Giovanni Ciriello

Publications | Mémoires et thèses

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83 publications

Sous presse | 2024 | 2023 | 2022 | 2021 | 2020 | 2019 | 2018 | 2017 | 2016 | 2015 | 2014 | 2013 | 2012 | 2011 | 2010 | 2009 | 2008 | 2007 | 2006 |
Sous presse
 
E2F transcription factor-1 modulates expression of glutamine metabolic genes in mouse embryonic fibroblasts and uterine sarcoma cells.
Huber K., Giralt A., Dreos R., Michenthaler H., Geller S., Barquissau V., Ziegler D.V., Tavernari D., Gallart-Ayala H., Krajina K. et al. Biochimica et biophysica acta. Molecular cell research. Peer-reviewed.
[DOI][Pmid][serval:BIB_5EAE29F4CAA9]
 
Cis-regulatory effect of HPV integration is constrained by host chromatin architecture in cervical cancers.
Singh A.K., Walavalkar K., Tavernari D., Ciriello G., Notani D., Sabarinathan R. Molecular oncology. Peer-reviewed.
[DOI][Pmid][serval:BIB_C481A745E22C]
2024
Cancer Evolution: A Multifaceted Affair.
Ciriello G., Magnani L., Aitken S.J., Akkari L., Behjati S., Hanahan D., Landau D.A., Lopez-Bigas N., Lupiáñez D.G., Marine J.C. et al., 2024/01/12. Cancer discovery, 14 (1) pp. 36-48. Peer-reviewed.
[URN][DOI][Pmid][serval:BIB_43F23549D204]
 
CellCharter reveals spatial cell niches associated with tissue remodeling and cell plasticity.
Varrone M., Tavernari D., Santamaria-Martínez A., Walsh L.A., Ciriello G., 2024/01. Nature genetics, 56 (1) pp. 74-84. Peer-reviewed.
[DOI][WoS][Pmid][serval:BIB_27DAAEFFFB59]
2023
 
The SWI/SNF complex member SMARCB1 supports lineage fidelity in kidney cancer.
Wesolowski L., Ge J., Castillon L., Sesia D., Dyas A., Hirosue S., Caraffini V., Warren A.Y., Rodrigues P., Ciriello G. et al., 2023/08/18. iScience, 26 (8) p. 107360. Peer-reviewed.
[DOI][WoS][Pmid][serval:BIB_4190C534A22E]
 
CXCL9:SPP1 macrophage polarity identifies a network of cellular programs that control human cancers.
Bill R., Wirapati P., Messemaker M., Roh W., Zitti B., Duval F., Kiss M., Park J.C., Saal T.M., Hoelzl J. et al., 2023/08/04. Science, 381 (6657) pp. 515-524. Peer-reviewed.
[DOI][WoS][Pmid][serval:BIB_17A3A9510B2F]
Whole-genome doubling drives oncogenic loss of chromatin segregation.
Lambuta R.A., Nanni L., Liu Y., Diaz-Miyar J., Iyer A., Tavernari D., Katanayeva N., Ciriello G., Oricchio E., 2023/03. Nature, 615 (7954) pp. 925-933. Peer-reviewed.
[URN][DOI][Pmid][serval:BIB_4691B7A968A0]
2022
Epistasis and evolutionary dependencies in human cancers.
Mina M., Iyer A., Ciriello G., 2022/12. Current opinion in genetics & development, 77 p. 101989. Peer-reviewed.
[URN][DOI][WoS][Pmid][serval:BIB_87AEECFCDB0B]
Frequent 4EBP1 Amplification Induces Synthetic Dependence on FGFR Signaling in Cancer.
Mohan P., Pasion J., Ciriello G., Lailler N., de Stanchina E., Viale A., van den Berg A., Diepstra A., Wendel H.G., Sanghvi V.R. et al., 2022/05/13. Cancers, 14 (10) p. 2397. Peer-reviewed.
[URN][DOI][WoS][Pmid][serval:BIB_0151C1A5BF17]
Tcf1 is essential for initiation of oncogenic Notch1-driven chromatin topology in T-ALL.
Antoszewski M., Fournier N., Ruiz Buendía G.A., Lourenco J., Liu Y., Sugrue T., Dubey C., Nkosi M., Pritchard CEJ, Huijbers I.J. et al., 2022/04/21. Blood, 139 (16) pp. 2483-2498. Peer-reviewed.
[URN][DOI][WoS][Pmid][serval:BIB_BB62887871C5]
 
Methods for the Analysis of Topologically Associating Domains (TADs).
Zufferey M., Tavernari D., Ciriello G., 2022. pp. 39-59 dans Hi-C Data Analysis, Springer.
[DOI][Pmid][serval:BIB_BD884CBE0DC3]
2021
 
Cancer Cells Retrace a Stepwise Differentiation Program during Malignant Progression.
Saghafinia S., Homicsko K., Di Domenico A., Wullschleger S., Perren A., Marinoni I., Ciriello G., Michael I.P., Hanahan D., 2021/10. Cancer discovery, 11 (10) pp. 2638-2657. Peer-reviewed.
[DOI][WoS][Pmid][serval:BIB_E3BABADE6621]
 
Systematic assessment of gene co-regulation within chromatin domains determines differentially active domains across human cancers.
Zufferey M., Liu Y., Tavernari D., Mina M., Ciriello G., 2021/08/03. Genome biology, 22 (1) p. 218. Peer-reviewed.
[DOI][WoS][Pmid][serval:BIB_0C0A83ACB23F]
Cell-autonomous inflammation of BRCA1-deficient ovarian cancers drives both tumor-intrinsic immunoreactivity and immune resistance via STING.
Bruand M., Barras D., Mina M., Ghisoni E., Morotti M., Lanitis E., Fahr N., Desbuisson M., Grimm A., Zhang H. et al., 2021/07/20. Cell reports, 36 (3) p. 109412. Peer-reviewed.
[URN][DOI][WoS][Pmid][serval:BIB_745449157CA6]
Nongenetic Evolution Drives Lung Adenocarcinoma Spatial Heterogeneity and Progression.
Tavernari D., Battistello E., Dheilly E., Petruzzella A.S., Mina M., Sordet-Dessimoz J., Peters S., Krueger T., Gfeller D., Riggi N. et al., 2021/06. Cancer discovery, 11 (6) pp. 1490-1507. Peer-reviewed.
[URN][DOI][WoS][Pmid][serval:BIB_F6D4BAEDCE1E]
The many faces of cancer evolution.
Ciriello G., Magnani L., 2021/05/21. iScience, 24 (5) p. 102403. Peer-reviewed.
[URN][DOI][Pmid][serval:BIB_FC9DC8DD021C]
Systematic inference and comparison of multi-scale chromatin sub-compartments connects spatial organization to cell phenotypes.
Liu Y., Nanni L., Sungalee S., Zufferey M., Tavernari D., Mina M., Ceri S., Oricchio E., Ciriello G., 2021/05/10. Nature communications, 12 (1) p. 2439. Peer-reviewed.
[URN][DOI][Pmid][serval:BIB_95E06884F11E]
 
Histone acetylation dynamics modulates chromatin conformation and allele-specific interactions at oncogenic loci.
Sungalee S., Liu Y., Lambuta R.A., Katanayeva N., Donaldson Collier M., Tavernari D., Roulland S., Ciriello G., Oricchio E., 2021/05. Nature genetics, 53 (5) pp. 650-662. Peer-reviewed.
[DOI][Pmid][serval:BIB_D9CCA98B8DC1]
Prediction of neo-epitope immunogenicity reveals TCR recognition determinants and provides insight into immunoediting.
Schmidt J., Smith A.R., Magnin M., Racle J., Devlin J.R., Bobisse S., Cesbron J., Bonnet V., Carmona S.J., Huber F. et al., 2021/02/16. Cell reports. Medicine, 2 (2) p. 100194. Peer-reviewed.
[URN][DOI][WoS][Pmid][serval:BIB_9AA90BD897A9]
Sustained androgen receptor signaling is a determinant of melanoma cell growth potential and tumorigenesis.
Ma M., Ghosh S., Tavernari D., Katarkar A., Clocchiatti A., Mazzeo L., Samarkina A., Epiney J., Yu Y.R., Ho P.C. et al., 2021/02/01. The Journal of experimental medicine, 218 (2) pp. e20201137. Peer-reviewed.
[URN][DOI][WoS][Pmid][serval:BIB_3B2A745CA757]
2020
 
Exploring chromatin conformation and gene co-expression through graph embedding.
Varrone M., Nanni L., Ciriello G., Ceri S., 2020/12/30. Bioinformatics, 36 (Supplement_2) pp. i700-i708. Peer-reviewed.
[DOI][Pmid][serval:BIB_8E078623E130]
 
Discovering functional evolutionary dependencies in human cancers.
Mina M., Iyer A., Tavernari D., Raynaud F., Ciriello G., 2020/11. Nature genetics, 52 (11) pp. 1198-1207. Peer-reviewed.
[DOI][Pmid][serval:BIB_6F00D45D2EAD]
 
Cathepsin S Regulates Antigen Processing and T Cell Activity in Non-Hodgkin Lymphoma.
Dheilly E., Battistello E., Katanayeva N., Sungalee S., Michaux J., Duns G., Wehrle S., Sordet-Dessimoz J., Mina M., Racle J. et al., 2020/05/11. Cancer cell, 37 (5) pp. 674-689.e12. Peer-reviewed.
[DOI][WoS][Pmid][serval:BIB_C0FB07A8B571]
 
Author Correction: One size does not fit all for mutational signatures.
Ciriello G., 2020/04. Nature cancer, 1 (4) p. 469. Peer-reviewed.
[DOI][WoS][Pmid][serval:BIB_0F97C05DCD8F]
 
The serine hydroxymethyltransferase-2 (SHMT2) initiates lymphoma development through epigenetic tumor suppressor silencing.
Parsa S., Ortega-Molina A., Ying H.Y., Jiang M., Teater M., Wang J., Zhao C., Reznik E., Pasion J.P., Kuo D. et al., 2020. Nature cancer, 1 pp. 653-664. Peer-reviewed.
[DOI][Pmid][serval:BIB_69CD135EB662]
2019
 
Dynamic Emergence of Observed and Hidden Intra-tumor Heterogeneity.
Raynaud F., Mina M., Ciriello G., 2019/11/22. iScience, 21 pp. 157-167. Peer-reviewed.
[DOI][WoS][Pmid][serval:BIB_5B057063C481]
Synaptic proximity enables NMDAR signalling to promote brain metastasis.
Zeng Q., Michael I.P., Zhang P., Saghafinia S., Knott G., Jiao W., McCabe B.D., Galván J.A., Robinson HPC, Zlobec I. et al., 2019/09. Nature, 573 (7775) pp. 526-531. Peer-reviewed.
[URN][DOI][Pmid][serval:BIB_7FA9C67632A4]
 
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.
[DOI][Pmid][serval:BIB_C338CC40D7D4]
 
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..
[DOI][WoS][Pmid][serval:BIB_2453C5C48240]
 
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.
[DOI][WoS][Pmid][serval:BIB_32717C0BB8B8]
 
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.
[DOI][WoS][Pmid][serval:BIB_A10BFBC01F0D]
2018
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.
[URN][DOI][WoS][Pmid][serval:BIB_9D5DBEB6BBFB]
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.
[URN][DOI][WoS][Pmid][serval:BIB_ADC19C98A2C8]
 
Evolutionary dynamics and molecular features of intra-tumor heterogeneity
Raynaud Franck, Mina Marco, Ciriello Giovanni, 2018/09/13..
[DOI][WoS][Pmid][serval:BIB_B942EBEE4DEC]
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.
[URN][DOI][WoS][Pmid][serval:BIB_FD4F973854FC]
 
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.
[DOI][WoS][Pmid][serval:BIB_628039C698E5]
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.
[URN][DOI][WoS][Pmid][serval:BIB_03A6331C652C]
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.
[URN][DOI][WoS][Pmid][serval:BIB_C45257D74D13]
2017
 
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.
[DOI][WoS][Pmid][serval:BIB_3E74CBFB8328]
 
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.
[DOI][WoS][Pmid][serval:BIB_6C1BB5F656C6]
 
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.
[DOI][Pmid][serval:BIB_F7EC506788FE]
2016
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.
[URN][DOI][WoS][Pmid][serval:BIB_035A22A1A6AE]
 
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.
[DOI][Pmid][serval:BIB_EE618867D6F5]
 
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.
[DOI][Pmid][serval:BIB_EA366326EF67]
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.
[URN][DOI][Pmid][serval:BIB_143EFDA31CDA]
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.
[URN][DOI][WoS][Pmid][serval:BIB_AD9469DE8B52]
2015
 
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.
[DOI][WoS][Pmid][serval:BIB_5AA6AA824635]
 
Comprehensive, Integrative Genomic Analysis of Diffuse Lower-Grade Gliomas.
Cancer Genome Atlas Research Network, Brat D.J., Verhaak R.G., Aldape K.D., Yung W.K., Salama S.R., Cooper L.A., Rheinbay E., Miller C.R., Vitucci M. et al., 2015/06/25. The New England journal of medicine, 372 (26) pp. 2481-2498. Peer-reviewed.
[DOI][WoS][Pmid][serval:BIB_D6ABEBF8159B]
Systematic identification of cancer driving signaling pathways based on mutual exclusivity of genomic alterations.
Babur Ö., Gönen M., Aksoy B.A., Schultz N., Ciriello G., Sander C., Demir E., 2015/02/26. Genome biology, 16 p. 45. Peer-reviewed.
[URN][DOI][WoS][Pmid][serval:BIB_36F8DFAD1356]
 
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.
[DOI][WoS][Pmid][serval:BIB_F238B82DF374]
 
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.
[DOI][WoS][Pmid][serval:BIB_E5BACAE80B12]
 
Genomic classification of cutaneous melanoma
Network Cancer Genome Atlas, 2015. Cell, 161 (7) pp. 1681-1696.
[serval:BIB_5724178FDA73]
 
The Molecular Taxonomy of Primary Prostate Cancer
Network Cancer Genome Atlas Research, 2015. Cell, 163 (4) pp. 1011-1025.
[serval:BIB_D248E81FB966]
2014
 
Defining an immune signature predictive of glioma progression
Bazzoli Elena, Calabria Francesca, Ciriello Giovanni, Turano Ermanna, Farinazzo Alessia, Maffioletti Elisabetta, Cattane Nadia, Gennarelli Massimo, Ghimenton Claudio, Bonetti Bruno, 2014/10. Journal of Neuroimmunology, 275 (1-2) p. 35.
[DOI][WoS][serval:BIB_286E658198DC]
 
Comprehensive molecular characterization of gastric adenocarcinoma.
Cancer Genome Atlas Research Network, 2014/09/11. Nature, 513 (7517) pp. 202-209. Peer-reviewed.
[DOI][WoS][Pmid][serval:BIB_1027D1F6C2C2]
Comprehensive molecular profiling of lung adenocarcinoma.
Cancer Genome Atlas Research Network, 2014/07/31. Nature, 511 (7511) pp. 543-550. Peer-reviewed.
[URN][DOI][WoS][Pmid][serval:BIB_AD462EA7A7F2]
 
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.
[DOI][WoS][Pmid][serval:BIB_BF35109D0586]
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.
[URN][DOI][WoS][Pmid][serval:BIB_48D4D91B5119]
 
Comprehensive molecular characterization of urothelial bladder carcinoma.
Cancer Genome Atlas Research Network, 2014/03/20. Nature, 507 (7492) pp. 315-322. Peer-reviewed.
[DOI][WoS][Pmid][serval:BIB_0D73895A86B1]
 
Collection, integration and analysis of cancer genomic profiles: from data to insight
Gao Jianjiong, Ciriello Giovanni, Sander Chris, Schultz Nikolaus, 2014/02. Current Opinion in Genetics & Development, 24 pp. 92-98.
[DOI][WoS][Pmid][serval:BIB_D2096CAFF626]
 
Cancer-associated recurrent mutations in RNase III domains of DICER1
Aksoy Bülent Arman, Jacobsen Anders, Fieldhouse Robert J, Lee William, Demir Emek, Ciriello Giovanni, Schultz Nikolaus, Marks Debora S, Sander Chris, 2014..
[DOI][serval:BIB_B4955478F78F]
 
Integrated genomic characterization of papillary thyroid carcinoma
Network Cancer Genome Atlas Research, 2014. Cell, 159 (3) pp. 676-690.
[serval:BIB_30797FA5AC2D]
2013
 
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.
[DOI][WoS][Pmid][serval:BIB_4DCBB01253FE]
 
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.
[DOI][WoS][Pmid][serval:BIB_63011E6A354B]
 
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.
[DOI][WoS][Pmid][serval:BIB_F2BA86F28F31]
 
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.
[DOI][WoS][Pmid][serval:BIB_2DDFA83C84AB]
 
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.
[DOI][WoS][Pmid][serval:BIB_DF31C893F59B]
 
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.
[DOI][WoS][Pmid][serval:BIB_C57BBA47F548]
 
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.
[DOI][WoS][Pmid][serval:BIB_C34409B2F362]
 
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.
[DOI][WoS][Pmid][serval:BIB_4DE3562D2B02]
 
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.
[DOI][WoS][Pmid][serval:BIB_3261EC88BD7B]
 
Using MEMo to discover mutual exclusivity modules in cancer.
Ciriello G., Cerami E., Aksoy B.A., Sander C., Schultz N., 2013/03. Current protocols in bioinformatics, 8 pp. 8.17.1-8.17.12. Peer-reviewed.
[DOI][Pmid][serval:BIB_6718D2733689]
2012
 
Comprehensive molecular portraits of human breast tumours.
Cancer Genome Atlas Network, 2012/10/04. Nature, 490 (7418) pp. 61-70. Peer-reviewed.
[DOI][WoS][Pmid][serval:BIB_5B5C7C13B539]
 
Comprehensive genomic characterization of squamous cell lung cancers.
Cancer Genome Atlas Research Network, 2012/09/27. Nature, 489 (7417) pp. 519-525. Peer-reviewed.
[DOI][WoS][Pmid][serval:BIB_C6A905D4766B]
 
Comprehensive molecular characterization of human colon and rectal cancer.
Cancer Genome Atlas Network, 2012/07/18. Nature, 487 (7407) pp. 330-337. Peer-reviewed.
[DOI][WoS][Pmid][serval:BIB_273903FFB87F]
 
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.
[DOI][WoS][Pmid][serval:BIB_84A4C8EC9C76]
 
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.
[DOI][WoS][Pmid][serval:BIB_EC2086440E33]
2011
 
Integrated genomic analyses of ovarian carcinoma.
Cancer Genome Atlas Research Network, 2011/06/29. Nature, 474 (7353) pp. 609-615. Peer-reviewed.
[DOI][WoS][Pmid][serval:BIB_515951B2EC62]
2010
 
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.
[DOI][WoS][Pmid][serval:BIB_14B0096B0651]
2009
 
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.
[serval:BIB_0ACC2D3ED661]
2008
 
A review on models and algorithms for motif discovery in protein-protein interaction networks.
Ciriello G., Guerra C., 2008/03. Briefings in functional genomics & proteomics, 7 (2) pp. 147-156. Peer-reviewed.
[DOI][Pmid][serval:BIB_082144CBC630]
2007
 
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.
[DOI][WoS][serval:BIB_C392E706AAE9]
2006
 
Application re-structuring and data management on a grid environment: a case study for bioinformatics
Ciriello G., Comin M., Guerra C., 2006., 20th IEEE International Parallel & Distributed Processing Symposium dans Proceedings 20th IEEE International Parallel & Distributed Processing Symposium, IEEE.
[DOI][serval:BIB_5A898B3C8FB6]
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