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Publications:  Mr Cankut Cubuk

Çubuk C, Can FE, Peña-Chilet M, Dopazo J(2020). Mechanistic Models of Signaling Pathways Reveal the Drug Action Mechanisms behind Gender-Specific Gene Expression for Cancer Treatments. Cells vol. 9, (7)
10.3390/cells9071579
Garrett A, Callaway A, Durkie M, Cubuk C, Alikian M, Burghel GJ, Robinson R, Izatt L et al.(2020). Cancer Variant Interpretation Group UK (CanVIG-UK): An exemplar national subspecialty multidisciplinary network. Journal of Medical Genetics
10.1136/jmedgenet-2019-106759
Menden MP, Wang D, Mason MJ, Szalai B, Bulusu KC, Guan Y, Yu T, Kang J et al.(2019). Community assessment to advance computational prediction of cancer drug combinations in a pharmacogenomic screen. Nature Communications vol. 10, (1)
10.1038/s41467-019-09799-2
https://qmro.qmul.ac.uk/xmlui/handle/123456789/59558
Çubuk C, Hidalgo MR, Amadoz A, Rian K, Salavert F, Pujana MA, Mateo F, Herranz C et al.(2019). Differential metabolic activity and discovery of therapeutic targets using summarized metabolic pathway models. npj Systems Biology and Applications vol. 5, (1)
10.1038/s41540-019-0087-2
https://qmro.qmul.ac.uk/xmlui/handle/123456789/56611
Petkevicius K, Virtue S, Bidault G, Jenkins B, Cubuk C, Morgantini C, Aouadi M, Dopazo J et al.(2019). Accelerated phosphatidylcholine turnover in macrophages promotes adipose tissue inflammation in obesity. eLife vol. 8,
10.7554/eLife.47990
https://qmro.qmul.ac.uk/xmlui/handle/123456789/59554
Fourati S, Talla A, Mahmoudian M, Burkhart JG, Klén R, Henao R, Yu T, Ayd¿n Z et al.(2018). A crowdsourced analysis to identify ab initio molecular signatures predictive of susceptibility to viral infection. Nature Communications vol. 9, (1)
10.1038/s41467-018-06735-8
https://qmro.qmul.ac.uk/xmlui/handle/123456789/57073
Ferreira PG, Muñoz-Aguirre M, Reverter F, Sá Godinho CP, Sousa A, Amadoz A, Sodaei R, Hidalgo MR et al.(2018). The effects of death and post-mortem cold ischemia on human tissue transcriptomes. Nature Communications vol. 9, (1)
10.1038/s41467-017-02772-x
https://qmro.qmul.ac.uk/xmlui/handle/123456789/56568
Cubuk C, Hidalgo MR, Amadoz A, Pujana MA, Mateo F, Herranz C, Carbonell-Caballero J, Dopazo J(2018). Gene expression integration into pathway modules reveals a pan-cancer metabolic landscape. Cancer Research vol. 78, (21) 6059-6072.
10.1158/0008-5472.CAN-17-2705
https://qmro.qmul.ac.uk/xmlui/handle/123456789/56651
Hidalgo MR, Amadoz A, Çubuk C, Carbonell-Caballero J, Dopazo J(2018). Models of cell signaling uncover molecular mechanisms of high-risk neuroblastoma and predict disease outcome. Biology Direct vol. 13, (1)
10.1186/s13062-018-0219-4
https://qmro.qmul.ac.uk/xmlui/handle/123456789/56616
Amadoz A, Hidalgo MR, Çubuk C, Carbonell-Caballero J, Dopazo J(2018). A comparison of mechanistic signaling pathway activity analysis methods. Brief Bioinform
10.1093/bib/bby040
https://qmro.qmul.ac.uk/xmlui/handle/123456789/57966
Carbonell-Caballero J, Amadoz A, Alonso R, Hidalgo MR, Çubuk C, Conesa D, López-Quílez A, Dopazo J(2017). Reference genome assessment from a population scale perspective: An accurate profile of variability and noise. Bioinformatics vol. 33, (22) 3511-3517.
10.1093/bioinformatics/btx482
https://qmro.qmul.ac.uk/xmlui/handle/123456789/56567
Hidalgo MR, Cubuk C, Amadoz A, Salavert F, Carbonell-Caballero J, Dopazo J(2017). High throughput estimation of functional cell activities reveals disease mechanisms and predicts relevant clinical outcomes. Oncotarget vol. 8, (3) 5160-5178.
10.18632/oncotarget.14107
https://qmro.qmul.ac.uk/xmlui/handle/123456789/56566
Salavert F, Hidago MR, Amadoz A, Çubuk C, Medina I, Crespo D, Carbonell-Caballero J, Dopazo J(2016). Actionable pathways: interactive discovery of therapeutic targets using signaling pathway models. Nucleic acids research vol. 44, (W1) W212-W216.
10.1093/nar/gkw369
https://qmro.qmul.ac.uk/xmlui/handle/123456789/56565
Sanghez V, Cubuk C, Sebastián-Leon P, Carobbio S, Dopazo J, Vidal-Puig A, Bartolomucci A(2016). Chronic subordination stress selectively downregulates the insulin signaling pathway in liver and skeletal muscle but not in adipose tissue of male mice. Stress vol. 19, (2) 214-224.
10.3109/10253890.2016.1151491
Razzoli M, Frontini A, Gurney A, Mondini E, Cubuk C, Katz LS, Cero C, Bolan PJ et al.(2016). Stress-induced activation of brown adipose tissue prevents obesity in conditions of low adaptive thermogenesis. Molecular Metabolism vol. 5, (1) 19-33.
10.1016/j.molmet.2015.10.005
https://qmro.qmul.ac.uk/xmlui/handle/123456789/57005
Alonso R, Salavert F, Garcia-Garcia F, Carbonell-Caballero J, Bleda M, Garcia-Alonso L, Sanchis-Juan A, Perez-Gil D et al.(2015). Babelomics 5.0: Functional interpretation for new generations of genomic data. Nucleic Acids Research vol. 43, (W1) W117-W121.
10.1093/nar/gkv384
Diniz G, Aktas S, Cubuk C, Ortac R, Vergin C, Olgun N(2013). Tissue expression of MLH1, PMS2, MSH2, and MSH6 proteins and prognostic value of microsatellite instability in Wilms tumor: Experience of 45 cases. Pediatric Hematology and Oncology vol. 30, (4) 273-284.
10.3109/08880018.2013.780274
Ince D, Aktas S, Altun ZS, Cubuk C, Olgun N (2011). EFFECT OF PHYTOCHEMICALS ON NEUROBLASTOMA AND METASTATIC POTENTIAL. PEDIATRIC BLOOD & CANCER. vol. 57, 781-781.
Diniz G, Aktas S, Cubuk C, Ortac R, Vergin C, Olgun N (2011). MICROSATELLITE INSTABILITY IN WILMS TUMOR. PEDIATRIC BLOOD & CANCER. vol. 57, 783-783.
Aktas S, Ercetin P, Altun Z, Cubuk C, Olgun N (2011). TUMOR METASTASIS GENES IN NEUROBLASTOMA STEM CELLS. PEDIATRIC BLOOD & CANCER. vol. 57, 782-783.
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