Giovanni Ciriello

Publications | Phd and Masters theses

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48 publications

2019 | 2018 | 2017 | 2016 | 2015 | 2014 | 2013 | 2012 | 2011 | 2010 | 2009 | 2007 |
 
The Oncogenic Action of NRF2 Depends on De-glycation by Fructosamine-3-Kinase.
Sanghvi V.R., Leibold J., Mina M., Mohan P., Berishaj M., Li Z., Miele M.M., Lailler N., Zhao C., de Stanchina E. et al., 2019/08/08. Cell, 178 (4) pp. 807-819.e21. Peer-reviewed.
 
Publisher Correction: Uncoupling protein 2 reprograms the tumor microenvironment to support the anti-tumor immune cycle.
Cheng W.C., Tsui Y.C., Ragusa S., Koelzer V.H., Mina M., Franco F., Läubli H., Tschumi B., Speiser D., Romero P. et al., 2019/04..
 
EZH2 oncogenic mutations drive epigenetic, transcriptional, and structural changes within chromatin domains.
Donaldson-Collier M.C., Sungalee S., Zufferey M., Tavernari D., Katanayeva N., Battistello E., Mina M., Douglass K.M., Rey T., Raynaud F. et al., 2019/03. Nature genetics, 51 (3) pp. 517-528. Peer-reviewed.
 
Uncoupling protein 2 reprograms the tumor microenvironment to support the anti-tumor immune cycle.
Cheng W.C., Tsui Y.C., Ragusa S., Koelzer V.H., Mina M., Franco F., Läubli H., Tschumi B., Speiser D., Romero P. et al., 2019/02. Nature immunology, 20 (2) pp. 206-217. Peer-reviewed.
Comparison of computational methods for the identification of topologically associating domains.
Zufferey M., Tavernari D., Oricchio E., Ciriello G., 2018/12/10. Genome biology, 19 (1) p. 217. Peer-reviewed.
Pan-Cancer Landscape of Aberrant DNA Methylation across Human Tumors.
Saghafinia S., Mina M., Riggi N., Hanahan D., Ciriello G., 2018/10/23. Cell reports, 25 (4) pp. 1066-1080.e8. Peer-reviewed.
Pan-cancer inference of intra-tumor heterogeneity reveals associations with different forms of genomic instability.
Raynaud F., Mina M., Tavernari D., Ciriello G., 2018/09. PLoS genetics, 14 (9) pp. e1007669. Peer-reviewed.
 
Pan-SRC kinase inhibition blocks B-cell receptor oncogenic signaling in non-Hodgkin lymphoma.
Battistello E., Katanayeva N., Dheilly E., Tavernari D., Donaldson M.C., Bonsignore L., Thome M., Christie A.L., Murakami M.A., Michielin O. et al., 2018/05/24. Blood, 131 (21) pp. 2345-2356. Peer-reviewed.
Oncogenic Signaling Pathways in The Cancer Genome Atlas.
Sanchez-Vega F., Mina M., Armenia J., Chatila W.K., Luna A., La K.C., Dimitriadoy S., Liu D.L., Kantheti H.S., Saghafinia S. et al., 2018/04/05. Cell, 173 (2) pp. 321-337.e10. Peer-reviewed.
Machine Learning Detects Pan-cancer Ras Pathway Activation in The Cancer Genome Atlas.
Way G.P., Sanchez-Vega F., La K., Armenia J., Chatila W.K., Luna A., Sander C., Cherniack A.D., Mina M., Ciriello G. et al., 2018. Cell Reports, 23 (1) pp. 172-180.e3. Peer-reviewed.
 
Conditional Selection of Genomic Alterations Dictates Cancer Evolution and Oncogenic Dependencies.
Mina M., Raynaud F., Tavernari D., Battistello E., Sungalee S., Saghafinia S., Laessle T., Sanchez-Vega F., Schultz N., Oricchio E. et al., 2017/08/14. Cancer cell, 32 (2) pp. 155-168.e6. Peer-reviewed.
 
Genetic and epigenetic inactivation of SESTRIN1 controls mTORC1 and response to EZH2 inhibition in follicular lymphoma.
Oricchio E., Katanayeva N., Donaldson M.C., Sungalee S., Pasion J.P., Béguelin W., Battistello E., Sanghvi V.R., Jiang M., Jiang Y. et al., 2017/06/28. Science translational medicine, 9 (396) pp. 1-10. Peer-reviewed.
 
The molecular basis of breast cancer pathological phenotypes.
Heng Y.J., Lester S.C., Tse G.M., Factor R.E., Allison K.H., Collins L.C., Chen Y.Y., Jensen K.C., Johnson N.B., Jeong J.C. et al., 2017/02. The Journal of pathology, 241 (3) pp. 375-391. Peer-reviewed.
Comprehensive Genetic Landscape of Uveal Melanoma by Whole-Genome Sequencing.
Royer-Bertrand B., Torsello M., Rimoldi D., El Zaoui I., Cisarova K., Pescini-Gobert R., Raynaud F., Zografos L., Schalenbourg A., Speiser D. et al., 2016/11/03. American journal of human genetics, 99 (5) pp. 1190-1198. Peer-reviewed.
 
Loss of the HVEM Tumor Suppressor in Lymphoma and Restoration by Modified CAR-T Cells.
Boice M., Salloum D., Mourcin F., Sanghvi V., Amin R., Oricchio E., Jiang M., Mottok A., Denis-Lagache N., Ciriello G. et al., 2016/10/06. Cell, 167 (2) pp. 405-418.e13. Peer-reviewed.
 
Comprehensive Pan-Genomic Characterization of Adrenocortical Carcinoma.
Zheng S., Cherniack A.D., Dewal N., Moffitt R.A., Danilova L., Murray B.A., Lerario A.M., Else T., Knijnenburg T.A., Ciriello G. et al., 2016/04/09. Cancer cell, 29 (5) pp. 723-736. Peer-reviewed.
A Multi-Method Approach for Proteomic Network Inference in 11 Human Cancers.
Şenbabaoğlu Y., Sümer S.O., Sánchez-Vega F., Bemis D., Ciriello G., Schultz N., Sander C., 2016. Plos Computational Biology, 12 (2) pp. e1004765. Peer-reviewed.
Multilevel Genomics-Based Taxonomy of Renal Cell Carcinoma.
Chen F., Zhang Y., Şenbabaoğlu Y., Ciriello G., Yang L., Reznik E., Shuch B., Micevic G., De Velasco G., Shinbrot E. et al., 2016. Cell Reports, 14 (10) pp. 2476-2489. Peer-reviewed.
 
Pan-Cancer Analysis of Mutation Hotspots in Protein Domains.
Miller M.L., Reznik E., Gauthier N.P., Aksoy B.A., Korkut A., Gao J., Ciriello G., Schultz N., Sander C., 2015/09/23. Cell systems, 1 (3) pp. 197-209. Peer-reviewed.
 
Comprehensive genomic characterization of head and neck squamous cell carcinomas.
Cancer Genome Atlas Network, 2015/01/29. Nature, 517 (7536) pp. 576-582. Peer-reviewed.
 
Comprehensive Molecular Portraits of Invasive Lobular Breast Cancer.
Ciriello G., Gatza M.L., Beck A.H., Wilkerson M.D., Rhie S.K., Pastore A., Zhang H., McLellan M., Yau C., Kandoth C. et al., 2015. Cell, 163 (2) pp. 506-519. Peer-reviewed.
 
Genomic classification of cutaneous melanoma
Network Cancer Genome Atlas, 2015. Cell, 161 (7) pp. 1681-1696.
 
The Molecular Taxonomy of Primary Prostate Cancer
Network Cancer Genome Atlas Research, 2015. Cell, 163 (4) pp. 1011-1025.
 
Comprehensive molecular characterization of gastric adenocarcinoma.
Cancer Genome Atlas Research Network, 2014/09/11. Nature, 513 (7517) pp. 202-209. Peer-reviewed.
Comprehensive molecular profiling of lung adenocarcinoma.
Cancer Genome Atlas Research Network, 2014/07/31. Nature, 511 (7511) pp. 543-550. Peer-reviewed.
 
Impact of recurrent copy number alterations and cancer gene mutations on the predictive accuracy of prognostic models in clear cell renal cell carcinoma.
Hakimi A.A., Mano R., Ciriello G., Gonen M., Mikkilineni N., Sfakianos J.P., Kim P.H., Motzer R.J., Russo P., Reuter V.E. et al., 2014/07. The Journal of urology, 192 (1) pp. 24-29. Peer-reviewed.
Frequent disruption of the RB pathway in indolent follicular lymphoma suggests a new combination therapy.
Oricchio E., Ciriello G., Jiang M., Boice M.H., Schatz J.H., Heguy A., Viale A., de Stanchina E., Teruya-Feldstein J., Bouska A. et al., 2014/06/30. The Journal of experimental medicine, 211 (7) pp. 1379-1391. Peer-reviewed.
 
Comprehensive molecular characterization of urothelial bladder carcinoma.
Cancer Genome Atlas Research Network, 2014/03/20. Nature, 507 (7492) pp. 315-322. Peer-reviewed.
 
Collection, integration and analysis of cancer genomic profiles: from data to insight
Gao Jianjiong, Ciriello Giovanni, Sander Chris, Schultz Nikolaus, 2014. Current opinion in genetics & development, 24 pp. 92-98.
 
Integrated genomic characterization of papillary thyroid carcinoma
Network Cancer Genome Atlas Research, 2014. Cell, 159 (3) pp. 676-690.
 
An epidemiologic and genomic investigation into the obesity paradox in renal cell carcinoma.
Hakimi A.A., Furberg H., Zabor E.C., Jacobsen A., Schultz N., Ciriello G., Mikklineni N., Fiegoli B., Kim P.H., Voss M.H. et al., 2013/12/18. Journal of the National Cancer Institute, 105 (24) pp. 1862-1870. Peer-reviewed.
 
SQSTM1 is a pathogenic target of 5q copy number gains in kidney cancer.
Li L., Shen C., Nakamura E., Ando K., Signoretti S., Beroukhim R., Cowley G.S., Lizotte P., Liberzon E., Bair S. et al., 2013/12/09. Cancer cell, 24 (6) pp. 738-750. Peer-reviewed.
 
The somatic genomic landscape of glioblastoma.
Brennan C.W., Verhaak R.G., McKenna A., Campos B., Noushmehr H., Salama S.R., Zheng S., Chakravarty D., Sanborn J.Z., Berman S.H. et al., 2013/10/10. Cell, 155 (2) pp. 462-477. Peer-reviewed.
 
Emerging landscape of oncogenic signatures across human cancers.
Ciriello G., Miller M.L., Aksoy B.A., Senbabaoglu Y., Schultz N., Sander C., 2013/10. Nature genetics, 45 (10) pp. 1127-1133. Peer-reviewed.
 
Generation of tumor-targeted human T lymphocytes from induced pluripotent stem cells for cancer therapy.
Themeli M., Kloss C.C., Ciriello G., Fedorov V.D., Perna F., Gonen M., Sadelain M., 2013/10. Nature biotechnology, 31 (10) pp. 928-933. Peer-reviewed.
 
The Cancer Genome Atlas Pan-Cancer analysis project.
Cancer Genome Atlas Research Network, Weinstein J.N., Collisson E.A., Mills G.B., Shaw K.R., Ozenberger B.A., Ellrott K., Shmulevich I., Sander C., Stuart J.M., 2013/10. Nature genetics, 45 (10) pp. 1113-1120. Peer-reviewed.
 
The molecular diversity of Luminal A breast tumors.
Ciriello G., Sinha R., Hoadley K.A., Jacobsen A.S., Reva B., Perou C.M., Sander C., Schultz N., 2013/10. Breast cancer research and treatment, 141 (3) pp. 409-420. Peer-reviewed.
 
Comprehensive molecular characterization of clear cell renal cell carcinoma.
Cancer Genome Atlas Research Network, 2013/07/04. Nature, 499 (7456) pp. 43-49. Peer-reviewed.
 
Integrated genomic characterization of endometrial carcinoma.
Cancer Genome Atlas Research Network, Kandoth C., Schultz N., Cherniack A.D., Akbani R., Liu Y., Shen H., Robertson A.G., Pashtan I., Shen R. et al., 2013/05/02. Nature, 497 (7447) pp. 67-73. Peer-reviewed.
 
Comprehensive molecular portraits of human breast tumours.
Cancer Genome Atlas Network, 2012/10/04. Nature, 490 (7418) pp. 61-70. Peer-reviewed.
 
Comprehensive genomic characterization of squamous cell lung cancers.
Cancer Genome Atlas Research Network, 2012/09/27. Nature, 489 (7417) pp. 519-525. Peer-reviewed.
 
Comprehensive molecular characterization of human colon and rectal cancer.
Cancer Genome Atlas Network, 2012/07/18. Nature, 487 (7407) pp. 330-337. Peer-reviewed.
 
Mutual exclusivity analysis identifies oncogenic network modules.
Ciriello G., Cerami E., Sander C., Schultz N., 2012/02. Genome research, 22 (2) pp. 398-406. Peer-reviewed.
 
AlignNemo: a local network alignment method to integrate homology and topology.
Ciriello G., Mina M., Guzzi P.H., Cannataro M., Guerra C., 2012. PloS one, 7 (6) pp. e38107. Peer-reviewed.
 
Integrated genomic analyses of ovarian carcinoma.
Cancer Genome Atlas Research Network, 2011/06/29. Nature, 474 (7353) pp. 609-615. Peer-reviewed.
 
Analysis of interactions between ribosomal proteins and RNA structural motifs.
Ciriello G., Gallina C., Guerra C., 2010/01/18. BMC bioinformatics, 11 Suppl 1 pp. S41. Peer-reviewed.
 
Finding 3D motifs in ribosomal RNA structures
Apostolico Alberto, Ciriello Giovanni, Guerra Concettina, Heitsch Christine E, Hsiao Chiaolong, Williams Loren Dean, 2009. Nucleic acids research, 37 (4) pp. e29–e29.
 
Algorithmic re-structuring and data replication for protein structure comparison on a GRID
Ciriello G., Comin M., Guerra C., 2007/03. Future Generation Computer Systems, 23 (3) pp. 391-397.
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