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Research

Publications: Dr Benjamin Werner

Lange JT, Rose JC, Chen CY, Pichugin Y, Xie L, Tang J, Hung KL, Yost KE et al. ( 2022 ) . The evolutionary dynamics of extrachromosomal DNA in human cancers . Nature Genetics vol. 54 , ( 10 ) 1527 - 1533 .
Tari H, Kessler K, Trahearn N, Werner B, Vinci M, Jones C, Sottoriva A ( 2022 ) . Quantification of spatial subclonal interactions enhancing the invasive phenotype of pediatric glioma . Cell Reports vol. 40 , ( 9 )
Househam J, Heide T, Cresswell GD, Spiteri I, Kimberley C, Zapata L, Lynn C, James C et al. ( 2022 ) . Phenotypic plasticity and genetic control in colorectal cancer evolution . Nature
Werner B ( 2021 ) . Shining light on dark selection in healthy human tissues . Nature Genetics vol. 53 , ( 11 ) 1525 - 1526 .
Reusch TBH, Baums IB, Werner B ( 2021 ) . Evolution via somatic genetic variation in modular species . Trends in Ecology & Evolution
Werner B, Case J, Williams MJ, Chkhaidze K, Temko D, Fernández-Mateos J, Cresswell GD, Nichol D et al. ( 2020 ) . Measuring single cell divisions in human tissues from multi-region sequencing data . Nature Communications vol. 11 , ( 1 )
Graham T, Eszter L, Marc W, Ryan S, William C, Jacob H, Luis Z, Benjamin W et al. ( 2020 ) . Evolutionary dynamics of neoantigens in growing tumours . Nature Genetics
Graham T, Caravagna G, Heide T, Williams M, Zapata L, Daniel N, Ketevan C, Cross W et al. ( 2020 ) . Subclonal reconstruction of tumors using machine learning and population genetics . Nature Genetics vol. 52 , 898 - 907 .
Acar A, Nichol D, Fernandez-Mateos J, Cresswell GD, Barozzi I, Hong SP, Trahearn N, Spiteri I et al. ( 2020 ) . Exploiting evolutionary steering to induce collateral drug sensitivity in cancer . Nature Communications vol. 11 , ( 1 ) Article 1923 ,
Williams MJ, Zapata L, Werner B, Barnes CP, Sottoriva A, Graham TA ( 2020 ) . Measuring the distribution of fitness effects in somatic evolution by combining clonal dynamics with dN/dS ratios . eLife vol. 9 ,
Pichugin Y, Huang W, Werner B ( 2019 ) . Stochastic dynamics of extra-chromosomal DNA .
Retel C, Kowallik V, Huang W, Werner B, Becks L, Feulner P, Huang W ( 2019 ) . The feedback between selection and demography shapes genomic diversity during coevolution . Science Advances
Chkhaidze K, Heide T, Werner B, Williams MJ, Huang W, Caravagna G, Baker A-M, Graham TA et al. ( 2019 ) . Abstract 4232: Spatially constrained tumor growth affects the patterns of clonal selection and neutral drift in cancer genomic data . Cancer Research . vol. 79 , 4232 - 4232 .
Chkhaidze K, Heide T, Werner B, Williams MJ, Huang W, Caravagna G, Graham TA, Sottoriva A ( 2019 ) . Spatially constrained tumour growth affects the patterns of clonal selection and neutral drift in cancer genomic data . PLoS Computational Biology vol. 15 , ( 7 )
Williams M, Zapata L, Werner B, Barnes C, Sottoriva A, Graham T ( 2019 ) . Measuring the distribution of fitness effects in somatic evolution by combining clonal dynamics with dN/dS ratios .
Opasic L, Zhou D, Werner B, Dingli D, Traulsen A ( 2019 ) . How many samples are needed to infer truly clonal mutations from heterogenous tumours? . BMC Cancer vol. 19 , ( 1 )
Caravagna G, Heide T, Williams M, Zapata L, Nichol D, Chkhaidze K, Cross W, Cresswell G et al. ( 2019 ) . Model-based tumor subclonal reconstruction .
Spiteri I, Caravagna G, Cresswell GD, Vatsiou A, Nichol D, Acar A, Ermini L, Chkhaidze K et al. ( 2019 ) . Evolutionary dynamics of residual disease in human glioblastoma . Annals of Oncology vol. 30 , ( 3 ) 456 - 463 .
Werner B, Case J, Williams M, Chkhaidze K, Temko D, Fernandez-Mateos J, Cresswell G, Nichol D et al. ( 2019 ) . Measuring single cell divisions in human cancers from multi-region sequencing data .
Chkhaidze K, Heide T, Werner B, Williams M, Huang W, Caravagna G, Graham T, Sottoriva A ( 2019 ) . Spatially constrained tumour growth affects the patterns of clonal selection and neutral drift in cancer genomic data .
Lakatos E, Williams M, Schenck R, Cross W, Househam J, Werner B, Gatenbee C, Robertson-Tessi M et al. ( 2019 ) . Evolutionary dynamics of neoantigens in growing tumours .
Werner B, Williams MJ, Barnes CP, Graham TA, Sottoriva A ( 2018 ) . Reply to ‘Currently available bulk sequencing data do not necessarily support a model of neutral tumor evolution’ . Nature Genetics vol. 50 , ( 12 ) 1624 - 1626 .
Heide T, Zapata L, Williams MJ, Werner B, Caravagna G, Barnes CP, Graham TA, Sottoriva A ( 2018 ) . Reply to ‘Neutral tumor evolution?’ . Nature Genetics vol. 50 , ( 12 ) 1633 - 1637 .
Williams MJ, Werner B, Heide T, Barnes CP, Graham TA, Sottoriva A ( 2018 ) . Reply to ‘Revisiting signatures of neutral tumor evolution in the light of complexity of cancer genomic data’ . Nature Genetics vol. 50 , ( 12 ) 1628 - 1630 .
Khan KH, Cunningham D, Werner B, Vlachogiannis G, Spiteri I, Heide T, Mateos JF, Vatsiou A et al. ( 2018 ) . Longitudinal liquid biopsy and mathematical modeling of clonal evolution forecast time to treatment failure in the prospect-c phase ii colorectal cancer clinical trial . Cancer Discovery vol. 8 , ( 10 ) 1270 - 1285 .
Williams MJ, Werner B, Heide T, Curtis C, Barnes CP, Sottoriva A, Graham TA ( 2018 ) . Erratum to: Quantification of subclonal selection in cancer from bulk sequencing data (Nature Genetics, (2018), 50, 6, (895-903), 10.1038/s41588-018-0128-6) . Nature Genetics vol. 50 , ( 9 )
Williams MJ, Werner B, Heide T, Curtis C, Barnes CP, Sottoriva A, Graham TA ( 2018 ) . Quantification of subclonal selection in cancer from bulk sequencing data . Nature Genetics vol. 50 , ( 6 ) 895 - 903 .
Werner B, Sottoriva A ( 2018 ) . Variation of mutational burden in healthy human tissues suggests non-random strand segregation and allows measuring somatic mutation rates . PLoS Computational Biology vol. 14 , ( 6 )
Werner B, Sottoriva A ( 2018 ) . Variation of mutational burden in healthy human tissues suggests non-random strand segregation and allows measuring somatic mutation rates .
Böttcher M, Werner B, Dingli D, Traulsen A ( 2018 ) . Replicative cellular age distributions in compartmentalised tissues .
Heide T, Zapata L, Williams M, Werner B, Barnes C, Graham T, Sottoriva A ( 2018 ) . Reply: Neutral tumor evolution? .
Böttcher MA, Dingli D, Werner B, Traulsen A ( 2018 ) . Replicative cellular age distributions in compartmentalized tissues . Journal of the Royal Society Interface vol. 15 , ( 145 )
Williams MJ, Werner B, Barnes CP, Graham TA, Sottoriva A ( 2018 ) . Reply: Is the evolution of tumors Darwinian or non-Darwinian? . National Science Review vol. 5 , ( 1 ) 17 - 19 .
Huang W, Traulsen A, Werner B, Hiltunen T, Becks L ( 2017 ) . Dynamical trade-offs arise from antagonistic coevolution and decrease intraspecific diversity . Nat Commun vol. 8 , ( 1 ) 2059 - 2059 .
Williams MJ, Werner B, Barnes CP, Graham TA, Sottoriva A ( 2017 ) . Reply: Uncertainties in tumor allele frequencies limit power to infer evolutionary pressures . Nature Genetics vol. 49 , ( 9 ) 1289 - 1291 .
Lote H, Spiteri I, Ermini L, Vatsiou A, Roy A, McDonald A, Maka N, Balsitis M et al. ( 2017 ) . Carbon dating cancer: Defining the chronology of metastatic progression in colorectal cancer . Annals of Oncology vol. 28 , ( 6 ) 1243 - 1249 .
Werner B, Traulsen A, Sottoriva A, DIngli D ( 2017 ) . Detecting truly clonal alterations from multi-region profiling of tumours . Scientific Reports vol. 7 ,
Williams M, Werner B, Curtis C, Barnes C, Sottoriva A, Graham T ( 2016 ) . Quantification of subclonal selection in cancer from bulk sequencing data .
Sottoriva A, Graham TA, Werner B, Williams M, Barnes C ( 2016 ) . Neutral Evolution in Colorectal Cancer: How Can We Distinguish Functional from Non-functional Variation? . JOURNAL OF PATHOLOGY . vol. 240 , 7 - 7 .
Werner B, Traulsen A, Dingli D ( 2016 ) . Response to the Editor: On the Growth of Hematopoietic Stem Cells and Childhood Leukemias . Stem Cells vol. 34 , ( 10 )
Hindersin L, Werner B, Dingli D, Traulsen A ( 2016 ) . Should tissue structure suppress or amplify selection to minimize cancer risk? . Biology Direct vol. 11 , ( 1 )
Williams MJ, Werner B, Graham TA, Sottoriva A ( 2016 ) . Functional versus non-functional intratumor heterogeneity in cancer . Molecular & Cellular Oncology vol. 3 , ( 4 ) e1162897 - e1162897 .
Werner B, Scott JG, Sottoriva A, Anderson ARA, Traulsen A, Altrock PM ( 2016 ) . The cancer stem cell fraction in hierarchically organized tumors can be estimated using mathematical modeling and patient-specific treatment trajectories . Cancer Research vol. 76 , ( 7 ) 1705 - 1713 .
Williams MJ, Werner B, Barnes CP, Graham TA, Sottoriva A ( 2016 ) . Identification of neutral tumor evolution across cancer types . Nature Genetics vol. 48 , ( 3 ) 238 - 244 .
Werner B, Traulsen A, Dingli D ( 2016 ) . Ontogenic growth as the root of fundamental differences between childhood and adult cancer . Stem Cells vol. 34 , ( 3 ) 543 - 550 .
Werner B, Beier F, Hummel S, Balabanov S, Lassay L, Orlikowsky T, Dingli D, Brümmendorf TH et al. ( 2015 ) . Reconstructing the in vivo dynamics of hematopoietic stem cells from telomere length distributions . eLife vol. 4 , ( OCTOBER2015 )
Werner B, Gallagher RE, Paietta EM, Litzow MR, Tallman MS, Wiernik PH, Slack JL, Willman CL et al. ( 2014 ) . Dynamics of leukemia stem-like cell extinction in acute promyelocytic leukemia . Cancer Research vol. 74 , ( 19 ) 5386 - 5396 .
Schulz R, Werner B, Behn U ( 2014 ) . Self-tolerance in a minimal model of the idiotypic network . Frontiers in Immunology vol. 5 , ( MAR )
Werner B, Dingli D, Traulsen A ( 2013 ) . A deterministic model for the occurrence and dynamics of multiple mutations in hierarchically organized tissues . Journal of the Royal Society Interface vol. 10 , ( 85 )
Huang W, Werner B, Traulsen A ( 2012 ) . The impact of random frequency-dependent mutations on the average population fitness . BMC Evolutionary Biology vol. 12 , ( 1 )
Werner B, Lutz D, Brümmendorf TH, Traulsen A, Balabanov S ( 2011 ) . Dynamics of resistance development to imatinib under increasing selection pressure: A combination of mathematical models and in vitro data . PLoS ONE vol. 6 , ( 12 )
Werner B, Dingli D, Lenaerts T, Pacheco JM, Traulsen A ( 2011 ) . Dynamics of mutant cells in hierarchical organized tissues . PLoS Computational Biology vol. 7 , ( 12 )