Modeling Cell-Cell Interactions from Spatial Molecular Data with Spatial Variance Component Analysis

por Arnol, Damien, Schapiro, Denis, Bodenmiller, Bernd, Saez-Rodriguez, Julio, Stegle, Oliver
Publicado 2019

In silico tissue generation and power analysis for spatial omics

por Baker, Ethan A. G., Schapiro, Denis, Dumitrascu, Bianca, Vickovic, Sanja, Regev, Aviv
Publicado 2023

Explainable multiview framework for dissecting spatial relationships from highly multiplexed data

por Tanevski, Jovan, Flores, Ricardo Omar Ramirez, Gabor, Attila, Schapiro, Denis, Saez-Rodriguez, Julio
Publicado 2022

Influence of node abundance on signaling network state and dynamics analyzed by mass cytometry

por Lun, Xiao-Kang, Zanotelli, Vito RT, Wade, James D, Schapiro, Denis, Tognetti, Marco, Dobberstein, Nadine, Bodenmiller, Bernd
Publicado 2017

Simultaneous Multiplexed Imaging of mRNA and Proteins with Subcellular Resolution in Breast Cancer Tissue Samples by Mass Cytometry

por Schulz, Daniel, Zanotelli, Vito Riccardo Tomaso, Fischer, Jana Raja, Schapiro, Denis, Engler, Stefanie, Lun, Xiao-Kang, Jackson, Hartland Warren, Bodenmiller, Bernd
Publicado 2018

Simultaneous Multiplexed Imaging of mRNA and Proteins with Subcellular Resolution in Breast Cancer Tissue Samples by Mass Cytometry

por Schulz, Daniel, Zanotelli, Vito Riccardo Tomaso, Fischer, Jana Raja, Schapiro, Denis, Engler, Stefanie, Lun, Xiao-Kang, Jackson, Hartland Warren, Bodenmiller, Bernd
Publicado 2018

miCAT: A toolbox for analysis of cell phenotypes and interactions in multiplex image cytometry data

por Schapiro, Denis, Jackson, Hartland W, Raghuraman, Swetha, Fischer, Jana R, Zanotelli, Vito R. T., Schulz, Daniel, Giesen, Charlotte, Catena, Raúl, Varga, Zsuzsanna, Bodenmiller, Bernd
Publicado 2017

Highly multiplexed immunofluorescence images and single-cell data of immune markers in tonsil and lung cancer

por Rashid, Rumana, Gaglia, Giorgio, Chen, Yu-An, Lin, Jia-Ren, Du, Ziming, Maliga, Zoltan, Schapiro, Denis, Yapp, Clarence, Muhlich, Jeremy, Sokolov, Artem, Sorger, Peter, Santagata, Sandro
Publicado 2019

High-Dimensional Phenotyping Identifies Age-Emergent Cells in Human Mammary Epithelia

por Pelissier Vatter, Fanny A., Schapiro, Denis, Chang, Hang, Borowsky, Alexander D., Lee, Jonathan K., Parvin, Bahram, Stampfer, Martha R., LaBarge, Mark A., Bodenmiller, Bernd, Lorens, James B.
Publicado 2018

Three-dimensional spatial transcriptomics uncovers cell type localizations in the human rheumatoid arthritis synovium

por Vickovic, Sanja, Schapiro, Denis, Carlberg, Konstantin, Lötstedt, Britta, Larsson, Ludvig, Hildebrandt, Franziska, Korotkova, Marina, Hensvold, Aase H., Catrina, Anca I., Sorger, Peter K., Malmström, Vivianne, Regev, Aviv, Ståhl, Patrik L.
Publicado 2022

High-definition spatial transcriptomics for in situ tissue profiling

por Vickovic, Sanja, Eraslan, Gökcen, Salmén, Fredrik, Klughammer, Johanna, Stenbeck, Linnea, Schapiro, Denis, Äijö, Tarmo, Bonneau, Richard, Bergenstråhle, Ludvig, Navarro, José Fernandéz, Gould, Joshua, Griffin, Gabriel K., Borg, Åke, Ronaghi, Mostafa, Frisén, Jonas, Lundeberg, Joakim, Regev, Aviv, Ståhl, Patrik L
Publicado 2019

Spatial intra-tumor heterogeneity is associated with survival of lung adenocarcinoma patients

por Wu, Hua-Jun, Temko, Daniel, Maliga, Zoltan, Moreira, Andre L., Sei, Emi, Minussi, Darlan Conterno, Dean, Jamie, Lee, Charlotte, Xu, Qiong, Hochart, Guillaume, Jacobson, Connor A., Yapp, Clarence, Schapiro, Denis, Sorger, Peter K., Seeley, Erin H., Navin, Nicholas, Downey, Robert J., Michor, Franziska
Publicado 2022

Immunogenomic profiling determines responses to combined PARP and PD-1 inhibition in ovarian cancer

por Färkkilä, Anniina, Gulhan, Doga C., Casado, Julia, Jacobson, Connor A., Nguyen, Huy, Kochupurakkal, Bose, Maliga, Zoltan, Yapp, Clarence, Chen, Yu-An, Schapiro, Denis, Zhou, Yinghui, Graham, Julie R., Dezube, Bruce J., Munster, Pamela, Santagata, Sandro, Garcia, Elizabeth, Rodig, Scott, Lako, Ana, Chowdhury, Dipanjan, Shapiro, Geoffrey I., Matulonis, Ursula A., Park, Peter J., Hautaniemi, Sampsa, Sorger, Peter K., Swisher, Elizabeth M., D’Andrea, Alan D., Konstantinopoulos, Panagiotis A.
Publicado 2020

Author Correction: Immunogenomic profiling determines responses to combined PARP and PD-1 inhibition in ovarian cancer

por Färkkilä, Anniina, Gulhan, Doga C., Casado, Julia, Jacobson, Connor A., Nguyen, Huy, Kochupurakkal, Bose, Maliga, Zoltan, Yapp, Clarence, Chen, Yu-An, Schapiro, Denis, Zhou, Yinghui, Graham, Julie R., Dezube, Bruce J., Munster, Pamela, Santagata, Sandro, Garcia, Elizabeth, Rodig, Scott, Lako, Ana, Chowdhury, Dipanjan, Shapiro, Geoffrey I., Matulonis, Ursula A., Park, Peter J., Hautaniemi, Sampsa, Sorger, Peter K., Swisher, Elizabeth M., D’Andrea, Alan D., Konstantinopoulos, Panagiotis A.
Publicado 2020

MCMICRO: a scalable, modular image-processing pipeline for multiplexed tissue imaging

por Schapiro, Denis, Sokolov, Artem, Yapp, Clarence, Chen, Yu-An, Muhlich, Jeremy L., Hess, Joshua, Creason, Allison L., Nirmal, Ajit J., Baker, Gregory J., Nariya, Maulik K., Lin, Jia-Ren, Maliga, Zoltan, Jacobson, Connor A., Hodgman, Matthew W., Ruokonen, Juha, Farhi, Samouil L., Abbondanza, Domenic, McKinley, Eliot T., Persson, Daniel, Betts, Courtney, Sivagnanam, Shamilene, Regev, Aviv, Goecks, Jeremy, Coffey, Robert J., Coussens, Lisa M., Santagata, Sandro, Sorger, Peter K.
Publicado 2021

Spatial multi-omic map of human myocardial infarction

por Kuppe, Christoph, Ramirez Flores, Ricardo O., Li, Zhijian, Hayat, Sikander, Levinson, Rebecca T., Liao, Xian, Hannani, Monica T., Tanevski, Jovan, Wünnemann, Florian, Nagai, James S., Halder, Maurice, Schumacher, David, Menzel, Sylvia, Schäfer, Gideon, Hoeft, Konrad, Cheng, Mingbo, Ziegler, Susanne, Zhang, Xiaoting, Peisker, Fabian, Kaesler, Nadine, Saritas, Turgay, Xu, Yaoxian, Kassner, Astrid, Gummert, Jan, Morshuis, Michiel, Amrute, Junedh, Veltrop, Rogier J. A., Boor, Peter, Klingel, Karin, Van Laake, Linda W., Vink, Aryan, Hoogenboezem, Remco M., Bindels, Eric M. J., Schurgers, Leon, Sattler, Susanne, Schapiro, Denis, Schneider, Rebekka K., Lavine, Kory, Milting, Hendrik, Costa, Ivan G., Saez-Rodriguez, Julio, Kramann, Rafael
Publicado 2022

Author Correction: A molecular single-cell lung atlas of lethal COVID-19

por Melms, Johannes C., Biermann, Jana, Huang, Huachao, Wang, Yiping, Nair, Ajay, Tagore, Somnath, Katsyv, Igor, Rendeiro, André F., Amin, Amit Dipak, Schapiro, Denis, Frangieh, Chris J., Luoma, Adrienne M., Filliol, Aveline, Fang, Yinshan, Ravichandran, Hiranmayi, Clausi, Mariano G., Alba, George A., Rogava, Meri, Chen, Sean W., Ho, Patricia, Montoro, Daniel T., Kornberg, Adam E., Han, Arnold S., Bakhoum, Mathieu F., Anandasabapathy, Niroshana, Suárez-Fariñas, Mayte, Bakhoum, Samuel F., Bram, Yaron, Borczuk, Alain, Guo, Xinzheng V., Lefkowitch, Jay H., Marboe, Charles, Lagana, Stephen M., Del Portillo, Armando, Tsai, Emily J., Zorn, Emmanuel, Markowitz, Glen S., Schwabe, Robert F., Schwartz, Robert E., Elemento, Olivier, Saqi, Anjali, Hibshoosh, Hanina, Que, Jianwen, Izar, Benjamin
Publicado 2021