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629 results on '"Lutolf, Matthias P."'

5. Robust Phase Unwrapping via Deep Image Prior for Quantitative Phase Imaging

Author

Yang, Fangshu, Pham, Thanh-an, Brandenberg, Nathalie, Lutolf, Matthias P., Ma, Jianwei, and Unser, Michael

Subjects
Electrical Engineering and Systems Science - Image and Video Processing, Computer Science - Machine Learning, Electrical Engineering and Systems Science - Signal Processing
Abstract

Quantitative phase imaging (QPI) is an emerging label-free technique that produces images containing morphological and dynamical information without contrast agents. Unfortunately, the phase is wrapped in most imaging system. Phase unwrapping is the computational process that recovers a more informative image. It is particularly challenging with thick and complex samples such as organoids. Recent works that rely on supervised training show that deep learning is a powerful method to unwrap the phase; however, supervised approaches require large and representative datasets which are difficult to obtain for complex biological samples. Inspired by the concept of deep image priors, we propose a deep-learning-based method that does not need any training set. Our framework relies on an untrained convolutional neural network to accurately unwrap the phase while ensuring the consistency of the measurements. We experimentally demonstrate that the proposed method faithfully recovers the phase of complex samples on both real and simulated data. Our work paves the way to reliable phase imaging of thick and complex samples with QPI.

Published
2020
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13. Thymic epithelial organoids mediate T-cell development.

Author

Hübscher, Tania, Lorenzo-Martıń, L. Francisco, Barthlott, Thomas, Tillard, Lucie, Langer, Jakob J., Rouse, Paul, Blackburn, C. Clare, Holländer, Georg, and Lutolf, Matthias P.

Subjects
DEVELOPMENTAL biology, EPITHELIAL cells, CELL populations, PROGENITOR cells, TRANSLATIONAL research
Abstract

Although the advent of organoids has opened unprecedented perspectives for basic and translational research, immune system-related organoids remain largely underdeveloped. Here, we established organoids from the thymus, the lymphoid organ responsible for T-cell development. We identified conditions enabling mouse thymic epithelial progenitor cell proliferation and development into organoids with diverse cell populations and transcriptional profiles resembling in vivo thymic epithelial cells (TECs) more closely than traditional TEC cultures. In contrast to these two-dimensional cultures, thymic epithelial organoids maintained thymus functionality in vitro and mediated physiological T-cell development upon reaggregation with T-cell progenitors. The reaggregates showed in vivo-like epithelial diversity and the ability to attract T-cell progenitors. Thymic epithelial organoids are the first organoids originating from the stromal compartment of a lymphoid organ. They provide new opportunities to study TEC biology and T-cell development in vitro, paving the way for future thymic regeneration strategies in ageing or acute injuries. [ABSTRACT FROM AUTHOR]

Published
2024
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15. Thymic epithelial organoids mediate T cell development

Author

Hübscher, Tania, primary, Lorenzo-Martín, L. Francisco, additional, Barthlott, Thomas, additional, Tillard, Lucie, additional, Langer, Jakob J., additional, Rouse, Paul, additional, Blackburn, C. Clare, additional, Holländer, Georg, additional, and Lutolf, Matthias P., additional

Published
2024
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16. An engineered multicellular stem cell niche for the 3D derivation of human myogenic progenitors from iPSCs

Author

Mashinchian, Omid, De Franceschi, Filippo, Nassiri, Sina, Michaud, Joris, Migliavacca, Eugenia, Aouad, Patrick, Metairon, Sylviane, Pruvost, Solenn, Karaz, Sonia, Fabre, Paul, Molina, Thomas, Stuelsatz, Pascal, Hegde, Nagabhooshan, Le Moal, Emmeran, Dammone, Gabriele, Dumont, Nicolas A, Lutolf, Matthias P, Feige, Jerome N, and Bentzinger, C Florian

Published
2022
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17. ISSCR standards for the use of human stem cells in basic research

Author

Ludwig, Tenneille E., Andrews, Peter W., Barbaric, Ivana, Benvenisty, Nissim, Bhattacharyya, Anita, Crook, Jeremy M., Daheron, Laurence M., Draper, Jonathan S., Healy, Lyn E., Huch, Meritxell, Inamdar, Maneesha S., Jensen, Kim B., Kurtz, Andreas, Lancaster, Madeline A., Liberali, Prisca, Lutolf, Matthias P, Mummery, Christine L., Pera, Martin F., Sato, Yoji, Shimasaki, Noriko, Smith, Austin G., Song, Jihwan, Spits, Claudia, Stacey, Glyn, Wells, Christine A., Zhao, Tongbiao, Mosher, Jack T., Ludwig, Tenneille E., Andrews, Peter W., Barbaric, Ivana, Benvenisty, Nissim, Bhattacharyya, Anita, Crook, Jeremy M., Daheron, Laurence M., Draper, Jonathan S., Healy, Lyn E., Huch, Meritxell, Inamdar, Maneesha S., Jensen, Kim B., Kurtz, Andreas, Lancaster, Madeline A., Liberali, Prisca, Lutolf, Matthias P, Mummery, Christine L., Pera, Martin F., Sato, Yoji, Shimasaki, Noriko, Smith, Austin G., Song, Jihwan, Spits, Claudia, Stacey, Glyn, Wells, Christine A., Zhao, Tongbiao, and Mosher, Jack T.

Abstract

The laboratory culture of human stem cells seeks to capture a cellular state as an in vitro surrogate of a biological system. For the results and outputs from this research to be accurate, meaning-ful, and durable, standards that ensure reproducibility and reli-ability of the data should be applied. Although such standards have been previously proposed for repositories and distribution centers, no widely accepted best practices exist for laboratory research with human pluripotent and tissue stem cells. To fill that void, the International Society for Stem Cell Research has developed a set of recommendations, including reporting criteria, for scientists in basic research laboratories. These criteria are de-signed to be technically and financially feasible and, when imple-mented, enhance the reproducibility and rigor of stem cell research.

Published
2024
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19. In vitro human cell-based models: What can they do and what are their limitations?

Author

Lutolf, Matthias P., Radisic, Milica, Beekman, Jeffrey, Huh, Dan Dongeun, Huch, Meritxell, Turco, Margherita Yayoi, Tahmasebi Birgani, Zeinab Niloofar, Gao, Dong, Yao, Rui, Lin, Hang, and Takebe, Takanori

Subjects
*RESEARCH personnel, *HUMAN beings
Abstract

It is said that all models are wrong, but some are useful. In vitro human cell-based models are a prime example of this maxim. We asked researchers: when is your model system useful? How can it be made more useful? What are its limitations? [ABSTRACT FROM AUTHOR]

Published
2024
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24. 3D extrusion bioprinting

Author

Zhang, Yu Shrike, Haghiashtiani, Ghazaleh, Hübscher, Tania, Kelly, Daniel J., Lee, Jia Min, Lutolf, Matthias, McAlpine, Michael C., Yeong, Wai Yee, Zenobi-Wong, Marcy, and Malda, Jos

Published
2021
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26. Antiangiogenic immunotherapy suppresses desmoplastic and chemoresistant intestinal tumors in mice

Author

Ragusa, Simone, Prat-Luri, Borja, Gonzalez-Loyola, Alejandra, Nassiri, Sina, Squadrito, Mario Leonardo, Guichard, Alan, Cavin, Sabrina, Gjorevski, Nikolce, Barras, David, Marra, Giancarlo, Lutolf, Matthias P., Perentes, Jean, Corse, Emily, Bianchi, Roberta, Wetterwald, Laureline, Kim, Jaeryung, Oliver, Guillermo, Delorenzi, Mauro, De Palma, Michele, and Petrova, Tatiana V.

Subjects
Cancer -- Genetic aspects -- Drug therapy -- Prognosis -- Analysis -- Health aspects, Chemotherapy -- Analysis -- Health aspects, Vascular endothelial growth factor -- Analysis -- Health aspects, Colorectal cancer -- Genetic aspects -- Drug therapy -- Prognosis -- Analysis -- Health aspects, Immunotherapy -- Analysis -- Health aspects, Gastrointestinal diseases -- Genetic aspects -- Drug therapy -- Prognosis -- Analysis -- Health aspects, Antineoplastic agents -- Analysis -- Health aspects, T cells -- Analysis -- Health aspects, Cancer treatment, Endothelial growth factors, Tumors, Cancer cells, Endothelium, Antibodies, Fibrosis, Health care industry
Abstract

Mutations in APC promote colorectal cancer (CRC) progression through uncontrolled WNT signaling. Patients with desmoplastic CRC have a significantly worse prognosis and do not benefit from chemotherapy, but the mechanisms underlying the differential responses of APC-mutant CRCs to chemotherapy are not well understood. We report that expression of the transcription factor prospero homeobox 1 (PROX1) was reduced in desmoplastic APC-mutant human CRCs. In genetic Ape-mutant mouse models, loss of Prox1 promoted the growth of desmoplastic, angiogenic, and immunologically silent tumors through derepression of Mmp14. Although chemotherapy inhibited Prox1-proficient tumors, it promoted further stromal activation, angiogenesis, and invasion in Prox1-deficient tumors. Blockade of vascular endothelial growth factor A (VEGFA) and angiopoietin-2 (ANGPT2) combined with CD40 agonistic antibodies promoted antiangiogenic and immunostimulatory reprogramming of Prox1-deficient tumors, destroyed tumor fibrosis, and unleashed T cell-mediated killing of cancer cells. These results pinpoint the mechanistic basis of chemotherapy-induced hyperprogression and illustrate a therapeutic strategy for chemoresistant and desmoplastic CRCs., Introduction Colorectal cancer (CRC) is one of the leading causes of cancer-related mortality worldwide (1). Patients with stage III or IV CRC have a high risk of recurrence and are [...]

Published
2020
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31. ISSCR standards for the use of human stem cells in basic research

Author

Ludwig, Tenneille E., primary, Andrews, Peter W., additional, Barbaric, Ivana, additional, Benvenisty, Nissim, additional, Bhattacharyya, Anita, additional, Crook, Jeremy M., additional, Daheron, Laurence M., additional, Draper, Jonathan S., additional, Healy, Lyn E., additional, Huch, Meritxell, additional, Inamdar, Maneesha S., additional, Jensen, Kim B., additional, Kurtz, Andreas, additional, Lancaster, Madeline A., additional, Liberali, Prisca, additional, Lutolf, Matthias P., additional, Mummery, Christine L., additional, Pera, Martin F., additional, Sato, Yoji, additional, Shimasaki, Noriko, additional, Smith, Austin G., additional, Song, Jihwan, additional, Spits, Claudia, additional, Stacey, Glyn, additional, Wells, Christine A., additional, Zhao, Tongbiao, additional, and Mosher, Jack T., additional

Published
2023
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38. Multi-axial self-organization properties of mouse embryonic stem cells into gastruloids

Author

Beccari, Leonardo, Moris, Naomi, Girgin, Mehmet, Turner, David A., Baillie-Johnson, Peter, Cossy, Anne-Catherine, and Lutolf, Matthias P.

Subjects
Stem cells -- Research, Transcription factors -- Research, Gene expression -- Research, Laboratory rats -- Genetic aspects -- Research, Displays (Marketing), Stem cell research, Embryo, Genes, Transcription (Genetics), Embryonic stem cells, Environmental issues, Science and technology, Zoology and wildlife conservation
Abstract

The emergence of multiple axes is an essential element in the establishment of the mammalian body plan. This process takes place shortly after implantation of the embryo within the uterus and relies on the activity of gene regulatory networks that coordinate transcription in space and time. Whereas genetic approaches have revealed important aspects of these processes.sup.1, a mechanistic understanding is hampered by the poor experimental accessibility of early post-implantation stages. Here we show that small aggregates of mouse embryonic stem cells (ESCs), when stimulated to undergo gastrulation-like events and elongation in vitro, can organize a post-occipital pattern of neural, mesodermal and endodermal derivatives that mimic embryonic spatial and temporal gene expression. The establishment of the three major body axes in these 'gastruloids'.sup.2,3 suggests that the mechanisms involved are interdependent. Specifically, gastruloids display the hallmarks of axial gene regulatory systems as exemplified by the implementation of collinear Hox transcriptional patterns along an extending antero-posterior axis. These results reveal an unanticipated self-organizing capacity of aggregated ESCs and suggest that gastruloids could be used as a complementary system to study early developmental events in the mammalian embryo.Cultures grown from small aggregates of mouse embryonic stem cells can be induced to organize spatial and temporal patterns of gene expression that parallel those of the early embryo, offering a potentially useful system for studying early development., Author(s): Leonardo Beccari [sup.1] , Naomi Moris [sup.2] , Mehmet Girgin [sup.3] , David A. Turner [sup.2] , Peter Baillie-Johnson [sup.2] [sup.5] , Anne-Catherine Cossy [sup.4] , Matthias P. Lutolf [...]

Published
2018
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40. Embryo-uterine interaction coordinates mouse embryogenesis during implantation

Author

00512477, Bondarenko, Vladyslav, Nikolaev, Mikhail, Kromm, Dimitri, Belousov, Roman, Wolny, Adrian, Blotenburg, Marloes, Zeller, Peter, Rezakhani, Saba, Hugger, Johannes, Uhlmann, Virginie, Hufnagel, Lars, Kreshuk, Anna, Ellenberg, Jan, van Oudenaarden, Alexander, Erzberger, Anna, Lutolf, Matthias P, Hiiragi, Takashi, 00512477, Bondarenko, Vladyslav, Nikolaev, Mikhail, Kromm, Dimitri, Belousov, Roman, Wolny, Adrian, Blotenburg, Marloes, Zeller, Peter, Rezakhani, Saba, Hugger, Johannes, Uhlmann, Virginie, Hufnagel, Lars, Kreshuk, Anna, Ellenberg, Jan, van Oudenaarden, Alexander, Erzberger, Anna, Lutolf, Matthias P, and Hiiragi, Takashi

Abstract

Embryo implantation into the uterus marks a key transition in mammalian development. In mice, implantation is mediated by the trophoblast and is accompanied by a morphological transition from the blastocyst to the egg cylinder. However, the roles of trophoblast‐uterine interactions in embryo morphogenesis during implantation are poorly understood due to inaccessibility in utero and the remaining challenges to recapitulate it ex vivo from the blastocyst. Here, we engineer a uterus‐like microenvironment to recapitulate peri‐implantation development of the whole mouse embryo ex vivo and reveal essential roles of the physical embryo‐uterine interaction. We demonstrate that adhesion between the trophoblast and the uterine matrix is required for in utero‐like transition of the blastocyst to the egg cylinder. Modeling the implanting embryo as a wetting droplet links embryo shape dynamics to the underlying changes in trophoblast adhesion and suggests that the adhesion‐mediated tension release facilitates egg cylinder formation. Light‐sheet live imaging and the experimental control of the engineered uterine geometry and trophoblast velocity uncovers the coordination between trophoblast motility and embryo growth, where the trophoblast delineates space for embryo morphogenesis.

Published
2023

41. ISSCR standards for the use of human stem cells in basic research

Author

Ludwig, Tenneille E., Andrews, Peter W., Barbaric, Ivana, Benvenisty, Nissim, Bhattacharyya, Anita, Crook, Jeremy M., Daheron, Laurence M., Draper, Jonathan S., Healy, Lyn E., Huch, Meritxell, Inamdar, Maneesha S., Jensen, Kim B., Kurtz, Andreas, Lancaster, Madeline A., Liberali, Prisca, Lutolf, Matthias P., Mummery, Christine L., Pera, Martin F., Sato, Yoji, Shimasaki, Noriko, Smith, Austin G., Song, Jihwan, Spits, Claudia, Stacey, Glyn, Wells, Christine A., Zhao, Tongbiao, Mosher, Jack T., Ludwig, Tenneille E., Andrews, Peter W., Barbaric, Ivana, Benvenisty, Nissim, Bhattacharyya, Anita, Crook, Jeremy M., Daheron, Laurence M., Draper, Jonathan S., Healy, Lyn E., Huch, Meritxell, Inamdar, Maneesha S., Jensen, Kim B., Kurtz, Andreas, Lancaster, Madeline A., Liberali, Prisca, Lutolf, Matthias P., Mummery, Christine L., Pera, Martin F., Sato, Yoji, Shimasaki, Noriko, Smith, Austin G., Song, Jihwan, Spits, Claudia, Stacey, Glyn, Wells, Christine A., Zhao, Tongbiao, and Mosher, Jack T.

Abstract

The laboratory culture of human stem cells seeks to capture a cellular state as an in vitro surrogate of a biological system. For the results and outputs from this research to be accurate, meaningful, and durable, standards that ensure reproducibility and reliability of the data should be applied. Although such standards have been previously proposed for repositories and distribution centers, no widely accepted best practices exist for laboratory research with human pluripotent and tissue stem cells. To fill that void, the International Society for Stem Cell Research has developed a set of recommendations, including reporting criteria, for scientists in basic research laboratories. These criteria are designed to be technically and financially feasible and, when implemented, enhance the reproducibility and rigor of stem cell research.

Published
2023

42. Embryo-uterine interaction coordinates mouse embryogenesis during implantation

Author

CMM Sectie Molecular Cancer Research, Cancer, Hubrecht Institute with UMC, Bondarenko, Vladyslav, Nikolaev, Mikhail, Kromm, Dimitri, Belousov, Roman, Wolny, Adrian, Blotenburg, Marloes, Zeller, Peter, Rezakhani, Saba, Hugger, Johannes, Uhlmann, Virginie, Hufnagel, Lars, Kreshuk, Anna, Ellenberg, Jan, van Oudenaarden, Alexander, Erzberger, Anna, Lutolf, Matthias P., Hiiragi, Takashi, CMM Sectie Molecular Cancer Research, Cancer, Hubrecht Institute with UMC, Bondarenko, Vladyslav, Nikolaev, Mikhail, Kromm, Dimitri, Belousov, Roman, Wolny, Adrian, Blotenburg, Marloes, Zeller, Peter, Rezakhani, Saba, Hugger, Johannes, Uhlmann, Virginie, Hufnagel, Lars, Kreshuk, Anna, Ellenberg, Jan, van Oudenaarden, Alexander, Erzberger, Anna, Lutolf, Matthias P., and Hiiragi, Takashi

Published
2023

45. Synthetic dynamic hydrogels promote degradation-independent in vitro organogenesis

Author

Chrisnandy, Antonius, Blondel, Delphine, Rezakhani, Saba, Broguiere, Nicolas, and Lutolf, Matthias P.

Abstract

Epithelial organoids are most efficiently grown from mouse-tumour-derived, reconstituted extracellular matrix hydrogels, whose poorly defined composition, batch-to-batch variability and immunogenicity limit clinical applications. Efforts to replace such ill-defined matrices for organoid culture have largely focused on non-adaptable hydrogels composed of covalently crosslinked hydrophilic macromolecules. However, the excessive forces caused by tissue expansion in such elastic gels severely restrict organoid growth and morphogenesis. Chemical or enzymatic degradation schemes can partially alleviate this problem, but due to their irreversibility, long-term applicability is limited. Here we report a family of synthetic hydrogels that promote extensive organoid morphogenesis through dynamic rearrangements mediated by reversible hydrogen bonding. These tunable matrices are stress relaxing and thus promote efficient crypt budding in intestinal stem-cell epithelia through increased symmetry breaking and Paneth cell formation dependent on yes-associated protein 1. As such, these well-defined gels provide promising versatile matrices for fostering elaborate in vitro morphogenesis.

Published
2024
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47. Author Reply to Peer Reviews of EMBRYO-UTERINE INTERACTION COORDINATES MOUSE EMBRYOGENESIS DURING IMPLANTATION

Author

Bondarenko, Vladyslav, primary, Nikolaev, Mike, additional, Kromm, Dimitri, additional, Belousov, Roman, additional, Wolny, Adrian, additional, Rezakhani, Saba, additional, Hugger, Jahannes, additional, Uhlmann, Virginie, additional, Hufnagel, Lars, additional, Kreshuk, Anna, additional, Ellenberg, Jan, additional, Erzberger, Anna, additional, Lutolf, Matthias P, additional, and Hiiragi, Takashi, additional

Published
2022
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49. Organoids as tools for fundamental discovery and translation—a Keystone Symposia report

Author

Cable, Jennifer, primary, Lutolf, Matthias P., additional, Fu, Jianping, additional, Park, Sunghee Estelle, additional, Apostolou, Athanasia, additional, Chen, Shuibing, additional, Song, Cheng Jack, additional, Spence, Jason R., additional, Liberali, Prisca, additional, Lancaster, Madeline, additional, Meier, Anna B., additional, Pek, Nicole Min Qian, additional, Wells, James M., additional, Capeling, Meghan M., additional, Uzquiano, Ana, additional, Musah, Samira, additional, Huch, Meritxell, additional, Gouti, Mina, additional, Hombrink, Pleun, additional, Quadrato, Giorgia, additional, and Urenda, Jean‐Paul, additional

Published
2022
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50. c-MAF coordinates enterocyte zonation and nutrient uptake transcriptional programs

Author

González-Loyola, Alejandra, primary, Bernier-Latmani, Jeremiah, additional, Roci, Irena, additional, Wyss, Tania, additional, Langer, Jakob, additional, Durot, Stephan, additional, Munoz, Olivia, additional, Prat-Luri, Borja, additional, Delorenzi, Mauro, additional, Lutolf, Matthias P., additional, Zamboni, Nicola, additional, Verdeil, Grégory, additional, and Petrova, Tatiana V., additional

Published
2022
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