Chromosome 9p copy number gains involving PD-L1 are associated with a specific proliferation and immune-modulating gene expression program active across major cancer types by Jan Budczies, Carsten Denkert, Balázs Győrffy, Peter Schirmacher, Albrecht Stenzinger

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Ioncopy: an R Shiny app to call copy number alterations in targeted NGS data by Jan Budczies, Nicole Pfarr, Eva Romanovsky, Volker Endris, Albrecht Stenzinger, Carsten Denkert

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Subgroup-specific immune and stromal microenvironment in medulloblastoma by Michael Bockmayr, Malte Mohme, Frederick Klauschen, Beate Winkler, Jan Budczies, Stefan Rutkowski, Ulrich Schüller

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The Prognostic Impact of p53 Expression on Sporadic Colorectal Cancer Is Dependent on p21 Status by Sefer Elezkurtaj, Heinz Johannes Buhr, Aurelia Noske, Jan Budczies, Martin Kruschewski, Kathrin Mueller, Sybille Lipka

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Cutoff Finder: a comprehensive and straightforward Web application enabling rapid biomarker cutoff optimization. by Jan Budczies, Frederick Klauschen, Bruno V Sinn, Balázs Győrffy, Wolfgang D Schmitt, Silvia Darb-Esfahani, Carsten Denkert

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Integrated analysis of the immunological and genetic status in and across cancer types: impact of mutational signatures beyond tumor mutational burden by Jan Budczies, Anja Seidel, Petros Christopoulos, Volker Endris, Matthias Kloor, Balázs Győrffy, Barbara Seliger, Peter Schirmacher, Albrecht Stenzinger, Carsten Denkert

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Serum Response Factor (SRF) Drives the Transcriptional Upregulation of the MDM4 Oncogene in HCC by Rossella Pellegrino, Abhishek Thavamani, Diego F. Calvisi, Jan Budczies, Ariane Neumann, Robert Geffers, Jasmin Kroemer, Damaris Greule, Peter Schirmacher, Alfred Nordheim, Thomas Longerich

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Homogenous TP53mut-associated tumor biology across mutation and cancer types revealed by transcriptome analysis by Eva Romanovsky, Klaus Kluck, Iordanis Ourailidis, Michael Menzel, Susanne Beck, Markus Ball, Daniel Kazdal, Petros Christopoulos, Peter Schirmacher, Thorsten Stiewe, Albrecht Stenzinger, Jan Budczies

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Homologous recombination deficiency is inversely correlated with microsatellite instability and identifies immunologically cold tumors in most cancer types by Jan Budczies, Klaus Kluck, Susanne Beck, Iordanis Ourailidis, Michael Allgäuer, Michael Menzel, Daniel Kazdal, Lukas Perkhofer, Alexander Kleger, Peter Schirmacher, Thomas Seufferlein, Albrecht Stenzinger

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Accurate tumor purity determination is critical for the analysis of homologous recombination deficiency (HRD) by Michael Menzel, Volker Endris, Constantin Schwab, Klaus Kluck, Olaf Neumann, Susanne Beck, Markus Ball, Christian Schaaf, Stefan Fröhling, Peter Lichtner, Peter Schirmacher, Daniel Kazdal, Albrecht Stenzinger, Jan Budczies

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<i>LINC00152</i> Drives a Competing Endogenous RNA Network in Human Hepatocellular Carcinoma by Rossella Pellegrino, Mirco Castoldi, Fabio Ticconi, Britta Skawran, Jan Budczies, Fabian Rose, Constantin Schwab, Kai Breuhahn, Ulf P. Neumann, Nadine T. Gaisa, Sven H. Loosen, Tom Luedde, Ivan G. Costa, Thomas Longerich

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Genomic heterogeneity at baseline is associated with T790M resistance mutations in EGFR‐mutated lung cancer treated with the first‐/second‐generation tyrosine kinase inhibitors... by Michael Menzel, Martina Kirchner, Klaus Kluck, Markus Ball, Susanne Beck, Michael Allgäuer, Christin Assmann, Johannes Schnorbach, Anna‐Lena Volckmar, Timothy Kwang Yong Tay, Hannah Goldschmid, Daniel SW Tan, Michael Thomas, Daniel Kazdal, Jan Budczies, Albrecht Stenzinger, Petros Christopoulos

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RNA-Based Detection of Gene Fusions in Formalin-Fixed and Paraffin-Embedded Solid Cancer Samples by Martina Kirchner, Olaf Neumann, Anna-Lena Volckmar, Fabian Stögbauer, Michael Allgäuer, Daniel Kazdal, Jan Budczies, Eugen Rempel, Regine Brandt, Suranand Babu Talla, Moritz von Winterfeld, Jonas Leichsenring, Tilmann Bochtler, Alwin Krämer, Christoph Springfeld, Peter Schirmacher, Roland Penzel, Volker Endris, Albrecht Stenzinger

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Dynamics of the Intratumoral Immune Response during Progression of High-Grade Serous Ovarian Cancer by Mandy Stanske, Stephan Wienert, Dan Cacsire Castillo-Tong, Caroline Kreuzinger, Ignace Vergote, Sandrijne Lambrechts, Hani Gabra, Charlie Gourley, Ram N. Ganapathi, Ivonne Kolaschinski, Jan Budczies, Jalid Sehouli, Ilary Ruscito, Carsten Denkert, Hagen Kulbe, Wolfgang Schmitt, Korinna Jöhrens, Ioana Braicu, Silvia Darb-Esfahani

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Detection of TP53 Mutations in Tissue or Liquid Rebiopsies at Progression Identifies ALK+ Lung Cancer Patients with Poor Survival by Petros Christopoulos, Steffen Dietz, Martina Kirchner, Anna-Lena Volckmar, Volker Endris, Olaf Neumann, Simon Ogrodnik, Claus-Peter Heussel, Felix J. Herth, Martin Eichhorn, Michael Meister, Jan Budczies, Michael Allgäuer, Jonas Leichsenring, Tomasz Zemojtel, Helge Bischoff, Peter Schirmacher, Michael Thomas, Holger Sültmann, Albrecht Stenzinger

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A Non-interventional Clinical Trial Assessing Immune Responses After Radiofrequency Ablation of Liver Metastases From Colorectal Cancer by Markus W. Löffler, Markus W. Löffler, Markus W. Löffler, Markus W. Löffler, Markus W. Löffler, Bianca Nussbaum, Günter Jäger, Günter Jäger, Philipp S. Jurmeister, Jan Budczies, Jan Budczies, Philippe L. Pereira, Philippe L. Pereira, Stephan Clasen, Daniel J. Kowalewski, Lena Mühlenbruch, Lena Mühlenbruch, Ingmar Königsrainer, Stefan Beckert, Ruth Ladurner, Silvia Wagner, Florian Bullinger, Florian Bullinger, Thorben H. Gross, Thorben H. Gross, Thorben H. Gross, Christopher Schroeder, Christopher Schroeder, Bence Sipos, Alfred Königsrainer, Alfred Königsrainer, Alfred Königsrainer, Stefan Stevanović, Stefan Stevanović, Stefan Stevanović, Carsten Denkert, Carsten Denkert, Hans-Georg Rammensee, Hans-Georg Rammensee, Hans-Georg Rammensee, Cécile Gouttefangeas, Cécile Gouttefangeas, Cécile Gouttefangeas, Sebastian P. Haen, Sebastian P. Haen, Sebastian P. Haen, Sebastian P. Haen

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Multicentric pilot study to standardize clinical whole exome sequencing (WES) for cancer patients by Michael Menzel, Stephan Ossowski, Sebastian Kral, Patrick Metzger, Peter Horak, Ralf Marienfeld, Melanie Boerries, Steffen Wolter, Markus Ball, Olaf Neumann, Sorin Armeanu-Ebinger, Christopher Schroeder, Uta Matysiak, Hannah Goldschmid, Vincent Schipperges, Axel Fürstberger, Michael Allgäuer, Timo Eberhardt, Jakob Niewöhner, Andreas Blaumeiser, Carolin Ploeger, Tobias Bernd Haack, Timothy Kwang Yong Tay, Olga Kelemen, Thomas Pauli, Martina Kirchner, Klaus Kluck, Alexander Ott, Marcus Renner, Jakob Admard, Axel Gschwind, Silke Lassmann, Hans Kestler, Falko Fend, Anna Lena Illert, Martin Werner, Peter Möller, Thomas Theodor Werner Seufferlein, Nisar Malek, Peter Schirmacher, Stefan Fröhling, Daniel Kazdal, Jan Budczies, Albrecht Stenzinger

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