Quantifying tumor-infiltrating immune cells from transcriptomics data von Finotello, Francesca, Trajanoski, Zlatko

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Next-generation computational tools for interrogating cancer immunity von Finotello, Francesca, Rieder, Dietmar, Hackl, Hubert, Trajanoski, Zlatko

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Neoantigens Generated by Individual Mutations and Their Role in Cancer Immunity and Immunotherapy von Efremova, Mirjana, Finotello, Francesca, Rieder, Dietmar, Trajanoski, Zlatko

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Mitochondrial DNA drives abscopal responses to radiation that are inhibited by autophagy von Yamazaki, Takahiro, Kirchmair, Alexander, Sato, Ai, Buqué, Aitziber, Rybstein, Marissa, Petroni, Giulia, Bloy, Norma, Finotello, Francesca, Stafford, Lena, Navarro Manzano, Esther, Ayala de la Peña, Francisco, García-Martínez, Elena, Formenti, Silvia C., Trajanoski, Zlatko, Galluzzi, Lorenzo

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Cardiopulmonary recovery after COVID-19: an observational prospective multicentre trial von Sonnweber, Thomas, Sahanic, Sabina, Pizzini, Alex, Luger, Anna, Schwabl, Christoph, Sonnweber, Bettina, Kurz, Katharina, Koppelstätter, Sabine, Haschka, David, Petzer, Verena, Boehm, Anna, Aichner, Magdalena, Tymoszuk, Piotr, Lener, Daniela, Theurl, Markus, Lorsbach-Köhler, Almut, Tancevski, Amra, Schapfl, Anna, Schaber, Marc, Hilbe, Richard, Nairz, Manfred, Puchner, Bernhard, Hüttenberger, Doris, Tschurtschenthaler, Christoph, Aßhoff, Malte, Peer, Andreas, Hartig, Frank, Bellmann, Romuald, Joannidis, Michael, Gollmann-Tepeköylü, Can, Holfeld, Johannes, Feuchtner, Gudrun, Egger, Alexander, Hoermann, Gregor, Schroll, Andrea, Fritsche, Gernot, Wildner, Sophie, Bellmann-Weiler, Rosa, Kirchmair, Rudolf, Helbok, Raimund, Prosch, Helmut, Rieder, Dietmar, Trajanoski, Zlatko, Kronenberg, Florian, Wöll, Ewald, Weiss, Günter, Widmann, Gerlig, Löffler-Ragg, Judith, Tancevski, Ivan

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Characterization of the immunophenotypes and antigenomes of colorectal cancers reveals distinct tumor escape mechanisms and novel targets for immunotherapy von Angelova, Mihaela, Charoentong, Pornpimol, Hackl, Hubert, Fischer, Maria L, Snajder, Rene, Krogsdam, Anne M, Waldner, Maximilian J, Bindea, Gabriela, Mlecnik, Bernhard, Galon, Jerome, Trajanoski, Zlatko

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Targeting immune checkpoints potentiates immunoediting and changes the dynamics of tumor evolution von Efremova, Mirjana, Rieder, Dietmar, Klepsch, Victoria, Charoentong, Pornpimol, Finotello, Francesca, Hackl, Hubert, Hermann-Kleiter, Natascha, Löwer, Martin, Baier, Gottfried, Krogsdam, Anne, Trajanoski, Zlatko

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Spatiotemporal Dynamics of Intratumoral Immune Cells Reveal the Immune Landscape in Human Cancer von Bindea, Gabriela, Mlecnik, Bernhard, Tosolini, Marie, Kirilovsky, Amos, Waldner, Maximilian, Obenauf, Anna C., Angell, Helen, Fredriksen, Tessa, Lafontaine, Lucie, Berger, Anne, Bruneval, Patrick, Fridman, Wolf Herman, Becker, Christoph, Pagès, Franck, Speicher, Michael R., Trajanoski, Zlatko, Galon, Jérôme

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Molecular and pharmacological modulators of the tumor immune contexture revealed by deconvolution of RNA-seq data von Finotello, Francesca, Mayer, Clemens, Plattner, Christina, Laschober, Gerhard, Rieder, Dietmar, Hackl, Hubert, Krogsdam, Anne, Loncova, Zuzana, Posch, Wilfried, Wilflingseder, Doris, Sopper, Sieghart, Ijsselsteijn, Marieke, Brouwer, Thomas P, Johnson, Douglas, Xu, Yaomin, Wang, Yu, Sanders, Melinda E, Estrada, Monica V, Ericsson-Gonzalez, Paula, Charoentong, Pornpimol, Balko, Justin, de Miranda, Noel Filipe da Cunha Carvalho, Trajanoski, Zlatko

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Histopathologic-Based Prognostic Factors of Colorectal Cancers Are Associated With the State of the Local Immune Reaction von MLECNIK, Bernhard, TOSOLINI, Marie, GALON, Jérôme, KIRILOVSKY, Amos, BERGER, Anne, BINDEA, Gabriela, MEATCHI, Tchao, BRUNEVAL, Patrick, TRAJANOSKI, Zlatko, FRIDMAN, Wolf-Herman, PAGES, Franck

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ClueGO: a Cytoscape plug-in to decipher functionally grouped gene ontology and pathway annotation networks von Bindea, Gabriela, Mlecnik, Bernhard, Hackl, Hubert, Charoentong, Pornpimol, Tosolini, Marie, Kirilovsky, Amos, Fridman, Wolf-Herman, Pagès, Franck, Trajanoski, Zlatko, Galon, Jérôme

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Comprehensive characterization of the prostate tumor microenvironment identifies CXCR4/CXCL12 crosstalk as a novel antiangiogenic therapeutic target in prostate cancer von Heidegger, Isabel, Fotakis, Georgios, Offermann, Anne, Goveia, Jermaine, Daum, Sophia, Salcher, Stefan, Noureen, Asma, Timmer-Bosscha, Hetty, Schäfer, Georg, Walenkamp, Annemiek, Perner, Sven, Beatovic, Aleksandar, Moisse, Matthieu, Plattner, Christina, Krogsdam, Anne, Haybaeck, Johannes, Sopper, Sieghart, Thaler, Stefanie, Keller, Markus A, Klocker, Helmut, Trajanoski, Zlatko, Wolf, Dominik, Pircher, Andreas

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Genesis: cluster analysis of microarray data von Sturn, Alexander, Quackenbush, John, Trajanoski, Zlatko

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In Situ Cytotoxic and Memory T Cells Predict Outcome in Patients With Early-Stage Colorectal Cancer von Pagès, Franck, Kirilovsky, Amos, Mlecnik, Bernhard, Asslaber, Martin, Tosolini, Marie, Bindea, Gabriela, Lagorce, Christine, Wind, Philippe, Marliot, Florence, Bruneval, Patrick, Zatloukal, Kurt, Trajanoski, Zlatko, Berger, Anne, Fridman, Wolf-Herman, Galon, Jérôme

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The coordinated action of the MVB pathway and autophagy ensures cell survival during starvation von Müller, Martin, Schmidt, Oliver, Angelova, Mihaela, Faserl, Klaus, Weys, Sabine, Kremser, Leopold, Pfaffenwimmer, Thaddäus, Dalik, Thomas, Kraft, Claudine, Trajanoski, Zlatko, Lindner, Herbert, Teis, David

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Intratumoral HPV16-Specific T Cells Constitute a Type I-Oriented Tumor Microenvironment to Improve Survival in HPV16-Driven Oropharyngeal Cancer von Welters, Marij J P, Ma, Wenbo, Santegoets, Saskia J A M, Goedemans, Renske, Ehsan, Ilina, Jordanova, Ekaterina S, van Ham, Vanessa J, van Unen, Vincent, Koning, Frits, van Egmond, Sylvia I, Charoentong, Pornpimol, Trajanoski, Zlatko, van der Velden, Lilly-Ann, van der Burg, Sjoerd H

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Gene expression profiling of human mesenchymal stem cells derived from bone marrow during expansion and osteoblast differentiation von Kulterer, Birgit, Friedl, Gerald, Jandrositz, Anita, Sanchez-Cabo, Fatima, Prokesch, Andreas, Paar, Christine, Scheideler, Marcel, Windhager, Reinhard, Preisegger, Karl-Heinz, Trajanoski, Zlatko

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Type, Density, and Location of Immune Cells Within Human Colorectal Tumors Predict Clinical Outcome von Galon, Jérôme, Costes, Anne, Sanchez-Cabo, Fatima, Kirilovsky, Amos, Mlecnik, Bernhard, Lagorce-Pagès, Christine, Tosolini, Marie, Camus, Matthieu, Berger, Anne, Wind, Philippe, Zinzindohoué, Franck, Bruneval, Patrick, Cugnenc, Paul-Henri, Trajanoski, Zlatko, Fridman, Wolf-Herman, Pagès, Franck

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Nuclear receptor NR2F6 inhibition potentiates responses to PD-L1/PD-1 cancer immune checkpoint blockade von Klepsch, Victoria, Hermann-Kleiter, Natascha, Do-Dinh, Patricia, Jakic, Bojana, Offermann, Anne, Efremova, Mirjana, Sopper, Sieghart, Rieder, Dietmar, Krogsdam, Anne, Gamerith, Gabriele, Perner, Sven, Tzankov, Alexandar, Trajanoski, Zlatko, Wolf, Dominik, Baier, Gottfried

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Epithelial X-Box Binding Protein 1 Coordinates Tumor Protein p53-Driven DNA Damage Responses and Suppression of Intestinal Carcinogenesis von Welz, Lina, Kakavand, Nassim, Hang, Xiang, Laue, Georg, Ito, Go, Silva, Miguel Gomes, Plattner, Christina, Mishra, Neha, Tengen, Felicitas, Ogris, Christoph, Jesinghaus, Moritz, Wottawa, Felix, Arnold, Philipp, Kaikkonen, Leena, Stengel, Stefanie, Tran, Florian, Das, Saumya, Kaser, Arthur, Trajanoski, Zlatko, Blumberg, Richard, Roecken, Christoph, Saur, Dieter, Tschurtschenthaler, Markus, Schreiber, Stefan, Rosenstiel, Philip, Aden, Konrad

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