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5. Data from ERK Inhibition Overcomes Acquired Resistance to MEK Inhibitors

Author

Hatzivassiliou, Georgia, primary, Liu, Bonnie, primary, O'Brien, Carol, primary, Spoerke, Jill M., primary, Hoeflich, Klaus P., primary, Haverty, Peter M., primary, Soriano, Robert, primary, Forrest, William F., primary, Heldens, Sherry, primary, Chen, Huifen, primary, Toy, Karen, primary, Ha, Connie, primary, Zhou, Wei, primary, Song, Kyung, primary, Friedman, Lori S., primary, Amler, Lukas C., primary, Hampton, Garret M., primary, Moffat, John, primary, Belvin, Marcia, primary, and Lackner, Mark R., primary

Published
2023
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6. Supplementary Table S1 from Genetic Alterations and Oncogenic Pathways Associated with Breast Cancer Subtypes

Author

Hu, Xiaolan, primary, Stern, Howard M., primary, Ge, Lin, primary, O'Brien, Carol, primary, Haydu, Lauren, primary, Honchell, Cynthia D., primary, Haverty, Peter M., primary, Peters, Brock A., primary, Wu, Thomas D., primary, Amler, Lukas C., primary, Chant, John, primary, Stokoe, David, primary, Lackner, Mark R., primary, and Cavet, Guy, primary

Published
2023
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7. Supplementary Figures 1-7, Methods from ERK Inhibition Overcomes Acquired Resistance to MEK Inhibitors

Author

Hatzivassiliou, Georgia, primary, Liu, Bonnie, primary, O'Brien, Carol, primary, Spoerke, Jill M., primary, Hoeflich, Klaus P., primary, Haverty, Peter M., primary, Soriano, Robert, primary, Forrest, William F., primary, Heldens, Sherry, primary, Chen, Huifen, primary, Toy, Karen, primary, Ha, Connie, primary, Zhou, Wei, primary, Song, Kyung, primary, Friedman, Lori S., primary, Amler, Lukas C., primary, Hampton, Garret M., primary, Moffat, John, primary, Belvin, Marcia, primary, and Lackner, Mark R., primary

Published
2023
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8. Supplementary Methods, Figures 1-4 from PPM1H Is a p27 Phosphatase Implicated in Trastuzumab Resistance

Author

Lee-Hoeflich, Si Tuen, primary, Pham, Thinh Q., primary, Dowbenko, Don, primary, Munroe, Xander, primary, Lee, James, primary, Li, Li, primary, Zhou, Wei, primary, Haverty, Peter M., primary, Pujara, Kanan, primary, Stinson, Jeremy, primary, Chan, Sara M., primary, Eastham-Anderson, Jeffrey, primary, Pandita, Ajay, primary, Seshagiri, Somasekar, primary, Hoeflich, Klaus P., primary, Turashvili, Gulisa, primary, Gelmon, Karen A., primary, Aparicio, Samuel A., primary, Davis, David P., primary, Sliwkowski, Mark X., primary, and Stern, Howard M., primary

Published
2023
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10. Data from PPM1H Is a p27 Phosphatase Implicated in Trastuzumab Resistance

Author

Lee-Hoeflich, Si Tuen, primary, Pham, Thinh Q., primary, Dowbenko, Don, primary, Munroe, Xander, primary, Lee, James, primary, Li, Li, primary, Zhou, Wei, primary, Haverty, Peter M., primary, Pujara, Kanan, primary, Stinson, Jeremy, primary, Chan, Sara M., primary, Eastham-Anderson, Jeffrey, primary, Pandita, Ajay, primary, Seshagiri, Somasekar, primary, Hoeflich, Klaus P., primary, Turashvili, Gulisa, primary, Gelmon, Karen A., primary, Aparicio, Samuel A., primary, Davis, David P., primary, Sliwkowski, Mark X., primary, and Stern, Howard M., primary

Published
2023
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11. Supplementary Figures S1-S4 from Genetic Alterations and Oncogenic Pathways Associated with Breast Cancer Subtypes

Author

Hu, Xiaolan, primary, Stern, Howard M., primary, Ge, Lin, primary, O'Brien, Carol, primary, Haydu, Lauren, primary, Honchell, Cynthia D., primary, Haverty, Peter M., primary, Peters, Brock A., primary, Wu, Thomas D., primary, Amler, Lukas C., primary, Chant, John, primary, Stokoe, David, primary, Lackner, Mark R., primary, and Cavet, Guy, primary

Published
2023
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12. Supplementary Table 2 from Phosphoinositide 3-Kinase (PI3K) Pathway Alterations Are Associated with Histologic Subtypes and Are Predictive of Sensitivity to PI3K Inhibitors in Lung Cancer Preclinical Models

Author

Spoerke, Jill M., primary, O'Brien, Carol, primary, Huw, Ling, primary, Koeppen, Hartmut, primary, Fridlyand, Jane, primary, Brachmann, Rainer K., primary, Haverty, Peter M., primary, Pandita, Ajay, primary, Mohan, Sankar, primary, Sampath, Deepak, primary, Friedman, Lori S., primary, Ross, Leanne, primary, Hampton, Garret M., primary, Amler, Lukas C., primary, Shames, David S., primary, and Lackner, Mark R., primary

Published
2023
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13. Table S1 from Therapeutic Targeting of the CBP/p300 Bromodomain Blocks the Growth of Castration-Resistant Prostate Cancer

Author

Jin, Lingyan, primary, Garcia, Jesse, primary, Chan, Emily, primary, de la Cruz, Cecile, primary, Segal, Ehud, primary, Merchant, Mark, primary, Kharbanda, Samir, primary, Raisner, Ryan, primary, Haverty, Peter M., primary, Modrusan, Zora, primary, Ly, Justin, primary, Choo, Edna, primary, Kaufman, Susan, primary, Beresini, Maureen H., primary, Romero, F. Anthony, primary, Magnuson, Steven, primary, and Gascoigne, Karen E., primary

Published
2023
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14. Data from Suppression of HER2/HER3-Mediated Growth of Breast Cancer Cells with Combinations of GDC-0941 PI3K Inhibitor, Trastuzumab, and Pertuzumab

Author

Yao, Evelyn, primary, Zhou, Wei, primary, Lee-Hoeflich, Si Tuen, primary, Truong, Tom, primary, Haverty, Peter M., primary, Eastham-Anderson, Jeffrey, primary, Lewin-Koh, Nicholas, primary, Gunter, Bert, primary, Belvin, Marcia, primary, Murray, Lesley J., primary, Friedman, Lori S., primary, Sliwkowski, Mark X., primary, and Hoeflich, Klaus P., primary

Published
2023
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15. Figure S4 from Therapeutic Targeting of the CBP/p300 Bromodomain Blocks the Growth of Castration-Resistant Prostate Cancer

Author

Jin, Lingyan, primary, Garcia, Jesse, primary, Chan, Emily, primary, de la Cruz, Cecile, primary, Segal, Ehud, primary, Merchant, Mark, primary, Kharbanda, Samir, primary, Raisner, Ryan, primary, Haverty, Peter M., primary, Modrusan, Zora, primary, Ly, Justin, primary, Choo, Edna, primary, Kaufman, Susan, primary, Beresini, Maureen H., primary, Romero, F. Anthony, primary, Magnuson, Steven, primary, and Gascoigne, Karen E., primary

Published
2023
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16. Supplementary Figures S1-4 and Tables S1-6 from An Antibody–Drug Conjugate Directed against Lymphocyte Antigen 6 Complex, Locus E (LY6E) Provides Robust Tumor Killing in a Wide Range of Solid Tumor Malignancies

Author

Asundi, Jyoti, primary, Crocker, Lisa, primary, Tremayne, Jarrod, primary, Chang, Peter, primary, Sakanaka, Chie, primary, Tanguay, Josh, primary, Spencer, Susan, primary, Chalasani, Sreedevi, primary, Luis, Elizabeth, primary, Gascoigne, Karen, primary, Desai, Rupal, primary, Raja, Rajiv, primary, Friedman, Brad A., primary, Haverty, Peter M., primary, Polakis, Paul, primary, and Firestein, Ron, primary

Published
2023
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17. Note S1 from Therapeutic Targeting of the CBP/p300 Bromodomain Blocks the Growth of Castration-Resistant Prostate Cancer

Author

Jin, Lingyan, primary, Garcia, Jesse, primary, Chan, Emily, primary, de la Cruz, Cecile, primary, Segal, Ehud, primary, Merchant, Mark, primary, Kharbanda, Samir, primary, Raisner, Ryan, primary, Haverty, Peter M., primary, Modrusan, Zora, primary, Ly, Justin, primary, Choo, Edna, primary, Kaufman, Susan, primary, Beresini, Maureen H., primary, Romero, F. Anthony, primary, Magnuson, Steven, primary, and Gascoigne, Karen E., primary

Published
2023
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18. Supplementary Figure legends from Therapeutic Targeting of the CBP/p300 Bromodomain Blocks the Growth of Castration-Resistant Prostate Cancer

Author

Jin, Lingyan, primary, Garcia, Jesse, primary, Chan, Emily, primary, de la Cruz, Cecile, primary, Segal, Ehud, primary, Merchant, Mark, primary, Kharbanda, Samir, primary, Raisner, Ryan, primary, Haverty, Peter M., primary, Modrusan, Zora, primary, Ly, Justin, primary, Choo, Edna, primary, Kaufman, Susan, primary, Beresini, Maureen H., primary, Romero, F. Anthony, primary, Magnuson, Steven, primary, and Gascoigne, Karen E., primary

Published
2023
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19. Data from Therapeutic Targeting of the CBP/p300 Bromodomain Blocks the Growth of Castration-Resistant Prostate Cancer

Author

Jin, Lingyan, primary, Garcia, Jesse, primary, Chan, Emily, primary, de la Cruz, Cecile, primary, Segal, Ehud, primary, Merchant, Mark, primary, Kharbanda, Samir, primary, Raisner, Ryan, primary, Haverty, Peter M., primary, Modrusan, Zora, primary, Ly, Justin, primary, Choo, Edna, primary, Kaufman, Susan, primary, Beresini, Maureen H., primary, Romero, F. Anthony, primary, Magnuson, Steven, primary, and Gascoigne, Karen E., primary

Published
2023
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20. Supplemental Methods and Figure Legends from An Antibody–Drug Conjugate Directed against Lymphocyte Antigen 6 Complex, Locus E (LY6E) Provides Robust Tumor Killing in a Wide Range of Solid Tumor Malignancies

Author

Asundi, Jyoti, primary, Crocker, Lisa, primary, Tremayne, Jarrod, primary, Chang, Peter, primary, Sakanaka, Chie, primary, Tanguay, Josh, primary, Spencer, Susan, primary, Chalasani, Sreedevi, primary, Luis, Elizabeth, primary, Gascoigne, Karen, primary, Desai, Rupal, primary, Raja, Rajiv, primary, Friedman, Brad A., primary, Haverty, Peter M., primary, Polakis, Paul, primary, and Firestein, Ron, primary

Published
2023
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21. Supplementary Figures 1 - 6 from Phosphoinositide 3-Kinase (PI3K) Pathway Alterations Are Associated with Histologic Subtypes and Are Predictive of Sensitivity to PI3K Inhibitors in Lung Cancer Preclinical Models

Author

Spoerke, Jill M., primary, O'Brien, Carol, primary, Huw, Ling, primary, Koeppen, Hartmut, primary, Fridlyand, Jane, primary, Brachmann, Rainer K., primary, Haverty, Peter M., primary, Pandita, Ajay, primary, Mohan, Sankar, primary, Sampath, Deepak, primary, Friedman, Lori S., primary, Ross, Leanne, primary, Hampton, Garret M., primary, Amler, Lukas C., primary, Shames, David S., primary, and Lackner, Mark R., primary

Published
2023
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22. Supplementary Methods and Tables from Loss of NAPRT1 Expression by Tumor-Specific Promoter Methylation Provides a Novel Predictive Biomarker for NAMPT Inhibitors

Author

Shames, David S., primary, Elkins, Kristi, primary, Walter, Kimberly, primary, Holcomb, Thomas, primary, Du, Pan, primary, Mohl, Dane, primary, Xiao, Yang, primary, Pham, Thinh, primary, Haverty, Peter M., primary, Liederer, Bianca, primary, Liang, Xiaorong, primary, Yauch, Robert L., primary, O'Brien, Thomas, primary, Bourgon, Richard, primary, Koeppen, Hartmut, primary, and Belmont, Lisa D., primary

Published
2023
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23. Supplementary Table 1 from Phosphoinositide 3-Kinase (PI3K) Pathway Alterations Are Associated with Histologic Subtypes and Are Predictive of Sensitivity to PI3K Inhibitors in Lung Cancer Preclinical Models

Author

Spoerke, Jill M., primary, O'Brien, Carol, primary, Huw, Ling, primary, Koeppen, Hartmut, primary, Fridlyand, Jane, primary, Brachmann, Rainer K., primary, Haverty, Peter M., primary, Pandita, Ajay, primary, Mohan, Sankar, primary, Sampath, Deepak, primary, Friedman, Lori S., primary, Ross, Leanne, primary, Hampton, Garret M., primary, Amler, Lukas C., primary, Shames, David S., primary, and Lackner, Mark R., primary

Published
2023
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24. Supplementary Methods from Phosphoinositide 3-Kinase (PI3K) Pathway Alterations Are Associated with Histologic Subtypes and Are Predictive of Sensitivity to PI3K Inhibitors in Lung Cancer Preclinical Models

Author

Spoerke, Jill M., primary, O'Brien, Carol, primary, Huw, Ling, primary, Koeppen, Hartmut, primary, Fridlyand, Jane, primary, Brachmann, Rainer K., primary, Haverty, Peter M., primary, Pandita, Ajay, primary, Mohan, Sankar, primary, Sampath, Deepak, primary, Friedman, Lori S., primary, Ross, Leanne, primary, Hampton, Garret M., primary, Amler, Lukas C., primary, Shames, David S., primary, and Lackner, Mark R., primary

Published
2023
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25. Supplementary Figure 1 from Loss of NAPRT1 Expression by Tumor-Specific Promoter Methylation Provides a Novel Predictive Biomarker for NAMPT Inhibitors

Author

Shames, David S., primary, Elkins, Kristi, primary, Walter, Kimberly, primary, Holcomb, Thomas, primary, Du, Pan, primary, Mohl, Dane, primary, Xiao, Yang, primary, Pham, Thinh, primary, Haverty, Peter M., primary, Liederer, Bianca, primary, Liang, Xiaorong, primary, Yauch, Robert L., primary, O'Brien, Thomas, primary, Bourgon, Richard, primary, Koeppen, Hartmut, primary, and Belmont, Lisa D., primary

Published
2023
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26. Supplementary Data from Suppression of HER2/HER3-Mediated Growth of Breast Cancer Cells with Combinations of GDC-0941 PI3K Inhibitor, Trastuzumab, and Pertuzumab

Author

Yao, Evelyn, primary, Zhou, Wei, primary, Lee-Hoeflich, Si Tuen, primary, Truong, Tom, primary, Haverty, Peter M., primary, Eastham-Anderson, Jeffrey, primary, Lewin-Koh, Nicholas, primary, Gunter, Bert, primary, Belvin, Marcia, primary, Murray, Lesley J., primary, Friedman, Lori S., primary, Sliwkowski, Mark X., primary, and Hoeflich, Klaus P., primary

Published
2023
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27. Supplementary Table 3 from Comparative Oncogenomics Identifies PSMB4 and SHMT2 as Potential Cancer Driver Genes

Author

Lee, Genee Y., primary, Haverty, Peter M., primary, Li, Li, primary, Kljavin, Noelyn M., primary, Bourgon, Richard, primary, Lee, James, primary, Stern, Howard, primary, Modrusan, Zora, primary, Seshagiri, Somasekar, primary, Zhang, Zemin, primary, Davis, David, primary, Stokoe, David, primary, Settleman, Jeffrey, primary, de Sauvage, Frederic J., primary, and Neve, Richard M., primary

Published
2023
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28. Data from Comparative Oncogenomics Identifies PSMB4 and SHMT2 as Potential Cancer Driver Genes

Author

Lee, Genee Y., primary, Haverty, Peter M., primary, Li, Li, primary, Kljavin, Noelyn M., primary, Bourgon, Richard, primary, Lee, James, primary, Stern, Howard, primary, Modrusan, Zora, primary, Seshagiri, Somasekar, primary, Zhang, Zemin, primary, Davis, David, primary, Stokoe, David, primary, Settleman, Jeffrey, primary, de Sauvage, Frederic J., primary, and Neve, Richard M., primary

Published
2023
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29. Supplementary Table 7 from Comparative Oncogenomics Identifies PSMB4 and SHMT2 as Potential Cancer Driver Genes

Author

Lee, Genee Y., primary, Haverty, Peter M., primary, Li, Li, primary, Kljavin, Noelyn M., primary, Bourgon, Richard, primary, Lee, James, primary, Stern, Howard, primary, Modrusan, Zora, primary, Seshagiri, Somasekar, primary, Zhang, Zemin, primary, Davis, David, primary, Stokoe, David, primary, Settleman, Jeffrey, primary, de Sauvage, Frederic J., primary, and Neve, Richard M., primary

Published
2023
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30. Supplementary Table 2 from Comparative Oncogenomics Identifies PSMB4 and SHMT2 as Potential Cancer Driver Genes

Author

Lee, Genee Y., primary, Haverty, Peter M., primary, Li, Li, primary, Kljavin, Noelyn M., primary, Bourgon, Richard, primary, Lee, James, primary, Stern, Howard, primary, Modrusan, Zora, primary, Seshagiri, Somasekar, primary, Zhang, Zemin, primary, Davis, David, primary, Stokoe, David, primary, Settleman, Jeffrey, primary, de Sauvage, Frederic J., primary, and Neve, Richard M., primary

Published
2023
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31. Supplementary Table 4 from Comparative Oncogenomics Identifies PSMB4 and SHMT2 as Potential Cancer Driver Genes

Author

Lee, Genee Y., primary, Haverty, Peter M., primary, Li, Li, primary, Kljavin, Noelyn M., primary, Bourgon, Richard, primary, Lee, James, primary, Stern, Howard, primary, Modrusan, Zora, primary, Seshagiri, Somasekar, primary, Zhang, Zemin, primary, Davis, David, primary, Stokoe, David, primary, Settleman, Jeffrey, primary, de Sauvage, Frederic J., primary, and Neve, Richard M., primary

Published
2023
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33. Supplementary Table 5 from Comparative Oncogenomics Identifies PSMB4 and SHMT2 as Potential Cancer Driver Genes

Author

Lee, Genee Y., primary, Haverty, Peter M., primary, Li, Li, primary, Kljavin, Noelyn M., primary, Bourgon, Richard, primary, Lee, James, primary, Stern, Howard, primary, Modrusan, Zora, primary, Seshagiri, Somasekar, primary, Zhang, Zemin, primary, Davis, David, primary, Stokoe, David, primary, Settleman, Jeffrey, primary, de Sauvage, Frederic J., primary, and Neve, Richard M., primary

Published
2023
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34. Supplementary Table 6 from Comparative Oncogenomics Identifies PSMB4 and SHMT2 as Potential Cancer Driver Genes

Author

Lee, Genee Y., primary, Haverty, Peter M., primary, Li, Li, primary, Kljavin, Noelyn M., primary, Bourgon, Richard, primary, Lee, James, primary, Stern, Howard, primary, Modrusan, Zora, primary, Seshagiri, Somasekar, primary, Zhang, Zemin, primary, Davis, David, primary, Stokoe, David, primary, Settleman, Jeffrey, primary, de Sauvage, Frederic J., primary, and Neve, Richard M., primary

Published
2023
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35. Supplementary Table 1 from Comparative Oncogenomics Identifies PSMB4 and SHMT2 as Potential Cancer Driver Genes

Author

Lee, Genee Y., primary, Haverty, Peter M., primary, Li, Li, primary, Kljavin, Noelyn M., primary, Bourgon, Richard, primary, Lee, James, primary, Stern, Howard, primary, Modrusan, Zora, primary, Seshagiri, Somasekar, primary, Zhang, Zemin, primary, Davis, David, primary, Stokoe, David, primary, Settleman, Jeffrey, primary, de Sauvage, Frederic J., primary, and Neve, Richard M., primary

Published
2023
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37. Genomic Analysis of Smoothened Inhibitor Resistance in Basal Cell Carcinoma

Author

Sharpe, Hayley J., Pau, Gregoire, Dijkgraaf, Gerrit J., Basset-Seguin, Nicole, Modrusan, Zora, Januario, Thomas, Tsui, Vickie, Durham, Alison B., Dlugosz, Andrzej A., Haverty, Peter M., Bourgon, Richard, Tang, Jean Y., Sarin, Kavita Y., Dirix, Luc, Fisher, David C., Rudin, Charles M., Sofen, Howard, Migden, Michael R., Yauch, Robert L., and de Sauvage, Frederic J.

Published
2015
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38. A transcriptional MAPK Pathway Activity Score (MPAS) is a clinically relevant biomarker in multiple cancer types

Author

Wagle, Marie-Claire, Kirouac, Daniel, Klijn, Christiaan, Liu, Bonnie, Mahajan, Shilpi, Junttila, Melissa, Moffat, John, Merchant, Mark, Huw, Ling, Wongchenko, Matthew, Okrah, Kwame, Srinivasan, Shrividhya, Mounir, Zineb, Sumiyoshi, Teiko, Haverty, Peter M., Yauch, Robert L., Yan, Yibing, Kabbarah, Omar, Hampton, Garret, Amler, Lukas, Ramanujan, Saroja, Lackner, Mark R., and Huang, Shih-Min A.

Published
2018
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39. Reproducible pharmacogenomics profiling of cancer cell line panels

Author

Haverty, Peter M., Lin, Eva, Tan, Jenille, Yu, Yihong, Lam, Billy, Lianoglou, Steve, Neve, Richard M., Martin, Scott, Settleman, Jeff, Yauch, Robert L., and Bourgon, Richard

Subjects
Oncology, Experimental, Cancer cells -- Research, Cancer -- Research, Pharmacogenetics -- Methods, Environmental issues, Science and technology, Zoology and wildlife conservation
Abstract

The use of large-scale genomic and drug response screening of cancer cell lines depends crucially on the reproducibility of results. Here we consider two previously published screens, plus a later critique of these studies. Using independent data, we show that consistency is achievable, and provide a systematic description of the best laboratory and analysis practices for future studies., Human cancer cell lines are vital models for studying anti-cancer therapeutics and determinants of drug sensitivity. With the rapidly growing recognition of intra-tumour and inter-patient heterogeneity, the optimal use of [...]

Published
2016
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40. Precision Discovery of Novel Inhibitors of Cancer Target HsMetAP1 from Vast Metagenomic Diversity

Author

Liu, Oliver W., primary, Akers, Scott, additional, Alvarez, Gabriella, additional, Brown, Stephanie, additional, Cai, Wenlong, additional, Charlop-Powers, Zachary, additional, Crispell, Kevin, additional, Eyles, Tom H., additional, Ganesh, Sangita, additional, Goh, Ee-Been, additional, Haverty, Peter M., additional, Hwang, William W., additional, Jamison, Matthew, additional, Kulp, John L., additional, Kurtz, Zachary, additional, Lubbe, Andrea, additional, Milshteyn, Aleksandr, additional, Mokthari, Parisa, additional, Naylor, Stephen G., additional, Oteng-Pabi, Samuel, additional, Overacker, Ross, additional, Robertson, Andrew W., additional, van Aggelen, Helen, additional, Viswanathan, Usha, additional, Yang, Xiao, additional, Yoder, Sam, additional, Colletti, Steven L., additional, and Scannell, Devin R., additional

Published
2022
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41. Targeting p21-activated kinase 1 (PAK1) to induce apoptosis of tumor cells

Author

Ong, Christy C., Jubb, Adrian M., Haverty, Peter M., Zhou, Wei, Tran, Victoria, Truong, Tom, Turley, Helen, O'Brien, Tom, Vucic, Domagoj, Harris, Adrian L., Belvin, Marcia, Friedman, Lori S., Blackwood, Elizabeth M., Koeppen, Hartmut, Hoeflich, Klaus P., and Cobb, Melanie H.

Published
2011

42. Recurrent R-spondin fusions in colon cancer

Author

Seshagiri, Somasekar, Stawiski, Eric W., Durinck, Steffen, Modrusan, Zora, Storm, Elaine E., Conboy, Caitlin B., Chaudhuri, Subhra, Guan, Yinghui, Janakiraman, Vasantharajan, Jaiswal, Bijay S., Guillory, Joseph, Ha, Connie, Dijkgraaf, Gerrit J.P., Stinson, Jeremy, Gnad, Florian, Huntley, Melanie A., Degenhardt, Jeremiah D., Haverty, Peter M., Bourgon, Richard, Wang, Weiru, Koeppen, Hartmut, Gentleman, Robert, Starr, Timothy K., Zhang, Zemin, Largaespada, David A., Wu, Thomas D., and de Sauvage, Frederic J.

Subjects
Gene mutations -- Analysis -- Research, Genomics -- Analysis -- Research, Colon cancer -- Analysis -- Genetic aspects -- Care and treatment -- Patient outcomes -- Research, Environmental issues, Science and technology, Zoology and wildlife conservation
Abstract

Identifying and understanding changes in cancer genomes is essential for the development of targeted therapeutics (1). Here we analyse systematically more than 70 pairs of primary human colon tumours by applying next-generation sequencing to characterize their exomes, transcriptomes and copy-number alterations. We have identified 36,303 protein-altering somatic changes that include several new recurrent mutations in the Wnt pathway gene TCF7L2, chromatin-remodelling genes such as TET2 and TET3 and receptor tyrosine kinases including ERBB3. Our analysis for significantly mutated cancer genes identified 23 candidates, including the cell cycle checkpoint kinase ATM. Copy-number and RNA-seq data analysis identified amplifications and corresponding overexpression of IGF2in a subset of colon tumours. Furthermore, using RNA-seq data we identified multiple fusion transcripts including recurrent gene fusions involving R-spondin family members RSPO2 and RRSPO3 that together occur in 10% of colon tumours. The RSPO fusions were mutually exclusive with APC mutations, indicating that they probably have a role in the activation of Wnt signalling and tumorigenesis. Consistent with this we show that the RSPO fusion proteins were capable of potentiating Wnt signalling. The R-spondin gene fusions and several other gene mutations identified in this study provide new potential opportunities for therapeutic intervention in colon cancer., Colorectal cancer (CRC) is the fourth most prevalent cancer, accounting for over 50,000 deaths per year in the United States (2). Approximately 15% of CRCs have microsatellite instability (MSI) arising [...]

Published
2012

43. The mutation spectrum revealed by paired genome sequences from a lung cancer patient

Author

Lee, William, Jiang, Zhaoshi, Liu, Jinfeng, Haverty, Peter M., Guan, Yinghui, Stinson, Jeremy, Yue, Peng, Zhang, Yan, Pant, Krishna P., Bhatt, Deepali, Ha, Connie, Johnson, Stephanie, Kennemer, Michael I., Mohan, Sankar, Nazarenko, Igor, Watanabe, Colin, Sparks, Andrew B., Shames, David S., Gentleman, Robert, de Sauvage, Frederic J., Stern, Howard, Pandita, Ajay, Ballinger, Dennis G., Drmanac, Radoje, Modrusan, Zora, Seshagiri, Somasekar, and Zhang, Zemin

Published
2010
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44. PAK1 mediates pancreatic cancer cell migration and resistance to MET inhibition

Author

Zhou, Wei, Jubb, Adrian M, Lyle, Karen, Xiao, Qian, Ong, Christy C, Desai, Rupal, Fu, Ling, Gnad, Florian, Song, Qinghua, Haverty, Peter M, Aust, Daniela, Grützmann, Robert, Romero, Mally, Totpal, Klara, Neve, Richard M, Yan, Yibing, Forrest, William F, Wang, Yulei, Raja, Rajiv, Pilarsky, Christian, de Jesus-Acosta, Ana, Belvin, Marcia, Friedman, Lori S, Merchant, Mark, Jaffee, Elizabeth M, Zheng, Lei, Koeppen, Hartmut, and Hoeflich, Klaus P

Published
2014
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47. Recurrent R-spondin fusions in colon cancer

Author

Seshgiri, Somsekr, Stawiski, Eric W., Durinck, Steffen, Modrusan, Zora, Storm, Elaine E., Conboy, Caitlin B., Chaudhuri, Subhra, Guan, Yinghui, Janakiraman, Vasantharajan, Jaiswal, Bijay S., Guillory, Joseph, Ha, Connie, Dijkgraaf, Gerrit J. P., Stinson, Jeremy, Gnad, Florian, Huntley, Melanie A., Degenhardt, Jeremiah D., Haverty, Peter M., Bourgon, Richard, Wang, Weiru, Koeppen, Hartmut, Gentleman, Robert, Starr, Timothy K., Zhang, Zemin, Largaespada, David A., Wu, Thomas D., and de Suvge, Frederic J.

Published
2012
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50. Diverse somatic mutation patterns and pathway alterations in human cancers

Author

Kan, Zhengyan, Jaiswal, Bijay S., Stinson, Jeremy, Janakiraman, Vasantharajan, Bhatt, Deepali, Stern, Howard M., Yue, Peng, Haverty, Peter M., Bourgon, Richard, Zheng, Jianbiao, Moorhead, Martin, Chaudhuri, Subhra, Tomsho, Lynn P., Peters, Brock A., Pujara, Kanan, Cordes, Shaun, Davis, David P., Carlton, Victoria E. H., Yuan, Wenlin, Li, Li, Wang, Weiru, Eigenbrot, Charles, Kaminker, Joshua S., Eberhard, David A., Waring, Paul, Schuster, Stephan C., Modrusan, Zora, Zhang, Zemin, Stokoe, David, de Sauvage, Frederic J., Faham, Malek, and Seshagiri, Somasekar

Published
2010
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