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Items: 43


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

Chkhaidze K, Heide T, Werner B, Williams MJ, Huang W, Caravagna G, Graham TA, Sottoriva A.

PLoS Comput Biol. 2019 Jul 29;15(7):e1007243. doi: 10.1371/journal.pcbi.1007243. eCollection 2019 Jul.


Measuring Clonal Evolution in Cancer with Genomics.

Williams MJ, Sottoriva A, Graham TA.

Annu Rev Genomics Hum Genet. 2019 Aug 31;20:309-329. doi: 10.1146/annurev-genom-083117-021712. Epub 2019 May 5.


Resolving genetic heterogeneity in cancer.

Turajlic S, Sottoriva A, Graham T, Swanton C.

Nat Rev Genet. 2019 Jul;20(7):404-416. doi: 10.1038/s41576-019-0114-6. Review.


Evolutionary dynamics of residual disease in human glioblastoma.

Spiteri I, Caravagna G, Cresswell GD, Vatsiou A, Nichol D, Acar A, Ermini L, Chkhaidze K, Werner B, Mair R, Brognaro E, Verhaak RGW, Sanguinetti G, Piccirillo SGM, Watts C, Sottoriva A.

Ann Oncol. 2019 Mar 1;30(3):456-463. doi: 10.1093/annonc/mdy506.


Reply to 'Neutral tumor evolution?'

Heide T, Zapata L, Williams MJ, Werner B, Caravagna G, Barnes CP, Graham TA, Sottoriva A.

Nat Genet. 2018 Dec;50(12):1633-1637. doi: 10.1038/s41588-018-0256-z. No abstract available.


Reply to 'Currently available bulk sequencing data do not necessarily support a model of neutral tumor evolution'.

Werner B, Williams MJ, Barnes CP, Graham TA, Sottoriva A.

Nat Genet. 2018 Dec;50(12):1624-1626. doi: 10.1038/s41588-018-0235-4. No abstract available.


Microenvironmental niche divergence shapes BRCA1-dysregulated ovarian cancer morphological plasticity.

Heindl A, Khan AM, Rodrigues DN, Eason K, Sadanandam A, Orbegoso C, Punta M, Sottoriva A, Lise S, Banerjee S, Yuan Y.

Nat Commun. 2018 Sep 25;9(1):3917. doi: 10.1038/s41467-018-06130-3.


Reply to 'Revisiting signatures of neutral tumor evolution in the light of complexity of cancer genomic data'.

Williams MJ, Werner B, Heide T, Barnes CP, Graham TA, Sottoriva A.

Nat Genet. 2018 Dec;50(12):1628-1630. doi: 10.1038/s41588-018-0210-0. No abstract available.


The evolutionary landscape of colorectal tumorigenesis.

Cross W, Kovac M, Mustonen V, Temko D, Davis H, Baker AM, Biswas S, Arnold R, Chegwidden L, Gatenbee C, Anderson AR, Koelzer VH, Martinez P, Jiang X, Domingo E, Woodcock DJ, Feng Y, Kovacova M, Maughan T; S:CORT Consortium, Jansen M, Rodriguez-Justo M, Ashraf S, Guy R, Cunningham C, East JE, Wedge DC, Wang LM, Palles C, Heinimann K, Sottoriva A, Leedham SJ, Graham TA, Tomlinson IPM.

Nat Ecol Evol. 2018 Oct;2(10):1661-1672. doi: 10.1038/s41559-018-0642-z. Epub 2018 Aug 31.


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

Caravagna G, Giarratano Y, Ramazzotti D, Tomlinson I, Graham TA, Sanguinetti G, Sottoriva A.

Nat Methods. 2018 Sep;15(9):707-714. doi: 10.1038/s41592-018-0108-x. Epub 2018 Aug 31.


Longitudinal Liquid Biopsy and Mathematical Modeling of Clonal Evolution Forecast Time to Treatment Failure in the PROSPECT-C Phase II Colorectal Cancer Clinical Trial.

Khan KH, Cunningham D, Werner B, Vlachogiannis G, Spiteri I, Heide T, Mateos JF, Vatsiou A, Lampis A, Damavandi MD, Lote H, Huntingford IS, Hedayat S, Chau I, Tunariu N, Mentrasti G, Trevisani F, Rao S, Anandappa G, Watkins D, Starling N, Thomas J, Peckitt C, Khan N, Rugge M, Begum R, Hezelova B, Bryant A, Jones T, Proszek P, Fassan M, Hahne JC, Hubank M, Braconi C, Sottoriva A, Valeri N.

Cancer Discov. 2018 Oct;8(10):1270-1285. doi: 10.1158/2159-8290.CD-17-0891. Epub 2018 Aug 30.


Author Correction: Quantification of subclonal selection in cancer from bulk sequencing data.

Williams MJ, Werner B, Heide T, Curtis C, Barnes CP, Sottoriva A, Graham TA.

Nat Genet. 2018 Sep;50(9):1342. doi: 10.1038/s41588-018-0169-x.


The Spatiotemporal Evolution of Lymph Node Spread in Early Breast Cancer.

Barry P, Vatsiou A, Spiteri I, Nichol D, Cresswell GD, Acar A, Trahearn N, Hrebien S, Garcia-Murillas I, Chkhaidze K, Ermini L, Huntingford IS, Cottom H, Zabaglo L, Koelble K, Khalique S, Rusby JE, Muscara F, Dowsett M, Maley CC, Natrajan R, Yuan Y, Schiavon G, Turner N, Sottoriva A.

Clin Cancer Res. 2018 Oct 1;24(19):4763-4770. doi: 10.1158/1078-0432.CCR-17-3374. Epub 2018 Jun 11.


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

Werner B, Sottoriva A.

PLoS Comput Biol. 2018 Jun 7;14(6):e1006233. doi: 10.1371/journal.pcbi.1006233. eCollection 2018 Jun.


Quantification of subclonal selection in cancer from bulk sequencing data.

Williams MJ, Werner B, Heide T, Curtis C, Barnes CP, Sottoriva A, Graham TA.

Nat Genet. 2018 Jun;50(6):895-903. doi: 10.1038/s41588-018-0128-6. Epub 2018 May 28. Erratum in: Nat Genet. 2018 Sep;50(9):1342.


Divergent adaptation in thyroid cancers.

Sottoriva A.

Ann Oncol. 2018 Jun 1;29(6):1353. doi: 10.1093/annonc/mdy170. No abstract available.


Patient-derived organoids model treatment response of metastatic gastrointestinal cancers.

Vlachogiannis G, Hedayat S, Vatsiou A, Jamin Y, Fernández-Mateos J, Khan K, Lampis A, Eason K, Huntingford I, Burke R, Rata M, Koh DM, Tunariu N, Collins D, Hulkki-Wilson S, Ragulan C, Spiteri I, Moorcraft SY, Chau I, Rao S, Watkins D, Fotiadis N, Bali M, Darvish-Damavandi M, Lote H, Eltahir Z, Smyth EC, Begum R, Clarke PA, Hahne JC, Dowsett M, de Bono J, Workman P, Sadanandam A, Fassan M, Sansom OJ, Eccles S, Starling N, Braconi C, Sottoriva A, Robinson SP, Cunningham D, Valeri N.

Science. 2018 Feb 23;359(6378):920-926. doi: 10.1126/science.aao2774.


Robust RNA-based in situ mutation detection delineates colorectal cancer subclonal evolution.

Baker AM, Huang W, Wang XM, Jansen M, Ma XJ, Kim J, Anderson CM, Wu X, Pan L, Su N, Luo Y, Domingo E, Heide T, Sottoriva A, Lewis A, Beggs AD, Wright NA, Rodriguez-Justo M, Park E, Tomlinson I, Graham TA.

Nat Commun. 2017 Dec 8;8(1):1998. doi: 10.1038/s41467-017-02295-5.


Classifying the evolutionary and ecological features of neoplasms.

Maley CC, Aktipis A, Graham TA, Sottoriva A, Boddy AM, Janiszewska M, Silva AS, Gerlinger M, Yuan Y, Pienta KJ, Anderson KS, Gatenby R, Swanton C, Posada D, Wu CI, Schiffman JD, Hwang ES, Polyak K, Anderson ARA, Brown JS, Greaves M, Shibata D.

Nat Rev Cancer. 2017 Oct;17(10):605-619. doi: 10.1038/nrc.2017.69. Epub 2017 Sep 15. Review.


Reply: Uncertainties in tumor allele frequencies limit power to infer evolutionary pressures.

Williams MJ, Werner B, Barnes CP, Graham TA, Sottoriva A.

Nat Genet. 2017 Aug 30;49(9):1289-1291. doi: 10.1038/ng.3877. No abstract available.


Between-region genetic divergence reflects the mode and tempo of tumor evolution.

Sun R, Hu Z, Sottoriva A, Graham TA, Harpak A, Ma Z, Fischer JM, Shibata D, Curtis C.

Nat Genet. 2017 Jul;49(7):1015-1024. doi: 10.1038/ng.3891. Epub 2017 Jun 5.


Detecting truly clonal alterations from multi-region profiling of tumours.

Werner B, Traulsen A, Sottoriva A, Dingli D.

Sci Rep. 2017 Mar 27;7:44991. doi: 10.1038/srep44991.


Carbon dating cancer: defining the chronology of metastatic progression in colorectal cancer.

Lote H, Spiteri I, Ermini L, Vatsiou A, Roy A, McDonald A, Maka N, Balsitis M, Bose N, Simbolo M, Mafficini A, Lampis A, Hahne JC, Trevisani F, Eltahir Z, Mentrasti G, Findlay C, Kalkman EAJ, Punta M, Werner B, Lise S, Aktipis A, Maley C, Greaves M, Braconi C, White J, Fassan M, Scarpa A, Sottoriva A, Valeri N.

Ann Oncol. 2017 Jun 1;28(6):1243-1249. doi: 10.1093/annonc/mdx074.


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

Sottoriva A, Barnes CP, Graham TA.

Biochim Biophys Acta Rev Cancer. 2017 Apr;1867(2):95-100. doi: 10.1016/j.bbcan.2016.12.003. Epub 2017 Jan 7. Review.


Measuring cancer evolution from the genome.

Graham TA, Sottoriva A.

J Pathol. 2017 Jan;241(2):183-191. doi: 10.1002/path.4821. Epub 2016 Nov 18. Review.


Functional versus non-functional intratumor heterogeneity in cancer.

Williams MJ, Werner B, Graham TA, Sottoriva A.

Mol Cell Oncol. 2016 Apr 22;3(4):e1162897. doi: 10.1080/23723556.2016.1162897. eCollection 2016 Jul.


EGFRvIII mutations can emerge as late and heterogenous events in glioblastoma development and promote angiogenesis through Src activation.

Eskilsson E, Rosland GV, Talasila KM, Knappskog S, Keunen O, Sottoriva A, Foerster S, Solecki G, Taxt T, Jirik R, Fritah S, Harter PN, Välk K, Al Hossain J, Joseph JV, Jahedi R, Saed HS, Piccirillo SG, Spiteri I, Leiss L, Euskirchen P, Graziani G, Daubon T, Lund-Johansen M, Enger PØ, Winkler F, Ritter CA, Niclou SP, Watts C, Bjerkvig R, Miletic H.

Neuro Oncol. 2016 Dec;18(12):1644-1655. Epub 2016 Jun 10. Erratum in: Neuro Oncol. 2016 Dec;18(12 ):e2.


Cancer Evolution and the Limits of Predictability in Precision Cancer Medicine.

Lipinski KA, Barber LJ, Davies MN, Ashenden M, Sottoriva A, Gerlinger M.

Trends Cancer. 2016 Jan;2(1):49-63. doi: 10.1016/j.trecan.2015.11.003. Epub 2016 Jan 29. Review.


The Cancer Stem Cell Fraction in Hierarchically Organized Tumors Can Be Estimated Using Mathematical Modeling and Patient-Specific Treatment Trajectories.

Werner B, Scott JG, Sottoriva A, Anderson AR, Traulsen A, Altrock PM.

Cancer Res. 2016 Apr 1;76(7):1705-13. doi: 10.1158/0008-5472.CAN-15-2069. Epub 2016 Feb 1.


Identification of neutral tumor evolution across cancer types.

Williams MJ, Werner B, Barnes CP, Graham TA, Sottoriva A.

Nat Genet. 2016 Mar;48(3):238-244. doi: 10.1038/ng.3489. Epub 2016 Jan 18.


Current Challenges in Glioblastoma: Intratumour Heterogeneity, Residual Disease, and Models to Predict Disease Recurrence.

Ellis HP, Greenslade M, Powell B, Spiteri I, Sottoriva A, Kurian KM.

Front Oncol. 2015 Nov 16;5:251. doi: 10.3389/fonc.2015.00251. eCollection 2015. Review.


The role of sub-ventricular zone in gliomagenesis.

Piccirillo SG, Sottoriva A, Watts C.

Aging (Albany NY). 2015 Oct;7(10):738-9. No abstract available.


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

Kang H, Salomon MP, Sottoriva A, Zhao J, Toy M, Press MF, Curtis C, Marjoram P, Siegmund K, Shibata D.

J Pathol. 2015 Nov;237(3):355-62. doi: 10.1002/path.4581. Epub 2015 Aug 3.


A Big Bang model of human colorectal tumor growth.

Sottoriva A, Kang H, Ma Z, Graham TA, Salomon MP, Zhao J, Marjoram P, Siegmund K, Press MF, Shibata D, Curtis C.

Nat Genet. 2015 Mar;47(3):209-16. doi: 10.1038/ng.3214. Epub 2015 Feb 9.


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

Gubernator M, Slater SC, Spencer HL, Spiteri I, Sottoriva A, Riu F, Rowlinson J, Avolio E, Katare R, Mangialardi G, Oikawa A, Reni C, Campagnolo P, Spinetti G, Touloumis A, Tavaré S, Prandi F, Pesce M, Hofner M, Klemens V, Emanueli C, Angelini G, Madeddu P.

Arterioscler Thromb Vasc Biol. 2015 Mar;35(3):675-88. doi: 10.1161/ATVBAHA.114.304989. Epub 2015 Jan 8.


Contributions to drug resistance in glioblastoma derived from malignant cells in the sub-ependymal zone.

Piccirillo SG, Spiteri I, Sottoriva A, Touloumis A, Ber S, Price SJ, Heywood R, Francis NJ, Howarth KD, Collins VP, Venkitaraman AR, Curtis C, Marioni JC, Tavaré S, Watts C.

Cancer Res. 2015 Jan 1;75(1):194-202. doi: 10.1158/0008-5472.CAN-13-3131. Epub 2014 Nov 18.


Defining stem cell dynamics in models of intestinal tumor initiation.

Vermeulen L, Morrissey E, van der Heijden M, Nicholson AM, Sottoriva A, Buczacki S, Kemp R, Tavaré S, Winton DJ.

Science. 2013 Nov 22;342(6161):995-8. doi: 10.1126/science.1243148.


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

Dvinge H, Git A, Gräf S, Salmon-Divon M, Curtis C, Sottoriva A, Zhao Y, Hirst M, Armisen J, Miska EA, Chin SF, Provenzano E, Turashvili G, Green A, Ellis I, Aparicio S, Caldas C.

Nature. 2013 May 16;497(7449):378-82. doi: 10.1038/nature12108. Epub 2013 May 5.


Intratumor heterogeneity in human glioblastoma reflects cancer evolutionary dynamics.

Sottoriva A, Spiteri I, Piccirillo SG, Touloumis A, Collins VP, Marioni JC, Curtis C, Watts C, Tavaré S.

Proc Natl Acad Sci U S A. 2013 Mar 5;110(10):4009-14. doi: 10.1073/pnas.1219747110. Epub 2013 Feb 14.


Single-molecule genomic data delineate patient-specific tumor profiles and cancer stem cell organization.

Sottoriva A, Spiteri I, Shibata D, Curtis C, Tavaré S.

Cancer Res. 2013 Jan 1;73(1):41-9. doi: 10.1158/0008-5472.CAN-12-2273. Epub 2012 Oct 22.


Modeling evolutionary dynamics of epigenetic mutations in hierarchically organized tumors.

Sottoriva A, Vermeulen L, Tavaré S.

PLoS Comput Biol. 2011 May;7(5):e1001132. doi: 10.1371/journal.pcbi.1001132. Epub 2011 May 5.


Exploring cancer stem cell niche directed tumor growth.

Sottoriva A, Sloot PM, Medema JP, Vermeulen L.

Cell Cycle. 2010 Apr 15;9(8):1472-9. Epub 2010 Apr 15.


Cancer stem cell tumor model reveals invasive morphology and increased phenotypical heterogeneity.

Sottoriva A, Verhoeff JJ, Borovski T, McWeeney SK, Naumov L, Medema JP, Sloot PM, Vermeulen L.

Cancer Res. 2010 Jan 1;70(1):46-56. doi: 10.1158/0008-5472.CAN-09-3663.

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