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Publications:  Prof Trevor Graham

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)
10.1038/s41467-020-15800-0
https://qmro.qmul.ac.uk/xmlui/handle/123456789/65257
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)
10.1038/s41467-020-14844-6
https://qmro.qmul.ac.uk/xmlui/handle/123456789/64507
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.
10.3324/haematol.2019.242206
https://qmro.qmul.ac.uk/xmlui/handle/123456789/65012
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.
10.1038/s41467-020-15104-3
https://qmro.qmul.ac.uk/xmlui/handle/123456789/63362
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,
10.7554/eLife.48714
https://qmro.qmul.ac.uk/xmlui/handle/123456789/64534
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)
10.1038/s41576-019-0188-1
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.
10.1007/978-1-0716-0623-0_22
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.
10.1093/nargab/lqz017
https://qmro.qmul.ac.uk/xmlui/handle/123456789/63358
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)
10.1371/journal.pcbi.1007243
https://qmro.qmul.ac.uk/xmlui/handle/123456789/59520
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)
10.1038/s41375-019-0425-9
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.
10.1136/gutjnl-2018-316191
https://qmro.qmul.ac.uk/xmlui/handle/123456789/43331
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)
10.1186/s12859-019-2876-4
https://qmro.qmul.ac.uk/xmlui/handle/123456789/60554
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.
10.1016/j.celrep.2019.05.035
https://qmro.qmul.ac.uk/xmlui/handle/123456789/59381
Williams MJ, Sottoriva A, Graham TA(2019). Measuring Clonal Evolution in Cancer with Genomics. Annual Review of Genomics and Human Genetics
10.1146/annurev-genom-083117-021712
https://qmro.qmul.ac.uk/xmlui/handle/123456789/60546
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.
10.3324/haematol.2018.196907
https://qmro.qmul.ac.uk/xmlui/handle/123456789/43646
Turajlic S, Sottoriva A, Graham T, Swanton C(2019). Resolving genetic heterogeneity in cancer. Nature Reviews Genetics vol. 20, (7) 404-416.
10.1038/s41576-019-0114-6
https://qmro.qmul.ac.uk/xmlui/handle/123456789/60559
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.
10.1002/path.5250
https://qmro.qmul.ac.uk/xmlui/handle/123456789/60550
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.
10.1136/gutjnl-2017-314190
https://qmro.qmul.ac.uk/xmlui/handle/123456789/31463
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.
10.1136/gutjnl-2018-317540
https://qmro.qmul.ac.uk/xmlui/handle/123456789/56449
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)
10.1038/s41467-017-02621-x
https://qmro.qmul.ac.uk/xmlui/handle/123456789/59959
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.
10.1038/s41588-018-0235-4
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.
10.1038/s41588-018-0256-z
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.
10.1038/s41588-018-0210-0
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.
10.3389/fimmu.2018.02368
https://qmro.qmul.ac.uk/xmlui/handle/123456789/49535
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.
10.1038/s41592-018-0108-x
https://qmro.qmul.ac.uk/xmlui/handle/123456789/59421
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)
10.1038/s41588-018-0169-x
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.
10.1101/156729
https://qmro.qmul.ac.uk/xmlui/handle/123456789/59979
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.
10.1038/s41559-018-0642-z
https://qmro.qmul.ac.uk/xmlui/handle/123456789/44792
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
10.15252/emmm.201708304
https://qmro.qmul.ac.uk/xmlui/handle/123456789/42128
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.
10.1038/s41588-018-0128-6
https://qmro.qmul.ac.uk/xmlui/handle/123456789/49624
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.
10.1038/s41467-018-04208-6
https://qmro.qmul.ac.uk/xmlui/handle/123456789/60048
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.
10.1038/s41375-018-0043-y
https://qmro.qmul.ac.uk/xmlui/handle/123456789/36269
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.
10.1002/path.5081
https://qmro.qmul.ac.uk/xmlui/handle/123456789/59963
Curtius K, Wright NA, Graham TA(2018). An evolutionary perspective on field cancerization. Nat Rev Cancer vol. 18, (1) 19-32.
10.1038/nrc.2017.102
https://qmro.qmul.ac.uk/xmlui/handle/123456789/59872
Quante M, Graham TA, Jansen M(2018). Insights Into the Pathophysiology of Esophageal Adenocarcinoma. Gastroenterology vol. 154, (2) 406-420.
10.1053/j.gastro.2017.09.046
https://qmro.qmul.ac.uk/xmlui/handle/123456789/61756
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.
10.1093/nsr/nwx131
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.
10.1038/s41467-017-02295-5
https://qmro.qmul.ac.uk/xmlui/handle/123456789/31830
Curtius K, Wright NA, Graham TA(2017). Evolution of premalignant disease. Cold Spring Harbor Perspectives in Medicine vol. 7, (12)
10.1101/cshperspect.a026542
https://qmro.qmul.ac.uk/xmlui/handle/123456789/23546
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.
10.1038/nrc.2017.69
https://qmro.qmul.ac.uk/xmlui/handle/123456789/61007
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.
10.1038/ng.3877
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.
10.1038/ng.3891
https://qmro.qmul.ac.uk/xmlui/handle/123456789/25103
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.
10.1038/s41598-017-03496-0
https://qmro.qmul.ac.uk/xmlui/handle/123456789/33691
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.
10.1038/nrgastro.2017.1
https://qmro.qmul.ac.uk/xmlui/handle/123456789/21199
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.
10.1016/S0016-5085(17)33330-9
https://qmro.qmul.ac.uk/xmlui/handle/123456789/50083
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.
https://qmro.qmul.ac.uk/xmlui/handle/123456789/22743
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)
10.1186/s13058-016-0789-y
https://qmro.qmul.ac.uk/xmlui/handle/123456789/18926
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.
10.1016/j.bbcan.2016.12.003
https://qmro.qmul.ac.uk/xmlui/handle/123456789/34991
GRAHAM TA, Sottoriva A(2016). Measuring cancer evolution from the genome. Journal of Pathology
10.1002/path.4821
https://qmro.qmul.ac.uk/xmlui/handle/123456789/16184
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.
https://qmro.qmul.ac.uk/xmlui/handle/123456789/25724
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.
https://qmro.qmul.ac.uk/xmlui/handle/123456789/18164
Cross W, Graham TA, Wright NA(2016). New paradigms in clonal evolution: punctuated equilibrium in cancer. Journal of Pathology
10.1002/path.4757
https://qmro.qmul.ac.uk/xmlui/handle/123456789/15453
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.
10.1038/ncomms12158
https://qmro.qmul.ac.uk/xmlui/handle/123456789/15334
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.
10.1136/gutjnl-2015-310748
https://qmro.qmul.ac.uk/xmlui/handle/123456789/15434
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.
10.1080/23723556.2016.1162897
https://qmro.qmul.ac.uk/xmlui/handle/123456789/15910
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.
10.1038/ncomms11111
https://qmro.qmul.ac.uk/xmlui/handle/123456789/12752
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.
10.1158/1940-6207.CAPR-15-0248
https://qmro.qmul.ac.uk/xmlui/handle/123456789/14952
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.
10.1586/17474124.2016.1134314
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.
10.1038/ng.3489
https://qmro.qmul.ac.uk/xmlui/handle/123456789/13290
King LM, Marks JR, Hall AH, Temko D, Graham TA, Mardis ER, Maley CC, Hwang E (2016). Genomic diversity of ductal carcinoma in situ (DCIS) as a driver of invasion and metastasis. CANCER RESEARCH. vol. 76,
10.1158/1538-7445.SABCS15-P6-05-03
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.
10.1038/nm.3984
Gay L, Baker AM, Graham TA(2016). Tumour Cell Heterogeneity. F1000Research vol. 5,
10.12688/f1000research.7210.1
https://qmro.qmul.ac.uk/xmlui/handle/123456789/15126
Sottoriva A, Kang H, Ma Z, Graham TA, Salomon M, Zhao J, Marjoram P, Siegmund K et al. (2015). A Big Bang model of human colorectal tumor growth. CANCER RESEARCH. vol. 75,
10.1158/1538-7445.COMPSYSBIO-B2-23
Andor N, Graham TA, Petritsch C, Ji HP, Maley CC (2015). Pan-cancer analysis of the etiology and consequences of intra-tumor heterogeneity. CANCER RESEARCH. vol. 75,
10.1158/1538-7445.TRANSCAGEN-PR03
Andor N, Graham TA, Petritsch C, Ji HP, Maley CC (2015). Pan-cancer analysis of the etiology and consequences of intratumor heterogeneity. CANCER RESEARCH. vol. 75,
10.1158/1538-7445.TRANSCAGEN-A1-54
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. The American journal of gastroenterology vol. 110, (10) 1461-1472.
10.1038/ajg.2015.248
https://qmro.qmul.ac.uk/xmlui/handle/123456789/12756
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.
https://qmro.qmul.ac.uk/xmlui/handle/123456789/13992
Andor N, Graham TA, Aktipis AC, Petritsch C, Ji HP, Maley CC (2015). Pan-cancer analysis of the causes and consequences of Intra-tumor heterogeneity. CANCER RESEARCH. vol. 75,
10.1158/1538-7445.AM2015-LB-163
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)
10.1098/rstb.2014.0222
https://qmro.qmul.ac.uk/xmlui/handle/123456789/23664
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.
10.1136/gutjnl-2015-309642
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.
10.1016/j.stem.2015.04.013
Choi CHR, Wilson A, Rutter M, Thomas-Gibson S, Warusavitarne J, Moorghen M, Saunders BP, Graham TA et al. (2015). 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, AB366-AB366.
10.1016/j.gie.2015.03.1501
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.
10.1038/ng.3214
https://qmro.qmul.ac.uk/xmlui/handle/123456789/23903
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.
10.1016/j.cell.2014.11.042
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,
10.1038/srep08654
https://qmro.qmul.ac.uk/xmlui/handle/123456789/24824
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.
10.1038/ajg.2015.65
https://qmro.qmul.ac.uk/xmlui/handle/123456789/9771
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.
10.1016/j.jcmgh.2014.10.001
https://qmro.qmul.ac.uk/xmlui/handle/123456789/22406
Baker AM, Graham TA(2014). Revealing human intestinal stem cell and crypt dynamics. Molecular and Cellular Oncology vol. 1, (3)
10.4161/23723548.2014.970069
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.
10.1002/path.4370
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.
10.1016/j.celrep.2014.07.019
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.
10.1136/thoraxjnl-2013-204198
https://qmro.qmul.ac.uk/xmlui/handle/123456789/12174
Jawad N, Graham TA, McDonald SAC, Wright NA(2014). Re: Mitochondria and tumor progression in ulcerative colitis. J Natl Cancer Inst vol. 106, (2)
10.1093/jnci/djt436
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.
10.1136/thoraxjnl-2013-204198
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.
10.1136/thoraxjnl-2013-204457.139
Shaw JA, Graham TA, Stebbing J(2013). Genomic instability in pre-neoplastic colonic lesions. Oncogene vol. 32, (46) 5331-5332.
10.1038/onc.2013.21
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,
10.7554/eLife.00966
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.
10.1038/ajg.2013.238
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.
10.1038/ajg.2013.238
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.
10.1002/path.4211
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.
10.1073/pnas.1220353110
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.
10.1136/gutjnl-2013-304907.456
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.
10.1136/gutjnl-2013-304907.445
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,
10.1371/journal.pone.0062320
https://qmro.qmul.ac.uk/xmlui/handle/123456789/4862
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.
10.1002/path.4211
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.
10.1002/path.4148
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.
10.1002/path.4157
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.
10.1136/gutjnl-2011-301601
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.
10.1111/eva.12024
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.
10.1136/gutjnl-2011-301174
Gilbertson RJ, Graham TA(2012). Cancer: Resolving the stem-cell debate. Nature vol. 488, (7412) 462-463.
10.1038/nature11480
Gilbertson RJ, Graham TA(2012). Cancer: Resolving the stem-cell debate. Nature
10.1038/nature11480
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.
10.1136/gutjnl-2012-302514a.16
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.
10.1053/j.gastro.2011.12.004
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.
10.1007/978-1-61779-980-8_22
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.
10.1002/path.2959
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.
10.1002/path.2945
Graham TA, McDonald SA, Wright NA(2011). Field cancerization in the GI tract. Future Oncol vol. 7, (8) 981-993.
10.2217/fon.11.70
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.
10.18632/oncotarget.298
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)
10.1053/j.gastro.2010.12.051
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)
10.1053/j.gastro.2010.12.036
Zeki SS, Graham TA, Wright NA(2011). Stem cells and their implications for colorectal cancer. Nat Rev Gastroenterol Hepatol vol. 8, (2) 90-100.
10.1038/nrgastro.2010.211
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
10.1136/gutjnl-2011-301174
Humphries A, Graham TA, McDonald SAC(2011). Stem cells and inflammation in the intestine. Recent Results Cancer Res vol. 185, 51-63.
10.1007/978-3-642-03503-6_3
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.
10.1136/gut.2010.222398
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)
10.1136/gut.2010.218776
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.
10.1158/0008-5472.CAN-09-3144
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.
10.1002/bies.201000032
Nicholson AM, Graham TA, Simpson AI, Humphries A, Wright NA, McDonald SAC, Jankowski JA (2010). 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, A119-A119.
10.1136/gut.2009.209007c
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.
10.1136/gut.2009.208959p
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.
10.1053/j.gastro.2010.01.033
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.
10.1042/BST0380374
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.
10.1136/gut.2009.208983i
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.
10.1002/hep.23483
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.
10.1136/gut.2009.186775
McDonald SAC, Graham TA, Schier S, Wright NA, Alison MR(2009). Stem cells and solid cancers. Virchows Arch vol. 455, (1) 1-13.
10.1007/s00428-009-0783-1
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.
10.1053/j.gastro.2008.10.086
Graham TA, Wright NA(2008). Investigating the fixation and spread of mutations in the gastrointestinal epithelium. FUTURE ONCOL vol. 4, (6) 825-839.
10.2217/14796694.4.6.825
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.
10.1002/path.2351
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.
10.1002/path.2320
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.
10.1002/path.2234
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,
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