Sopa: a technology-invariant pipeline for analyses of image-based spatial omics

Autor: Quentin Blampey, Kevin Mulder, Margaux Gardet, Stergios Christodoulidis, Charles-Antoine Dutertre, Fabrice André, Florent Ginhoux, Paul-Henry Cournède

Publikováno v: Nature Communications, Vol 15, Iss 1, Pp 1-12 (2024)

Abstract Spatial omics data allow in-depth analysis of tissue architectures, opening new opportunities for biological discovery. In particular, imaging techniques offer single-cell resolutions, providing essential insights into cellular organizations

Externí odkaz: https://doaj.org/article/26bd2daea8c6419babf553bee6d0d161

Ongoing harlequin toad declines suggest the amphibian extinction crisis is still an emergency

Autor: Stefan Lötters, Amadeus Plewnia, Alessandro Catenazzi, Kelsey Neam, Andrés R. Acosta-Galvis, Yesenia Alarcon Vela, Joshua P. Allen, Juan O. Alfaro Segundo, Ana de Lourdes Almendáriz Cabezas, Gilbert Alvarado Barboza, Kleiton R. Alves-Silva, Marvin Anganoy-Criollo, Ernesto Arbeláez Ortiz, Jackeline D. Arpi Lojano, Alejandro Arteaga, Onil Ballestas, Diego Barrera Moscoso, José D. Barros-Castañeda, Abel Batista, Manuel H. Bernal, Esteban Betancourt, Youszef Oliveira da Cunha Bitar, Philipp Böning, Laura Bravo-Valencia, José F. Cáceres Andrade, Diego Cadenas, Juan Carlos Chaparro Auza, Giovanni A. Chaves-Portilla, Germán Chávez, Luis A. Coloma, Claudia F. Cortez-Fernandez, Elodie A. Courtois, Jaime Culebras, Ignacio De la Riva, Vladimir Diaz, Luis C. Elizondo Lara, Raffael Ernst, Sandra V. Flechas, Thibaut Foch, Antoine Fouquet, Carmen Z. García Méndez, Juan Elias García-Pérez, Diego A. Gómez-Hoyos, Samuel C. Gomides, Jorge Guerrel, Brian Gratwicke, Juan M. Guayasamin, Edgardo Griffith, Valia Herrera-Alva, Roberto Ibáñez, Carlos Iván Idrovo, Andrés Jiménez Monge, Rafael F. Jorge, Alisha Jung, Blake Klocke, Margarita Lampo, Edgar Lehr, Carrie H. R. Lewis, Erik D. Lindquist, Yeny R. López-Perilla, Glib Mazepa, Guido F. Medina-Rangel, Andrés Merino Viteri, Kevin Mulder, Mauricio Pacheco-Suarez, Andry Pereira-Muñoz, José Luis Pérez-González, Maria Alejandra Pinto Erazo, Adolfo Gustavo Pisso Florez, Marcos Ponce, Vicky Poole, Amanda B. Quezada Riera, Aarón J. Quiroz, Michelle Quiroz-Espinoza, Alejandro Ramírez Guerra, Juan P. Ramírez, Steffen Reichle, Hugo Reizine, Mauricio Rivera-Correa, Bernardo Roca-Rey Ross, Andrés Rocha-Usuga, Miguel Trefaut Rodrigues, Sintana Rojas Montaño, Daniela C. Rößler, Luis Alberto Rueda Solano, Celsa Señaris, Alexander Shepack, Fausto R. Siavichay Pesántez, Anton Sorokin, Andrea Terán-Valdez, Grecia Torres-Ccasani, Pablo C. Tovar-Siso, Lina M. Valencia, David A. Velásquez-Trujillo, Michael Veith, Pablo J. Venegas, Jeferson Villalba-Fuentes, Rudolf von May, Juan F. Webster Bernal, Enrique La Marca

Publikováno v: Communications Earth & Environment, Vol 4, Iss 1, Pp 1-8 (2023)

Abstract Biodiversity loss is extreme in amphibians. Despite ongoing conservation action, it is difficult to determine where we stand in overcoming their extinction crisis. Among the most threatened amphibians are the 131 Neotropical harlequin toads.

Externí odkaz: https://doaj.org/article/f59319ec0349480b99c54a0bfcd9a4de

Data from Escherichia coli–Specific CXCL13-Producing TFH Are Associated with Clinical Efficacy of Neoadjuvant PD-1 Blockade against Muscle-Invasive Bladder Cancer

Autor: Yohann Loriot, Laurence Zitvogel, Jean-Yves Scoazec, Guido Kroemer, Miriam Merad, Fabrice Andre, Benjamin Besse, Michiel S. Van Der Heijden, Nick Van Dijk, Jeroen Van Dorp, Aurélien Marabelle, Lisa Derosa, Gwénaël Le Teuff, Florent Ginhoux, Mathieu Rouanne, Jacques Fieschi, Yves Allory, Camelia Radulescu, Etienne Rouleau, Romain Daillere, Adeline Mallet, Maryse Moya-Nilges, Nadège Cayet, Ivo Gomperts Boneca, Shaima Belhechmi, Baptiste Archambaud, Thibault Raoult, Aymeric Silvin, Kevin Mulder, Garett Dunsmore, François-Xavier Danlos, Camille Bleriot, Jacques Bou Khalil, Gabriel Haddad, Caroline Davin, Mounia Filahi, Thomas Sbarrato, Allan Sauvat, Nicolas Signolle, Virginie Marty, Pierre Ly, Caroline Flament, Marine Mazzenga, Agathe Dubuisson, Idir Ouzaid, Evanguelos Xylinas, Morgan Roupret, Luca Campedel, Carole Helissey, Gwenaelle Gravis, Géraldine Pignot, François Audenet, Constance Thibault, Cédric Lebacle, Cassandra Thelemaque, Maxime Descartes Mbogning-Fonkou, Marianne Gazzano, Isabelle Peguillet, Carolina Alves Costa Silva, Leonardo Lordello, Anne-Gaëlle Goubet

Biomarkers guiding the neoadjuvant use of immune-checkpoint blockers (ICB) are needed for patients with localized muscle-invasive bladder cancers (MIBC). Profiling tumor and blood samples, we found that follicular helper CD4+ T cells (TFH) are among

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::45210f1c0b6167a0adc4b59c182e7e79
https://doi.org/10.1158/2159-8290.c.6549753

Dual ontogeny of disease-associated microglia and disease inflammatory macrophages in aging and neurodegeneration

Autor: Aymeric Silvin, Stefan Uderhardt, Cecile Piot, Sandro Da Mesquita, Katharine Yang, Laufey Geirsdottir, Kevin Mulder, David Eyal, Zhaoyuan Liu, Cecile Bridlance, Morgane Sonia Thion, Xiao Meng Zhang, Wan Ting Kong, Marc Deloger, Vasco Fontes, Assaf Weiner, Rachel Ee, Regine Dress, Jing Wen Hang, Akhila Balachander, Svetoslav Chakarov, Benoit Malleret, Garett Dunsmore, Olivier Cexus, Jinmiao Chen, Sonia Garel, Charles Antoine Dutertre, Ido Amit, Jonathan Kipnis, Florent Ginhoux

Publikováno v: Immunity
Immunity, 2022, 55 (8), pp.1448-1465.e6. ⟨10.1016/j.immuni.2022.07.004⟩

Brain macrophage populations include parenchymal microglia, border-associated macrophages, and recruited monocyte-derived cells; together, they control brain development and homeostasis but are also implicated in aging pathogenesis and neurodegenerat

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::8f6cd5de183a756c6d4c1de42ccc6cbf
https://pubmed.ncbi.nlm.nih.gov/35931085

The utility of formalin-fixed tissues and allozyme supernatant for population genomics and considerations for combining capture- and RADseq-based SNP datasets

Autor: Kyle O'Connell, Kevin Mulder, Addison Wynn, Kevin de Queiroz, Rayna Bell

Until recently many historical museum specimens were largely inaccessible to genomic inquiry, but high-throughput sequencing (HTS) approaches have allowed researchers to successfully sequence genomic DNA from dried and fluid-preserved museum specimen

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_________::e1fef0fb8184cb91df4ce37c1f3e12c2
https://doi.org/10.22541/au.161598002.27985989/v1