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Research

Publications: Prof Trevor Graham

Lakatos E, Hockings H, Mossner M, Huang W, Lockley M, Graham TA ( 2021 ) . LiquidCNA: Tracking subclonal evolution from longitudinal liquid biopsies using somatic copy number alterations . iScience vol. 24 , ( 8 )
Bollen Y, Stelloo E, van Leenen P, van den Bos M, Ponsioen B, Lu B, van Roosmalen MJ, Bolhaqueiro ACF et al. ( 2021 ) . Reconstructing single-cell karyotype alterations in colorectal cancer identifies punctuated and gradual diversification patterns . Nature Genetics vol. 53 , ( 8 ) 1187 - 1195 .
Yalchin M, Baker AM, Graham TA, Hart A ( 2021 ) . Predicting colorectal cancer occurrence in ibd . Cancers vol. 13 , ( 12 )
Curtius K, Kabir M, Al Bakir I, Choi CHR, Hartono JL, Johnson M, East JE, Lindsay JO et al. ( 2021 ) . Multicentre derivation and validation of a colitis-associated colorectal cancer risk prediction web tool . Gut
Mossner M, Baker A-MC, Graham TA ( 2021 ) . The role of single-cell sequencing in studying tumour evolution . Fac Rev vol. 10 ,
Temko D, Tomlinson IPM, Severini S, Schuster-Böckler B, Graham TA ( 2020 ) . Author Correction: The effects of mutational processes and selection on driver mutations across cancer types (Nature Communications, (2018), 9, 1, (1857), 10.1038/s41467-018-04208-6) . Nature Communications vol. 11 , ( 1 )
Sequeira I, Rashid M, Tomás IM, Williams MJ, Graham TA, Adams DJ, Vigilante A, Watt FM ( 2020 ) . Genomic landscape and clonal architecture of mouse oral squamous cell carcinomas dictate tumour ecology . Nature Communications vol. 11 , ( 1 )
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 )
Caravagna G, Sanguinetti G, Graham TA, Sottoriva A ( 2020 ) . The MOBSTER R package for tumour subclonal deconvolution from bulk DNA whole-genome sequencing data . BMC Bioinformatics vol. 21 , ( 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 .
Lupo B, Sassi F, Pinnelli M, Galimi F, Zanella ER, Vurchio V, Migliardi G, Gagliardi PA et al. ( 2020 ) . Colorectal cancer residual disease at maximal response to EGFR blockade displays a druggable Paneth cell–like phenotype . Science Translational Medicine vol. 12 , ( 555 )
Graham TA, Shibata D ( 2020 ) . Navigating the path to distant metastasis . Nature Genetics vol. 52 , ( 7 ) 642 - 643 .
Graham TA, McClelland SE ( 2020 ) . Strands of evidence about cancer evolution . Nature vol. 583 , ( 7815 ) 207 - 209 .
Araf S, Korfi K, Bewicke-Copley F, Wang J, Cogliatti S, Kumar E, Forrer F, Barrington SF et al. ( 2020 ) . Genetic heterogeneity highlighted by differential FDG-PET response in diffuse large B-cell lymphoma . Haematologica vol. 105 , ( 6 ) E318 - E321 .
Cross W, Mossner M, Nowinski S, Cresswell G, Banerjee A, Williams M, Gay L, Baker A-M et al. ( 2020 ) . Stabilising selection causes grossly altered but stable karyotypes in metastatic colorectal cancer .
Demircioglu F, Wang J, Candido J, Costa ASH, Casado P, de Luxan Delgado B, Reynolds LE, Gomez-Escudero J et al. ( 2020 ) . Cancer associated fibroblast FAK regulates malignant cell metabolism . Nature Communications vol. 11 , ( 1 ) 1290 - 1290 .
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 ,
Turajlic S, Sottoriva A, Graham T, Swanton C ( 2020 ) . Author Correction: Resolving genetic heterogeneity in cancer (Nature Reviews Genetics, (2019), 20, 7, (404-416), 10.1038/s41576-019-0114-6) . Nature Reviews Genetics vol. 21 , ( 1 )
Baker AM, Graham TA ( 2020 ) . Concurrent in situ analysis of point mutations and immune infiltrate in FFPE cancers . Methods in Enzymology , vol. 636 ,
Baker AM, Graham TA ( 2020 ) . In Situ Point Mutation Detection in FFPE Colorectal Cancers Using the BaseScope Assay . vol. 2148 , 349 - 360 .
Saunderson EA, Baker A-M, Williams M, Curtius K, Jones JL, Graham TA, Ficz G ( 2019 ) . A novel use of random priming-based single-strand library preparation for whole genome sequencing of formalin-fixed paraffin-embedded tissue samples . Nar Genomics and Bioinformatics vol. 2 , ( 1 ) lqz017 - lqz017 .
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 )
Araf S, Wang J, Korfi K, Pangault C, Kotsiou E, Rio-Machin A, Rahim T, Heward J et al. ( 2019 ) . Correction: Genomic profiling reveals spatial intra-tumor heterogeneity in follicular lymphoma (Leukemia, (2018), 32, 5, (1261-1265), 10.1038/s41375-018-0043-y) . Leukemia vol. 33 , ( 6 )
Baker AM, Cross W, Curtius K, Al Bakir I, Choi CHR, Davis HL, Temko D, Biswas S et al. ( 2019 ) . Evolutionary history of human colitis-associated colorectal cancer . Gut vol. 68 , ( 6 ) 985 - 995 .
Schenck RO, Lakatos E, Gatenbee C, Graham TA, Anderson ARA ( 2019 ) . NeoPredPipe: High-throughput neoantigen prediction and recognition potential pipeline . BMC Bioinformatics vol. 20 , ( 1 )
Baker A-M, Cereser B, Melton S, Fletcher AG, Rodriguez-Justo M, Tadrous PJ, Humphries A, Elia G et al. ( 2019 ) . Quantification of Crypt and Stem Cell Evolution in the Normal and Neoplastic Human Colon . Cell Rep vol. 27 , ( 8 ) 2524 - 2524 .
Williams MJ, Sottoriva A, Graham TA ( 2019 ) . Measuring Clonal Evolution in Cancer with Genomics . Annual Review of Genomics and Human Genetics
Araf S, Wang J, Ashton-Key M, Korfi K, Di Bella D, Rio-Machin A, Odabashian M, Foria V et al. ( 2019 ) . Transmission of diffuse large B-cell lymphoma by an allogeneic stem-cell transplant . Haematologica vol. 104 , ( 4 ) e174 - e177 .
Turajlic S, Sottoriva A, Graham T, Swanton C ( 2019 ) . Resolving genetic heterogeneity in cancer . Nature Reviews Genetics vol. 20 , ( 7 ) 404 - 416 .
Heide T, Maurer A, Eipel M, Knoll K, Geelvink M, Veeck J, Knuechel R, van Essen J et al. ( 2019 ) . Multiregion human bladder cancer sequencing reveals tumour evolution, bladder cancer phenotypes and implications for targeted therapy . Journal of Pathology vol. 248 , ( 2 ) 230 - 242 .
Choi CHR, Al Bakir I, Ding NSJ, Lee GH, Askari A, Warusavitarne J, Moorghen M, Humphries A et al. ( 2019 ) . Cumulative burden of inflammation predicts colorectal neoplasia risk in ulcerative colitis: A large single-centre study . Gut vol. 68 , ( 3 ) 414 - 422 .
Baker AM, Gabbutt C, Williams MJ, Cereser B, Jawad N, Rodriguez-Justo M, Jansen M, Barnes CP et al. ( 2019 ) . Crypt fusion as a homeostatic mechanism in the human colon . Gut vol. 68 , ( 11 ) 1986 - 1993 .
Martinez P, Mallo D, Paulson TG, Li X, Sanchez CA, Reid BJ, Graham TA, Kuhner MK et al. ( 2018 ) . Evolution of Barrett's esophagus through space and time at single-crypt and whole-biopsy levels . Nature Communications vol. 9 , ( 1 )
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 .
Al Bakir I, Curtius K, Graham TA ( 2018 ) . From Colitis to Cancer: An Evolutionary Trajectory That Merges Maths and Biology . Frontiers in Immunology vol. 9 , 2368 - 2368 .
Caravagna G, Giarratano Y, Ramazzotti D, Tomlinson I, Graham TA, Sanguinetti G, Sottoriva A ( 2018 ) . Detecting repeated cancer evolution from multi-region tumor sequencing data . Nature Methods vol. 15 , ( 9 ) 707 - 714 .
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 )
Caravagna G, Giarratano Y, Ramazzotti D, Graham TA, Sanguinetti G, Sottoriva A ( 2018 ) . Detecting repeated cancer evolution in human tumours from multi-region sequencing data . Nature Methods vol. 15 , 707 - 714 .
Cross W, Kovac M, Mustonen V, Temko D, Davis H, Baker A-M, Biswas S, Arnold R et al. ( 2018 ) . The evolutionary landscape of colorectal tumorigenesis . Nat Ecol Evol vol. 2 , ( 10 ) 1661 - 1672 .
Foxler DE, Bridge KS, Foster JG, Grevitt P, Curry S, Shah KM, Davidson KM, Nagano A et al. ( 2018 ) . A HIF-LIMD1 negative feedback mechanism mitigates the pro-tumorigenic effects of hypoxia . EMBO Mol Med
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 .
Temko D, Tomlinson IPM, Severini S, Schuster-Böckler B, Graham TA ( 2018 ) . The effects of mutational processes and selection on driver mutations across cancer types . Nat Commun vol. 9 , ( 1 ) 1857 - 1857 .
Araf S, Wang J, Korfi K, Pangault C, Kotsiou E, Rio-Machin A, Rahim T, Heward J et al. ( 2018 ) . Genomic profiling reveals spatial intra-tumor heterogeneity in follicular lymphoma . Leukemia vol. 32 , ( 5 ) 1258 - 1263 .
Temko D, Van Gool IC, Rayner E, Glaire M, Makino S, Brown M, Chegwidden L, Palles C et al. ( 2018 ) . Somatic POLE exonuclease domain mutations are early events in sporadic endometrial and colorectal carcinogenesis, determining driver mutational landscape, clonal neoantigen burden and immune response . J Pathol vol. 245 , ( 3 ) 283 - 296 .
Curtius K, Wright NA, Graham TA ( 2018 ) . An evolutionary perspective on field cancerization . Nat Rev Cancer vol. 18 , ( 1 ) 19 - 32 .
Quante M, Graham TA, Jansen M ( 2018 ) . Insights Into the Pathophysiology of Esophageal Adenocarcinoma . Gastroenterology vol. 154 , ( 2 ) 406 - 420 .
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 .
Baker A-M, Huang W, Wang X-MM, Jansen M, Ma X-J, Kim J, Anderson CM, Wu X et al. ( 2017 ) . Robust RNA-based in situ mutation detection delineates colorectal cancer subclonal evolution . Nat Commun vol. 8 , ( 1 ) 1998 - 1998 .
Curtius K, Wright NA, Graham TA ( 2017 ) . Evolution of premalignant disease . Cold Spring Harbor Perspectives in Medicine vol. 7 , ( 12 )
Maley CC, Aktipis A, Graham TA, Sottoriva A, Boddy AM, Janiszewska M, Silva AS, Gerlinger M et al. ( 2017 ) . Classifying the evolutionary and ecological features of neoplasms . Nat Rev Cancer vol. 17 , ( 10 ) 605 - 619 .
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 .
Sun R, Hu Z, Sottoriva A, Graham TA, Harpak A, Ma Z, Fischer JM, Shibata D et al. ( 2017 ) . Between-region genetic divergence reflects the mode and tempo of tumor evolution . Nature Genetics vol. 49 , ( 7 ) 1015 - 1024 .
Martinez P, Kimberley C, BirkBak NJ, Marquard A, Szallasi Z, Graham TA ( 2017 ) . Quantification of within-sample genetic heterogeneity from SNP-array data . Sci Rep vol. 7 , ( 1 ) 3248 - 3248 .
Choi CHR, Bakir IA, Hart AL, Graham TA ( 2017 ) . Clonal evolution of colorectal cancer in IBD . Nature Reviews Gastroenterology and Hepatology vol. 14 , ( 4 ) 218 - 229 .
Baker A-M, Davis CHRCH, Al-Bakir I, Martinez P, Temko D, Cross W, Williams M, Biswas S et al. ( 2017 ) . MULTI-REGION EXOME SEQUENCING REVEALS THE CLONAL EVOLUTION OF COLITIS-ASSOCIATED COLORECTAL CANCER . GASTROENTEROLOGY . Conference: Pathological Society vol. 152 , S983 - S984 .
Graham TA ( 2017 ) . Grading Cancer Evolution for Prognostication . JOURNAL OF PATHOLOGY . vol. 241 , S3 - S3 .
Temko D, Schuster-Boeckler B, Severini S, Tomlinson I, Graham TA ( 2017 ) . Mutation Signatures Linked to Polymerase Epsilon Defects and APOBEC Cytidine Deaminase Activity Occur Early in a Range of Cancer Types . JOURNAL OF PATHOLOGY . vol. 241 , S10 - S10 .
Shah V, Nowinski S, Levi D, Shinomiya I, Kebaier Ep Chaabouni N, Gillett C, Grigoriadis A, Graham TA et al. ( 2017 ) . PIK3CA mutations are common in lobular carcinoma in situ, but are not a biomarker of progression . Breast Cancer Research vol. 19 , ( 1 )
Sottoriva A, Barnes CP, Graham TA ( 2017 ) . Catch my drift? Making sense of genomic intra-tumour heterogeneity . Biochim Biophys Acta vol. 1867 , ( 2 ) 95 - 100 .
GRAHAM TA, Sottoriva A ( 2016 ) . Measuring cancer evolution from the genome . Journal of Pathology
Martinez P, Timmer MR, Lau CT, Maley CC, Graham TA, Krishnadath KK ( 2016 ) . Longitudinal Single Cell Clonal Analyis Reveals Evolutionary Stasis and Predetermined Malignant Potential in Non-Dysplastic Barrett's Esophagus . JOURNAL OF PATHOLOGY . vol. 240 , 18 - 18 .
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 .
Cross W, Graham TA, Wright NA ( 2016 ) . New paradigms in clonal evolution: punctuated equilibrium in cancer . Journal of Pathology
Martinez P, Timmer MR, Lau CT, Calpe S, Sancho-Serra MDC, Straub D, Baker A-M, Meijer SL et al. ( 2016 ) . Dynamic clonal equilibrium and predetermined cancer risk in Barrett’s oesophagus . Nature Communications vol. 7 , 12158 - 12158 .
Lavery DL, Martinez P, Gay LJ, Cereser B, Novelli MR, Rodriguez-Justo M, Meijer SL, Graham TA et al. ( 2016 ) . Evolution of oesophageal adenocarcinoma from metaplastic columnar epithelium without goblet cells in Barrett's oesophagus . Gut vol. 65 , ( 6 ) 907 - 913 .
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 .
Findlay JM, Castro-Giner F, Makino S, Rayner E, Kartsonaki C, Cross W, Kovac M, Ulahannan D et al. ( 2016 ) . Differential clonal evolution in oesophageal cancers in response to neo-adjuvant chemotherapy . Nature Communications vol. 7 , 11111 - 11111 .
Dhawan A, Graham TA, Fletcher AG ( 2016 ) . A computational modeling approach for deriving biomarkers to predict cancer risk in premalignant disease . Cancer Prevention Research vol. 9 , ( 4 ) 283 - 295 .
Baker AM, Graham TA ( 2016 ) . Quantifying human intestinal stem cell and crypt dynamics: The implications for cancer screening and prevention . Expert Review of Gastroenterology and Hepatology vol. 10 , ( 3 ) 277 - 279 .
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 .
King L, Marks J, Hall A, Temko D, Graham T, Mardis E, Maley C, Hwang E ( 2016 ) . Abstract P6-05-03: Genomic diversity of ductal carcinoma in situ (DCIS) as a driver of invasion and metastasis .
Andor N, Graham TA, Jansen M, Xia LC, Aktipis CA, Petritsch C, Ji HP, Maley CC ( 2016 ) . Pan-cancer analysis of the extent and consequences of intratumor heterogeneity . Nature Medicine vol. 22 , ( 1 ) 105 - 113 .
Gay L, Baker AM, Graham TA ( 2016 ) . Tumour Cell Heterogeneity . F1000Research vol. 5 ,
Andor N, Graham TA, Petritsch C, Ji* HP, Maley* CC ( 2015 ) . Abstract A1-54: Pan-cancer analysis of the etiology and consequences of intratumor heterogeneity .
Sottoriva A, Kang H, Ma Z, Graham TA, Salomon M, Zhao J, Marjoram P, Siegmund K et al. ( 2015 ) . Abstract B2-23: A Big Bang model of human colorectal tumor growth .
Andor N, Graham TA, Petritsch C, Ji* HP, Maley* CC ( 2015 ) . Abstract PR03: Pan-cancer analysis of the etiology and consequences of intra-tumor heterogeneity . pr03 - pr03 .
Choi CHR, Ignjatovic-Wilson A, Askari A, Lee GH, Warusavitarne J, Moorghen M, Thomas-Gibson S, Saunders BP et al. ( 2015 ) . Low-grade dysplasia in ulcerative colitis: Risk factors for developing high-grade dysplasia or colorectal cancer . American Journal of Gastroenterology vol. 110 , ( 10 ) 1461 - 1471 .
Jansen M, McDonald SA, Lavery D, Wright NA, Martinez P, Graham TA, Gay LJ ( 2015 ) . Spatial Sampling in Barrett's Oesophagus Shows Clonal Evolution of Oesophageal Adenocarcinoma from Metaplastic Non-Goblet Columnar Epithelium . JOURNAL OF PATHOLOGY . vol. 237 , S21 - S21 .
Andor N, Graham TA, Aktipis AC, Petritsch C, Ji HP, Maley CC ( 2015 ) . Abstract LB-163: Pan-cancer analysis of the causes and consequences of Intra-tumor heterogeneity .
Caulin AF, Graham TA, Wang LS, Maley CC ( 2015 ) . Solutions to peto’s paradox revealed by mathematical modelling and cross-species cancer gene analysis . Philosophical Transactions of the Royal Society B: Biological Sciences vol. 370 , ( 1673 )
Timmer MR, Martinez P, Lau CT, Westra WM, Calpe S, Rygiel AM, Rosmolen WD, Meijer SL et al. ( 2015 ) . Derivation of genetic biomarkers for cancer risk stratification in Barrett's oesophagus: A prospective cohort study . Gut vol. 65 , ( 10 ) 1602 - 1610 .
Asfaha S, Hayakawa Y, Muley A, Stokes S, Graham TA, Ericksen RE, Westphalen CB, Von Burstin J et al. ( 2015 ) . Krt19<sup>+</sup>/Lgr5<sup>-</sup> Cells Are Radioresistant Cancer-Initiating Stem Cells in the Colon and Intestine . Cell Stem Cell vol. 16 , ( 6 ) 627 - 638 .
Choi CHR, Wilson A, Rutter M, Thomas-Gibson S, Warusavitarne J, Moorghen M, Saunders BP, Graham TA et al. ( 2015 ) . Su1653 Low-Grade Dysplasia in Ulcerative Colitis: Shape and Size of the Lesion, and Previous Episode of Indefinite Dysplasia Are Important Predictors for Progression to High-grade Dysplasia or Cancer . Gastrointestinal Endoscopy . vol. 81 ,
Sottoriva A, Kang H, Ma Z, Graham TA, Salomon MP, Zhao J, Marjoram P, Siegmund K et al. ( 2015 ) . A big bang model of human colorectal tumor growth . Nature Genetics vol. 47 , ( 3 ) 209 - 216 .
Worthley DL, Churchill M, Compton JT, Tailor Y, Rao M, Si Y, Levin D, Schwartz MG et al. ( 2015 ) . Gremlin 1 identifies a skeletal stem cell with bone, cartilage, and reticular stromal potential . Cell vol. 160 , ( 1-2 ) 269 - 284 .
Baker AM, Graham TA, Elia G, Wright NA, Rodriguez-Justo M ( 2015 ) . Characterization of LGR5 stem cells in colorectal adenomas and carcinomas . Scientific Reports vol. 5 ,
Choi CHR, Rutter MD, Askari A, Lee GH, Warusavitarne J, Moorghen M, Thomas-Gibson S, Saunders BP et al. ( 2015 ) . Forty-year analysis of colonoscopic surveillance program for neoplasia in ulcerative colitis: An updated overview . American Journal of Gastroenterology vol. 110 , ( 7 ) 1022 - 1034 .
McDonald SAC, Graham TA, Lavery DL, Wright NA, Jansen M ( 2015 ) . The Barrett's Gland in Phenotype Space . Cellular and Molecular Gastroenterology and Hepatology vol. 1 , ( 1 ) 41 - 54 .
Baker AM, Graham TA ( 2014 ) . Revealing human intestinal stem cell and crypt dynamics . Molecular and Cellular Oncology vol. 1 , ( 3 )
Walther V, Graham TA ( 2014 ) . Location, location, location! The reality of life for an intestinal stem cell in the crypt . J Pathol vol. 234 , ( 1 ) 1 - 4 .
Baker A-M, Cereser B, Melton S, Fletcher AG, Rodriguez-Justo M, Tadrous PJ, Humphries A, Elia G et al. ( 2014 ) . Quantification of crypt and stem cell evolution in the normal and neoplastic human colon . Cell Rep vol. 8 , ( 4 ) 940 - 947 .
Pipinikas CP, Kiropoulos TS, Teixeira VH, Brown JM, Varanou A, Falzon M, Capitanio A, Bottoms SE et al. ( 2014 ) . Cell migration leads to spatially distinct but clonally related airway cancer precursors . Thorax vol. 69 , ( 6 ) 548 - 557 .
Jawad N, Graham TA, McDonald SAC, Wright NA ( 2014 ) . Re: Mitochondria and tumor progression in ulcerative colitis . J Natl Cancer Inst vol. 106 , ( 2 )
Pipinikas CP, Kiropoulos TS, Teixeira VH, Brown JM, Varanou A, Falzon M, Capitanio A, Bottoms SE et al. ( 2014 ) . Cell migration leads to spatially distinct but clonally related airway cancer precursors . Thorax vol. 69 , ( 6 ) 548 - 557 .
Teixeira V, Nadarajan P, Graham TA, Pipinikas CP, Brown JM, Falzon M, Nye E, Poulsom R et al. ( 2013 ) . LINEAGE TRACING IN HUMANS REVEALS STOCHASTIC HOMEOSTASIS OF AIRWAY EPITHELIUM RESULTING FROM NEUTRAL COMPETITION OF BASAL CELL PROGENITORS . THORAX . vol. 68 , A68 - A68 .
Shaw JA, Graham TA, Stebbing J ( 2013 ) . Genomic instability in pre-neoplastic colonic lesions . Oncogene vol. 32 , ( 46 ) 5331 - 5332 .
Teixeira VH, Nadarajan P, Graham TA, Pipinikas CP, Brown JM, Falzon M, Nye E, Poulsom R et al. ( 2013 ) . Stochastic homeostasis in human airway epithelium is achieved by neutral competition of basal cell progenitors . Elife vol. 2 ,
Zeki SS, Haidry R, Graham TA, Rodriguez-Justo M, Novelli M, Hoare J, Dunn J, Wright NA et al. ( 2013 ) . Clonal selection and persistence in dysplastic Barrett's esophagus and intramucosal cancers after failed radiofrequency ablation . American Journal of Gastroenterology vol. 108 , ( 10 ) 1584 - 1592 .
Zeki SS, Haidry R, Graham TA, Rodriguez-Justo M, Novelli M, Hoare J, Dunn J, Wright NA et al. ( 2013 ) . Clonal selection and persistence in dysplastic Barrett's esophagus and intramucosal cancers after failed radiofrequency ablation . Am J Gastroenterol vol. 108 , ( 10 ) 1584 - 1592 .
Khan S, McDonald SAC, Wright NA, Graham TA, Odze RD, Rodriguez-Justo M, Zeki S ( 2013 ) . Crypt dysplasia in Barrett's oesophagus shows clonal identity between crypt and surface cells . JOURNAL OF PATHOLOGY vol. 231 , ( 1 ) 98 - 104 .
Humphries A, Cereser B, Gay LJ, Miller DSJ, Das B, Gutteridge A, Elia G, Nye E et al. ( 2013 ) . Lineage tracing reveals multipotent stem cells maintain human adenomas and the pattern of clonal expansion in tumor evolution . Proc Natl Acad Sci U S A vol. 110 , ( 27 ) E2490 - E2499 .
Khan S, McDonald S, Wright NA, Robert OD, Rodriguez-Justo M, Graham TA, Zeki S ( 2013 ) . CRYPT CELL DYSPLASIA WITH MATURATION IN BARRETT'S ESOPHAGUS SHOWS CLONAL IDENTITY BETWEEN THE CRYPT AND SURFACE CELLS . GUT . vol. 62 , A198 - A199 .
Cereser B, Baker A-MC, Tadrous PJ, Humphries A, Novelli M, Rodriguez-Justo M, Graham TA, McDonald SA et al. ( 2013 ) . TWO DIMENSIONAL MAPPING OF MUTANT CLONES IN HUMAN COLONIC CRYPTS REVEAL STEM CELL DYNAMICS AND MIGRATION PATTERNS . GUT . vol. 62 , A194 - A195 .
Willis L, Graham TA, Alarcon T, Alison MR, Tomlinson IPM, Page KM ( 2013 ) . What Can Be Learnt about Disease Progression in Breast Cancer Dormancy from Relapse Data? . PLOS ONE vol. 8 , ( 5 ) Article ARTN e62320 ,
Wright NA, Khan S, McDonald SAC, Galandiuk S, Graham TA, Odze RD, Rodriguez-Justo M, Zeki S ( 2013 ) . Crypt Cell Dysplasia with Maturation in Barrett's Esophagus Shows Clonal Identity between the Crypt and Surface Cells . JOURNAL OF PATHOLOGY . vol. 229 , S6 - S6 .
Lu L, Teixeira VH, Yuan Z, Graham TA, Endesfelder D, Kolluri K, Al-Juffali N, Hamilton N et al. ( 2013 ) . LRIG1 regulates cadherin-dependent contact inhibition directing epithelial homeostasis and pre-invasive squamous cell carcinoma development . Journal of Pathology vol. 229 , ( 4 ) 608 - 620 .
Baker A-M, Graham TA, Wright NA ( 2013 ) . Pre-tumour clones, periodic selection and clonal interference in the origin and progression of gastrointestinal cancer: potential for biomarker development . J Pathol vol. 229 , ( 4 ) 502 - 514 .
Leedham SJ, Rodenas-Cuadrado P, Howarth K, Lewis A, Mallappa S, Segditsas S, Davis H, Jeffery R et al. ( 2013 ) . A basal gradient of Wnt and stem-cell number influences regional tumour distribution in human and mouse intestinal tracts . Gut vol. 62 , ( 1 ) 83 - 93 .
S Datta R, Gutteridge A, Swanton C, Maley CC, Graham TA ( 2013 ) . Modelling the evolution of genetic instability during tumour progression . Evol Appl vol. 6 , ( 1 ) 20 - 33 .
Nicholson AM, Graham TA, Simpson A, Humphries A, Burch N, Rodriguez-Justo M, Novelli M, Harrison R et al. ( 2012 ) . Barrett's metaplasia glands are clonal, contain multiple stem cells and share a common squamous progenitor . Gut vol. 61 , ( 10 ) 1380 - 1389 .
Gilbertson RJ, Graham TA ( 2012 ) . Cancer: Resolving the stem-cell debate . Nature vol. 488 , ( 7412 ) 462 - 463 .
Gilbertson RJ, Graham TA ( 2012 ) . Cancer: Resolving the stem-cell debate . Nature
Humphries A, Graham TA, Cereser B, McDonald SA, Wright NA ( 2012 ) . HUMAN COLORECTAL ADENOMA GROWTH IS CHARACTERISED BY PERIODS OF QUIESCENCE AND RAPID CLONAL EXPANSION . GUT vol. 61 , A7 - A8 .
Galandiuk S, Rodriguez-Justo M, Jeffery R, Nicholson AM, Cheng Y, Oukrif D, Elia G, Leedham SJ et al. ( 2012 ) . Field cancerization in the intestinal epithelium of patients with Crohn's ileocolitis . Gastroenterology vol. 142 , ( 4 ) 855 - 864.e8 .
Zeki S, Graham TA, McDonald SAC ( 2012 ) . Utilizing DNA mutations to trace epithelial cell lineages in human tissues . Methods Mol Biol vol. 916 , 289 - 301 .
Zeki SS, McDonald SA, Graham TA ( 2011 ) . Field cancerization in Barrett's esophagus . Discov Med vol. 12 , ( 66 ) 371 - 379 .
Gaisa NT, Graham TA, McDonald SA, Poulsom R, Heidenreich A, Jakse G, Knuechel R, Wright NA ( 2011 ) . Clonal architecture of human prostatic epithelium in benign and malignant conditions . J Pathol vol. 225 , ( 2 ) 172 - 180 .
Gaisa NT, Graham TA, McDonald SAC, Cañadillas-Lopez S, Poulsom R, Heidenreich A, Jakse G, Tadrous PJ et al. ( 2011 ) . The human urothelium consists of multiple clonal units, each maintained by a stem cell . J Pathol vol. 225 , ( 2 ) 163 - 171 .
Graham TA, McDonald SA, Wright NA ( 2011 ) . Field cancerization in the GI tract . Future Oncol vol. 7 , ( 8 ) 981 - 993 .
Endesfelder D, McGranahan N, Birkbak NJ, Szallasi Z, Kschischo M, Graham TA, Swanton C ( 2011 ) . A breast cancer meta-analysis of two expression measures of chromosomal instability reveals a relationship with younger age at diagnosis and high risk histopathological variables . Oncotarget vol. 2 , ( 7 ) 529 - 537 .
Gutierrez-Gonzalez L, Graham TA, Rodriguez-Justo M, Leedham SJ, Novelli MR, Gay LJ, Ventayol-Garcia T, Green A et al. ( 2011 ) . The clonal origins of dysplasia from intestinal metaplasia in the human stomach . Gastroenterology vol. 140 , ( 4 )
Graham TA, Humphries A, Sanders T, Rodriguez-Justo M, Tadrous PJ, Preston SL, Novelli MR, Leedham SJ et al. ( 2011 ) . Use of methylation patterns to determine expansion of stem cell clones in human colon tissue . Gastroenterology vol. 140 , ( 4 )
Zeki SS, Graham TA, Wright NA ( 2011 ) . Stem cells and their implications for colorectal cancer . Nat Rev Gastroenterol Hepatol vol. 8 , ( 2 ) 90 - 100 .
Nicholson AM, Graham TA, Simpson A, Humphries A, Burch N, Rodriguez-Justo M, Novelli M, Harrison R et al. ( 2011 ) . Barrett's metaplasia glands are clonal, contain multiple stem cells and share a common squamous progenitor . Gut
Humphries A, Graham TA, McDonald SAC ( 2011 ) . Stem cells and inflammation in the intestine . Recent Results Cancer Res vol. 185 , 51 - 63 .
Graham TA, Leedham SJ ( 2010 ) . Field defects in DNA repair: is loss of MGMT an initial event in colorectal carcinogenesis? . Gut vol. 59 , ( 11 ) 1452 - 1453 .
Nicholson A, Graham T, Simpson A, Humphries A, Wright N, McDonald S, Jankowski J ( 2010 ) . Analysis of the Clonality of Barrett's Oesophagus Glands Reveals They are Clonal Units and Establishes a Common Stem Cell for Glandular and Squamous Epithelium . JOURNAL OF PATHOLOGY . vol. 222 , S17 - S18 .
Graham T, Galandiuk S, McDonald S, Leedham S, Wright N ( 2010 ) . Field Cancerization in Crohn's Disease . JOURNAL OF PATHOLOGY . vol. 222 , S15 - S16 .
Graham T, Khan S, Oukrif D, Green A, Jankowski J, Barr H, Novelli M, Shepherd N et al. ( 2010 ) . Investigating Clonal Dynamics in Barrett's Associated tumorigenesis Using Spatial Maps of Genetic Heterogeneity . JOURNAL OF PATHOLOGY . vol. 222 , S9 - S9 .
Nicholson A, Harrison L, Barr H, Graham T, McDonald S, Wright N, Harrison R, Jankowski J ( 2010 ) . Pulse Chase Experiments Using IUdR Identifies Barrett's Label-Retaining Stem Cells . JOURNAL OF PATHOLOGY . vol. 222 , S16 - S16 .
McDonald S, Jeffery R, Humphries A, Leedham S, Graham T, Segditsas S, Lewis A, Nicholson A et al. ( 2010 ) . Stem Cell Location Throughout the Human Gastrointestinal Tract as Defined by LGR5 mRNA In Situ Hybridisation . JOURNAL OF PATHOLOGY . vol. 222 , S12 - S12 .
Gaisa N, Graham T, McDonald S, Knuechel R, Wright N ( 2010 ) . Stem Cell Niches in the Bladder? The Clonal Organization of Human Urothelium . JOURNAL OF PATHOLOGY . vol. 222 , S47 - S47 .
Jankowski J, Graham T, Harrison R ( 2010 ) . Authors' response . Gut vol. 59 , ( 8 )
Willis L, Alarcón T, Elia G, Jones JL, Wright NA, Tomlinson IPM, Graham TA, Page KM ( 2010 ) . Breast cancer dormancy can be maintained by small numbers of micrometastases . Cancer Res vol. 70 , ( 11 ) 4310 - 4317 .
Graham TA, Jawad N, Wright NA ( 2010 ) . Spindles losing their bearings: Does disruption of orientation in stem cells predict the onset of cancer? . BIOESSAYS vol. 32 , ( 6 ) 468 - 472 .
Gutierrez-Gonzalez L, Graham TA, Rodriguez-Justo M, Green A, Gay LJ, Ventayol-Garcia T, Novelli M, Hashemi M et al. ( 2010 ) . CLONAL ORIGINS OF DYSPLASIA FROM METAPLASIA IN THE HUMAN STOMACH . GUT . vol. 59 , A17 - A18 .
Thirlwell C, Will OCC, Domingo E, Graham TA, McDonald SAC, Oukrif D, Jeffrey R, Gorman M et al. ( 2010 ) . Clonality assessment and clonal ordering of individual neoplastic crypts shows polyclonality of colorectal adenomas . Gastroenterology vol. 138 , ( 4 ) 1441 - 1454.e7 .
Graham TA, McDonald SAC ( 2010 ) . Genetic diversity during the development of Barrett's oesophagus-associated adenocarcinoma: how, when and why? . Biochem Soc Trans vol. 38 , ( 2 ) 374 - 379 .
Graham TA, Khan S, Green A, Oukrif D, Gay L, Barr H, Novelli M, Jankowski J et al. ( 2010 ) . INVESTIGATING CLONAL COMPETITION IN BARRETT'S ASSOCIATED TUMORIGENESIS USING SPATIAL MAPS OF GENETIC HETEROGENEITY . GUT . vol. 59 , A111 - A111 .
Nicholson AM, Graham TA, Simpson AI, Humphries A, Wright NA, McDonald SAC, Jankowski JA ( 2010 ) . PWE-085 Analysis of the clonality of Barrett's oesophagus glands reveals they are clonal and establishes a common stem cell for glandular and squamous epithelium . Gut . vol. 59 ,
Lin WR, Lim SN, McDonald SAC, Graham T, Wright VL, Peplow CL, Humphries A, Kocher HM et al. ( 2010 ) . The histogenesis of regenerative nodules in human liver cirrhosis . Hepatology vol. 51 , ( 3 ) 1017 - 1026 .
Obszynska JA, Atherfold PA, Nanji M, Glancy D, Santander S, Graham TA, Otto WR, West K et al. ( 2010 ) . Long-term proton pump induced hypergastrinaemia does induce lineage-specific restitution but not clonal expansion in benign Barrett's oesophagus in vivo . Gut vol. 59 , ( 2 ) 156 - 163 .
McDonald SAC, Graham TA, Schier S, Wright NA, Alison MR ( 2009 ) . Stem cells and solid cancers . Virchows Arch vol. 455 , ( 1 ) 1 - 13 .
Lanza R, Hogan B, Gaerhart J, Melton D, Pedersen R ( 2009 ) . Stem Cells in the Gastrointestinal Tract . Essentials of stem cell biology , Edition. 2nd , Academic Pr
Graham TA, Humphries A, McDonald SA, Leedham S, Wright NA ( 2009 ) . Methylation and Clonality of Human Colonic Crypts . GASTROENTEROLOGY . vol. 136 , A78 - A78 .
Graham TA, Humphries A, Leedham SJ, McDonald SA, Wright NA ( 2009 ) . METHODS FOR TRACING CRYPT STEM CELLS ANCESTRY AND CLONAL ARCHITECTURE USING CPG ISLAND METHYLATION AND MITOCHONDRIAL DNA MUTATIONS . GUT . vol. 58 , A2 - A2 .
Leedham SJ, Graham TA, Oukrif D, McDonald SAC, Rodriguez-Justo M, Harrison RF, Shepherd NA, Novelli MR et al. ( 2009 ) . Clonality, Founder Mutations, and Field Cancerization in Human Ulcerative Colitis-Associated Neoplasia . GASTROENTEROLOGY vol. 136 , ( 2 ) 542 - 550 .
Graham TA, Wright NA ( 2008 ) . Investigating the fixation and spread of mutations in the gastrointestinal epithelium . FUTURE ONCOL vol. 4 , ( 6 ) 825 - 839 .
Graham T, Halford S, Page KM, Tomlinson IPM ( 2008 ) . Most low-level microsatellite instability in colorectal cancers can be explained without an elevated slippage rate . Journal of Pathology vol. 215 , ( 2 ) 204 - 210 .
Jones AM, Mitter R, Springall R, Graham T, Winter E, Gillett C, Hanby AM, Tomlinson IPM et al. ( 2008 ) . A comprehensive genetic profile of phyllodes tumours of the breast detects important mutations, intra-tumoral genetic heterogeneity and new genetic changes on recurrence . Journal of Pathology vol. 214 , ( 5 ) 533 - 544 .
Leedham SJ, Graham T, Rodriguez-Justo M, Harrison R, Novelli M, Jankowski JA, Wright NA ( 2008 ) . Microdissecting the carcinogenesis pathways in sporadic and colitis-associated colon cancer . GUT . vol. 57 , A26 - A27 .
Jones AM, Thirlwell C, Howarth KM, Graham T, Chambers W, Segditsas S, Page KM, Phillips RKS et al. ( 2007 ) . Analysis of copy number changes suggests chromosomal instability in a minority of large colorectal adenomas . Journal of Pathology vol. 213 , ( 3 ) 249 - 256 .
McDonald SAC, Graham T, Potten CS, Wright NA, Tomlinson IPM, Renehan AG ( 2006 ) . Intestinal stem cells and the development of colorectal neoplasia . Tissue Stem Cells ,