Multi-Omics Profiling of the Tumor Microenvironment: Paving the Way to Precision Immuno-Oncology von Finotello, Francesca, Eduati, Federica

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A microfluidics platform for combinatorial drug screening on cancer biopsies von Eduati, Federica, Utharala, Ramesh, Madhavan, Dharanija, Neumann, Ulf Peter, Longerich, Thomas, Cramer, Thorsten, Saez-Rodriguez, Julio, Merten, Christoph A.

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Drug Resistance Mechanisms in Colorectal Cancer Dissected with Cell Type-Specific Dynamic Logic Models von Eduati, Federica, Doldàn-Martelli, Victoria, Klinger, Bertram, Cokelaer, Thomas, Sieber, Anja, Kogera, Fiona, Dorel, Mathurin, Garnett, Mathew J, Blüthgen, Nils, Saez-Rodriguez, Julio

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Patient‐specific logic models of signaling pathways from screenings on cancer biopsies to prioritize personalized combination therapies von Eduati, Federica, Jaaks, Patricia, Wappler, Jessica, Cramer, Thorsten, Merten, Christoph A, Garnett, Mathew J, Saez‐Rodriguez, Julio

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Toward Systems Biomarkers of Response to Immune Checkpoint Blockers von Lapuente-Santana, Óscar, Eduati, Federica

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Integrating histopathology and transcriptomics for spatial tumor microenvironment profiling in a melanoma case study von Lapuente-Santana, Óscar, Kant, Joan, Eduati, Federica

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Up-front mutation detection in circulating tumor DNA by droplet digital PCR has added diagnostic value in lung cancer von Visser, Esther, de Kock, Remco, Genet, Sylvia, Borne, Ben van den, Soud, Maggy Youssef-El, Belderbos, Huub, Stege, Gerben, de Saegher, Marleen, ’t Westeinde, Susan van, Broeren, Maarten, Eduati, Federica, Deiman, Birgit, Scharnhorst, Volkher

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A community challenge to predict clinical outcomes after immune checkpoint blockade in non-small cell lung cancer von Mason, Mike, Lapuente-Santana, Óscar, Halkola, Anni S, Wang, Wenyu, Mall, Raghvendra, Xiao, Xu, Kaufman, Jacob, Fu, Jingxin, Pfeil, Jacob, Banerjee, Jineta, Chung, Verena, Chang, Han, Chasalow, Scott D, Lin, Hung Ying, Chai, Rongrong, Yu, Thomas, Finotello, Francesca, Mirtti, Tuomas, Mäyränpää, Mikko I, Bao, Jie, Verschuren, Emmy W, Ahmed, Eiman I, Ceccarelli, Michele, Miller, Lance D, Monaco, Gianni, Hendrickx, Wouter R L, Sherif, Shimaa, Yang, Lin, Tang, Ming, Gu, Shengqing Stan, Zhang, Wubing, Zhang, Yi, Zeng, Zexian, Das Sahu, Avinash, Liu, Yang, Yang, Wenxian, Bedognetti, Davide, Tang, Jing, Eduati, Federica, Laajala, Teemu D, Geese, William J, Guinney, Justin, Szustakowski, Joseph D, Vincent, Benjamin G, Carbone, David P

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Patient‐specific logic models of signaling pathways from screenings on cancer biopsies to prioritize personalized combination therapies von Eduati, Federica, Jaaks, Patricia, Wappler, Jessica, Cramer, Thorsten, Merten, Christoph A, Garnett, Mathew J, Saez‐Rodriguez, Julio

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Multimodal analysis unveils tumor microenvironment heterogeneity linked to immune activity and evasion von Lapuente-Santana, Óscar, Sturm, Gregor, Kant, Joan, Ausserhofer, Markus, Zackl, Constantin, Zopoglou, Maria, McGranahan, Nicholas, Rieder, Dietmar, Trajanoski, Zlatko, da Cunha Carvalho de Miranda, Noel Filipe, Eduati, Federica, Finotello, Francesca

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Agent-based modeling of the prostate tumor microenvironment uncovers spatial tumor growth constraints and immunomodulatory properties von van Genderen, Maisa N. G., Kneppers, Jeroen, Zaalberg, Anniek, Bekers, Elise M., Bergman, Andries M., Zwart, Wilbert, Eduati, Federica

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A Boolean approach to linear prediction for signaling network modeling von Eduati, Federica, Corradin, Alberto, Di Camillo, Barbara, Toffolo, Gianna

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DREAMTools: a Python package for scoring collaborative challenges [version 2; peer review: 1 approved, 2 approved with reservations] von Cokelaer, Thomas, Bansal, Mukesh, Bare, Christopher, Bilal, Erhan, Bot, Brian M, Chaibub Neto, Elias, Eduati, Federica, de la Fuente, Alberto, Gönen, Mehmet, Hill, Steven M, Hoff, Bruce, Karr, Jonathan R, Küffner, Robert, Menden, Michael P, Meyer, Pablo, Norel, Raquel, Pratap, Abhishek, Prill, Robert J, Weirauch, Matthew T, Costello, James C, Stolovitzky, Gustavo, Saez-Rodriguez, Julio

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Technological and computational advances driving high-throughput oncology von Kolmar, Leonie, Autour, Alexis, Ma, Xiaoli, Vergier, Blandine, Eduati, Federica, Merten, Christoph A

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Exhaustively characterizing feasible logic models of a signaling network using Answer Set Programming von Guziolowski, Carito, Videla, Santiago, Eduati, Federica, Thiele, Sven, Cokelaer, Thomas, Siegel, Anne, Saez-Rodriguez, Julio

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Interpretable systems biomarkers predict response to immune-checkpoint inhibitors von Lapuente-Santana, Óscar, van Genderen, Maisa, Hilbers, Peter A.J., Finotello, Francesca, Eduati, Federica

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Bilayer Microfluidic Device for Combinatorial Plug Production von Yelleswarapu, Maaruthy, Spinthaki, Sofia, de Greef, Tom F A, Eduati, Federica

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Liquid biopsy-based decision support algorithms for diagnosis and subtyping of lung cancer von Visser, Esther, Genet, Sylvia A.A.M., de Kock, Remco P.P.A., van den Borne, Ben E.E.M., Youssef-El Soud, Maggy, Belderbos, Huub N.A., Stege, Gerben, de Saegher, Marleen E.A., van 't Westeinde, Susan C., Brunsveld, Luc, Broeren, Maarten A.C., van de Kerkhof, Daan, Deiman, Birgit A.L.M., Eduati, Federica, Scharnhorst, Volkher

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Integrating literature-constrained and data-driven inference of signalling networks von EDUATI, Federica, DE LAS RIVAS, Javier, DI CAMILLO, Barbara, TOFFOLO, Gianna, SAEZ-RODRIGUEZ, Julio

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A rule-based model of insulin signalling pathway von Di Camillo, Barbara, Carlon, Azzurra, Eduati, Federica, Toffolo, Gianna Maria

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