Proteomics, Post-translational Modifications, and Integrative Analyses Reveal Molecular Heterogeneity within Medulloblastoma Subgroups

被引：156

作者：

Archer, Tenley C. ^{[1
,2
,3
,4
]}

Ehrenberger, Tobias ^{[5
]}

Mundt, Filip ^{[4
,6
]}

Gold, Maxwell P. ^{[5
]}

Krug, Karsten ^{[4
]}

Mah, Clarence K. ^{[7
]}

Mahoney, Elizabeth L. ^{[1
,2
]}

Daniel, Colin J. ^{[8
]}

LeNail, Alexander ^{[5
]}

Ramamoorthy, Divya ^{[5
]}

Mertins, Philipp ^{[4
,18
,19
]}

Mani, D. R. ^{[4
]}

Zhang, Hailei ^{[4
]}

Gillette, Michael A. ^{[2
,4
,9
]}

Clauser, Karl ^{[4
]}

Noble, Michael ^{[4
]}

Tang, Lauren C. ^{[4
]}

Pierre-Francois, Jessica ^{[1
,2
]}

Silterra, Jacob ^{[4
]}

Jensen, James ^{[7
]}

Tamayo, Pablo ^{[7
,10
]}

Korshunov, Andrey ^{[11
,12
]}

Pfister, Stefan M. ^{[13
,14
,15
,16
]}

Kool, Marcel ^{[13
,14
,15
]}

Northcott, Paul A. ^{[14
,15
,17
]}

Sears, Rosalie C. ^{[8
]}

Lipton, Jonathan O. ^{[1
,2
,3
]}

Carr, Steven A. ^{[4
]}

Mesirov, Jill P. ^{[7
,10
]}

Pomeroy, Scott L. ^{[1
,2
,4
]}

Fraenkel, Ernest ^{[4
,5
]}

机构：

[1] Boston Childrens Hosp, Dept Neurol, Boston, MA 02115 USA

[2] Harvard Med Sch, Boston, MA 02115 USA

[3] Harvard Med Sch, Div Sleep Med, Boston, MA USA

[4] Eli & Edythe Broad Inst MIT & Harvard, Cambridge, MA 02142 USA

[5] MIT, Dept Biol Engn, 77 Massachusetts Ave, Cambridge, MA 02139 USA

[6] Karolinska Inst, Dept Oncol Pathol, Stockholm, Sweden

[7] Univ Calif San Diego, Dept Med, La Jolla, CA 92093 USA

[8] Oregon Hlth & Sci Univ, Dept Mol & Med Genet, Portland, OR 97201 USA

[9] Massachusetts Gen Hosp, Div Pulm & Crit Care Med, Boston, MA 02114 USA

[10] Univ Calif San Diego, Moores Canc Ctr, La Jolla, CA 92093 USA

[11] German Canc Res Ctr, CCU Neuropathol, Heidelberg, Germany

[12] Heidelberg Univ, Dept Neuropathol, Heidelberg, Germany

[13] NCT Heidelberg KiTZ, Hopp Childrens Canc Ctr, Heidelberg, Germany

[14] German Canc Res Ctr, Div Pediat Neurooncol, Heidelberg, Germany

[15] German Canc Consortium DKTK, Heidelberg, Germany

[16] Heidelberg Univ Hosp, Dept Hematol & Oncol, Heidelberg, Germany

[17] St Jude Childrens Res Hosp, Dept Dev Neurobiol, 332 N Lauderdale St, Memphis, TN 38105 USA

[18] Max Delbruck Ctr Mol Med, Helmholtz Soc, Prote Platform, Berlin, Germany

[19] Berlin Inst Hlth, Berlin, Germany

来源：

CANCER CELL | 2018年 / 34卷 / 03期

基金：

瑞典研究理事会;

关键词：

PROTEOGENOMIC CHARACTERIZATION; OUTCOME PREDICTION; C-MYC; DNA; MUTATIONS; CELLS; PHOSPHORYLATION; CLASSIFICATION; TARGET; INHIBITION;

D O I：

10.1016/j.ccell.2018.08.004

中图分类号：

R73 [肿瘤学];

学科分类号：

100214 [肿瘤学];

摘要：

There is a pressing need to identify therapeutic targets in tumors with low mutation rates such as the malignant pediatric brain tumor medulloblastoma. To address this challenge, we quantitatively profiled global proteomes and phospho-proteomes of 45 medulloblastoma samples. Integrated analyses revealed that tumors with similar RNA expression vary extensively at the post-transcriptional and post-translational levels. We identified distinct pathways associated with two subsets of SHH tumors, and found post-translational modifications of MYC that are associated with poor outcomes in group 3 tumors. We found kinases associated with subtypes and showed that inhibiting PRKDC sensitizes MYC-driven cells to radiation. Our study shows that proteomics enables a more comprehensive, functional readout, providing a foundation for future therapeutic strategies.

引用

页码：396 / +

页数：23

共 83 条

[21]

Diaz RJ, 2015, ONCOTARGET, V6, P3359

[22]

STAR: ultrafast universal RNA-seq aligner [J].

Dobin, Alexander ;

Davis, Carrie A. ;

Schlesinger, Felix ;

Drenkow, Jorg ;

Zaleski, Chris ;

Jha, Sonali ;

Batut, Philippe ;

Chaisson, Mark ;

Gingeras, Thomas R. .

BIOINFORMATICS, 2013, 29 (01) :15-21

[23]

The CPTAC Data Portal: A Resource for Cancer Proteomics Research [J].

Edwards, Nathan J. ;

Oberti, Mauricio ;

Thangudu, Ratna R. ;

Cai, Shuang ;

McGarvey, Peter B. ;

Jacob, Shine ;

Madhavan, Subha ;

Ketchum, Karen A. .

JOURNAL OF PROTEOME RESEARCH, 2015, 14 (06) :2707-2713

[24]

MYC Degradation [J].

Farrell, Amy S. ;

Sears, Rosalie C. .

COLD SPRING HARBOR PERSPECTIVES IN MEDICINE, 2014, 4 (03)

[25]

Aberrant ERBB4-SRC Signaling as a Hallmark of Group 4 Medulloblastoma Revealed by Integrative Phosphoproteomic Profiling [J].

Forget, Antoine ;

Martignetti, Loredana ;

Puget, Stephanie ;

Calzone, Laurence ;

Brabetz, Sebastian ;

Picard, Daniel ;

Montagud, Arnau ;

Liva, Stephane ;

Sta, Alexandre ;

Dingli, Florent ;

Arras, Guillaume ;

Rivera, Jaime ;

Loew, Damarys ;

Besnard, Aurore ;

Lacombe, Joelle ;

Pages, Melanie ;

Varlet, Pascale ;

Dufour, Christelle ;

Yu, Hua ;

Mercier, Audrey L. ;

Indersie, Emilie ;

Chivet, Anais ;

Leboucher, Sophie ;

Sieber, Laura ;

Beccaria, Kevin ;

Gombert, Michael ;

Meyer, Frauke D. ;

Qin, Nan ;

Bartl, Jasmin ;

Chavez, Lukas ;

Okonechnikov, Konstantin ;

Sharma, Tanvi ;

Thatikonda, Venu ;

Bourdeaut, Franck ;

Pouponnot, Celio ;

Ramaswamy, Vijay ;

Korshunov, Andrey ;

Borkhardt, Arndt ;

Reifenberger, Guido ;

Poullet, Patrick ;

Taylor, Michael D. ;

Kool, Marcel ;

Pfister, Stefan M. ;

Kawauchi, Daisuke ;

Barillot, Emmanuel ;

Remke, Marc ;

Ayrault, Olivier .

CANCER CELL, 2018, 34 (03) :379-+

[26]

Disrupting the CD47-SIRPα anti-phagocytic axis by a humanized anti-CD47 antibody is an efficacious treatment for malignant pediatric brain tumors [J].

Gholamin, Sharareh ;

Mitra, Siddhartha S. ;

Feroze, Abdullah H. ;

Liu, Jie ;

Kahn, Suzana A. ;

Zhang, Michael ;

Esparza, Rogelio ;

Richard, Chase ;

Ramaswamy, Vijay ;

Remke, Marc ;

Volkmer, Anne K. ;

Willingham, Stephen ;

Ponnuswami, Anitha ;

McCarty, Aaron ;

Lovelace, Patricia ;

Storm, Theresa A. ;

Schubert, Simone ;

Hutter, Gregor ;

Narayanan, Cyndhavi ;

Chu, Pauline ;

Raabe, Eric H. ;

Harsh, Griffith ;

Taylor, Michael D. ;

Monje, Michelle ;

Cho, Yoon-Jae ;

Majeti, Ravi ;

Volkmer, Jens P. ;

Fisher, Paul G. ;

Grant, Gerald ;

Steinberg, Gary K. ;

Vogel, Hannes ;

Edwards, Michael ;

Weissman, Irving L. ;

Cheshier, Samuel H. .

SCIENCE TRANSLATIONAL MEDICINE, 2017, 9 (381)

[27]

Subtypes of medulloblastoma have distinct developmental origins [J].

Gibson, Paul ;

Tong, Yiai ;

Robinson, Giles ;

Thompson, Margaret C. ;

Currle, D. Spencer ;

Eden, Christopher ;

Kranenburg, Tanya A. ;

Hogg, Twala ;

Poppleton, Helen ;

Martin, Julie ;

Finkelstein, David ;

Pounds, Stanley ;

Weiss, Aaron ;

Patay, Zoltan ;

Scoggins, Matthew ;

Ogg, Robert ;

Pei, Yanxin ;

Yang, Zeng-Jie ;

Brun, Sonja ;

Lee, Youngsoo ;

Zindy, Frederique ;

Lindsey, Janet C. ;

Taketo, Makoto M. ;

Boop, Frederick A. ;

Sanford, Robert A. ;

Gajjar, Amar ;

Clifford, Steven C. ;

Roussel, Martine F. ;

McKinnon, Peter J. ;

Gutmann, David H. ;

Ellison, David W. ;

Wechsler-Reya, Robert ;

Gilbertson, Richard J. .

NATURE, 2010, 468 (7327) :1095-1099

[28]

DiSCoVERing Innovative Therapies for Rare Tumors: Combining Genetically Accurate Disease Models with In Silico Analysis to Identify Novel Therapeutic Targets [J].

Hanaford, Allison R. ;

Archer, Tenley C. ;

Price, Antoinette ;

Kahlert, Ulf D. ;

Maciac-Zyk, Jarek ;

Nikkhah, Guido ;

Kim, Jong Wook ;

Ehrenberger, Tobias ;

Clemons, Paul A. ;

Dancik, Vlado ;

Seashore-Ludlow, Brinton ;

Viswanathan, Vasanthi ;

Stewart, Michelle L. ;

Rees, Matthew G. ;

Shamji, Alykhan ;

Schreiber, Stuart ;

Fraenkel, Ernest ;

Pomeroy, Scott L. ;

Mesirov, Jill P. ;

Tamayo, Pablo ;

Eberhart, Charles G. ;

Raabe, Eric H. .

CLINICAL CANCER RESEARCH, 2016, 22 (15) :3903-3914

[29]

PhosphoSitePlus, 2014: mutations, PTMs and recalibrations [J].

Hornbeck, Peter V. ;

Zhang, Bin ;

Murray, Beth ;

Kornhauser, Jon M. ;

Latham, Vaughan ;

Skrzypek, Elzbieta .

NUCLEIC ACIDS RESEARCH, 2015, 43 (D1) :D512-D520

[30]

The cerebellum ages slowly according to the epigenetic clock [J].

Horvath, Steve ;

Mah, Vei ;

Lu, Ake T. ;

Woo, Jennifer S. ;

Choi, Oi-Wa ;

Jasinska, Anna J. ;

Riancho, Jose A. ;

Tung, Spencer ;

Coles, Natalie S. ;

Braun, Jonathan ;

Vinters, Harry V. ;

Coles, L. Stephen .

AGING-US, 2015, 7 (05) :294-306

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