Mutational Context and Diverse Clonal Development in Early and Late Bladder Cancer von Nordentoft, Iver, Lamy, Philippe, Birkenkamp-Demtröder, Karin, Shumansky, Karey, Vang, Søren, Hornshøj, Henrik, Juul, Malene, Villesen, Palle, Hedegaard, Jakob, Roth, Andrew, Thorsen, Kasper, Høyer, Søren, Borre, Michael, Reinert, Thomas, Fristrup, Niels, Dyrskjøt, Lars, Shah, Sohrab, Pedersen, Jakob Skou, Ørntoft, Torben F.

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miRNA activity inferred from single cell mRNA expression von Nielsen, Morten Muhlig, Pedersen, Jakob Skou

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Molecular correlates of cisplatin-based chemotherapy response in muscle invasive bladder cancer by integrated multi-omics analysis von Taber, Ann, Christensen, Emil, Lamy, Philippe, Nordentoft, Iver, Prip, Frederik, Lindskrog, Sia Viborg, Birkenkamp-Demtröder, Karin, Okholm, Trine Line Hauge, Knudsen, Michael, Pedersen, Jakob Skou, Steiniche, Torben, Agerbæk, Mads, Jensen, Jørgen Bjerggaard, Dyrskjøt, Lars

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Next-generation sequencing of RNA and DNA isolated from paired fresh-frozen and formalin-fixed paraffin-embedded samples of human cancer and normal tissue von Hedegaard, Jakob, Thorsen, Kasper, Lund, Mette Katrine, Hein, Anne-Mette K, Hamilton-Dutoit, Stephen Jacques, Vang, Søren, Nordentoft, Iver, Birkenkamp-Demtröder, Karin, Kruhøffer, Mogens, Hager, Henrik, Knudsen, Bjarne, Andersen, Claus Lindbjerg, Sørensen, Karina Dalsgaard, Pedersen, Jakob Skou, Ørntoft, Torben Falck, Dyrskjøt, Lars

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Passenger Mutations in More Than 2,500 Cancer Genomes: Overall Molecular Functional Impact and Consequences von Kumar, Sushant, Warrell, Jonathan, Li, Shantao, McGillivray, Patrick D., Meyerson, William, Salichos, Leonidas, Harmanci, Arif, Martinez-Fundichely, Alexander, Chan, Calvin W.Y., Nielsen, Morten Muhlig, Lochovsky, Lucas, Zhang, Yan, Li, Xiaotong, Lou, Shaoke, Pedersen, Jakob Skou, Herrmann, Carl, Getz, Gad, Khurana, Ekta, Gerstein, Mark B.

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SNHG5 promotes colorectal cancer cell survival by counteracting STAU1-mediated mRNA destabilization von Damas, Nkerorema Djodji, Marcatti, Michela, Côme, Christophe, Christensen, Lise Lotte, Nielsen, Morten Muhlig, Baumgartner, Roland, Gylling, Helene Maria, Maglieri, Giulia, Rundsten, Carsten Friis, Seemann, Stefan E., Rapin, Nicolas, Thézenas, Simon, Vang, Søren, Ørntoft, Torben, Andersen, Claus Lindbjerg, Pedersen, Jakob Skou, Lund, Anders H.

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Transcriptome-wide profiles of circular RNA and RNA-binding protein interactions reveal effects on circular RNA biogenesis and cancer pathway expression von Okholm, Trine Line Hauge, Sathe, Shashank, Park, Samuel S, Kamstrup, Andreas Bjerregaard, Rasmussen, Asta Mannstaedt, Shankar, Archana, Chua, Zong Ming, Fristrup, Niels, Nielsen, Morten Muhlig, Vang, Søren, Dyrskjøt, Lars, Aigner, Stefan, Damgaard, Christian Kroun, Yeo, Gene W, Pedersen, Jakob Skou

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Editing modifies the GABAA receptor subunit α3 von Ohlson, Johan, Pedersen, Jakob Skou, Haussler, David, Öhman, Marie

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miR-625-3p regulates oxaliplatin resistance by targeting MAP2K6-p38 signalling in human colorectal adenocarcinoma cells von Rasmussen, Mads Heilskov, Lyskjær, Iben, Jersie-Christensen, Rosa Rakownikow, Tarpgaard, Line Schmidt, Primdal-Bengtson, Bjarke, Nielsen, Morten Muhlig, Pedersen, Jakob Skou, Hansen, Tine Plato, Hansen, Flemming, Olsen, Jesper Velgaard, Pfeiffer, Per, Ørntoft, Torben Falck, Andersen, Claus Lindbjerg

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New families of human regulatory RNA structures identified by comparative analysis of vertebrate genomes von Parker, Brian J, Moltke, Ida, Roth, Adam, Washietl, Stefan, Wen, Jiayu, Kellis, Manolis, Breaker, Ronald, Pedersen, Jakob Skou

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DREAMS: deep read-level error model for sequencing data applied to low-frequency variant calling and circulating tumor DNA detection von Christensen, Mikkel H, Drue, Simon O, Rasmussen, Mads H, Frydendahl, Amanda, Lyskjær, Iben, Demuth, Christina, Nors, Jesper, Gotschalck, Kåre A, Iversen, Lene H, Andersen, Claus L, Pedersen, Jakob Skou

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Identification and classification of conserved RNA secondary structures in the human genome von Pedersen, Jakob Skou, Bejerano, Gill, Siepel, Adam, Rosenbloom, Kate, Lindblad-Toh, Kerstin, Lander, Eric S, Kent, Jim, Miller, Webb, Haussler, David

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Sequence dependencies and mutation rates of localized mutational processes in cancer von Poulsgaard, Gustav Alexander, Sarensen, Simon Grund, Juul, Randi Istrup, Nielsen, Morten Muhlig, Pedersen, Jakob Skou

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Pan-cancer association of DNA repair deficiencies with whole-genome mutational patterns von Sørensen, Simon Grund, Shrikhande, Amruta, Poulsgaard, Gustav Alexander, Christensen, Mikkel Hovden, Bertl, Johanna, Laursen, Britt Elmedal, Hoffmann, Eva R, Pedersen, Jakob Skou

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The transcriptional landscape and biomarker potential of circular RNAs in prostate cancer von Hansen, Emma Bollmann, Fredsøe, Jacob, Okholm, Trine Line Hauge, Ulhøi, Benedicte Parm, Klingenberg, Søren, Jensen, Jørgen Bjerggaard, Kjems, Jørgen, Bouchelouche, Kirsten, Borre, Michael, Damgaard, Christian Kroun, Pedersen, Jakob Skou, Kristensen, Lasse Sommer, Sørensen, Karina Dalsgaard

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Significance evaluation in factor graphs von Madsen, Tobias, Hobolth, Asger, Jensen, Jens Ledet, Pedersen, Jakob Skou

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circHIPK3 nucleates IGF2BP2 and functions as a competing endogenous RNA von Okholm, Trine Line Hauge, Kamstrup, Andreas Bjerregaard, Nielsen, Morten Muhlig, Hollensen, Anne Kruse, Graversgaard, Mette Laugesen, Sørensen, Matilde Helbo, Kristensen, Lasse Sommer, Vang, Søren, Park, Samuel S, Yeo, Eugene, Dyrskjøt, Lars, Kjems, Jørgen, Pedersen, Jakob Skou, Damgaard, Christian Kroun

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A site specific model and analysis of the neutral somatic mutation rate in whole-genome cancer data von Bertl, Johanna, Guo, Qianyun, Juul, Malene, Besenbacher, Søren, Nielsen, Morten Muhlig, Hornshøj, Henrik, Pedersen, Jakob Skou, Hobolth, Asger

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Author Correction: Molecular correlates of cisplatin-based chemotherapy response in muscle invasive bladder cancer by integrated multi-omics analysis von Taber, Ann, Christensen, Emil, Lamy, Philippe, Nordentoft, Iver, Prip, Frederik, Lindskrog, Sia Viborg, Birkenkamp-Demtröder, Karin, Okholm, Trine Line Hauge, Knudsen, Michael, Pedersen, Jakob Skou, Steiniche, Torben, Agerbæk, Mads, Jensen, Jørgen Bjerggaard, Dyrskjøt, Lars

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Non-coding cancer driver candidates identified with a sample- and position-specific model of the somatic mutation rate von Juul, Malene, Bertl, Johanna, Guo, Qianyun, Nielsen, Morten Muhlig, Świtnicki, Michał, Hornshøj, Henrik, Madsen, Tobias, Hobolth, Asger, Pedersen, Jakob Skou

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