Gunes Gundem

Research Fellow

Gunes Gundem, Postdoctoral Fellow

Gunes Gundem’s research focuses on the study of tumour genome from the point of view of understanding subclonal structure and how it changes across time and space. She is particularly interested in the study of advanced stages of the neoplastic process such as metastasis or when patients relapse in response to therapy and how changes in clonal dynamics is related to these transitions. With an undergraduate background in molecular biology and genetics, Gunes has been developing strong computational and bioinformatic skills for high-throughput data analysis with a special focus in next-generation sequencing data. She completed her undergraduate degree in Middle East Technical University in Ankara, Turkey. After finishing a Master’s degree in computational science in Koc University in Istanbul, she did her graduate studies under the supervision of Dr. Nuria Lopez Bigas in Barcelona. She later on moved to Cambridge, UK, where she spent more than 3 years working as a post-doctoral scientist as part of the ICGC UK Prostate project in Wellcome Trust Sanger Institute, one of the leading genome centers in the world. Gunes has recently joined the Papaemmanuil lab as a post-doctoral fellow.


Desmedt C, Zoppoli G, Gundem G, et al. Genomic characterization of primary invasive lobular breast cancer. Journal of Clinical Oncology. 2016 (accepted).

Gundem G, Van Loo P, Kremeyer B, Alexandrov LB, Tubio JM, Papaemmanuil E, Brewer DS, Kallio HM, Högnäs G, Annala M, Kivinummi K, Goody V, Latimer C, O’Meara S, Dawson KJ, Isaacs W, Emmert-Buck MR, Nykter M, Foster C, Kote-Jarai Z, Easton D, Whitaker HC; ICGC Prostate UK Group, Neal DE, Cooper CS, Eeles RA, Visakorpi T, Campbell PJ, McDermott U, Wedge DC, Bova GS. The evolutionary history of lethal metastatic prostate cancer. Nature. 2015 Apr 16;520(7547):353-7. doi: 10.1038/nature14347. Epub 2015 Apr 1. PubMed Central PMCID: PMC4413032. PubMed

Manson-Bahr D, Ball R, Gundem G, Sethia K, Mills R, Rochester M, Goody V, Anderson E, O’Meara S, Flather M, Keeling M, Yazbek-Hanna M, Hurst R, Curley H, Clark J, Brewer DS, McDermott U, Cooper C. Mutation detection in formalin-fixed prostate cancer biopsies taken at the time of diagnosis using next-generation DNA sequencing. J Clin Pathol. 2015 Mar;68(3):212-7. doi: 10.1136/jclinpath-2014-202754. Epub 2015 Jan 13. PubMed

Furney SJ, Gundem G, Lopez-Bigas N. Oncogenomics methods and resources. Cold Spring Harb Protoc. 2012 May 1;2012(5). pii: pdb.top069229. doi: 10.1101/pdb.top069229. PubMed

Gundem G, Lopez-Bigas N. Sample-level enrichment analysis unravels shared stress phenotypes among multiple cancer types. Genome Med. 2012 Mar 29;4(3):28. PubMed Central PMCID: PMC3446278. PubMed

Pippa R, Espinosa L, Gundem G, García-Escudero R, Dominguez A, Orlando S, Gallastegui E, Saiz C, Besson A, Pujol MJ, López-Bigas N, Paramio JM, Bigas A, Bachs O. p27Kip1 represses transcription by direct interaction with p130/E2F4 at the promoters of target genes. Oncogene. 2012 Sep 20;31(38):4207-20. doi: 10.1038/onc.2011.582. Epub 2011 Dec 19. PubMed

Perez-Llamas C, Gundem G, Lopez-Bigas N. Integrative cancer genomics (IntOGen) in Biomart. Database (Oxford). 2011 Sep 7;2011:bar039. doi: 10.1093/database/bar039. Print 2011. ; PubMed Central PMCID: PMC3169995. PubMed

Gundem G, Perez-Llamas C, Jene-Sanz A, Kedzierska A, Islam A, Deu-Pons J, Furney SJ, Lopez-Bigas N. IntOGen: integration and data mining of multidimensional oncogenomic data. Nat Methods. 2010 Feb;7(2):92-3. doi: 10.1038/nmeth0210-92. PubMed