309 results on '"Riazalhosseini, Yasser"'
Search Results
2. Targeting LINC00152 activates cAMP/Ca2+/ferroptosis axis and overcomes tamoxifen resistance in ER+ breast cancer
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Saatci, Ozge, Alam, Rashedul, Huynh-Dam, Kim-Tuyen, Isik, Aynur, Uner, Meral, Belder, Nevin, Ersan, Pelin Gulizar, Tokat, Unal Metin, Ulukan, Burge, Cetin, Metin, Calisir, Kubra, Gedik, Mustafa Emre, Bal, Hilal, Sener Sahin, Ozlem, Riazalhosseini, Yasser, Thieffry, Denis, Gautheret, Daniel, Ogretmen, Besim, Aksoy, Sercan, Uner, Aysegul, Akyol, Aytekin, and Sahin, Ozgur
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- 2024
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3. Germline Susceptibility to Renal Cell Carcinoma and Implications for Genetic Screening
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Glennon, Kate I., Endo, Mikiko, Usui, Yoshiaki, Iwasaki, Yusuke, Breau, Rodney H., Kapoor, Anil, Lathrop, Mark, Tanguay, Simon, Momozawa, Yukihide, and Riazalhosseini, Yasser
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- 2024
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4. Targeting HIF1-alpha/miR-326/ITGA5 axis potentiates chemotherapy response in triple-negative breast cancer
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Assidicky, Ridho, Tokat, Unal Metin, Tarman, Ibrahim Oguzhan, Saatci, Ozge, Ersan, Pelin Gulizar, Raza, Umar, Ogul, Hasan, Riazalhosseini, Yasser, Can, Tolga, and Sahin, Ozgur
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- 2022
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5. Pan-cancer analysis of mRNA stability for decoding tumour post-transcriptional programs
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Perron, Gabrielle, Jandaghi, Pouria, Moslemi, Elham, Nishimura, Tamiko, Rajaee, Maryam, Alkallas, Rached, Lu, Tianyuan, Riazalhosseini, Yasser, and Najafabadi, Hamed S.
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- 2022
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6. PD16-03 UNDERSTANDING THE MOLECULAR CHARACTERISTICS AND VULNERABILITIES OF SARCOMATOID/RHABDOID RENAL CELL CARCINOMAS THROUGH INTEGRATIVE HISTOLOGICAL AND SPATIAL GENOMICS APPROACHES
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Soytas, Mustafa, primary, Nishimura, Tamiko, additional, Arseneault, Madeleine, additional, Scarlata, Eleonora, additional, Glennon, Kate, additional, Liu, Peixi, additional, Kailasam, Senthilkumar, additional, Brimo, Fadi, additional, Tanguay, Simon, additional, and Riazalhosseini, Yasser, additional
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- 2024
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7. Loss of VHL-mediated pRb regulation promotes clear cell renal cell carcinoma
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Russell, Ryan, primary, Akuma, Mercy, additional, Kim, Minjun, additional, Zhu, Chenxuan, additional, Wiljer, Ella, additional, Gaudreau-Lapierre, Antoine, additional, Patterson, Leshan, additional, Trinkle-Mulcahy, Laura, additional, Stanford, William L, additional, and Riazalhosseini, Yasser, additional
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- 2024
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8. Glioblastoma cell populations with distinct oncogenic programs release podoplanin as procoagulant extracellular vesicles
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Tawil, Nadim, Bassawon, Rayhaan, Meehan, Brian, Nehme, Ali, Montermini, Laura, Gayden, Tenzin, De Jay, Nicolas, Spinelli, Cristiana, Chennakrishnaiah, Shilpa, Choi, Dongsic, Adnani, Lata, Zeinieh, Michele, Jabado, Nada, Kleinman, Claudia L., Witcher, Michael, Riazalhosseini, Yasser, Key, Nigel S., Schiff, David, Grover, Steven P., Mackman, Nigel, Couturier, Charles P., Petrecca, Kevin, Suvà, Mario L., Patel, Anoop, Tirosh, Itay, Najafabadi, Hamed, and Rak, Janusz
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- 2021
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9. Morphological findings in frozen non-neoplastic kidney tissues of patients with kidney cancer from large-scale multicentric studies on renal cancer
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Abedi-Ardekani, Behnoush, Nasrollahzadeh, Dariush, Egevad, Lars, Banks, Rosamonde E., Vasudev, Naveen, Holcatova, Ivana, Povysil, Ctibor, Foretova, Lenka, Janout, Vladimir, Mates, Dana, Jinga, Viorel, Petrescu, Amelia, Milosavljevic, Sasa, Ognjanovic, Miodrag, Ognjanovic, Simona, Viksna, Juris, Warren, Anne Y., Lathrop, Mark, Riazalhosseini, Yasser, Carreira, Christine, Chanudet, Estelle, McKay, James, Brennan, Paul, and Scélo, Ghislaine
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- 2021
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10. Targeting LINC00152 activates cAMP/Ca2+/ferroptosis axis and overcomes tamoxifen resistance in ER+ breast cancer.
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Saatci, Ozge, Alam, Rashedul, Huynh-Dam, Kim-Tuyen, Isik, Aynur, Uner, Meral, Belder, Nevin, Ersan, Pelin Gulizar, Tokat, Unal Metin, Ulukan, Burge, Cetin, Metin, Calisir, Kubra, Gedik, Mustafa Emre, Bal, Hilal, Sener Sahin, Ozlem, Riazalhosseini, Yasser, Thieffry, Denis, Gautheret, Daniel, Ogretmen, Besim, Aksoy, Sercan, and Uner, Aysegul
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- 2024
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11. Contribution of genetic variants in the development of familial premature coronary artery disease in a cohort of cardiac patients.
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Mehvari, Sepideh, Karimian Fathi, Nahid, Saki, Sara, Asadnezhad, Maryam, Arzhangi, Sanaz, Ghodratpour, Fatemeh, Mohseni, Marzieh, Zare Ashrafi, Farzane, Sadeghian, Saeed, Boroumand, Mohammadali, Shokohizadeh, Fatemeh, Rostami, Elham, Boroumand, Rahnama, Najafipour, Reza, Malekzadeh, Reza, Riazalhosseini, Yasser, Akbari, Mohammadreza, Lathrop, Mark, Najmabadi, Hossein, and Hosseini, Kaveh
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CORONARY artery disease ,GENETIC variation ,CARDIAC patients ,DISEASE risk factors ,IRANIANS - Abstract
Coronary artery disease (CAD), the most prevalent cardiovascular disease, is the leading cause of death worldwide. Heritable factors play a significant role in the pathogenesis of CAD. It has been proposed that approximately one‐third of patients with CAD have a positive family history, and individuals with such history are at ~1.5‐fold increased risk of CAD in their lifespans. Accordingly, the long‐recognized familial clustering of CAD is a strong risk factor for this disease. Our study aimed to identify candidate genetic variants contributing to CAD by studying a cohort of 60 large Iranian families with at least two members in different generations afflicted with premature CAD (PCAD), defined as established disease at ≤45 years in men and ≤55 years in women. Exome sequencing was performed for a subset of the affected individuals, followed by prioritization and Sanger sequencing of candidate variants in all available family members. Subsequently, apparently healthy carriers of potential risk variants underwent coronary computed tomography angiography (CCTA), followed by co‐segregation analysis of the combined data. Putative causal variants were identified in seven genes, ABCG8, CD36, CYP27A1, PIK3C2G, RASSF9, RYR2, and ZFYVE21, co‐segregating with familial PCAD in seven unrelated families. Among these, PIK3C2G, RASSF9, and ZFYVE21 are novel candidate CAD susceptibility genes. Our findings indicate that rare variants in genes identified in this study are involved in CAD development. [ABSTRACT FROM AUTHOR]
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- 2024
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12. Y disruption, autosomal hypomethylation and poor male lung cancer survival
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Willis-Owen, Saffron A. G., Domingo-Sabugo, Clara, Starren, Elizabeth, Liang, Liming, Freidin, Maxim B., Arseneault, Madeleine, Zhang, Youming, Lu, Shir Kiong, Popat, Sanjay, Lim, Eric, Nicholson, Andrew G., Riazalhosseini, Yasser, Lathrop, Mark, Cookson, William O. C., and Moffatt, Miriam F.
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- 2021
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13. Novel manifestations of Warburg micro syndrome type 1 caused by a new splicing variant of RAB3GAP1: a case report
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Khalesi, Raziyeh, Razmara, Ehsan, Asgaritarghi, Golareh, Tavasoli, Ali Reza, Riazalhosseini, Yasser, Auld, Daniel, and Garshasbi, Masoud
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- 2021
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14. Dysregulation at multiple points of the kynurenine pathway is a ubiquitous feature of renal cancer: implications for tumour immune evasion
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Hornigold, Nick, Dunn, Karen R., Craven, Rachel A., Zougman, Alexandre, Trainor, Sebastian, Shreeve, Rebecca, Brown, Joanne, Sewell, Helen, Shires, Michael, Knowles, Margaret, Fukuwatari, Tsutomu, Maher, Eamonn R., Burns, Julie, Bhattarai, Selina, Menon, Mini, Brazma, Alvis, Scelo, Ghislaine, Feulner, Lara, Riazalhosseini, Yasser, Lathrop, Mark, Harris, Adrian, Selby, Peter J., Banks, Rosamonde E., and Vasudev, Naveen S.
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- 2020
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15. Targeting LINC00152 activates cAMP/Ca2+/ferroptosis axis and overcomes tamoxifen resistance in ER+ breast cancer
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Saatci, Ozge, primary, Alam, Rashed, additional, Huynh-Dam, Kim-Tuyen, additional, Isik, Aynur, additional, Uner, Meral, additional, Belder, Nevin, additional, Ersan, Pelin Gulizar, additional, Cetin, Metin, additional, Tokat, Unal Metin, additional, Gedik, Mustafa Emre, additional, Bal, Hilal, additional, Sahin, Ozlem Sener, additional, Riazalhosseini, Yasser, additional, Thieffry, Denis, additional, Gautheret, Daniel, additional, Ogretmen, Besim, additional, Aksoy, Sercan, additional, Uner, Aysegul, additional, Akyol, Aytekin, additional, and Sahin, Ozgur, additional
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- 2023
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16. Abstract B011: An atlas of cellular heterogeneity in primary and metastatic renal cell carcinomas
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Madrigal, Ariel, primary, Kim, Minjun, additional, Osakwe, Adrien, additional, Lu, Tianyuan, additional, Mehrjoo, Zohreh, additional, Moslemi, Elham, additional, Farouni, Rick, additional, Morales-Soto, Larisa, additional, Wang, Yu Chang, additional, Dankner, Matthew, additional, Djambazian, Haig, additional, Petrecca, Kevin, additional, Spicer, Jonathan, additional, Brimo, Fadi, additional, Siegel, Peter, additional, Park, Morag, additional, Ragoussis, Jiannis, additional, Tanguay, Simon, additional, Riazalhosseini, Yasser, additional, and Najafabadi, Hamed S., additional
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- 2023
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17. Abstract B010: Germline susceptibility to renal cell carcinoma and implications for genetic screening
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Glennon, Kate I., primary, Endo, Mikiko, additional, Usui, Yoshiaki, additional, Iwasaki, Yusuke, additional, Breau, Rodney H., additional, Kapoor, Anil, additional, Tanguay, Simon, additional, Momozawa, Yukihide, additional, and Riazalhosseini, Yasser, additional
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- 2023
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18. Abstract A012: Investigating the heterogeneity and clinical significance of tumor-associated macrophages in renal cell carcinoma milieu
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Zavacky, Evelyn M., primary, Kim, Minjun, additional, Madrigal, Ariel, additional, Mehrjoo, Zohreh, additional, Spicer, Jonathon, additional, Tanguay, Simon, additional, Brimo, Fadi, additional, Najafabadi, Hamed, additional, and Riazalhosseini, Yasser, additional
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- 2023
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19. Abstract PR005: An atlas of cellular heterogeneity in primary and metastatic renal cell carcinomas
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Madrigal, Ariel, primary, Kim, Minjun, additional, Osakwe, Adrien, additional, Lu, Tianyuan, additional, Mehrjoo, Zohreh, additional, Moslemi, Elham, additional, Farouni, Rick, additional, Morales-Soto, Larisa, additional, Wang, Yu Chang, additional, Dankner, Matthew, additional, Djambazian, Haig, additional, Petrecca, Kevin, additional, Spicer, Jonathan, additional, Brimo, Fadi, additional, Siegel, Peter, additional, Park, Morag, additional, Ragoussis, Jiannis, additional, Tanguay, Simon, additional, Riazalhosseini, Yasser, additional, and Najafabadi, Hamed S., additional
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- 2023
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20. Targeting lysyl oxidase (LOX) overcomes chemotherapy resistance in triple negative breast cancer
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Saatci, Ozge, Kaymak, Aysegul, Raza, Umar, Ersan, Pelin G., Akbulut, Ozge, Banister, Carolyn E., Sikirzhytski, Vitali, Tokat, Unal Metin, Aykut, Gamze, Ansari, Suhail A., Dogan, Hayriye Tatli, Dogan, Mehmet, Jandaghi, Pouria, Isik, Aynur, Gundogdu, Fatma, Kosemehmetoglu, Kemal, Dizdar, Omer, Aksoy, Sercan, Akyol, Aytekin, Uner, Aysegul, Buckhaults, Phillip J., Riazalhosseini, Yasser, and Sahin, Ozgur
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- 2020
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21. Latency and interval therapy affect the evolution in metastatic colorectal cancer
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Nikbakht, Hamid, Jessa, Selin, Sukhai, Mahadeo A., Arseneault, Madeleine, Zhang, Tong, Letourneau, Louis, Thomas, Mariam, Bourgey, Mathieu, Roehrl, Michael H. A., Eveleigh, Robert, Chen, Eric X., Krzyzanowska, Monika, Moore, Malcolm J., Giesler, Amanda, Yu, Celeste, Bedard, Philippe L., Kamel-Reid, Suzanne, Majewski, Jacek, Siu, Lillian L., Riazalhosseini, Yasser, and Graham, Donna M.
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- 2020
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22. P292: Contribution of rare variants in the development of familial premature coronary artery disease in a cohort of cardiac patients
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Mehvari, Sepideh, Fathi, Nahid Karimian, Asadnezhad, Maryam, Arzhangi, Sanaz, Sadeghian, Saeed, Boroumand, Mohammadali, Shokohizadeh, Fatemeh, Rostami, Elham, Boroumand, Rahnama, Malekzadeh, Reza, Riazalhosseini, Yasser, Akbari, Mohammadreza, Lathrop, Mark, Najmabadi, Hossein, Hosseini, Kaveh, and Kahrizi, Kimia
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- 2024
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23. Abstract 3787: miR 2355-5p regulates tumor growth and angiogenesis in VHL-inactivated clear cell renal cell carcinoma
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Page, Patric, primary, Turcotte, Sandra, additional, Martin, Mykella, additional, Richard, Patrick, additional, Nishimura, Tamiko, additional, and Riazalhosseini, Yasser, additional
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- 2023
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24. Abstract 69: Minimally invasive brain metastases are characterized by elevated immune cell infiltrate
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Maritan, Sarah M., primary, Karimi, Elham, additional, Dankner, Matthew, additional, Yu, Miranda W., additional, Hernandez-Corchado, Aldo, additional, Rezanejad, Morteza, additional, Fallah, Parvaneh, additional, Fiset, Benoit, additional, Wei, Yuhong, additional, Lam, Stephanie, additional, Nehme, Ali, additional, Watson, Ian R., additional, Park, Morag, additional, Riazalhosseini, Yasser, additional, Najafabadi, Hamed, additional, Petrecca, Kevin, additional, Guiot, Marie-Christine, additional, Quail, Daniela F., additional, Walsh, Logan A., additional, and Siegel, Peter M., additional
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- 2023
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25. Supplementary Methods S1 from Application of Genomic Sequencing to Refine Patient Stratification for Adjuvant Therapy in Renal Cell Carcinoma
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Vasudev, Naveen S., primary, Scelo, Ghislaine, primary, Glennon, Kate I., primary, Wilson, Michelle, primary, Letourneau, Louis, primary, Eveleigh, Robert, primary, Nourbehesht, Nazanin, primary, Arseneault, Madeleine, primary, Paccard, Antoine, primary, Egevad, Lars, primary, Viksna, Juris, primary, Celms, Edgars, primary, Jackson, Sharon M., primary, Abedi-Ardekani, Behnoush, primary, Warren, Anne Y., primary, Selby, Peter J., primary, Trainor, Sebastian, primary, Kimuli, Michael, primary, Cartledge, Jon, primary, Soomro, Naeem, primary, Adeyoju, Adebanji, primary, Patel, Poulam M., primary, Wozniak, Magdalena B., primary, Holcatova, Ivana, primary, Brisuda, Antonin, primary, Janout, Vladimir, primary, Chanudet, Estelle, primary, Zaridze, David, primary, Moukeria, Anush, primary, Shangina, Oxana, primary, Foretova, Lenka, primary, Navratilova, Marie, primary, Mates, Dana, primary, Jinga, Viorel, primary, Bogdanovic, Ljiljana, primary, Kovacevic, Bozidar, primary, Cambon-Thomsen, Anne, primary, Bourque, Guillaume, primary, Brazma, Alvis, primary, Tost, Jörg, primary, Brennan, Paul, primary, Lathrop, Mark, primary, Riazalhosseini, Yasser, primary, and Banks, Rosamonde E., primary
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- 2023
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26. Figure S3 from Application of Genomic Sequencing to Refine Patient Stratification for Adjuvant Therapy in Renal Cell Carcinoma
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Vasudev, Naveen S., primary, Scelo, Ghislaine, primary, Glennon, Kate I., primary, Wilson, Michelle, primary, Letourneau, Louis, primary, Eveleigh, Robert, primary, Nourbehesht, Nazanin, primary, Arseneault, Madeleine, primary, Paccard, Antoine, primary, Egevad, Lars, primary, Viksna, Juris, primary, Celms, Edgars, primary, Jackson, Sharon M., primary, Abedi-Ardekani, Behnoush, primary, Warren, Anne Y., primary, Selby, Peter J., primary, Trainor, Sebastian, primary, Kimuli, Michael, primary, Cartledge, Jon, primary, Soomro, Naeem, primary, Adeyoju, Adebanji, primary, Patel, Poulam M., primary, Wozniak, Magdalena B., primary, Holcatova, Ivana, primary, Brisuda, Antonin, primary, Janout, Vladimir, primary, Chanudet, Estelle, primary, Zaridze, David, primary, Moukeria, Anush, primary, Shangina, Oxana, primary, Foretova, Lenka, primary, Navratilova, Marie, primary, Mates, Dana, primary, Jinga, Viorel, primary, Bogdanovic, Ljiljana, primary, Kovacevic, Bozidar, primary, Cambon-Thomsen, Anne, primary, Bourque, Guillaume, primary, Brazma, Alvis, primary, Tost, Jörg, primary, Brennan, Paul, primary, Lathrop, Mark, primary, Riazalhosseini, Yasser, primary, and Banks, Rosamonde E., primary
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- 2023
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27. Supplementary Tables S3-S13 from Application of Genomic Sequencing to Refine Patient Stratification for Adjuvant Therapy in Renal Cell Carcinoma
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Vasudev, Naveen S., primary, Scelo, Ghislaine, primary, Glennon, Kate I., primary, Wilson, Michelle, primary, Letourneau, Louis, primary, Eveleigh, Robert, primary, Nourbehesht, Nazanin, primary, Arseneault, Madeleine, primary, Paccard, Antoine, primary, Egevad, Lars, primary, Viksna, Juris, primary, Celms, Edgars, primary, Jackson, Sharon M., primary, Abedi-Ardekani, Behnoush, primary, Warren, Anne Y., primary, Selby, Peter J., primary, Trainor, Sebastian, primary, Kimuli, Michael, primary, Cartledge, Jon, primary, Soomro, Naeem, primary, Adeyoju, Adebanji, primary, Patel, Poulam M., primary, Wozniak, Magdalena B., primary, Holcatova, Ivana, primary, Brisuda, Antonin, primary, Janout, Vladimir, primary, Chanudet, Estelle, primary, Zaridze, David, primary, Moukeria, Anush, primary, Shangina, Oxana, primary, Foretova, Lenka, primary, Navratilova, Marie, primary, Mates, Dana, primary, Jinga, Viorel, primary, Bogdanovic, Ljiljana, primary, Kovacevic, Bozidar, primary, Cambon-Thomsen, Anne, primary, Bourque, Guillaume, primary, Brazma, Alvis, primary, Tost, Jörg, primary, Brennan, Paul, primary, Lathrop, Mark, primary, Riazalhosseini, Yasser, primary, and Banks, Rosamonde E., primary
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- 2023
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28. Supplementary Table S2 from Application of Genomic Sequencing to Refine Patient Stratification for Adjuvant Therapy in Renal Cell Carcinoma
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Vasudev, Naveen S., primary, Scelo, Ghislaine, primary, Glennon, Kate I., primary, Wilson, Michelle, primary, Letourneau, Louis, primary, Eveleigh, Robert, primary, Nourbehesht, Nazanin, primary, Arseneault, Madeleine, primary, Paccard, Antoine, primary, Egevad, Lars, primary, Viksna, Juris, primary, Celms, Edgars, primary, Jackson, Sharon M., primary, Abedi-Ardekani, Behnoush, primary, Warren, Anne Y., primary, Selby, Peter J., primary, Trainor, Sebastian, primary, Kimuli, Michael, primary, Cartledge, Jon, primary, Soomro, Naeem, primary, Adeyoju, Adebanji, primary, Patel, Poulam M., primary, Wozniak, Magdalena B., primary, Holcatova, Ivana, primary, Brisuda, Antonin, primary, Janout, Vladimir, primary, Chanudet, Estelle, primary, Zaridze, David, primary, Moukeria, Anush, primary, Shangina, Oxana, primary, Foretova, Lenka, primary, Navratilova, Marie, primary, Mates, Dana, primary, Jinga, Viorel, primary, Bogdanovic, Ljiljana, primary, Kovacevic, Bozidar, primary, Cambon-Thomsen, Anne, primary, Bourque, Guillaume, primary, Brazma, Alvis, primary, Tost, Jörg, primary, Brennan, Paul, primary, Lathrop, Mark, primary, Riazalhosseini, Yasser, primary, and Banks, Rosamonde E., primary
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- 2023
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29. Data from Application of Genomic Sequencing to Refine Patient Stratification for Adjuvant Therapy in Renal Cell Carcinoma
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Vasudev, Naveen S., primary, Scelo, Ghislaine, primary, Glennon, Kate I., primary, Wilson, Michelle, primary, Letourneau, Louis, primary, Eveleigh, Robert, primary, Nourbehesht, Nazanin, primary, Arseneault, Madeleine, primary, Paccard, Antoine, primary, Egevad, Lars, primary, Viksna, Juris, primary, Celms, Edgars, primary, Jackson, Sharon M., primary, Abedi-Ardekani, Behnoush, primary, Warren, Anne Y., primary, Selby, Peter J., primary, Trainor, Sebastian, primary, Kimuli, Michael, primary, Cartledge, Jon, primary, Soomro, Naeem, primary, Adeyoju, Adebanji, primary, Patel, Poulam M., primary, Wozniak, Magdalena B., primary, Holcatova, Ivana, primary, Brisuda, Antonin, primary, Janout, Vladimir, primary, Chanudet, Estelle, primary, Zaridze, David, primary, Moukeria, Anush, primary, Shangina, Oxana, primary, Foretova, Lenka, primary, Navratilova, Marie, primary, Mates, Dana, primary, Jinga, Viorel, primary, Bogdanovic, Ljiljana, primary, Kovacevic, Bozidar, primary, Cambon-Thomsen, Anne, primary, Bourque, Guillaume, primary, Brazma, Alvis, primary, Tost, Jörg, primary, Brennan, Paul, primary, Lathrop, Mark, primary, Riazalhosseini, Yasser, primary, and Banks, Rosamonde E., primary
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- 2023
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30. Supplementary Figure 10 from A Preclinical Trial and Molecularly Annotated Patient Cohort Identify Predictive Biomarkers in Homologous Recombination–deficient Pancreatic Cancer
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Wang, Yifan, primary, Park, Jin Yong Patrick, primary, Pacis, Alain, primary, Denroche, Robert E., primary, Jang, Gun Ho, primary, Zhang, Amy, primary, Cuggia, Adeline, primary, Domecq, Celine, primary, Monlong, Jean, primary, Raitses-Gurevich, Maria, primary, Grant, Robert C., primary, Borgida, Ayelet, primary, Holter, Spring, primary, Stossel, Chani, primary, Bu, Simeng, primary, Masoomian, Mehdi, primary, Lungu, Ilinca M., primary, Bartlett, John M.S., primary, Wilson, Julie M., primary, Gao, Zu-Hua, primary, Riazalhosseini, Yasser, primary, Asselah, Jamil, primary, Bouganim, Nathaniel, primary, Cabrera, Tatiana, primary, Boucher, Louis-Martin, primary, Valenti, David, primary, Biagi, James, primary, Greenwood, Celia M.T., primary, Polak, Paz, primary, Foulkes, William D., primary, Golan, Talia, primary, O'Kane, Grainne M., primary, Fischer, Sandra E., primary, Knox, Jennifer J., primary, Gallinger, Steven, primary, and Zogopoulos, George, primary
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- 2023
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31. Supplementary Figure 4 from A Preclinical Trial and Molecularly Annotated Patient Cohort Identify Predictive Biomarkers in Homologous Recombination–deficient Pancreatic Cancer
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Wang, Yifan, primary, Park, Jin Yong Patrick, primary, Pacis, Alain, primary, Denroche, Robert E., primary, Jang, Gun Ho, primary, Zhang, Amy, primary, Cuggia, Adeline, primary, Domecq, Celine, primary, Monlong, Jean, primary, Raitses-Gurevich, Maria, primary, Grant, Robert C., primary, Borgida, Ayelet, primary, Holter, Spring, primary, Stossel, Chani, primary, Bu, Simeng, primary, Masoomian, Mehdi, primary, Lungu, Ilinca M., primary, Bartlett, John M.S., primary, Wilson, Julie M., primary, Gao, Zu-Hua, primary, Riazalhosseini, Yasser, primary, Asselah, Jamil, primary, Bouganim, Nathaniel, primary, Cabrera, Tatiana, primary, Boucher, Louis-Martin, primary, Valenti, David, primary, Biagi, James, primary, Greenwood, Celia M.T., primary, Polak, Paz, primary, Foulkes, William D., primary, Golan, Talia, primary, O'Kane, Grainne M., primary, Fischer, Sandra E., primary, Knox, Jennifer J., primary, Gallinger, Steven, primary, and Zogopoulos, George, primary
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- 2023
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32. Supplementary Figure 5 from A Preclinical Trial and Molecularly Annotated Patient Cohort Identify Predictive Biomarkers in Homologous Recombination–deficient Pancreatic Cancer
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Wang, Yifan, primary, Park, Jin Yong Patrick, primary, Pacis, Alain, primary, Denroche, Robert E., primary, Jang, Gun Ho, primary, Zhang, Amy, primary, Cuggia, Adeline, primary, Domecq, Celine, primary, Monlong, Jean, primary, Raitses-Gurevich, Maria, primary, Grant, Robert C., primary, Borgida, Ayelet, primary, Holter, Spring, primary, Stossel, Chani, primary, Bu, Simeng, primary, Masoomian, Mehdi, primary, Lungu, Ilinca M., primary, Bartlett, John M.S., primary, Wilson, Julie M., primary, Gao, Zu-Hua, primary, Riazalhosseini, Yasser, primary, Asselah, Jamil, primary, Bouganim, Nathaniel, primary, Cabrera, Tatiana, primary, Boucher, Louis-Martin, primary, Valenti, David, primary, Biagi, James, primary, Greenwood, Celia M.T., primary, Polak, Paz, primary, Foulkes, William D., primary, Golan, Talia, primary, O'Kane, Grainne M., primary, Fischer, Sandra E., primary, Knox, Jennifer J., primary, Gallinger, Steven, primary, and Zogopoulos, George, primary
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- 2023
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33. Supplementary Figure 2 from A Preclinical Trial and Molecularly Annotated Patient Cohort Identify Predictive Biomarkers in Homologous Recombination–deficient Pancreatic Cancer
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Wang, Yifan, primary, Park, Jin Yong Patrick, primary, Pacis, Alain, primary, Denroche, Robert E., primary, Jang, Gun Ho, primary, Zhang, Amy, primary, Cuggia, Adeline, primary, Domecq, Celine, primary, Monlong, Jean, primary, Raitses-Gurevich, Maria, primary, Grant, Robert C., primary, Borgida, Ayelet, primary, Holter, Spring, primary, Stossel, Chani, primary, Bu, Simeng, primary, Masoomian, Mehdi, primary, Lungu, Ilinca M., primary, Bartlett, John M.S., primary, Wilson, Julie M., primary, Gao, Zu-Hua, primary, Riazalhosseini, Yasser, primary, Asselah, Jamil, primary, Bouganim, Nathaniel, primary, Cabrera, Tatiana, primary, Boucher, Louis-Martin, primary, Valenti, David, primary, Biagi, James, primary, Greenwood, Celia M.T., primary, Polak, Paz, primary, Foulkes, William D., primary, Golan, Talia, primary, O'Kane, Grainne M., primary, Fischer, Sandra E., primary, Knox, Jennifer J., primary, Gallinger, Steven, primary, and Zogopoulos, George, primary
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- 2023
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34. Supplementary Table 2 from A Preclinical Trial and Molecularly Annotated Patient Cohort Identify Predictive Biomarkers in Homologous Recombination–deficient Pancreatic Cancer
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Wang, Yifan, primary, Park, Jin Yong Patrick, primary, Pacis, Alain, primary, Denroche, Robert E., primary, Jang, Gun Ho, primary, Zhang, Amy, primary, Cuggia, Adeline, primary, Domecq, Celine, primary, Monlong, Jean, primary, Raitses-Gurevich, Maria, primary, Grant, Robert C., primary, Borgida, Ayelet, primary, Holter, Spring, primary, Stossel, Chani, primary, Bu, Simeng, primary, Masoomian, Mehdi, primary, Lungu, Ilinca M., primary, Bartlett, John M.S., primary, Wilson, Julie M., primary, Gao, Zu-Hua, primary, Riazalhosseini, Yasser, primary, Asselah, Jamil, primary, Bouganim, Nathaniel, primary, Cabrera, Tatiana, primary, Boucher, Louis-Martin, primary, Valenti, David, primary, Biagi, James, primary, Greenwood, Celia M.T., primary, Polak, Paz, primary, Foulkes, William D., primary, Golan, Talia, primary, O'Kane, Grainne M., primary, Fischer, Sandra E., primary, Knox, Jennifer J., primary, Gallinger, Steven, primary, and Zogopoulos, George, primary
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- 2023
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35. Supplementary Figure 7 from A Preclinical Trial and Molecularly Annotated Patient Cohort Identify Predictive Biomarkers in Homologous Recombination–deficient Pancreatic Cancer
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Wang, Yifan, primary, Park, Jin Yong Patrick, primary, Pacis, Alain, primary, Denroche, Robert E., primary, Jang, Gun Ho, primary, Zhang, Amy, primary, Cuggia, Adeline, primary, Domecq, Celine, primary, Monlong, Jean, primary, Raitses-Gurevich, Maria, primary, Grant, Robert C., primary, Borgida, Ayelet, primary, Holter, Spring, primary, Stossel, Chani, primary, Bu, Simeng, primary, Masoomian, Mehdi, primary, Lungu, Ilinca M., primary, Bartlett, John M.S., primary, Wilson, Julie M., primary, Gao, Zu-Hua, primary, Riazalhosseini, Yasser, primary, Asselah, Jamil, primary, Bouganim, Nathaniel, primary, Cabrera, Tatiana, primary, Boucher, Louis-Martin, primary, Valenti, David, primary, Biagi, James, primary, Greenwood, Celia M.T., primary, Polak, Paz, primary, Foulkes, William D., primary, Golan, Talia, primary, O'Kane, Grainne M., primary, Fischer, Sandra E., primary, Knox, Jennifer J., primary, Gallinger, Steven, primary, and Zogopoulos, George, primary
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- 2023
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36. Supplemental Data from Reactivation of cAMP Pathway by PDE4D Inhibition Represents a Novel Druggable Axis for Overcoming Tamoxifen Resistance in ER-positive Breast Cancer
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Mishra, Rasmi R., primary, Belder, Nevin, primary, Ansari, Suhail A., primary, Kayhan, Merve, primary, Bal, Hilal, primary, Raza, Umar, primary, Ersan, Pelin G., primary, Tokat, Ünal M., primary, Eyüpoğlu, Erol, primary, Saatci, Özge, primary, Jandaghi, Pouria, primary, Wiemann, Stefan, primary, Üner, Ayşegül, primary, Cekic, Caglar, primary, Riazalhosseini, Yasser, primary, and Şahin, Özgür, primary
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- 2023
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37. Supplementary Figure 9 from A Preclinical Trial and Molecularly Annotated Patient Cohort Identify Predictive Biomarkers in Homologous Recombination–deficient Pancreatic Cancer
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Wang, Yifan, primary, Park, Jin Yong Patrick, primary, Pacis, Alain, primary, Denroche, Robert E., primary, Jang, Gun Ho, primary, Zhang, Amy, primary, Cuggia, Adeline, primary, Domecq, Celine, primary, Monlong, Jean, primary, Raitses-Gurevich, Maria, primary, Grant, Robert C., primary, Borgida, Ayelet, primary, Holter, Spring, primary, Stossel, Chani, primary, Bu, Simeng, primary, Masoomian, Mehdi, primary, Lungu, Ilinca M., primary, Bartlett, John M.S., primary, Wilson, Julie M., primary, Gao, Zu-Hua, primary, Riazalhosseini, Yasser, primary, Asselah, Jamil, primary, Bouganim, Nathaniel, primary, Cabrera, Tatiana, primary, Boucher, Louis-Martin, primary, Valenti, David, primary, Biagi, James, primary, Greenwood, Celia M.T., primary, Polak, Paz, primary, Foulkes, William D., primary, Golan, Talia, primary, O'Kane, Grainne M., primary, Fischer, Sandra E., primary, Knox, Jennifer J., primary, Gallinger, Steven, primary, and Zogopoulos, George, primary
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- 2023
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38. Supplementary Figure 8 from A Preclinical Trial and Molecularly Annotated Patient Cohort Identify Predictive Biomarkers in Homologous Recombination–deficient Pancreatic Cancer
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Wang, Yifan, primary, Park, Jin Yong Patrick, primary, Pacis, Alain, primary, Denroche, Robert E., primary, Jang, Gun Ho, primary, Zhang, Amy, primary, Cuggia, Adeline, primary, Domecq, Celine, primary, Monlong, Jean, primary, Raitses-Gurevich, Maria, primary, Grant, Robert C., primary, Borgida, Ayelet, primary, Holter, Spring, primary, Stossel, Chani, primary, Bu, Simeng, primary, Masoomian, Mehdi, primary, Lungu, Ilinca M., primary, Bartlett, John M.S., primary, Wilson, Julie M., primary, Gao, Zu-Hua, primary, Riazalhosseini, Yasser, primary, Asselah, Jamil, primary, Bouganim, Nathaniel, primary, Cabrera, Tatiana, primary, Boucher, Louis-Martin, primary, Valenti, David, primary, Biagi, James, primary, Greenwood, Celia M.T., primary, Polak, Paz, primary, Foulkes, William D., primary, Golan, Talia, primary, O'Kane, Grainne M., primary, Fischer, Sandra E., primary, Knox, Jennifer J., primary, Gallinger, Steven, primary, and Zogopoulos, George, primary
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- 2023
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- View/download PDF
39. Conflict of Interest Patent Info from Reactivation of cAMP Pathway by PDE4D Inhibition Represents a Novel Druggable Axis for Overcoming Tamoxifen Resistance in ER-positive Breast Cancer
- Author
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Mishra, Rasmi R., primary, Belder, Nevin, primary, Ansari, Suhail A., primary, Kayhan, Merve, primary, Bal, Hilal, primary, Raza, Umar, primary, Ersan, Pelin G., primary, Tokat, Ünal M., primary, Eyüpoğlu, Erol, primary, Saatci, Özge, primary, Jandaghi, Pouria, primary, Wiemann, Stefan, primary, Üner, Ayşegül, primary, Cekic, Caglar, primary, Riazalhosseini, Yasser, primary, and Şahin, Özgür, primary
- Published
- 2023
- Full Text
- View/download PDF
40. Supplementary Table 3 from A Preclinical Trial and Molecularly Annotated Patient Cohort Identify Predictive Biomarkers in Homologous Recombination–deficient Pancreatic Cancer
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Wang, Yifan, primary, Park, Jin Yong Patrick, primary, Pacis, Alain, primary, Denroche, Robert E., primary, Jang, Gun Ho, primary, Zhang, Amy, primary, Cuggia, Adeline, primary, Domecq, Celine, primary, Monlong, Jean, primary, Raitses-Gurevich, Maria, primary, Grant, Robert C., primary, Borgida, Ayelet, primary, Holter, Spring, primary, Stossel, Chani, primary, Bu, Simeng, primary, Masoomian, Mehdi, primary, Lungu, Ilinca M., primary, Bartlett, John M.S., primary, Wilson, Julie M., primary, Gao, Zu-Hua, primary, Riazalhosseini, Yasser, primary, Asselah, Jamil, primary, Bouganim, Nathaniel, primary, Cabrera, Tatiana, primary, Boucher, Louis-Martin, primary, Valenti, David, primary, Biagi, James, primary, Greenwood, Celia M.T., primary, Polak, Paz, primary, Foulkes, William D., primary, Golan, Talia, primary, O'Kane, Grainne M., primary, Fischer, Sandra E., primary, Knox, Jennifer J., primary, Gallinger, Steven, primary, and Zogopoulos, George, primary
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- 2023
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41. Supplementary Figure 3 from A Preclinical Trial and Molecularly Annotated Patient Cohort Identify Predictive Biomarkers in Homologous Recombination–deficient Pancreatic Cancer
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Wang, Yifan, primary, Park, Jin Yong Patrick, primary, Pacis, Alain, primary, Denroche, Robert E., primary, Jang, Gun Ho, primary, Zhang, Amy, primary, Cuggia, Adeline, primary, Domecq, Celine, primary, Monlong, Jean, primary, Raitses-Gurevich, Maria, primary, Grant, Robert C., primary, Borgida, Ayelet, primary, Holter, Spring, primary, Stossel, Chani, primary, Bu, Simeng, primary, Masoomian, Mehdi, primary, Lungu, Ilinca M., primary, Bartlett, John M.S., primary, Wilson, Julie M., primary, Gao, Zu-Hua, primary, Riazalhosseini, Yasser, primary, Asselah, Jamil, primary, Bouganim, Nathaniel, primary, Cabrera, Tatiana, primary, Boucher, Louis-Martin, primary, Valenti, David, primary, Biagi, James, primary, Greenwood, Celia M.T., primary, Polak, Paz, primary, Foulkes, William D., primary, Golan, Talia, primary, O'Kane, Grainne M., primary, Fischer, Sandra E., primary, Knox, Jennifer J., primary, Gallinger, Steven, primary, and Zogopoulos, George, primary
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- 2023
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42. Supplementary Table 1 from A Preclinical Trial and Molecularly Annotated Patient Cohort Identify Predictive Biomarkers in Homologous Recombination–deficient Pancreatic Cancer
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Wang, Yifan, primary, Park, Jin Yong Patrick, primary, Pacis, Alain, primary, Denroche, Robert E., primary, Jang, Gun Ho, primary, Zhang, Amy, primary, Cuggia, Adeline, primary, Domecq, Celine, primary, Monlong, Jean, primary, Raitses-Gurevich, Maria, primary, Grant, Robert C., primary, Borgida, Ayelet, primary, Holter, Spring, primary, Stossel, Chani, primary, Bu, Simeng, primary, Masoomian, Mehdi, primary, Lungu, Ilinca M., primary, Bartlett, John M.S., primary, Wilson, Julie M., primary, Gao, Zu-Hua, primary, Riazalhosseini, Yasser, primary, Asselah, Jamil, primary, Bouganim, Nathaniel, primary, Cabrera, Tatiana, primary, Boucher, Louis-Martin, primary, Valenti, David, primary, Biagi, James, primary, Greenwood, Celia M.T., primary, Polak, Paz, primary, Foulkes, William D., primary, Golan, Talia, primary, O'Kane, Grainne M., primary, Fischer, Sandra E., primary, Knox, Jennifer J., primary, Gallinger, Steven, primary, and Zogopoulos, George, primary
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- 2023
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43. Supplementary Figure 6 from A Preclinical Trial and Molecularly Annotated Patient Cohort Identify Predictive Biomarkers in Homologous Recombination–deficient Pancreatic Cancer
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Wang, Yifan, primary, Park, Jin Yong Patrick, primary, Pacis, Alain, primary, Denroche, Robert E., primary, Jang, Gun Ho, primary, Zhang, Amy, primary, Cuggia, Adeline, primary, Domecq, Celine, primary, Monlong, Jean, primary, Raitses-Gurevich, Maria, primary, Grant, Robert C., primary, Borgida, Ayelet, primary, Holter, Spring, primary, Stossel, Chani, primary, Bu, Simeng, primary, Masoomian, Mehdi, primary, Lungu, Ilinca M., primary, Bartlett, John M.S., primary, Wilson, Julie M., primary, Gao, Zu-Hua, primary, Riazalhosseini, Yasser, primary, Asselah, Jamil, primary, Bouganim, Nathaniel, primary, Cabrera, Tatiana, primary, Boucher, Louis-Martin, primary, Valenti, David, primary, Biagi, James, primary, Greenwood, Celia M.T., primary, Polak, Paz, primary, Foulkes, William D., primary, Golan, Talia, primary, O'Kane, Grainne M., primary, Fischer, Sandra E., primary, Knox, Jennifer J., primary, Gallinger, Steven, primary, and Zogopoulos, George, primary
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- 2023
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44. Supplementary Table 3 from Epigenetically Deregulated microRNA-375 Is Involved in a Positive Feedback Loop with Estrogen Receptor α in Breast Cancer Cells
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de Souza Rocha Simonini, Pedro, primary, Breiling, Achim, primary, Gupta, Nibedita, primary, Malekpour, Mahdi, primary, Youns, Mahmoud, primary, Omranipour, Ramesh, primary, Malekpour, Fatemeh, primary, Volinia, Stefano, primary, Croce, Carlo M., primary, Najmabadi, Hossein, primary, Diederichs, Sven, primary, Sahin, Özgür, primary, Mayer, Doris, primary, Lyko, Frank, primary, Hoheisel, Jörg D., primary, and Riazalhosseini, Yasser, primary
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- 2023
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45. Supplementary Methods, Figures 1-2, Tables 1-2 from Epigenetically Deregulated microRNA-375 Is Involved in a Positive Feedback Loop with Estrogen Receptor α in Breast Cancer Cells
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de Souza Rocha Simonini, Pedro, primary, Breiling, Achim, primary, Gupta, Nibedita, primary, Malekpour, Mahdi, primary, Youns, Mahmoud, primary, Omranipour, Ramesh, primary, Malekpour, Fatemeh, primary, Volinia, Stefano, primary, Croce, Carlo M., primary, Najmabadi, Hossein, primary, Diederichs, Sven, primary, Sahin, Özgür, primary, Mayer, Doris, primary, Lyko, Frank, primary, Hoheisel, Jörg D., primary, and Riazalhosseini, Yasser, primary
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- 2023
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46. Data from Epigenetically Deregulated microRNA-375 Is Involved in a Positive Feedback Loop with Estrogen Receptor α in Breast Cancer Cells
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de Souza Rocha Simonini, Pedro, primary, Breiling, Achim, primary, Gupta, Nibedita, primary, Malekpour, Mahdi, primary, Youns, Mahmoud, primary, Omranipour, Ramesh, primary, Malekpour, Fatemeh, primary, Volinia, Stefano, primary, Croce, Carlo M., primary, Najmabadi, Hossein, primary, Diederichs, Sven, primary, Sahin, Özgür, primary, Mayer, Doris, primary, Lyko, Frank, primary, Hoheisel, Jörg D., primary, and Riazalhosseini, Yasser, primary
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- 2023
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47. Application of Genomic Sequencing to Refine Patient Stratification for Adjuvant Therapy in Renal Cell Carcinoma
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Vasudev, Naveen S., primary, Scelo, Ghislaine, additional, Glennon, Kate I., additional, Wilson, Michelle, additional, Letourneau, Louis, additional, Eveleigh, Robert, additional, Nourbehesht, Nazanin, additional, Arseneault, Madeleine, additional, Paccard, Antoine, additional, Egevad, Lars, additional, Viksna, Juris, additional, Celms, Edgars, additional, Jackson, Sharon M., additional, Abedi-Ardekani, Behnoush, additional, Warren, Anne Y., additional, Selby, Peter J., additional, Trainor, Sebastian, additional, Kimuli, Michael, additional, Cartledge, Jon, additional, Soomro, Naeem, additional, Adeyoju, Adebanji, additional, Patel, Poulam M., additional, Wozniak, Magdalena B., additional, Holcatova, Ivana, additional, Brisuda, Antonin, additional, Janout, Vladimir, additional, Chanudet, Estelle, additional, Zaridze, David, additional, Moukeria, Anush, additional, Shangina, Oxana, additional, Foretova, Lenka, additional, Navratilova, Marie, additional, Mates, Dana, additional, Jinga, Viorel, additional, Bogdanovic, Ljiljana, additional, Kovacevic, Bozidar, additional, Cambon-Thomsen, Anne, additional, Bourque, Guillaume, additional, Brazma, Alvis, additional, Tost, Jörg, additional, Brennan, Paul, additional, Lathrop, Mark, additional, Riazalhosseini, Yasser, additional, and Banks, Rosamonde E., additional
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- 2023
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48. A Sarcomatoid Renal Cell Carcinoma with Clear Cell Papillary-Like Primary Tumor and Lymph Node Metastasis: A Diagnostic Conundrum
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Demko, Nadine, primary, Glennon, Kate I, additional, Arseneault, Madeleine, additional, Lach, Katherine, additional, Nishimura, Tamiko, additional, Tanguay, Simon, additional, Riazalhosseini, Yasser, additional, and Brimo, Fadi, additional
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- 2022
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49. A deep learning system accurately classifies primary and metastatic cancers using passenger mutation patterns
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Jiao, Wei, Atwal, Gurnit, Polak, Paz, Karlic, Rosa, Cuppen, Edwin, Al-Shahrour, Fatima, Bailey, Peter J, Biankin, Andrew V, Boutros, Paul C, Campbell, Peter J, Chang, David K, Cooke, Susanna L, Deshpande, Vikram, Faltas, Bishoy M, Faquin, William C, Garraway, Levi, Getz, Gad, Grimmond, Sean M, Haider, Syed, Hoadley, Katherine A, Kaiser, Vera B, Kato, Mamoru, Kübler, Kirsten, Lazar, Alexander J, Li, Constance H, Louis, David N, Margolin, Adam, Martin, Sancha, Nahal-Bose, Hardeep K, Nielsen, G Petur, Nik-Zainal, Serena, Omberg, Larsson, P’ng, Christine, Perry, Marc D, Rheinbay, Esther, Rubin, Mark A, Semple, Colin A, Sgroi, Dennis C, Shibata, Tatsuhiro, Siebert, Reiner, Smith, Jaclyn, Stein, Lincoln D, Stobbe, Miranda D, Sun, Ren X, Thai, Kevin, Wright, Derek W, Wu, Chin-Lee, Yuan, Ke, Zhang, Junjun, Danyi, Alexandra, de Ridder, Jeroen, van Herpen, Carla, Lolkema, Martijn P, Steeghs, Neeltje, Morris, Quaid D, Aaltonen, Lauri A, Abascal, Federico, Abeshouse, Adam, Aburatani, Hiroyuki, Adams, David J, Agrawal, Nishant, Ahn, Keun Soo, Ahn, Sung-Min, Aikata, Hiroshi, Akbani, Rehan, Akdemir, Kadir C, Al-Ahmadie, Hikmat, Al-Sedairy, Sultan T, Alawi, Malik, Albert, Monique, Aldape, Kenneth, Alexandrov, Ludmil B, Ally, Adrian, Alsop, Kathryn, Alvarez, Eva G, Amary, Fernanda, Amin, Samirkumar B, Aminou, Brice, Ammerpohl, Ole, Anderson, Matthew J, Ang, Yeng, Antonello, Davide, Anur, Pavana, Aparicio, Samuel, Appelbaum, Elizabeth L, Arai, Yasuhito, Aretz, Axel, Arihiro, Koji, Ariizumi, Shun-ichi, Armenia, Joshua, Arnould, Laurent, Asa, Sylvia, Assenov, Yassen, Aukema, Sietse, Auman, J Todd, Aure, Miriam RR, Awadalla, Philip, Aymerich, Marta, Bader, Gary D, Baez-Ortega, Adrian, Bailey, Matthew H, Balasundaram, Miruna, Balu, Saianand, Bandopadhayay, Pratiti, Banks, Rosamonde E, Barbi, Stefano, Barbour, Andrew P, Barenboim, Jonathan, Barnholtz-Sloan, Jill, Barr, Hugh, Barrera, Elisabet, Bartlett, John, Bartolome, Javier, Bassi, Claudio, Bathe, Oliver F, Baumhoer, Daniel, Bavi, Prashant, Baylin, Stephen B, Bazant, Wojciech, Beardsmore, Duncan, Beck, Timothy A, Behjati, Sam, Behren, Andreas, Niu, Beifang, Bell, Cindy, Beltran, Sergi, Benz, Christopher, Berchuck, Andrew, Bergmann, Anke K, Bergstrom, Erik N, Berman, Benjamin P, Berney, Daniel M, Bernhart, Stephan H, Beroukhim, Rameen, Berrios, Mario, Bersani, Samantha, Bertl, Johanna, Betancourt, Miguel, Bhandari, Vinayak, Bhosle, Shriram G, Bieg, Matthias, Bigner, Darell, Binder, Hans, Birney, Ewan, Birrer, Michael, Biswas, Nidhan K, Bjerkehagen, Bodil, Bodenheimer, Tom, Boice, Lori, Bonizzato, Giada, De Bono, Johann S, Boot, Arnoud, Bootwalla, Moiz S, Borg, Ake, Borkhardt, Arndt, Boroevich, Keith A, Borozan, Ivan, Borst, Christoph, Bosenberg, Marcus, Bosio, Mattia, Boultwood, Jacqueline, Bourque, Guillaume, Bova, G Steven, Bowen, David T, Bowlby, Reanne, Bowtell, David DL, Boyault, Sandrine, Boyce, Rich, Boyd, Jeffrey, Brazma, Alvis, Brennan, Paul, Brewer, Daniel S, Brinkman, Arie B, Bristow, Robert G, Broaddus, Russell R, Brock, Jane E, Brock, Malcolm, Broeks, Annegien, Brooks, Angela N, Brooks, Denise, Brors, Benedikt, Brunak, Søren, Bruxner, Timothy JC, Bruzos, Alicia L, Buchanan, Alex, Buchhalter, Ivo, Buchholz, Christiane, Bullman, Susan, Burke, Hazel, Burkhardt, Birgit, Burns, Kathleen H, Busanovich, John, Bustamante, Carlos D, Butler, Adam P, Butte, Atul J, Byrne, Niall J, Børresen-Dale, Anne-Lise, Caesar-Johnson, Samantha J, Cafferkey, Andy, Cahill, Declan, Calabrese, Claudia, Caldas, Carlos, Calvo, Fabien, Camacho, Niedzica, Campo, Elias, Cantù, Cinzia, Cao, Shaolong, Carey, Thomas E, Carlevaro-Fita, Joana, Carlsen, Rebecca, Cataldo, Ivana, Cazzola, Mario, Cebon, Jonathan, Cerfolio, Robert, Chadwick, Dianne E, Chakravarty, Dimple, Chalmers, Don, Chan, Calvin Wing Yiu, Chan, Kin, Chan-Seng-Yue, Michelle, Chandan, Vishal S, Chanock, Stephen J, Chantrill, Lorraine A, Chateigner, Aurélien, Chatterjee, Nilanjan, Chayama, Kazuaki, Chen, Hsiao-Wei, Chen, Jieming, Chen, Ken, Chen, Yiwen, Chen, Zhaohong, Cherniack, Andrew D, Chien, Jeremy, Chiew, Yoke-Eng, Chin, Suet-Feung, Cho, Juok, Cho, Sunghoon, Choi, Jung Kyoon, Choi, Wan, Chomienne, Christine, Chong, Zechen, Choo, Su Pin, Chou, Angela, Christ, Angelika N, Christie, Elizabeth L, Chuah, Eric, Cibulskis, Carrie, Cibulskis, Kristian, Cingarlini, Sara, Clapham, Peter, Claviez, Alexander, Cleary, Sean, Cloonan, Nicole, Cmero, Marek, Collins, Colin C, Connor, Ashton A, Cooper, Colin S, Cope, Leslie, Corbo, Vincenzo, Cordes, Matthew G, Cordner, Stephen M, Cortés-Ciriano, Isidro, Covington, Kyle, Cowin, Prue A, Craft, Brian, Craft, David, Creighton, Chad J, Cun, Yupeng, Curley, Erin, Cutcutache, Ioana, Czajka, Karolina, Czerniak, Bogdan, Dagg, Rebecca A, Danilova, Ludmila, Davi, Maria Vittoria, Davidson, Natalie R, Davies, Helen, Davis, Ian J, Davis-Dusenbery, Brandi N, Dawson, Kevin J, De La Vega, Francisco M, De Paoli-Iseppi, Ricardo, Defreitas, Timothy, Dei Tos, Angelo P, Delaneau, Olivier, Demchok, John A, 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Deurzen, Carolien HM, van de Vijver, Marc J, Veer, L van’t, and von Mering, Christian
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Human Biology & Physiology ,Ecology,Evolution & Ethology ,Tumour Biology ,Genetics & Genomics ,Structural Biology & Biophysics ,Computational & Systems Biology - Abstract
In cancer, the primary tumour’s organ of origin and histopathology are the strongest determinants of its clinical behaviour, but in 3% of cases a patient presents with a metastatic tumour and no obvious primary. Here, as part of the ICGC/TCGA Pan-Cancer Analysis of Whole Genomes (PCAWG) Consortium, we train a deep learning classifier to predict cancer type based on patterns of somatic passenger mutations detected in whole genome sequencing (WGS) of 2606 tumours representing 24 common cancer types produced by the PCAWG Consortium. Our classifier achieves an accuracy of 91% on held-out tumor samples and 88% and 83% respectively on independent primary and metastatic samples, roughly double the accuracy of trained pathologists when presented with a metastatic tumour without knowledge of the primary. Surprisingly, adding information on driver mutations reduced accuracy. Our results have clinical applicability, underscore how patterns of somatic passenger mutations encode the state of the cell of origin, and can inform future strategies to detect the source of circulating tumour DNA.
- Published
- 2023
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50. Combined burden and functional impact tests for cancer driver discovery using DriverPower
- Author
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Shuai, Shimin, Abascal, Federico, Amin, Samirkumar B, Bader, Gary D, Bandopadhayay, Pratiti, Barenboim, Jonathan, Beroukhim, Rameen, Bertl, Johanna, Boroevich, Keith A, Brunak, Søren, Campbell, Peter J, Carlevaro-Fita, Joana, Chakravarty, Dimple, Chan, Calvin Wing Yiu, Chen, Ken, Choi, Jung Kyoon, Deu-Pons, Jordi, Dhingra, Priyanka, Diamanti, Klev, Feuerbach, Lars, Fink, J Lynn, Fonseca, Nuno A, Frigola, Joan, Gambacorti-Passerini, Carlo, Garsed, Dale W, Gerstein, Mark, Getz, Gad, Guo, Qianyun, Gut, Ivo G, Haan, David, Hamilton, Mark P, Haradhvala, Nicholas J, Harmanci, Arif O, Helmy, Mohamed, Herrmann, Carl, Hess, Julian M, Hobolth, Asger, Hodzic, Ermin, Hong, Chen, Hornshøj, Henrik, Isaev, Keren, Izarzugaza, Jose MG, Johnson, Rory, Johnson, Todd A, Juul, Malene, Juul, Randi Istrup, Kahles, Andre, Kahraman, Abdullah, Kellis, Manolis, Khurana, Ekta, Kim, Jaegil, Kim, Jong K, Kim, Youngwook, Komorowski, Jan, Korbel, Jan O, Kumar, Sushant, Lanzós, Andrés, Larsson, Erik, Lawrence, Michael 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- Subjects
Human Biology & Physiology ,Ecology,Evolution & Ethology ,Tumour Biology ,Genetics & Genomics ,Structural Biology & Biophysics ,Computational & Systems Biology - Abstract
The discovery of driver mutations is one of the key motivations for cancer genome sequencing. Here, as part of the ICGC/TCGA Pan-Cancer Analysis of Whole Genomes (PCAWG) Consortium, which aggregated whole genome sequencing data from 2658 cancers across 38 tumour types, we describe DriverPower, a software package that uses mutational burden and functional impact evidence to identify driver mutations in coding and non-coding sites within cancer whole genomes. Using a total of 1373 genomic features derived from public sources, DriverPower’s background mutation model explains up to 93% of the regional variance in the mutation rate across multiple tumour types. By incorporating functional impact scores, we are able to further increase the accuracy of driver discovery. Testing across a collection of 2583 cancer genomes from the PCAWG project, DriverPower identifies 217 coding and 95 non-coding driver candidates. Comparing to six published methods used by the PCAWG Drivers and Functional Interpretation Working Group, DriverPower has the highest F1 score for both coding and non-coding driver discovery. This demonstrates that DriverPower is an effective framework for computational driver discovery.
- Published
- 2023
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