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1.

The co-evolution of the genome and epigenome in colorectal cancer.

Heide, Timon; Househam, Jacob; Cresswell, George D; Spiteri, Inmaculada; Lynn, Claire; Mossner, Maximilian; Kimberley, Chris; Fernandez-Mateos, Javier; Chen, Bingjie; Zapata, Luis; James, Chela; Barozzi, Iros; Chkhaidze, Ketevan; Nichol, Daniel; Gunasri, Vinaya; Berner, Alison; Schmidt, Melissa; Lakatos, Eszter; Baker, Ann-Marie; Costa, Helena; Mitchinson, Miriam; Piazza, Rocco; Jansen, Marnix; Caravagna, Giulio; Ramazzotti, Daniele; Shibata, Darryl; Bridgewater, John; Rodriguez-Justo, Manuel; Magnani, Luca; Graham, Trevor A; Sottoriva, Andrea.

Nature ; 611(7937): 733-743, 2022 11.

Article in English | MEDLINE | ID: mdl-36289335

2.

Phenotypic plasticity and genetic control in colorectal cancer evolution.

Househam, Jacob; Heide, Timon; Cresswell, George D; Spiteri, Inmaculada; Kimberley, Chris; Zapata, Luis; Lynn, Claire; James, Chela; Mossner, Maximilian; Fernandez-Mateos, Javier; Vinceti, Alessandro; Baker, Ann-Marie; Gabbutt, Calum; Berner, Alison; Schmidt, Melissa; Chen, Bingjie; Lakatos, Eszter; Gunasri, Vinaya; Nichol, Daniel; Costa, Helena; Mitchinson, Miriam; Ramazzotti, Daniele; Werner, Benjamin; Iorio, Francesco; Jansen, Marnix; Caravagna, Giulio; Barnes, Chris P; Shibata, Darryl; Bridgewater, John; Rodriguez-Justo, Manuel; Magnani, Luca; Sottoriva, Andrea; Graham, Trevor A.

Nature ; 611(7937): 744-753, 2022 11.

Article in English | MEDLINE | ID: mdl-36289336

3.

Author Correction: Resolving genetic heterogeneity in cancer.

Turajlic, Samra; Sottoriva, Andrea; Graham, Trevor; Swanton, Charles.

Nat Rev Genet ; 21(1): 65, 2020 Jan.

Article in English | MEDLINE | ID: mdl-31659302

4.

Resolving genetic heterogeneity in cancer.

Turajlic, Samra; Sottoriva, Andrea; Graham, Trevor; Swanton, Charles.

Nat Rev Genet ; 20(7): 404-416, 2019 07.

Article in English | MEDLINE | ID: mdl-30918367

5.

Measuring Clonal Evolution in Cancer with Genomics.

Williams, Marc J; Sottoriva, Andrea; Graham, Trevor A.

Annu Rev Genomics Hum Genet ; 20: 309-329, 2019 08 31.

Article in English | MEDLINE | ID: mdl-31059289

6.

EGFR amplification and outcome in a randomised phase III trial of chemotherapy alone or chemotherapy plus panitumumab for advanced gastro-oesophageal cancers.

Smyth, Elizabeth C; Vlachogiannis, Georgios; Hedayat, Somaieh; Harbery, Alice; Hulkki-Wilson, Sanna; Salati, Massimiliano; Kouvelakis, Kyriakos; Fernandez-Mateos, Javier; Cresswell, George D; Fontana, Elisa; Seidlitz, Therese; Peckitt, Clare; Hahne, Jens C; Lampis, Andrea; Begum, Ruwaida; Watkins, David; Rao, Sheela; Starling, Naureen; Waddell, Tom; Okines, Alicia; Crosby, Tom; Mansoor, Was; Wadsley, Jonathan; Middleton, Gary; Fassan, Matteo; Wotherspoon, Andrew; Braconi, Chiara; Chau, Ian; Vivanco, Igor; Sottoriva, Andrea; Stange, Daniel E; Cunningham, David; Valeri, Nicola.

Gut ; 70(9): 1632-1641, 2021 09.

Article in English | MEDLINE | ID: mdl-33199443

7.

Detecting repeated cancer evolution from multi-region tumor sequencing data.

Caravagna, Giulio; Giarratano, Ylenia; Ramazzotti, Daniele; Tomlinson, Ian; Graham, Trevor A; Sanguinetti, Guido; Sottoriva, Andrea.

Nat Methods ; 15(9): 707-714, 2018 09.

Article in English | MEDLINE | ID: mdl-30171232

8.

The MOBSTER R package for tumour subclonal deconvolution from bulk DNA whole-genome sequencing data.

Caravagna, Giulio; Sanguinetti, Guido; Graham, Trevor A; Sottoriva, Andrea.

BMC Bioinformatics ; 21(1): 531, 2020 Nov 17.

Article in English | MEDLINE | ID: mdl-33203356

9.

Prediction of Benefit from Checkpoint Inhibitors in Mismatch Repair Deficient Metastatic Colorectal Cancer: Role of Tumor Infiltrating Lymphocytes.

Loupakis, Fotios; Depetris, Ilaria; Biason, Paola; Intini, Rossana; Prete, Alessandra Anna; Leone, Francesco; Lombardi, Pasquale; Filippi, Roberto; Spallanzani, Andrea; Cascinu, Stefano; Bonetti, Luca Reggiani; Maddalena, Giulia; Valeri, Nicola; Sottoriva, Andrea; Zapata, Luis; Salmaso, Roberta; Munari, Giada; Rugge, Massimo; Dei Tos, Angelo Paolo; Golovato, Justin; Sanborn, John Z; Nguyen, Andrew; Schirripa, Marta; Zagonel, Vittorina; Lonardi, Sara; Fassan, Matteo.

Oncologist ; 25(6): 481-487, 2020 06.

Article in English | MEDLINE | ID: mdl-31967692

10.

Spatially constrained tumour growth affects the patterns of clonal selection and neutral drift in cancer genomic data.

Chkhaidze, Ketevan; Heide, Timon; Werner, Benjamin; Williams, Marc J; Huang, Weini; Caravagna, Giulio; Graham, Trevor A; Sottoriva, Andrea.

PLoS Comput Biol ; 15(7): e1007243, 2019 07.

Article in English | MEDLINE | ID: mdl-31356595

11.

Catch my drift? Making sense of genomic intra-tumour heterogeneity.

Sottoriva, Andrea; Barnes, Chris P; Graham, Trevor A.

Biochim Biophys Acta Rev Cancer ; 1867(2): 95-100, 2017 Apr.

Article in English | MEDLINE | ID: mdl-28069394

12.

Variation of mutational burden in healthy human tissues suggests non-random strand segregation and allows measuring somatic mutation rates.

Werner, Benjamin; Sottoriva, Andrea.

PLoS Comput Biol ; 14(6): e1006233, 2018 06.

Article in English | MEDLINE | ID: mdl-29879111

13.

The shaping and functional consequences of the microRNA landscape in breast cancer.

Dvinge, Heidi; Git, Anna; Gräf, Stefan; Salmon-Divon, Mali; Curtis, Christina; Sottoriva, Andrea; Zhao, Yongjun; Hirst, Martin; Armisen, Javier; Miska, Eric A; Chin, Suet-Feung; Provenzano, Elena; Turashvili, Gulisa; Green, Andrew; Ellis, Ian; Aparicio, Sam; Caldas, Carlos.

Nature ; 497(7449): 378-82, 2013 May 16.

Article in English | MEDLINE | ID: mdl-23644459

14.

Measuring cancer evolution from the genome.

Graham, Trevor A; Sottoriva, Andrea.

J Pathol ; 241(2): 183-191, 2017 Jan.

Article in English | MEDLINE | ID: mdl-27741350

15.

Epigenetic profile of human adventitial progenitor cells correlates with therapeutic outcomes in a mouse model of limb ischemia.

Gubernator, Miriam; Slater, Sadie C; Spencer, Helen L; Spiteri, Inmaculada; Sottoriva, Andrea; Riu, Federica; Rowlinson, Jonathan; Avolio, Elisa; Katare, Rajesh; Mangialardi, Giuseppe; Oikawa, Atsuhiko; Reni, Carlotta; Campagnolo, Paola; Spinetti, Gaia; Touloumis, Anestis; Tavaré, Simon; Prandi, Francesca; Pesce, Maurizio; Hofner, Manuela; Klemens, Vierlinger; Emanueli, Costanza; Angelini, Gianni; Madeddu, Paolo.

Arterioscler Thromb Vasc Biol ; 35(3): 675-88, 2015 Mar.

Article in English | MEDLINE | ID: mdl-25573856

16.

Many private mutations originate from the first few divisions of a human colorectal adenoma.

Kang, Haeyoun; Salomon, Matthew P; Sottoriva, Andrea; Zhao, Junsong; Toy, Morgan; Press, Michael F; Curtis, Christina; Marjoram, Paul; Siegmund, Kimberly; Shibata, Darryl.

J Pathol ; 237(3): 355-62, 2015 Nov.

Article in English | MEDLINE | ID: mdl-26119426

17.

Intratumor heterogeneity in human glioblastoma reflects cancer evolutionary dynamics.

Sottoriva, Andrea; Spiteri, Inmaculada; Piccirillo, Sara G M; Touloumis, Anestis; Collins, V Peter; Marioni, John C; Curtis, Christina; Watts, Colin; Tavaré, Simon.

Proc Natl Acad Sci U S A ; 110(10): 4009-14, 2013 Mar 05.

Article in English | MEDLINE | ID: mdl-23412337

18.

Cancer Evolution: A Multifaceted Affair.

Ciriello, Giovanni; Magnani, Luca; Aitken, Sarah J; Akkari, Leila; Behjati, Sam; Hanahan, Douglas; Landau, Dan A; Lopez-Bigas, Nuria; Lupiáñez, Darío G; Marine, Jean-Christophe; Martin-Villalba, Ana; Natoli, Gioacchino; Obenauf, Anna C; Oricchio, Elisa; Scaffidi, Paola; Sottoriva, Andrea; Swarbrick, Alexander; Tonon, Giovanni; Vanharanta, Sakari; Zuber, Johannes.

Cancer Discov ; 14(1): 36-48, 2024 01 12.

Article in English | MEDLINE | ID: mdl-38047596

19.

Epigenome and early selection determine the tumour-immune evolutionary trajectory of colorectal cancer.

Lakatos, Eszter; Gunasri, Vinaya; Zapata, Luis; Househam, Jacob; Heide, Timon; Trahearn, Nicholas; Swinyard, Ottilie; Cisneros, Luis; Lynn, Claire; Mossner, Maximilian; Kimberley, Chris; Spiteri, Inmaculada; Cresswell, George D; Llibre-Palomar, Gerard; Mitchison, Miriam; Maley, Carlo C; Jansen, Marnix; Rodriguez-Justo, Manuel; Bridgewater, John; Baker, Ann-Marie; Sottoriva, Andrea; Graham, Trevor A.

bioRxiv ; 2024 Feb 14.

Article in English | MEDLINE | ID: mdl-38405882

20.

Long-term Multimodal Recording Reveals Epigenetic Adaptation Routes in Dormant Breast Cancer Cells.

Rosano, Dalia; Sofyali, Emre; Dhiman, Heena; Ghirardi, Chiara; Ivanoiu, Diana; Heide, Timon; Vingiani, Andrea; Bertolotti, Alessia; Pruneri, Giancarlo; Canale, Eleonora; Dewhurst, Hannah F; Saha, Debjani; Slaven, Neil; Barozzi, Iros; Li, Tong; Zemlyanskiy, Grigory; Phillips, Henry; James, Chela; Gyorffy, Balázs; Lynn, Claire; Cresswell, George D; Rehman, Farah; Noberini, Roberta; Bonaldi, Tiziana; Sottoriva, Andrea; Magnani, Luca.

Cancer Discov ; 14(5): 866-889, 2024 May 01.

Article in English | MEDLINE | ID: mdl-38527495

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