Zobrazeno 1 - 10
of 425
pro vyhledávání: '"Julio Saez Rodriguez"'
Autor:
Charalampos P. Triantafyllidis, Alessandro Barberis, Fiona Hartley, Ana Miar Cuervo, Enio Gjerga, Philip Charlton, Linda van Bijsterveldt, Julio Saez Rodriguez, Francesca M. Buffa
Publikováno v:
iScience, Vol 26, Iss 12, Pp 108291- (2023)
Summary: TP53, the Guardian of the Genome, is the most frequently mutated gene in human cancers and the functional characterization of its regulation is fundamental. To address this we employ two strategies: machine learning to predict the mutation s
Externí odkaz:
https://doaj.org/article/cfd2574106b94ea7810fc1afdf22fe39
Autor:
Brian S. White, Aurélien de Reyniès, Aaron M. Newman, Joshua J. Waterfall, Andrew Lamb, Florent Petitprez, Yating Lin, Rongshan Yu, Martin E. Guerrero-Gimenez, Sergii Domanskyi, Gianni Monaco, Verena Chung, Jineta Banerjee, Daniel Derrick, Alberto Valdeolivas, Haojun Li, Xu Xiao, Shun Wang, Frank Zheng, Wenxian Yang, Carlos A. Catania, Benjamin J. Lang, Thomas J. Bertus, Carlo Piermarocchi, Francesca P. Caruso, Michele Ceccarelli, Thomas Yu, Xindi Guo, Julie Bletz, John Coller, Holden Maecker, Caroline Duault, Vida Shokoohi, Shailja Patel, Joanna E. Liliental, Stockard Simon, Tumor Deconvolution DREAM Challenge consortium, Julio Saez-Rodriguez, Laura M. Heiser, Justin Guinney, Andrew J. Gentles
Publikováno v:
Nature Communications, Vol 15, Iss 1, Pp 1-22 (2024)
Abstract We evaluate deconvolution methods, which infer levels of immune infiltration from bulk expression of tumor samples, through a community-wide DREAM Challenge. We assess six published and 22 community-contributed methods using in vitro and in
Externí odkaz:
https://doaj.org/article/fbdd2912b0694dcb86f190414734e1ac
Publikováno v:
Molecular Systems Biology, Vol 20, Iss 8, Pp 848-858 (2024)
Abstract Correlation is not causation: this simple and uncontroversial statement has far-reaching implications. Defining and applying causality in biomedical research has posed significant challenges to the scientific community. In this perspective,
Externí odkaz:
https://doaj.org/article/e9af55c03f48437797baec7600f60c14
Autor:
Kai Markus Schneider, Antje Mohs, Wenfang Gui, Eric J. C. Galvez, Lena Susanna Candels, Lisa Hoenicke, Uthayakumar Muthukumarasamy, Christian H. Holland, Carsten Elfers, Konrad Kilic, Carolin Victoria Schneider, Robert Schierwagen, Pavel Strnad, Theresa H. Wirtz, Hanns-Ulrich Marschall, Eicke Latz, Benjamin Lelouvier, Julio Saez-Rodriguez, Willem de Vos, Till Strowig, Jonel Trebicka, Christian Trautwein
Publikováno v:
Nature Communications, Vol 13, Iss 1, Pp 1-19 (2022)
Steatohepatitis is a chronic hepatic inflammation associated with increased risk of hepatocellular carcinoma progression. Here the authors show that intestinal dysbiosis in mice lacking the inflammasome sensor molecule NLRP6 aggravates steatohepatiti
Externí odkaz:
https://doaj.org/article/824434bb81f14bacbea787007aaff67c
Autor:
Daniel Dimitrov, Dénes Türei, Martin Garrido-Rodriguez, Paul L. Burmedi, James S. Nagai, Charlotte Boys, Ricardo O. Ramirez Flores, Hyojin Kim, Bence Szalai, Ivan G. Costa, Alberto Valdeolivas, Aurélien Dugourd, Julio Saez-Rodriguez
Publikováno v:
Nature Communications, Vol 13, Iss 1, Pp 1-13 (2022)
Multiple methods to infer cell-cell communication (CCC) from single cell data are currently available. Here, the authors systematically compare 16 CCC inference resources and 7 methods, and develop the LIANA framework as an interface to use and compa
Externí odkaz:
https://doaj.org/article/4d3fd7c242584bd58262aeacf19fb079
Autor:
Martina Poletti, Agatha Treveil, Luca Csabai, Leila Gul, Dezso Modos, Matthew Madgwick, Marton Olbei, Balazs Bohar, Alberto Valdeolivas, Denes Turei, Bram Verstockt, Sergio Triana, Theodore Alexandrov, Julio Saez-Rodriguez, Megan L. Stanifer, Steeve Boulant, Tamas Korcsmaros
Publikováno v:
npj Systems Biology and Applications, Vol 8, Iss 1, Pp 1-19 (2022)
Abstract Increasing evidence points towards the key role of the epithelium in the systemic and over-activated immune response to viral infection, including SARS-CoV-2 infection. Yet, how viral infection alters epithelial–immune cell interactions re
Externí odkaz:
https://doaj.org/article/738ae418fdc748b4b520a8a08ccc3aac
Autor:
Sara M. Parigi, Ludvig Larsson, Srustidhar Das, Ricardo O. Ramirez Flores, Annika Frede, Kumar P. Tripathi, Oscar E. Diaz, Katja Selin, Rodrigo A. Morales, Xinxin Luo, Gustavo Monasterio, Camilla Engblom, Nicola Gagliani, Julio Saez-Rodriguez, Joakim Lundeberg, Eduardo J. Villablanca
Publikováno v:
Nature Communications, Vol 13, Iss 1, Pp 1-16 (2022)
Abstract The intestinal barrier is composed of a complex cell network defining highly compartmentalized and specialized structures. Here, we use spatial transcriptomics to define how the transcriptomic landscape is spatially organized in the steady s
Externí odkaz:
https://doaj.org/article/f5256a2864b448d09abb930e673fd1f1
Autor:
Christian H. Holland, Ricardo O. Ramirez Flores, Maiju Myllys, Reham Hassan, Karolina Edlund, Ute Hofmann, Rosemarie Marchan, Cristina Cadenas, Jörg Reinders, Stefan Hoehme, Abdel‐latif Seddek, Steven Dooley, Verena Keitel, Patricio Godoy, Brigitte Begher‐Tibbe, Christian Trautwein, Christian Rupp, Sebastian Mueller, Thomas Longerich, Jan G. Hengstler, Julio Saez‐Rodriguez, Ahmed Ghallab
Publikováno v:
Hepatology Communications, Vol 6, Iss 1, Pp 161-177 (2022)
Mouse models are frequently used to study chronic liver diseases (CLDs). To assess their translational relevance, we quantified the similarity of commonly used mouse models to human CLDs based on transcriptome data. Gene‐expression data from 372 pa
Externí odkaz:
https://doaj.org/article/4ef99dee00404d32b567d51955a3b208
Autor:
Marti Bernardo-Faura, Melanie Rinas, Jakob Wirbel, Inna Pertsovskaya, Vicky Pliaka, Dimitris E. Messinis, Gemma Vila, Theodore Sakellaropoulos, Wolfgang Faigle, Pernilla Stridh, Janina R. Behrens, Tomas Olsson, Roland Martin, Friedemann Paul, Leonidas G. Alexopoulos, Pablo Villoslada, Julio Saez-Rodriguez
Publikováno v:
Genome Medicine, Vol 13, Iss 1, Pp 1-16 (2021)
Abstract Background Multiple sclerosis (MS) is a major health problem, leading to a significant disability and patient suffering. Although chronic activation of the immune system is a hallmark of the disease, its pathogenesis is poorly understood, wh
Externí odkaz:
https://doaj.org/article/d0283f3687a1440293ae0739ffafff56
Autor:
Martin Garrido‐Rodriguez, Katharina Zirngibl, Olga Ivanova, Sebastian Lobentanzer, Julio Saez‐Rodriguez
Publikováno v:
Molecular Systems Biology, Vol 18, Iss 7, Pp n/a-n/a (2022)
Abstract Signal transduction governs cellular behavior, and its dysregulation often leads to human disease. To understand this process, we can use network models based on prior knowledge, where nodes represent biomolecules, usually proteins, and edge
Externí odkaz:
https://doaj.org/article/2407e044686f4858bdba6c6dc45f7460