF, NanoJ-VirusMapper and QuickPALM Funded by: BBSRC and Wellcome Trust DOI: 10.1088/1361-6463/ab0261 |
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TMEM16F activation by Ca2+ triggers plasma membrane expansion and directs PD-1 trafficking Christopher Bricogne, Michael Fine, Pedro M. Pereira, Julia Sung, Maha Tijani, Youxue Wang, Ricardo Henriques, Mary K. Collins, Donald W. Hilgemann Paper published in Scientific Reports, January 2019 Funded by: BBSRC DOI: 10.1038/s41598-018-37056-x |
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Real time multi-modal super-resolution microscopy through Super-Resolution Radial Fluctuations (SRRF-Stream) Justin Cooper, Mark Browne, Hugh Gribben, Martin Catney, Colin Coates, Alan Mullan, Geraint Wilde, Ricardo Henriques Paper published in Single molecule spectroscopy and superresolution imaging XII, January 2019 Technologies: NanoJ and NanoJ-SRRF DOI: 10.1117/12.2510761 |
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A hidden Markov model approach to characterizing the photo-switching behavior of fluorophores Lekha Patel, Nils Gustafsson, Yu Lin, Raimund Ober, Ricardo Henriques, Edward Cohen Published in The annals of applied statistics, January 2019 Technologies: CARE Funded by: BBSRC DOI: 10.1214/19-AOAS1240 |
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Fix your membrane receptor imaging - actin cytoskeleton and CD4 membrane organization disruption by chemical fixation Pedro M Pereira, David Albrecht, Siân Culley, Caron Jacobs, Mark Marsh, Jason Mercer, Ricardo Henriques Published in Frontiers in immunology, January 2019 Technologies: CARE, NanoJ, NanoJ-Fluidics and NanoJ-SQUIRREL Funded by: BBSRC and Wellcome Trust DOI: 10.3389/fimmu.2019.00675 |
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Content-aware image restoration - pushing the limits of fluorescence microscopy Martin Weigert, Uwe Schmidt, Tobias Boothe, Andreas Müller, Alexandr Dibrov, Akanksha Jain, Benjamin Wilhelm, Deborah Schmidt, Coleman Broaddus, Siân Culley, Mauricio Rocha-Martins, Fabián Segovia-Miranda, Caren Norden, Ricardo Henriques, Marino Zerial, Michele Solimena, Jochen Rink, Pavel Tomancak, Loic Royer, Florian Jug, Eugene W. Myers Paper published in Nature Methods, November 2018 Technologies: CARE, NanoJ-SQUIRREL and NanoJ-SRRF Funded by: BBSRC and Wellcome Trust News: Technology Networks, VBIO, Innovations Report and Informationsdienst Wissenschaft DOI: 10.1038/s41592-018-0216-7 |
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Heterogeneous localisation of membrane proteins in Staphylococcus aureus Felix Weihs, Katarzyna Wacnik, Robert D. Turner, Siân Culley, Ricardo Henriques, Simon J. Foster Paper published in Scientific Reports, February 2018 Technologies: NanoJ and NanoJ-SRRF Funded by: BBSRC and Wellcome Trust DOI: 10.1038/s41598-018-21750-x |
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Quantitative mapping and minimization of super-resolution optical imaging artifacts Siân Culley, David Albrecht, Caron Jacobs, Pedro Matos Pereira, Christophe Leterrier, Jason Mercer, Ricardo Henriques Paper published in Nature Methods, February 2018 Technologies: NanoJ, NanoJ-SQUIRREL, NanoJ-SRRF and QuickPALM Funded by: BBSRC and Wellcome Trust News: physicsworld.com DOI: 10.1038/nmeth.4605 |
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SRRF - Universal live-cell super-resolution microscopy Siân Culley, Kalina L Tosheva, Pedro Matos Pereira, Ricardo Henriques Paper published in The international journal of biochemistry & cell biology, January 2018 Technologies: NanoJ, NanoJ-SQUIRREL and NanoJ-SRRF Funded by: BBSRC and Wellcome Trust DOI: 10.1016/j.biocel.2018.05.014 |
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The role of mitotic cell-substrate adhesion re-modeling in animal cell division Christina L Dix, Helen K Matthews, Marina Uroz, Susannah McLaren, Lucie Wolf, Nicholas Heatley, Zaw Win, Pedro Almada, Ricardo Henriques, Michael Boutros Published in Developmental cell, January 2018 Funded by: BBSRC DOI: 10.1016/j.devcel.2018.03.009 |
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Septins recognize and entrap dividing bacterial cells for delivery to lysosomes Sina Krokowski, Damian Lobato-Marquez, Arnaud Chastanet, Pedro Matos Pereira, Dimitrios Angelis, Dieter Galea, Gerald Larrouy-Maumus, Ricardo Henriques, Elias T Spiliotis, Rut Carballido-Lopez, Serge Mostowy Published in Cell host & microbe, January 2018 Technologies: NanoJ-VirusMapper Funded by: BBSRC DOI: 10.1016/j.chom.2018.11.005 |
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Open-source single-particle analysis for super-resolution microscopy with VirusMapper Robert DM Gray, Jason Mercer, Ricardo Henriques Paper published in JoVE, January 2017 Technologies: NanoJ-VirusMapper Funded by: BBSRC DOI: 10.3791/55471 |
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K63-Linked Ubiquitination Targets Toxoplasma gondii for Endo-lysosomal Destruction in IFNγ-Stimulated Human Cells Barbara Clough, Joseph D. Wright, Pedro M. Pereira, Elizabeth M. Hirst, Ashleigh C. Johnston, Ricardo Henriques, Eva-Maria Frickel Paper published in PLOS Pathogens, November 2016 Funded by: BBSRC News: Phys.org and Bionity Blogs: The Toxoplasma Blog DOI: 10.1371/journal.ppat.1006027 |
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HIV-1 Nef Impairs the Formation of Calcium Membrane Territories Controlling the Signaling Nanoarchitecture at the Immunological Synapse Joana G. Silva, Nuno P. Martins, Ricardo Henriques, Helena Soares Paper published in The Journal of Immunology, October 2016 Funded by: BBSRC DOI: 10.4049/jimmunol.1601132 |
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Fast live-cell conventional fluorophore nanoscopy with ImageJ through super-resolution radial fluctuations Nils Gustafsson, Siân Culley, George Ashdown, Dylan M. Owen, Pedro Matos Pereira, Ricardo Henriques Paper published in Nature Communications, August 2016 Technologies: QuickPALM Funded by: BBSRC News: Azom.com DOI: 10.1038/ncomms12471 |
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Infection Counter - Automated Quantification of in Vitro Virus Replication by Fluorescence Microscopy Siân Culley, Greg Towers, David Selwood, Ricardo Henriques, Joe Grove Paper published in Viruses, July 2016 Technologies: Infection-Counter Funded by: BBSRC DOI: 10.3390/v8070201 |
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VirusMapper - open-source nanoscale mapping of viral architecture through super-resolution microscopy Robert DM Gray, Corina Beerli, Pedro Matos Pereira, Kathrin Maria Scherer, Jerzy Samolej, Christopher Karl Ernst Bleck, Jason Mercer, Ricardo Henriques Paper published in Scientific reports, January 2016 Technologies: NanoJ-VirusMapper Funded by: BBSRC DOI: 10.1038/srep29132 |
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Super-resolution microscopy reveals a preformed NEMO lattice structure that is collapsed in incontinentia pigmenti Janine Scholefield, Ricardo Henriques, Anca F Savulescu, Elisabeth Fontan, Alix Boucharlat, Emmanuel Laplantine, Asma Smahi, Alain Israël, Fabrice Agou, Musa M Mhlanga Paper published in Nature Communications, January 2016 Technologies: QuickPALM Funded by: BBSRC and FCT DOI: 10.1038/ncomms12629 |
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Mitochondria mediate septin cage assembly to promote autophagy of Shigella Andrea Sirianni, Sina Krokowski, Damián Lobato‐Márquez, Stephen Buranyi, Julia Pfanzelter, Dieter Galea, Alexandra Willis, Siân Culley, Ricardo Henriques, Gerald Larrouy‐Maumus, Michael Hollinshead, Vanessa Sancho‐Shimizu, Michael Way, Serge Mostowy Paper published in EMBO reports, January 2016 Funded by: BBSRC DOI: 10.15252/embr.201541832 |
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PALM and STORM - Into large fields and high-throughput microscopy with sCMOS detectors Pedro Almada, Siân Culley, Ricardo Henriques Review published in Methods, January 2015 Technologies: QuickPALM DOI: 10.1016/j.ymeth.2015.06.004 |
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High-content 3D multicolor super-resolution localization microscopy Pedro M Pereira, Pedro Almada, Ricardo Henriques Book chapter published in Methods in cell biology, January 2015 Technologies: QuickPALM |
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TNF and IL-1 exhibit distinct ubiquitin requirements for inducing NEMO–IKK supramolecular structures Nadine Tarantino, Jean-Yves Tinevez, Elizabeth Faris Crowell, Bertrand Boisson, Ricardo Henriques, Musa Mhlanga, Fabrice Agou, Alain Israël, Emmanuel Laplantine Paper published in Journal of Cell Biology, January 2014 DOI: 10.1083/jcb.201307172 |
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Regulated vesicle fusion generates signaling nanoterritories that control T cell activation at the immunological synapse Helena Soares, Ricardo Henriques, Martin Sachse, Leandro Ventimiglia, Miguel A Alonso, Christophe Zimmer, Maria-Isabel Thoulouze, Andrés Alcover Paper published in Journal of Experimental Medicine, January 2013 Technologies: QuickPALM DOI: 10.1084/jem.20130150 |
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Hierarchies of host factor dynamics at the entry site of Shigella flexneri during host cell invasion Soudeh Ehsani, José Carlos Santos, Cristina D Rodrigues, Ricardo Henriques, Laurent Audry, Christophe Zimmer, Philippe Sansonetti, Guy Tran Van Nhieu, Jost Enninga Paper published in Infection and immunity, January 2012 Technologies: QuickPALM DOI: 10.1128/IAI.06391-11 |
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Highly dynamic host actin reorganization around developing Plasmodium inside hepatocytes Carina SS Gomes-Santos, Maurice A Itoe, Cristina Afonso, Ricardo Henriques, Rui Gardner, Nuno Sepulveda, Pedro D Simoes, Helena Raquel, Antonio Paulo Almeida, Luis F Moita, Friedrich Frischknecht, Maria M Mota Paper published in PLoS One, January 2012 DOI: 10.1371/journal.pone.0029408 |
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Enhanced epifluorescence microscopy by uniform and intensity optimized illumination Sébastien Herbert, Ricardo Henriques Perspective published in Cytometry Part A, January 2012 DOI: 10.1002/cyto.a.21177 |
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Single-molecule localization super-resolution microscopy - deeper and faster Sébastien Herbert, Helena Soares, Christophe Zimmer, Ricardo Henriques Review published in Microscopy and microanalysis, January 2012 Technologies: QuickPALM DOI: 10.1017/S1431927612013347 |
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Superresolution imaging of HIV in infected cells with FlAsH-PALM Mickaël Lelek, Francesca Di Nunzio, Ricardo Henriques, Pierre Charneau, Nathalie Arhel, Christophe Zimmer Paper published in Proceedings of the National Academy of Sciences, January 2012 DOI: 10.1073/pnas.1013267109 |
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PALM and STORM - a super-resolution molecular view into living cells C Griffiths, R Henriques, MM Mhlanga Review published in Biotechnology International, January 2011 |
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PALM and STORM - unlocking live‐cell super‐resolution Ricardo Henriques, Caron Griffiths, E Hesper Rego, Musa M Mhlanga Review published in Biopolymers, January 2011 Technologies: QuickPALM DOI: 10.1002/bip.21586 |
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QuickPALM - 3D real-time photoactivation nanoscopy image processing in ImageJ Ricardo Henriques, Mickael Lelek, Eugenio F Fornasiero, Flavia Valtorta, Christophe Zimmer, Musa M Mhlanga Paper published in Nature Methods, January 2010 Technologies: QuickPALM DOI: 10.1038/nmeth0510-339 |
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High-throughput SNP genotyping - combining tag SNPs and molecular beacons Luis B Barreiro, Ricardo Henriques, Musa M Mhlanga Book chapter published in Single Nucleotide Polymorphisms - Methods and Protocols, January 2009 DOI: 10.1007/978-1-60327-411-1_17 |
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Chronic arthritis directly induces quantitative and qualitative bone disturbances leading to compromised biomechanical properties J Caetano-Lopes, AM Nery, R Henriques, H Canhão, J Duarte, PM Amaral, M Vale, R Moura, PA Pereira, P Weinmann, S Abdulghani, M Souto-Carneiro, P Rego, J Monteiro, S Sakagushi, M Viana Queiroz, YT Konttinen, L Graça, MF Vaz, JE Fonseca Paper published in Clinical & Experimental Rheumatology, January 2009 |
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Imaging host-pathogen interactions Friedrich Frischknecht, Spencer Shorte, Ulrike Engel, Keira Melican, Agneta Richter-Dahlfors, Petra Rohrbach, Miguel Prudêncio, Maik J Lehmann, Nicolas Chenouard, Alexandre Dufour, Jean-Christophe Olivo-Marin, Ricardo Henriques, Musa M Mhlanga, Matthias F Langhorst, Joerg Schaffer, Bernhard Goetze, Freddy Frischknecht, Matthias Gunzer, Simone Lepper Editorial published in Biotechnol. J, January 2009 DOI: 10.1002/biot.200900129 |
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PALM and STORM - what hides beyond the Rayleigh limit? Ricardo Henriques, Musa M Mhlanga Review published in Biotechnology Journal - Healthcare Nutrition Technology, January 2009 DOI: 10.1002/biot.200900024 |
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Frontiers in fluorescence microscopy José Rino, José Braga, Ricardo Henriques, Maria Carmo-Fonseca Review published in International Journal of Developmental Biology, January 2009 DOI: 10.1387/ijdb.072351jr |
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Degradation of bone biomechanical properties secondary to quantitative and qualitative bone disturbances induced by arthritis in SKG mice J Caetano-Lopes, AM Nery, R Henriques, H Canhao, J Duarte, P Amaral, M Vale, R Moura, PA Pereira, P Weinmann, M Souto-Carneiro, P Rego, J Monteiro, S Sakagushi, L Graca, M Viana Queiroz, MF Vaz, JE Fonseca Paper published in Calcified Tissue International, January 2008 |
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Funding with our group
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: March 2024 - September 2024 |
Sub-cellular Metabolic Compartmentalization During Oocyte Development Zita Carvalho dos Santos, Ricardo Henriques, Jorge Carvalho Funded by: CZI - Measuring Metabolism Across Scales Duration: January 2024 - December 2026 |
Cutting-edge super-resolution image analysis in napari through NanoJ Bruno Saraiva, Ricardo Henriques Funded by: CZI - Applications - napari Plugin Foundations grants Duration: January 2023 - December 2023 Publications: 3 |
High-resolution single-molecule imaging via 3D printing Simao Coelho, Ricardo Henriques, Pedro Matos Pereira Funded by: InnOValley - Proof of Concept Duration: July 2022 - December 2023 Publications: 1 |
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: April 2022 - March 2027 Publications: 10 |
VP-CLEM-KIT - a pipeline for democratising volumetric visual proteomics Lucy Collinson, Ricardo Henriques, Paul French Funded by: CZI - Visual Proteomics Imaging Duration: December 2021 - June 2024 Publications: 13 |
Enabling Live-Cell 4D Super-Resolution Microscopy Guided by Artificial Intelligence Ricardo Henriques Alias: SelfDriving4DSR Funded by: ERC - Consolidator Duration: September 2021 - September 2026 Publications: 28 |
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: September 2021 - August 2025 Publications: 14 |
Optial Biology PhD programme Michael Hausser, Ricardo Henriques, Antonella Riccio Funded by: Wellcome Trust - 4-year PhD Programme in Science Duration: August 2021 - August 2025 |
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: March 2021 - February 2024 Publications: 3 |
Unveiling live-cell viral replication at the nanoscale Ricardo Henriques Funded by: EMBO - Installation Grant Duration: January 2021 - January 2026 Publications: 21 |
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: July 2020 - June 2021 |
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: September 2019 - August 2020 |
Establishing collaborative research between UCL and Institut Curie Ricardo Henriques, Romain Laine, Bassam Hajj Funded by: UCL - Cities Partnership Programme Duration: June 2019 - June 2019 |
4D Super-Resolution Proteomics Ricardo Henriques Funded by: UCL - Capital Equipment Fund Duration: June 2019 - May 2020 |
High-speed 3D super-resolution microscopy Ricardo Henriques Funded by: UCL - Impact Acceleration Account Duration: April 2019 - September 2019 |
Democratising Live-Cell Adaptive Super-Resolution Microscopy based on SRRF Ricardo Henriques, Buzz Baum Funded by: BBSRC - Tools and Resources Development Fund Duration: January 2019 - February 2020 Publications: 4 |
Developing AI for Microscopy Ricardo Henriques Funded by: NVIDIA - NVIDIA Academic Hardware Grant Program Duration: December 2018 - December 2018 |
Content Aware AI Driven Driven Super Resolution Microscopy Ricardo Henriques Funded by: BBSRC - Training Grant Duration: September 2018 - April 2024 Publications: 8 |
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: December 2017 - December 2018 Publications: 12 |
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: January 2017 - May 2018 Publications: 14 |
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: December 2016 - December 2021 Publications: 28 |
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: January 2016 - December 2018 Publications: 24 |
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: July 2013 - December 2016 |
Enhancing single-molecule localization super-resolution microscopy Ricardo Henriques Funded by: Pasteur-Roux-Cantarini - Postdoctoral Fellowships Duration: January 2012 - August 2013 |
Spatio-temporal tracking of gene expression in living cells via super-resolution microscopy Ricardo Henriques Funded by: FCT - PhD Fellowship Duration: January 2010 - October 2011 |
Super-resolution imaging of gene expression and nuclear architecture Musa Mhlanga, Ricardo Henriques Funded by: FCT - R&D Projects Duration: January 2009 - December 2012 Publications: 1 |
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: January 2008 - December 2011 |