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152. Data from Castration Resistance in Prostate Cancer Is Mediated by the Kinase NEK6

Author

Choudhury, Atish D., primary, Schinzel, Anna C., primary, Cotter, Maura B., primary, Lis, Rosina T., primary, Labella, Katherine, primary, Lock, Ying Jie, primary, Izzo, Francesca, primary, Guney, Isil, primary, Bowden, Michaela, primary, Li, Yvonne Y., primary, Patel, Jinal, primary, Hartman, Emily, primary, Carr, Steven A., primary, Schenone, Monica, primary, Jaffe, Jacob D., primary, Kantoff, Philip W., primary, Hammerman, Peter S., primary, and Hahn, William C., primary

Published
2023
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153. Supplementary Table 5 from Plasticity in the Absence of NOTCH Uncovers a RUNX2-Dependent Pathway in Small Cell Lung Cancer

Author

Hong, Deli, primary, Knelson, Erik H., primary, Li, Yixiang, primary, Durmaz, Yavuz T., primary, Gao, Wenhua, primary, Walton, Emily, primary, Vajdi, Amir, primary, Thai, Tran, primary, Sticco-Ivins, Maura, primary, Sabet, Amin H., primary, Jones, Kristen L., primary, Schinzel, Anna C., primary, Bronson, Rod T., primary, Nguyen, Quang-De, primary, Tolstorukov, Michael Y., primary, Vivero, Marina, primary, Signoretti, Sabina, primary, Barbie, David A., primary, and Oser, Matthew G., primary

Published
2023
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154. Supplementary Data from Plasticity in the Absence of NOTCH Uncovers a RUNX2-Dependent Pathway in Small Cell Lung Cancer

Author

Hong, Deli, primary, Knelson, Erik H., primary, Li, Yixiang, primary, Durmaz, Yavuz T., primary, Gao, Wenhua, primary, Walton, Emily, primary, Vajdi, Amir, primary, Thai, Tran, primary, Sticco-Ivins, Maura, primary, Sabet, Amin H., primary, Jones, Kristen L., primary, Schinzel, Anna C., primary, Bronson, Rod T., primary, Nguyen, Quang-De, primary, Tolstorukov, Michael Y., primary, Vivero, Marina, primary, Signoretti, Sabina, primary, Barbie, David A., primary, and Oser, Matthew G., primary

Published
2023
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155. Data from Plasticity in the Absence of NOTCH Uncovers a RUNX2-Dependent Pathway in Small Cell Lung Cancer

Author

Hong, Deli, primary, Knelson, Erik H., primary, Li, Yixiang, primary, Durmaz, Yavuz T., primary, Gao, Wenhua, primary, Walton, Emily, primary, Vajdi, Amir, primary, Thai, Tran, primary, Sticco-Ivins, Maura, primary, Sabet, Amin H., primary, Jones, Kristen L., primary, Schinzel, Anna C., primary, Bronson, Rod T., primary, Nguyen, Quang-De, primary, Tolstorukov, Michael Y., primary, Vivero, Marina, primary, Signoretti, Sabina, primary, Barbie, David A., primary, and Oser, Matthew G., primary

Published
2023
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156. Supplementary Figure Legends from Castration Resistance in Prostate Cancer Is Mediated by the Kinase NEK6

Author

Choudhury, Atish D., primary, Schinzel, Anna C., primary, Cotter, Maura B., primary, Lis, Rosina T., primary, Labella, Katherine, primary, Lock, Ying Jie, primary, Izzo, Francesca, primary, Guney, Isil, primary, Bowden, Michaela, primary, Li, Yvonne Y., primary, Patel, Jinal, primary, Hartman, Emily, primary, Carr, Steven A., primary, Schenone, Monica, primary, Jaffe, Jacob D., primary, Kantoff, Philip W., primary, Hammerman, Peter S., primary, and Hahn, William C., primary

Published
2023
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157. Supplementary Figures S1-S6 from Castration Resistance in Prostate Cancer Is Mediated by the Kinase NEK6

Author

Choudhury, Atish D., primary, Schinzel, Anna C., primary, Cotter, Maura B., primary, Lis, Rosina T., primary, Labella, Katherine, primary, Lock, Ying Jie, primary, Izzo, Francesca, primary, Guney, Isil, primary, Bowden, Michaela, primary, Li, Yvonne Y., primary, Patel, Jinal, primary, Hartman, Emily, primary, Carr, Steven A., primary, Schenone, Monica, primary, Jaffe, Jacob D., primary, Kantoff, Philip W., primary, Hammerman, Peter S., primary, and Hahn, William C., primary

Published
2023
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158. Supplementary Table 1 from Plasticity in the Absence of NOTCH Uncovers a RUNX2-Dependent Pathway in Small Cell Lung Cancer

Author

Hong, Deli, primary, Knelson, Erik H., primary, Li, Yixiang, primary, Durmaz, Yavuz T., primary, Gao, Wenhua, primary, Walton, Emily, primary, Vajdi, Amir, primary, Thai, Tran, primary, Sticco-Ivins, Maura, primary, Sabet, Amin H., primary, Jones, Kristen L., primary, Schinzel, Anna C., primary, Bronson, Rod T., primary, Nguyen, Quang-De, primary, Tolstorukov, Michael Y., primary, Vivero, Marina, primary, Signoretti, Sabina, primary, Barbie, David A., primary, and Oser, Matthew G., primary

Published
2023
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159. Supplementary Table 3 from Plasticity in the Absence of NOTCH Uncovers a RUNX2-Dependent Pathway in Small Cell Lung Cancer

Author

Hong, Deli, primary, Knelson, Erik H., primary, Li, Yixiang, primary, Durmaz, Yavuz T., primary, Gao, Wenhua, primary, Walton, Emily, primary, Vajdi, Amir, primary, Thai, Tran, primary, Sticco-Ivins, Maura, primary, Sabet, Amin H., primary, Jones, Kristen L., primary, Schinzel, Anna C., primary, Bronson, Rod T., primary, Nguyen, Quang-De, primary, Tolstorukov, Michael Y., primary, Vivero, Marina, primary, Signoretti, Sabina, primary, Barbie, David A., primary, and Oser, Matthew G., primary

Published
2023
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160. Supplementary Methods from Castration Resistance in Prostate Cancer Is Mediated by the Kinase NEK6

Author

Choudhury, Atish D., primary, Schinzel, Anna C., primary, Cotter, Maura B., primary, Lis, Rosina T., primary, Labella, Katherine, primary, Lock, Ying Jie, primary, Izzo, Francesca, primary, Guney, Isil, primary, Bowden, Michaela, primary, Li, Yvonne Y., primary, Patel, Jinal, primary, Hartman, Emily, primary, Carr, Steven A., primary, Schenone, Monica, primary, Jaffe, Jacob D., primary, Kantoff, Philip W., primary, Hammerman, Peter S., primary, and Hahn, William C., primary

Published
2023
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162. A precise measurement of the direct CP violation parameter Re(ε′/ε)

Author

Lai, A, Marras, D, Bevan, A, Dosanjh, RS, Gershon, TJ, Hay, B, Kalmus, GE, Lazzeroni, C, Munday, DJ, Needham, MD, Olaiya, E, Parker, MA, White, TO, Wotton, SA, Barr, G, Bocquet, G, Ceccucci, A, Cuhadar-Dönszelmann, T, Cundy, D, D'Agostini, G, Doble, N, Falaleev, V, Funk, W, Gatignon, L, Gonidec, A, Gorini, B, Govi, G, Grafström, P, Kubischta, W, Lacourt, A, Lenti, M, Luitz, S, Matheys, JP, Mikulec, I, Norton, A, Palestini, S, Panzer-Steindel, B, Schinzel, D, Tatishvili, G, Taureg, H, Velasco, M, Vossnack, O, Wahl, H, Cheshkov, C, Gaponenko, A, Hristov, P, Kekelidze, V, Madigojine, D, Molokanova, N, Potrebenikov, Y, Tkatchev, A, Zinchenko, A, Knowles, I, Martin, V, Parsons, H, Sacco, R, Walker, A, Contalbrigo, M, Dalpiaz, P, Duclos, J, Frabetti, PL, Gianoli, A, Martini, M, Petrucci, F, Savrié, M, Scarpa, M, Bizzeti, A, Calvetti, M, Collazuol, G, Graziani, G, Iacopini, E, Martelli, F, Veltri, M, Becker, HG, Blümer, H, Coward, D, Eppard, M, Fox, H, Hirstius, A, Holtz, K, Kalter, A, Kleinknecht, K, Koch, U, Köpke, L, Lopes da Silva, P, Marouelli, P, Pellmann, I, Peters, A, Schmidt, SA, Schönharting, V, Schué, Y, Wanke, R, Winhart, A, Wittgen, M, Chollet, JC, Crépé, S, Fayard, L, Iconomidou-Fayard, L, Ocariz, J, and Unal, G

Subjects
Nuclear & Particles Physics, Quantum Physics, Atomic, Molecular, Nuclear, Particle and Plasma Physics, Atomic, Molecular, Nuclear, Particle and Plasma Physics
Abstract

The direct CP violation parameter Re(ε′/ε) has been measured from the decay rates of neutral kaons into two pions using the NA48 detector at the CERN SPS. With 3.3 million KL → π0π0 events collected during the 1998 and 1999 running periods, a result of Re(ε′/ε) = (15.0 ± 2.7) × 10-4 has been obtained. The result combined with the published 1997 sample is Re(ε′/ε) = (15.3 ± 2.6) × 10-4.

Published
2001

163. Precision measurement of the Ξ0 mass and the branching ratios of the decays Ξ0 → Λγ and Ξ0 → ∑0γ

Author

Fanti, V, Lai, A, Marras, D, Musa, L, Nappi, A, Hay, B, Moore, KN, Moore, RW, Munday, DJ, Needham, MD, Parker, MA, White, TO, Wotton, SA, Barr, G, Blümer, H, Bocquet, G, Bremer, J, Ceccucci, A, Cogan, J, Cundy, D, Doble, N, Fischer, G, Funk, W, Gatignon, L, Gianoli, A, Gonidec, A, Govi, G, Grafström, P, Lacourt, A, Luitz, S, Marzulli, V, Matheys, JP, Norton, A, Palestini, S, Panzer-Steindel, B, Schinzel, D, Taureg, H, Velasco, M, Vossnack, O, Wahl, H, Wirrer, G, Gaponenko, A, Kekelidze, V, Madigojine, D, Mestvirishvili, A, Molokanova, N, Potrebenikov, Y, Tatishvili, G, Tkatchev, A, Zinchenko, A, Boyle, O, Knowles, IG, Martin, VJ, Parsons, H, Contalbrigo, M, Dalpiaz, P, Duclos, J, Formica, A, Frabetti, PL, Martini, M, Petrucci, F, Savrie, M, Bizzeti, A, Calvetti, M, Collazuol, G, Graziani, G, Iacopini, E, Lenti, M, Michetti, A, Talamonti, C, Becker, HG, Coward, D, Ebersberger, C, Fox, H, Kalter, A, Kleinknecht, K, Koch, U, Köpke, L, Renk, B, Scheidt, J, Schmidt, J, Schue, Y, Schönharting, V, Wilhelm, R, Wittgen, M, Chollet, JC, Crépé, S, Fayard, L, Iconomidou-Fayard, L, Ocariz, J, Unal, G, Wingerter, I, Anzivino, G, Cenci, P, Lubrano, P, Pepe, M, Calafiura, P, Carosi, R, Casali, R, and Cerri, C

Subjects
Nuclear & Particles Physics, Quantum Physics, Atomic, Molecular, Nuclear, Particle and Plasma Physics, Atomic, Molecular, Nuclear, Particle and Plasma Physics
Abstract

A new precision measurement of the Ξ0 mass has been performed at the NA48 experiment at the CERN SPS. The value obtained is [1314.82±0.06 (stat.) ±0.2 (syst.)] MeV/c2. The branching ratios of Xi;0 radiative decays have been measured as: Br(Ξ0 → Λγ) = [1.90 ± 0.34(stat.) ± 0.19(syst.)] · 10-3 and Br(Ξ0 → ∑0γ) = [3.14 ± 0.76(stat.) ± 0.32(syst.)] · 10-3.

Published
2000

164. Precision measurement of the Xi(0) mass and the branching ratios of the decays Xi(0) -> Lambda gamma and Xi(0) -> Sigma(0)gamma

Author

Fanti, V, Lai, A, Marras, D, Musa, L, Nappi, A, Hay, B, Moore, KN, Moore, RW, Munday, DJ, Needham, MD, Parker, MA, White, TO, Wotton, SA, Barr, G, Blumer, H, Bocquet, G, Bremer, J, Ceccucci, A, Cogan, J, Cundy, D, Doble, N, Fischer, G, Funk, W, Gatignon, L, Gianoli, A, Gonidec, A, Govi, G, Grafstrom, P, Lacourt, A, Luitz, S, Marzulli, V, Matheys, JP, Norton, A, Palestini, S, Panzer-Steindel, B, Schinzel, D, Taureg, H, Velasco, M, Vossnack, O, Wahl, H, Wirrer, G, Gaponenko, A, Kekelidze, V, Madigojine, D, Mestvirishvili, A, Molokanova, N, Potrebenikov, Y, Tatishvili, G, Tkatchev, A, Zinchenko, A, Boyle, O, Knowles, IG, Martin, VJ, Parsons, H, Contalbrigo, M, Dalpiaz, P, Duclos, J, Formica, A, Frabetti, PL, Martini, M, Petrucci, F, Savrie, M, Bizzeti, A, Calvetti, M, Collazuol, G, Graziani, G, Iacopini, E, Lenti, M, Michetti, A, Talamonti, C, Becker, HG, Coward, D, Ebersberger, C, Fox, H, Kalter, A, Kleinknecht, K, Koch, U, Kopke, L, Renk, B, Scheidt, J, Schmidt, J, Schue, Y, Schonharting, V, Wilhelm, R, Wittgen, M, Chollet, JC, Crepe, S, Fayard, L, Iconomidou-Fayard, L, Ocariz, J, Unal, G, Wingerter, I, Anzivino, G, Cenci, P, Lubrano, P, Pepe, M, Calafiura, P, Carosi, R, Casali, R, and Cerri, C

Subjects
Nuclear & Particles Physics, Quantum Physics, Atomic, Molecular, Nuclear, Particle and Plasma Physics, Atomic, Molecular, Nuclear, Particle and Plasma Physics
Published
2000

165. Table S1 from MCL1 and DEDD Promote Urothelial Carcinoma Progression

Author

William C. Hahn, Jonathan E. Rosenberg, Anthony Letai, Rameen Beroukhim, David J. Kwiatkowski, Rosalyn M. Adam, Amy J. Schlauch, Rebecca Modiste, Anna C. Schinzel, Won Jun Kim, Bryan D. Kynnap, Mihir B. Doshi, Jennifer L. Guerriero, and Andrew L. Hong

Abstract

Copy number variation (CNV) of samples in TCGA

Published
2023

166. Supplementary Table S7 from Systematic Interrogation of 3q26 Identifies TLOC1 and SKIL as Cancer Drivers

Author

William C. Hahn, Rameen Beroukhim, Jill P. Mesirov, Pablo Tamayo, Levi A. Garraway, Barbara A. Weir, Craig H. Mermel, David A. Barbie, Nicole A. Spardy, Anna C. Schinzel, Joseph Rosenbluh, Andrew O. Giacomelli, So Young Kim, Yashaswi Shrestha, Francisca Vazquez, Hiu Wing Cheung, Rhine R. Shen, Nina Ilic, Steven E. Schumacher, Alexander Tong, and Daniel Hagerstrand

Abstract

Supplementary Table S7 - XLSX file 61K, List of shRNAs used in this study

Published
2023

167. Figure S1 from MCL1 and DEDD Promote Urothelial Carcinoma Progression

Author

William C. Hahn, Jonathan E. Rosenberg, Anthony Letai, Rameen Beroukhim, David J. Kwiatkowski, Rosalyn M. Adam, Amy J. Schlauch, Rebecca Modiste, Anna C. Schinzel, Won Jun Kim, Bryan D. Kynnap, Mihir B. Doshi, Jennifer L. Guerriero, and Andrew L. Hong

Abstract

DEDD and MCL1 overexpression are not necessary for initiation of tumorigenesis.

Published
2023

168. Supplementary Figure 2 from Systematic Interrogation of 3q26 Identifies TLOC1 and SKIL as Cancer Drivers

Author

William C. Hahn, Rameen Beroukhim, Jill P. Mesirov, Pablo Tamayo, Levi A. Garraway, Barbara A. Weir, Craig H. Mermel, David A. Barbie, Nicole A. Spardy, Anna C. Schinzel, Joseph Rosenbluh, Andrew O. Giacomelli, So Young Kim, Yashaswi Shrestha, Francisca Vazquez, Hiu Wing Cheung, Rhine R. Shen, Nina Ilic, Steven E. Schumacher, Alexander Tong, and Daniel Hagerstrand

Abstract

Supplementary Figure 2 - PDF file 17K, SKIL induces Matrigel invasion

Published
2023

169. Supplementary Information from Inhibition of KRAS-Driven Tumorigenicity by Interruption of an Autocrine Cytokine Circuit

Author

David A. Barbie, William C. Hahn, Kwok-Kin Wong, Ryan B. Corcoran, Jeffrey A. Engelman, Michael J. Eck, Suzanne Gaudet, Nir Hacohen, Shuji Ogino, William E. Gillanders, Jill P. Mesirov, Lior Rozhansky, Mary T. Labowsky, Whitney Silkworth, Edmond M. Chan, Karolina Maciag, Asher N. Page, Zhi Rong Qian, Jason T. Godfrey, Pablo Tamayo, Jacob B. Reibel, Tran C. Thai, Anna C. Schinzel, Rhine R. Shen, Susan E. Moody, Shenghong Yang, Yu Imamura, Thanh U. Barbie, Travis J. Cohoon, Amir R. Aref, and Zehua Zhu

Abstract

PDF file 146K, This file contains the legends to Supplementary Figures 1-7 and Supplementary methods

Published
2023

170. Supplementary Table from Inhibition of KRAS-Driven Tumorigenicity by Interruption of an Autocrine Cytokine Circuit

Author

David A. Barbie, William C. Hahn, Kwok-Kin Wong, Ryan B. Corcoran, Jeffrey A. Engelman, Michael J. Eck, Suzanne Gaudet, Nir Hacohen, Shuji Ogino, William E. Gillanders, Jill P. Mesirov, Lior Rozhansky, Mary T. Labowsky, Whitney Silkworth, Edmond M. Chan, Karolina Maciag, Asher N. Page, Zhi Rong Qian, Jason T. Godfrey, Pablo Tamayo, Jacob B. Reibel, Tran C. Thai, Anna C. Schinzel, Rhine R. Shen, Susan E. Moody, Shenghong Yang, Yu Imamura, Thanh U. Barbie, Travis J. Cohoon, Amir R. Aref, and Zehua Zhu

Abstract

S1 XLSX file 63K, This Supplementary Table contains the results of ORF screen to identify genes that can rescue the suppression of TBK1 in a KRAS-dependent cell line

Published
2023

171. Data from MCL1 and DEDD Promote Urothelial Carcinoma Progression

Author

William C. Hahn, Jonathan E. Rosenberg, Anthony Letai, Rameen Beroukhim, David J. Kwiatkowski, Rosalyn M. Adam, Amy J. Schlauch, Rebecca Modiste, Anna C. Schinzel, Won Jun Kim, Bryan D. Kynnap, Mihir B. Doshi, Jennifer L. Guerriero, and Andrew L. Hong

Abstract

Focal amplification of chromosome 1q23.3 in patients with advanced primary or relapsed urothelial carcinomas is associated with poor survival. We interrogated chromosome 1q23.3 and the nearby focal amplicon 1q21.3, as both are associated with increased lymph node disease in patients with urothelial carcinoma. Specifically, we assessed whether the oncogene MCL1 that resides in 1q21.3 and the genes that reside in the 1q23.3 amplicon were required for the proliferation or survival of urothelial carcinoma. We observed that suppressing MCL1 or the death effector domain–containing protein (DEDD) in the cells that harbor amplifications of 1q21.3 or 1q23.3, respectively, inhibited cell proliferation. We also found that overexpression of MCL1 or DEDD increased anchorage independence growth in vitro and increased experimental metastasis in vivo in the nonamplified urothelial carcinoma cell line, RT112. The expression of MCL1 confers resistance to a range of apoptosis inducers, while the expression of DEDD led to resistance to TNFα-induced apoptosis. These observations identify MCL1 and DEDD as genes that contribute to aggressive urothelial carcinoma.Implications:These studies identify MCL1 and DEDD as genes that contribute to aggressive urothelial carcinomas.

Published
2023

172. Supplementary Figures from Inhibition of KRAS-Driven Tumorigenicity by Interruption of an Autocrine Cytokine Circuit

Author

David A. Barbie, William C. Hahn, Kwok-Kin Wong, Ryan B. Corcoran, Jeffrey A. Engelman, Michael J. Eck, Suzanne Gaudet, Nir Hacohen, Shuji Ogino, William E. Gillanders, Jill P. Mesirov, Lior Rozhansky, Mary T. Labowsky, Whitney Silkworth, Edmond M. Chan, Karolina Maciag, Asher N. Page, Zhi Rong Qian, Jason T. Godfrey, Pablo Tamayo, Jacob B. Reibel, Tran C. Thai, Anna C. Schinzel, Rhine R. Shen, Susan E. Moody, Shenghong Yang, Yu Imamura, Thanh U. Barbie, Travis J. Cohoon, Amir R. Aref, and Zehua Zhu

Abstract

PDF file 1227K, This file contains Supplemental Figures 1-7, which provide additional supporting information for each of the main figures

Published
2023

173. Supplementary Legends from Systematic Interrogation of 3q26 Identifies TLOC1 and SKIL as Cancer Drivers

Author

William C. Hahn, Rameen Beroukhim, Jill P. Mesirov, Pablo Tamayo, Levi A. Garraway, Barbara A. Weir, Craig H. Mermel, David A. Barbie, Nicole A. Spardy, Anna C. Schinzel, Joseph Rosenbluh, Andrew O. Giacomelli, So Young Kim, Yashaswi Shrestha, Francisca Vazquez, Hiu Wing Cheung, Rhine R. Shen, Nina Ilic, Steven E. Schumacher, Alexander Tong, and Daniel Hagerstrand

Abstract

Supplementary Legends - PDF file 122K, Legends for all Supplementary information

Published
2023

174. Supplementary Figure 3 from Systematic Interrogation of 3q26 Identifies TLOC1 and SKIL as Cancer Drivers

Author

William C. Hahn, Rameen Beroukhim, Jill P. Mesirov, Pablo Tamayo, Levi A. Garraway, Barbara A. Weir, Craig H. Mermel, David A. Barbie, Nicole A. Spardy, Anna C. Schinzel, Joseph Rosenbluh, Andrew O. Giacomelli, So Young Kim, Yashaswi Shrestha, Francisca Vazquez, Hiu Wing Cheung, Rhine R. Shen, Nina Ilic, Steven E. Schumacher, Alexander Tong, and Daniel Hagerstrand

Abstract

Supplementary Figure 3 - PDF file 20K, 3q26 copy number in cancer cell lines

Published
2023

175. Supplementary Figure 1 from Systematic Interrogation of 3q26 Identifies TLOC1 and SKIL as Cancer Drivers

Author

William C. Hahn, Rameen Beroukhim, Jill P. Mesirov, Pablo Tamayo, Levi A. Garraway, Barbara A. Weir, Craig H. Mermel, David A. Barbie, Nicole A. Spardy, Anna C. Schinzel, Joseph Rosenbluh, Andrew O. Giacomelli, So Young Kim, Yashaswi Shrestha, Francisca Vazquez, Hiu Wing Cheung, Rhine R. Shen, Nina Ilic, Steven E. Schumacher, Alexander Tong, and Daniel Hagerstrand

Abstract

Supplementary Figure 1 - PDF file 25K, Correlation between TLOC1 suppression and cell proliferation

Published
2023

176. Supplementary Table S3 from Castration Resistance in Prostate Cancer Is Mediated by the Kinase NEK6

Author

William C. Hahn, Peter S. Hammerman, Philip W. Kantoff, Jacob D. Jaffe, Monica Schenone, Steven A. Carr, Emily Hartman, Jinal Patel, Yvonne Y. Li, Michaela Bowden, Isil Guney, Francesca Izzo, Ying Jie Lock, Katherine Labella, Rosina T. Lis, Maura B. Cotter, Anna C. Schinzel, and Atish D. Choudhury

Abstract

GO terms for NEK6 upregulated genes Day 5 after castration (filtered for >10 GeneHits).

Published
2023

177. Supplementary Table 5 from Plasticity in the Absence of NOTCH Uncovers a RUNX2-Dependent Pathway in Small Cell Lung Cancer

Author

Matthew G. Oser, David A. Barbie, Sabina Signoretti, Marina Vivero, Michael Y. Tolstorukov, Quang-De Nguyen, Rod T. Bronson, Anna C. Schinzel, Kristen L. Jones, Amin H. Sabet, Maura Sticco-Ivins, Tran Thai, Amir Vajdi, Emily Walton, Wenhua Gao, Yavuz T. Durmaz, Yixiang Li, Erik H. Knelson, and Deli Hong

Abstract

LISA analysis of master regulators of differentially expressed genes

Published
2023

178. Supplementary Data from Plasticity in the Absence of NOTCH Uncovers a RUNX2-Dependent Pathway in Small Cell Lung Cancer

Author

Matthew G. Oser, David A. Barbie, Sabina Signoretti, Marina Vivero, Michael Y. Tolstorukov, Quang-De Nguyen, Rod T. Bronson, Anna C. Schinzel, Kristen L. Jones, Amin H. Sabet, Maura Sticco-Ivins, Tran Thai, Amir Vajdi, Emily Walton, Wenhua Gao, Yavuz T. Durmaz, Yixiang Li, Erik H. Knelson, and Deli Hong

Abstract

Supplementary Data including supplementary methods, supplementary figures, and supplementary figure legends.

Published
2023

179. Supplementary Table 2 from Plasticity in the Absence of NOTCH Uncovers a RUNX2-Dependent Pathway in Small Cell Lung Cancer

Author

Matthew G. Oser, David A. Barbie, Sabina Signoretti, Marina Vivero, Michael Y. Tolstorukov, Quang-De Nguyen, Rod T. Bronson, Anna C. Schinzel, Kristen L. Jones, Amin H. Sabet, Maura Sticco-Ivins, Tran Thai, Amir Vajdi, Emily Walton, Wenhua Gao, Yavuz T. Durmaz, Yixiang Li, Erik H. Knelson, and Deli Hong

Abstract

GSEA Hallmarks analysis of RNA-seq of bulk lung tumors

Published
2023

180. Supplementary Table 1 from Plasticity in the Absence of NOTCH Uncovers a RUNX2-Dependent Pathway in Small Cell Lung Cancer

Author

Matthew G. Oser, David A. Barbie, Sabina Signoretti, Marina Vivero, Michael Y. Tolstorukov, Quang-De Nguyen, Rod T. Bronson, Anna C. Schinzel, Kristen L. Jones, Amin H. Sabet, Maura Sticco-Ivins, Tran Thai, Amir Vajdi, Emily Walton, Wenhua Gao, Yavuz T. Durmaz, Yixiang Li, Erik H. Knelson, and Deli Hong

Abstract

RNA-seq data of bulk lung tumors from sgControl RPP, sgNotch1 RPP, sgNotch2 RPP, and sgAscl1 RPP CRISPR-based SCLC GEMMs

Published
2023

181. Data from Curatopes Melanoma: A Database of Predicted T-cell Epitopes from Overly Expressed Proteins in Metastatic Cutaneous Melanoma

Author

Julio Vera, Gerold Schuler, Jan Dörrie, Niels Schaft, Cornelia Schinzel, Tanushree Jaitly, Martin Eberhardt, and Christopher Lischer

Abstract

Therapeutic anticancer vaccination has been adapted as an immunotherapy in several solid tumors. However, the selection of promising candidates from the total quantity of possible epitopes poses a challenge to clinicians and bioinformaticians alike, and very few epitopes have been tested in experimental or clinical settings to validate their efficacy. Here, we present a comprehensive database of predicted nonmutated peptide epitopes derived from genes that are overly expressed in a group of 32 melanoma biopsies compared with healthy tissues and that were filtered against expression in a curated list of survival-critical tissues. We hypothesize that these "self-tolerant" epitopes have two desirable properties: they do not depend on mutations, being immediately applicable to a large patient collective, and they potentially cause fewer autoimmune reactions. To support epitope selection, we provide an aggregated score of expected therapeutic efficiency as a shortlist mechanism. The database has applications in facilitating epitope selection and trial design and is freely accessible at https://www.curatopes.com.Significance:A database is presented that predicts and scores antitumor T-cell epitopes, with a focus on tolerability and avoidance of severe autoimmunity, offering a supplementary epitope set for further investigation in immunotherapy.

Published
2023

182. Data from Castration Resistance in Prostate Cancer Is Mediated by the Kinase NEK6

Author

William C. Hahn, Peter S. Hammerman, Philip W. Kantoff, Jacob D. Jaffe, Monica Schenone, Steven A. Carr, Emily Hartman, Jinal Patel, Yvonne Y. Li, Michaela Bowden, Isil Guney, Francesca Izzo, Ying Jie Lock, Katherine Labella, Rosina T. Lis, Maura B. Cotter, Anna C. Schinzel, and Atish D. Choudhury

Abstract

In prostate cancer, the development of castration resistance is pivotal in progression to aggressive disease. However, understanding of the pathways involved remains incomplete. In this study, we performed a high-throughput genetic screen to identify kinases that enable tumor formation by androgen-dependent prostate epithelial (LHSR-AR) cells under androgen-deprived conditions. In addition to the identification of known mediators of castration resistance, which served to validate the screen, we identified a mitotic-related serine/threonine kinase, NEK6, as a mediator of androgen-independent tumor growth. NEK6 was overexpressed in a subset of human prostate cancers. Silencing NEK6 in castration-resistant cancer cells was sufficient to restore sensitivity to castration in a mouse xenograft model system. Tumors in which castration resistance was conferred by NEK6 were predominantly squamous in histology with no evidence of AR signaling. Gene expression profiling suggested that NEK6 overexpression stimulated cytoskeletal, differentiation, and immune signaling pathways and maintained gene expression patterns normally decreased by castration. Phosphoproteome profiling revealed the transcription factor FOXJ2 as a novel NEK6 substrate, with FOXJ2 phosphorylation associated with increased expression of newly identified NEK6 transcriptional targets. Overall, our studies establish NEK6 signaling as a central mechanism mediating castration-resistant prostate cancer. Cancer Res; 77(3); 753–65. ©2016 AACR.

Published
2023

183. Supplementary Methods from Castration Resistance in Prostate Cancer Is Mediated by the Kinase NEK6

Author

William C. Hahn, Peter S. Hammerman, Philip W. Kantoff, Jacob D. Jaffe, Monica Schenone, Steven A. Carr, Emily Hartman, Jinal Patel, Yvonne Y. Li, Michaela Bowden, Isil Guney, Francesca Izzo, Ying Jie Lock, Katherine Labella, Rosina T. Lis, Maura B. Cotter, Anna C. Schinzel, and Atish D. Choudhury

Abstract

Description of additional methods and procedures used in the study.

Published
2023

184. Supplementary Table 3 from Plasticity in the Absence of NOTCH Uncovers a RUNX2-Dependent Pathway in Small Cell Lung Cancer

Author

Matthew G. Oser, David A. Barbie, Sabina Signoretti, Marina Vivero, Michael Y. Tolstorukov, Quang-De Nguyen, Rod T. Bronson, Anna C. Schinzel, Kristen L. Jones, Amin H. Sabet, Maura Sticco-Ivins, Tran Thai, Amir Vajdi, Emily Walton, Wenhua Gao, Yavuz T. Durmaz, Yixiang Li, Erik H. Knelson, and Deli Hong

Abstract

RNA-seq data of the SCLC adherent cells that are either Notch-WT or Notch-Mutant

Published
2023

185. Data from Plasticity in the Absence of NOTCH Uncovers a RUNX2-Dependent Pathway in Small Cell Lung Cancer

Author

Matthew G. Oser, David A. Barbie, Sabina Signoretti, Marina Vivero, Michael Y. Tolstorukov, Quang-De Nguyen, Rod T. Bronson, Anna C. Schinzel, Kristen L. Jones, Amin H. Sabet, Maura Sticco-Ivins, Tran Thai, Amir Vajdi, Emily Walton, Wenhua Gao, Yavuz T. Durmaz, Yixiang Li, Erik H. Knelson, and Deli Hong

Abstract

Neuroendocrine to nonneuroendocrine plasticity supports small cell lung cancer (SCLC) tumorigenesis and promotes immunogenicity. Approximately 20% to 25% of SCLCs harbor loss-of-function (LOF) NOTCH mutations. Previous studies demonstrated that NOTCH functions as a SCLC tumor suppressor, but can also drive nonneuroendocrine plasticity to support SCLC growth. Given the dual functionality of NOTCH, it is not understood why SCLCs select for LOF NOTCH mutations and how these mutations affect SCLC tumorigenesis. In a CRISPR-based genetically engineered mouse model of SCLC, genetic loss of Notch1 or Notch2 modestly accelerated SCLC tumorigenesis. Interestingly, Notch-mutant SCLCs still formed nonneuroendocrine subpopulations, and these Notch-independent, nonneuroendocrine subpopulations were driven by Runx2-mediated regulation of Rest. Notch2-mutant nonneuroendocrine cells highly express innate immune signaling genes including stimulator of interferon genes (STING) and were sensitive to STING agonists. This work identifies a Notch-independent mechanism to promote nonneuroendocrine plasticity and suggests that therapeutic approaches to activate STING could be selectively beneficial for SCLCs with NOTCH2 mutations.Significance:A genetically engineered mouse model of NOTCH-mutant SCLC reveals that nonneuroendocrine plasticity persists in the absence of NOTCH, driven by a RUNX2-REST–dependent pathway and innate immune signaling.

Published
2023

187. Supplementary Data from Curatopes Melanoma: A Database of Predicted T-cell Epitopes from Overly Expressed Proteins in Metastatic Cutaneous Melanoma

Author

Julio Vera, Gerold Schuler, Jan Dörrie, Niels Schaft, Cornelia Schinzel, Tanushree Jaitly, Martin Eberhardt, and Christopher Lischer

Abstract

Contains further information on raw data, its sources and processing (NGS pipeline, tissue lists and selection). We also provide supporting information on the selected genes and their expression patterns in the relevant tissues.

Published
2023

188. A measurement of the transverse polarization of Λ-hyperons produced in inelastic pN-reactions at 450 GeV proton energy

Author

Fanti, V, Lai, A, Musa, L, Nappi, A, Setzu, MG, Moore, RW, Munday, DJ, Parker, MA, Takach, SF, White, TO, Barr, G, Bocquet, G, Bremer, J, Ceccucci, A, Cogan, J, Cundy, D, Doble, N, Fischer, G, Funk, W, Gatignon, L, Gianoli, A, Gonidec, A, Grafström, P, Kubischta, W, Marzulli, V, Kesseler, G, Matheys, JP, Norton, A, Palestini, S, Panzer-Steindel, B, Schinzel, D, Taureg, H, Velasco, M, Vossnack, O, Wahl, H, Kekelidze, V, Kojevnikov, I, Potrebenikov, Y, Hristov, P, Tatishvili, G, Tkatchev, A, Bertolotto, L, Boyle, O, Hay, B, McKay, NE, Oakland, G, Parsons, H, Peach, KJ, Talamonti, C, Walker, A, Dalpiaz, P, Duclos, J, Formica, A, Frabetti, PL, Martini, M, Petrucci, F, Porcu, M, Rossi, F, Savrie, M, Simani, C, Bizzeti, A, Calvetti, M, Lenti, M, Michetti, A, Becker, HG, Beier, T, Blümer, H, Buchholz, P, Coward, D, Ebersberger, C, Kalter, A, Kleinknecht, K, Koch, U, Köpke, L, Leber, F, Luitz, S, Renk, B, Scheidt, J, Schmidt, J, Schönharting, V, Wilhelm, R, Zeitnitz, O, Chollet, JC, Crépé, S, Fayard, L, Iconomidou-Fayard, L, Ocariz, J, Unal, G, Anzivino, G, Cenci, P, Lubrano, P, Pepe, M, Calafiura, P, Carosi, R, Casali, R, Cerri, C, Costantini, F, Fantechi, R, Giudici, S, and Gorini, B

Subjects
Nuclear & Particles Physics, Quantum Physics, Atomic, Molecular, Nuclear, Particle and Plasma Physics, Atomic, Molecular, Nuclear, Particle and Plasma Physics
Abstract

A study of the polarization of Λ hyperons produced in inelastic pN reactions induced by the 450 GeV proton beam from the CERN SPS has been performed with the NA48 detector. The Λ hyperons were detected at a fixed angle of 4.2 mrad in the momentum range from 50 GeV/c to 200 GeV/c. The polarization changes from -0.053 ± 0.034 to -0.298 ± 0.074 for a transverse momentum range of the Λ between 0.28 GeV/c and 0.86 GeV/c. The Λ̄ polarization is consistent with zero.

Published
1999

191. Bildwissenschaften

Author

Altekamp, Stefan, Schäuble, Michaela, Günzel, Stephan, Bedö, Viktor, Richtmeyer, Ulrich, Hensel, Thomas, Goppelsröder, Fabian, Molkenthin, Nora, Schinzel, Britta, Hennig, Jochen, Dörner, Olaf, Rosenberg, Raphael, Leder, Helmut, Stoellger, Philipp, Adorf, Sigrid, Brandes, Kerstin, Busch, Kathrin, Heraeus, Stefanie, Noeske, Nina, Tischer, Matthias, Günzel, Stephan, editor, Mersch, Dieter, editor, and Kümmerling, Franziska, editor

Published
2014
Full Text
View/download PDF

192. Herausgeber- und Autorenverzeichnis

Author

Weihrauch, Thomas R., primary, Diener, Hans-Christoph, additional, Duyster, Justus, additional, Girndt, Matthias, additional, Hach-Wunderle, Viola, additional, Häussinger, Dieter, additional, Hoppe, Uta C., additional, Kirchmaier, Carl M., additional, Lode, Hartmut, additional, Märker-Hermann, Elisabeth, additional, Niederau, Christoph M., additional, Poralla, Thomas, additional, Rasche, Kurt, additional, Ruß, Martin, additional, Scherbaum, Werner A., additional, Schinzel, Helmut, additional, Schott, Matthias, additional, Stahlmann, Ralf, additional, Thürmann, Petra A., additional, Voltz, Raymond, additional, Weihrauch, Martin R., additional, Weihrauch, Thomas R., additional, Welz-Barth, Annette, additional, Wenzel, René R., additional, Windler, Eberhard, additional, Zyriax, Birgit-Christiane, additional, Heinz, Jürgen, additional, Lobnig, Brigitte M., additional, Ostendorf, Benedikt C., additional, Pillitteri, Daniele, additional, and Rotthoff, Thomas, additional

Published
2018
Full Text
View/download PDF

193. INFLUENZA AND PNEUMOCOCCAL VACCINATION COVERAGE AMONG PATIENTS WITH JUVENILE IMMUNE-MEDIATED RHEUMATIC DISEASES: PRELIMINARY RESULTS OF A MULTICENTER CROSS- SECTIONAL STUDY

Author

Tavares, Anna Carolina Faria Moreira Gomes, primary, Appenzeller, Simone, additional, Marini, Roberto, additional, Fraga, Melissa Mariti, additional, Santos, Maria Carolina dos, additional, Terreri, Maria Teresa de Sande e Lemos Ramos Ascensão, additional, Moraes, Ana Júlia Pantoja de, additional, Robazzi, Teresa Cristina Martins Vicente, additional, Cunha, Ana Luiza Garcia, additional, Schinzel, Vania, additional, Prado, Rogerio do, additional, Rodrigues, Marta Cristine Felix, additional, Macedo, Larissa Santos, additional, Lage, Larissa Muzzi Torres, additional, Correa, Thais Rotsen, additional, Pileggi, Gecilmara Salviato, additional, and Kakehasi, Adriana Maria, additional

Published
2023
Full Text
View/download PDF

196. Plasticity in the Absence of NOTCH Uncovers a RUNX2-Dependent Pathway in Small Cell Lung Cancer

Author

Yavuz T Durmaz, Amin H Sabet, Deli Hong, Anna C. Schinzel, Emily Walton, Kristen L Jones, Maura Sticco-Ivins, Yixiang Li, Quang-Dé Nguyen, Roderick T. Bronson, Sabina Signoretti, Tran C. Thai, Erik H. Knelson, David A. Barbie, Amir Vajdi, Matthew G. Oser, Wenhua Gao, Michael Y. Tolstorukov, and Marina Vivero

Subjects
Cancer Research, Lung Neoplasms, Carcinogenesis, Cell Plasticity, Core Binding Factor Alpha 1 Subunit, Biology, Transfection, medicine.disease_cause, Article, law.invention, Mice, Loss of Function Mutation, law, Cell Line, Tumor, medicine, Animals, Humans, CRISPR, Receptor, Notch2, Receptor, Notch1, Gene, Loss function, Innate immune system, Small Cell Lung Carcinoma, respiratory tract diseases, RUNX2, Disease Models, Animal, Sting, Oncology, Cancer research, Suppressor, CRISPR-Cas Systems, Signal Transduction
Abstract

Neuroendocrine to nonneuroendocrine plasticity supports small cell lung cancer (SCLC) tumorigenesis and promotes immunogenicity. Approximately 20% to 25% of SCLCs harbor loss-of-function (LOF) NOTCH mutations. Previous studies demonstrated that NOTCH functions as a SCLC tumor suppressor, but can also drive nonneuroendocrine plasticity to support SCLC growth. Given the dual functionality of NOTCH, it is not understood why SCLCs select for LOF NOTCH mutations and how these mutations affect SCLC tumorigenesis. In a CRISPR-based genetically engineered mouse model of SCLC, genetic loss of Notch1 or Notch2 modestly accelerated SCLC tumorigenesis. Interestingly, Notch-mutant SCLCs still formed nonneuroendocrine subpopulations, and these Notch-independent, nonneuroendocrine subpopulations were driven by Runx2-mediated regulation of Rest. Notch2-mutant nonneuroendocrine cells highly express innate immune signaling genes including stimulator of interferon genes (STING) and were sensitive to STING agonists. This work identifies a Notch-independent mechanism to promote nonneuroendocrine plasticity and suggests that therapeutic approaches to activate STING could be selectively beneficial for SCLCs with NOTCH2 mutations. Significance: A genetically engineered mouse model of NOTCH-mutant SCLC reveals that nonneuroendocrine plasticity persists in the absence of NOTCH, driven by a RUNX2-REST–dependent pathway and innate immune signaling.

Published
2022

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