In the Computational Oncology Group, we tackle some of the deadliest cancers by targeting the causes of chromosomal instability (CIN). Our goal is to transform complex, chaotic genomic data into actionable clinical targets to improve patient outcomes.
Our main research areas include:
Predicting therapy response using CIN signatures in patient biopsies.
Developing AI-enabled computational pipelines for neoantigen prediction.
Using single-cell sequencing for ultrasensitive CIN detection.
Modelling tumour evolution to enable early cancer interception.
We aim to apply these technologies at the earliest stages of tumour development in patients with premalignant lesions, with the goal of preventing aggressive, difficult-to-treat cancers. By integrating AI with high-resolution genomics, we are bridging the gap between evolutionary theory and clinical practice.
Recent publications
Gruber AJ, Olsen AV, Hernando B, Cheng KCL, Gerhäuser C, Torres M, Favero F, Kiriy D, Fernández-Sanromán Á, Roldan-Romero JM, Barton L, Pellegrina D, Bova GS, Brewer DS, Brook MN, Brors B, Butler A, Cancel-Tassin G, Corcoran NM, Cussenot O, Gihawi A, Girma EG, Gnanapragasam VJ, Hamid AA, Hayes VM, He HH, Hovens CM, Imada EL, Jakobsdottir GM, Jung CH, Khani F, Kote-Jarai Z, Lamy P, Leeman G, Loda M, Lutsik P, Marchionni L, Molania R, Papenfuss AT, Pope B, Queiroz LR, Rausch T, Robinson B, Sahli A, Sørensen KD, Yamaguchi TN, Uhrig S, Xu Y, Zanettini C; Pan Prostate Cancer Group (PPCG); Simon R, Sauter G, Eeles RA, Cooper CS, Bristow RG, Wedge DC, Schlomm T, Macintyre G, Reimand J, Weischenfeldt J. (2026).Integrated signatures define mutational processes in prostate cancer. Nature (in press). CNIO Publication.
Calsina B, Piñeiro-Yáñez E, Martínez-Montes ÁM, Caleiras E, Fernández-Sanromán Á, Monteagudo M, Torres-Pérez R, Fustero-Torre C, Pulgarín-Alfaro M, Gil E, Letón R, Jiménez S, García-Martín S, Martin MC, Roldán-Romero JM, Lanillos J, Mellid S, Santos M, Díaz-Talavera A, Rubio Á, González P, Hernando B, Bechmann N, Dona M, Calatayud M, Guadalix S, Álvarez-Escolá C, Regojo RM, Aller J, Del Olmo-Garcia MI, López-Fernández A, Fliedner SMJ, Rapizzi E, Fassnacht M, Beuschlein F, Quinkler M, Toledo RA, Mannelli M, Timmers HJ, Eisenhofer G, Rodríguez-Perales S, Domínguez O, Macintyre G, Currás-Freixes M, Rodríguez-Antona C, Cascón A, Leandro-García LJ, Montero-Conde C, Roncador G, García-García JF, Pacak K, Al-Shahrour F, Robledo M. (2023).Genomic and immune landscape Of metastatic pheochromocytoma and paraganglioma. Nat Commun 14, 1122. CNIO Publication. Open Access
Wilson A, Chiu DS, Cushing-Haugen KL, Fereday S, Garsed DW, Gayther SA, Gentry-Maharaj A, Gilks B, Jimenez-Linan M, Kennedy CJ, Le ND, Piskorz AM, Riggan MJ, Shah M, Singh N, Talhouk A, Widschwendter M, Bowtell DDL, Candido Dos Reis FJ, Cook LS, Fortner RT, García MJ, Harris HR, Huntsman DG, Karnezis AN, Köbel M, Menon U, Pharoah PDP, Doherty JA, Anglesio MS, Pike MC, Pearce CL, Friedlander ML, DeFazio A, Nelson BH, Ramus SJ. (2023).Profiling the immune landscape in mucinous ovarian carcinoma. Gynecol Oncol 168, 23-31. CNIO Publication.
Drews RM, Hernando B, Tarabichi M, Haase K, Lesluyes T, Smith PS, Morrill Gavarró L, Couturier DL, Liu L, Schneider M, Brenton JD, Van Loo P, Macintyre G, Markowetz F (2022).A pan-cancer compendium of chromosomal instability. Nature 606, 976-983. CNIO Publication.
Open Access