A generalizable machine learning framework for classifying DNA repair defects using ctDNA exomes von Ritch, Elie J., Herberts, Cameron, Warner, Evan W., Ng, Sarah W. S., Kwan, Edmond M., Bacon, Jack V. W., Bernales, Cecily Q., Schönlau, Elena, Fonseca, Nicolette M., Giri, Veda N., Maurice-Dror, Corinne, Vandekerkhove, Gillian, Jones, Steven J. M., Chi, Kim N., Wyatt, Alexander W.

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Enhancing knowledge discovery from cancer genomics data with Galaxy von Albuquerque, Marco A., Grande, Bruno M., Ritch, Elie J., Pararajalingam, Prasath, Jessa, Selin, Krzywinski, Martin, Grewal, Jasleen K., Shah, Sohrab P., Boutros, Paul C., Morin, Ryan D.

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Supporting data for "Enhancing Knowledge Discovery from Cancer Genomics Data with Galaxy" von Albuquerque, Marco A, Grande, Bruno M, Ritch, Elie J, Prasath Pararajalingam, Jessa, Selin, Krzywinski, Martin, Jasleen K Grewal, Shah, Sohrab P, Boutros, Paul C, Morin, Ryan D

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Plasma ctDNA is a tumor tissue surrogate and enables clinical-genomic stratification of metastatic bladder cancer von Vandekerkhove, Gillian, Lavoie, Jean-Michel, Annala, Matti, Murtha, Andrew J., Sundahl, Nora, Walz, Simon, Sano, Takeshi, Taavitsainen, Sinja, Ritch, Elie, Fazli, Ladan, Hurtado-Coll, Antonio, Wang, Gang, Nykter, Matti, Black, Peter C., Todenhöfer, Tilman, Ost, Piet, Gibb, Ewan A., Chi, Kim N., Eigl, Bernhard J., Wyatt, Alexander W.

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Circulating Tumor DNA Reveals Clinically Actionable Somatic Genome of Metastatic Bladder Cancer von Vandekerkhove, Gillian, Todenhöfer, Tilman, Annala, Matti, Struss, Werner J, Wong, Amanda, Beja, Kevin, Ritch, Elie, Brahmbhatt, Sonal, Volik, Stanislav V, Hennenlotter, Jörg, Nykter, Matti, Chi, Kim N, North, Scott, Stenzl, Arnulf, Collins, Colin C, Eigl, Bernhard J, Black, Peter C, Wyatt, Alexander W

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Circulating Tumor DNA Abundance and Potential Utility in De Novo Metastatic Prostate Cancer von Vandekerkhove, Gillian, Struss, Werner J., Annala, Matti, Kallio, Heini M.L., Khalaf, Daniel, Warner, Evan W., Herberts, Cameron, Ritch, Elie, Beja, Kevin, Loktionova, Yulia, Hurtado-Coll, Antonio, Fazli, Ladan, So, Alan, Black, Peter C., Nykter, Matti, Tammela, Teuvo, Chi, Kim N., Gleave, Martin E., Wyatt, Alexander W.

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Identification of Hypermutation and Defective Mismatch Repair in ctDNA from Metastatic Prostate Cancer von Ritch, Elie, Fu, Simon Y. F., Herberts, Cameron, Wang, Gang, Warner, Evan W., Schonlau, Elena, Taavitsainen, Sinja, Murtha, Andrew J., Vandekerkhove, Gillian, Beja, Kevin, Loktionova, Yulia, Khalaf, Daniel, Fazli, Ladan, Kushnir, Igal, Ferrario, Cristiano, Hotte, Sebastien, Annala, Matti, Chi, Kim N., Wyatt, Alexander W.

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BRCA2, ATM, and CDK12 Defects Differentially Shape Prostate Tumor Driver Genomics and Clinical Aggression von Warner, Evan, Herberts, Cameron, Fu, Simon, Yip, Steven, Wong, Amanda, Wang, Gang, Ritch, Elie, Murtha, Andrew J., Vandekerkhove, Gillian, Fonseca, Nicolette M., Angeles, Arkhjamil, Beigi, Arshia, Schonlau, Elena, Beja, Kevin, Annala, Matti, Khalaf, Daniel, Chi, Kim N., Wyatt, Alexander W.

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Activating AKT1 and PIK3CA Mutations in Metastatic Castration-Resistant Prostate Cancer von Herberts, Cameron, Murtha, Andrew J., Fu, Simon, Wang, Gang, Schönlau, Elena, Xue, Hui, Lin, Dong, Gleave, Anna, Yip, Steven, Angeles, Arkhjamil, Hotte, Sebastien, Tran, Ben, North, Scott, Taavitsainen, Sinja, Beja, Kevin, Vandekerkhove, Gillian, Ritch, Elie, Warner, Evan, Saad, Fred, Iqbal, Nayyer, Nykter, Matti, Gleave, Martin E., Wang, Yuzhuo, Annala, Matti, Chi, Kim N., Wyatt, Alexander W.

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Deep whole-genome ctDNA chronology of treatment-resistant prostate cancer von Herberts, Cameron, Annala, Matti, Sipola, Joonatan, Ng, Sarah W. S., Chen, Xinyi E., Nurminen, Anssi, Korhonen, Olga V., Munzur, Aslı D., Beja, Kevin, Schönlau, Elena, Bernales, Cecily Q., Ritch, Elie, Bacon, Jack V. W., Lack, Nathan A., Nykter, Matti, Aggarwal, Rahul, Small, Eric J., Gleave, Martin E., Quigley, David A., Feng, Felix Y., Chi, Kim N., Wyatt, Alexander W.

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Biallelic tumour suppressor loss and DNA repair defects in de novo small‐cell prostate carcinoma von Chedgy, Edmund CP, Vandekerkhove, Gillian, Herberts, Cameron, Annala, Matti, Donoghue, Adam J, Sigouros, Michael, Ritch, Elie, Struss, Werner, Konomura, Saki, Liew, Janet, Parimi, Sunil, Vergidis, Joanna, Hurtado‐Coll, Antonio, Sboner, Andrea, Fazli, Ladan, Beltran, Himisha, Chi, Kim N, Wyatt, Alexander W

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Identification, incidence and clinical outcomes of patients (pts) with hypermutated prostate cancer (PC) von Fu, Simon Yuen Fai, Ritch, Elie, Yip, Steven, Khalaf, Daniel, Taavitsainen, Sinja, Annala, Matti, Vandekerkhove, Gillian, Kushnir, Igal, Hotte, Sebastien J., Ferrario, Cristiano, Wyatt, Alexander William, Chi, Kim N.

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Abstract A24: Identifying the genomic and clinical features of AKT1/PIK3CA mutant metastatic prostate cancer using circulating tumor DNA von Herberts, Cameron M., Murtha, Andrew J., Fu, Simon, Wang, Gang, Schönlau, Elena, Gleave, Anna, Yip, Steven, Angeles, Arkhjamil, Hotte, Sebastien, Alshangiti, Abdulraheem, Tran, Ben, North, Scott, Taavitsainen, Sinja, Beja, Kevin, Vandekerkhove, Gillian, Ritch, Elie, Saad, Fred, Iqbal, Nayyer, Gleave, Martin E., Annala, Matti, Chi, Kim N., Wyatt, Alexander W.

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Multiregion sampling of de novo metastatic prostate cancer reveals complex polyclonality and augments clinical genotyping von Warner, Evan W, Van der Eecken, Kim, Murtha, Andrew J, Kwan, Edmond M, Herberts, Cameron, Sipola, Joonatan, Ng, Sarah W S, Chen, Xinyi E, Fonseca, Nicolette M, Ritch, Elie, Schönlau, Elena, Bernales, Cecily Q, Donnellan, Gráinne, Munzur, Aslı D, Parekh, Karan, Beja, Kevin, Wong, Amanda, Verbeke, Sofie, Lumen, Nicolaas, Van Dorpe, Jo, De Laere, Bram, Annala, Matti, Vandekerkhove, Gillian, Ost, Piet, Wyatt, Alexander W

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Abstract IA006: Overcoming complex polyclonality for accurate clinical genotyping in metastatic prostate cancer von Wyatt, Alexander W., Murtha, Andrew J., Warner, Evan, Van der Eecken, Kim, Kwan, Edmond M., Herberts, Cameron, Sipola, Joonatan, Ng, Sarah W.S., Chen, Xinyi E., Fonseca, Nicolette M., Ritch, Elie, Schönlau, Elena, Bernales, Cecily Q., Donnellan, Gráinne, Beja, Kevin, Wong, Amanda, Verbeke, Sofie, Lumen, Nicolaas, Van Dorpe, Jo, De Laere, Bram, Annala, Matti, Vandekerkhove, Gillian, Ost, Piet

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Abstract 41: Multi-focal genomic dissection of synchronous primary and metastatic tissue from de novo metastatic prostate cancer von Warner, Evan, Van der Eecken, Kim, Murtha, Andrew J., Kwan, Edmond M., Ng, Sarah W., Chen, Xinyi E., Bernales, Cecily Q., Donnellan, Grainne, Schonlau, Elena, Verbeke, Sofie, Lumen, Nicolaas, Van Dorpe, Jo, Vandekerkhove, Gillian, Ritch, Elie, Annala, Matti, De Laere, Bram, Ost, Piet, Wyatt, Alexander W.

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Abstract 3625: Clonal architecture and evolution of treatment-resistant prostate cancer via deep whole-genome ctDNA sequencing von Herberts, Cameron, Annala, Matti, Sipola, Joonatan, Ng, Sarah W., Chen, Xinyi E., Nurminen, Anssi, Korhonen, Olga, Munzur, Aslı D., Beja, Kevin, Schönlau, Elena, Bernales, Cecily Q., Ritch, Elie, Bacon, Jack V., Lack, Nathan A., Nykter, Matti, Aggarwal, Rahul, Small, Eric J., Gleave, Martin E., Quigley, David A., Feng, Felix Y., Chi, Kim N., Wyatt, Alexander W.

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Biallelic tumor suppressor loss and DNA repair defects in de novo small cell prostate cancer von Chedgy, Edmund Cp, Vandekerkhove, Gillian, Herberts, Cameron, Annala, Matti, Donoghue, Adam J, Sigouros, Michael, Ritch, Elie, Struss, Werner, Konomura, Saki, Liew, Janet, Parimi, Sunil, Vergidis, Joanna, Hurtado-Coll, Antonio, Sboner, Andrea, Fazli, Ladan, Beltran, Himisha, Chi, Kim N, Wyatt, Alexander W

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