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Analysis of tumour ecological balance reveals resource-dependent adaptive strategies of ovarian cancer.

Nawaz S, Trahearn NA, Heindl A, Banerjee S, Maley CC, Sottoriva A, Yuan Y.

EBioMedicine. 2019 Oct;48:224-235. doi: 10.1016/j.ebiom.2019.10.001. Epub 2019 Oct 21.


Prediction of Upstaged Ductal Carcinoma in situ Using Forced Labeling and Domain Adaptation.

Hou R, Mazurowski MA, Grimm LJ, Marks JR, King LM, Maley CC, Hwang ES, Lo JY.

IEEE Trans Biomed Eng. 2019 Sep 9. doi: 10.1109/TBME.2019.2940195. [Epub ahead of print]


Cancer cell evolution through the ages.

Maley CC, Shibata D.

Science. 2019 Aug 2;365(6452):440-441. doi: 10.1126/science.aay2859. No abstract available.


Return to the Sea, Get Huge, Beat Cancer: An Analysis of Cetacean Genomes Including an Assembly for the Humpback Whale (Megaptera novaeangliae).

Tollis M, Robbins J, Webb AE, Kuderna LFK, Caulin AF, Garcia JD, Bèrubè M, Pourmand N, Marques-Bonet T, O'Connell MJ, Palsbøll PJ, Maley CC.

Mol Biol Evol. 2019 Aug 1;36(8):1746-1763. doi: 10.1093/molbev/msz099.


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.


Evolution of Barrett's esophagus through space and time at single-crypt and whole-biopsy levels.

Martinez P, Mallo D, Paulson TG, Li X, Sanchez CA, Reid BJ, Graham TA, Kuhner MK, Maley CC.

Nat Commun. 2018 Feb 23;9(1):794. doi: 10.1038/s41467-017-02621-x.


Prediction of Occult Invasive Disease in Ductal Carcinoma in Situ Using Deep Learning Features.

Shi B, Grimm LJ, Mazurowski MA, Baker JA, Marks JR, King LM, Maley CC, Hwang ES, Lo JY.

J Am Coll Radiol. 2018 Mar;15(3 Pt B):527-534. doi: 10.1016/j.jacr.2017.11.036. Epub 2018 Feb 2.


Modeling the Subclonal Evolution of Cancer Cell Populations.

Chowell D, Napier J, Gupta R, Anderson KS, Maley CC, Sayres MAW.

Cancer Res. 2018 Feb 1;78(3):830-839. doi: 10.1158/0008-5472.CAN-17-1229. Epub 2017 Nov 29.


Cooperation and cheating as innovation: insights from cellular societies.

Aktipis A, Maley CC.

Philos Trans R Soc Lond B Biol Sci. 2017 Dec 5;372(1735). pii: 20160421. doi: 10.1098/rstb.2016.0421. Review.


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.


Peto's Paradox: how has evolution solved the problem of cancer prevention?

Tollis M, Boddy AM, Maley CC.

BMC Biol. 2017 Jul 13;15(1):60. doi: 10.1186/s12915-017-0401-7.


Can Occult Invasive Disease in Ductal Carcinoma In Situ Be Predicted Using Computer-extracted Mammographic Features?

Shi B, Grimm LJ, Mazurowski MA, Baker JA, Marks JR, King LM, Maley CC, Hwang ES, Lo JY.

Acad Radiol. 2017 Sep;24(9):1139-1147. doi: 10.1016/j.acra.2017.03.013. Epub 2017 May 11.


Genomic Instability in Cancer: Teetering on the Limit of Tolerance.

Andor N, Maley CC, Ji HP.

Cancer Res. 2017 May 1;77(9):2179-2185. doi: 10.1158/0008-5472.CAN-16-1553. Epub 2017 Apr 21. Review.


Natural Selection in Cancer Biology: From Molecular Snowflakes to Trait Hallmarks.

Fortunato A, Boddy A, Mallo D, Aktipis A, Maley CC, Pepper JW.

Cold Spring Harb Perspect Med. 2017 Feb 1;7(2). pii: a029652. doi: 10.1101/cshperspect.a029652. Review.


Dynamic clonal equilibrium and predetermined cancer risk in Barrett's oesophagus.

Martinez P, Timmer MR, Lau CT, Calpe S, Sancho-Serra Mdel C, Straub D, Baker AM, Meijer SL, Kate FJ, Mallant-Hent RC, Naber AH, van Oijen AH, Baak LC, Scholten P, Böhmer CJ, Fockens P, Bergman JJ, Maley CC, Graham TA, Krishnadath KK.

Nat Commun. 2016 Aug 19;7:12158. doi: 10.1038/ncomms12158.


TP53 Gene and Cancer Resistance in Elephants--Reply.

Schiffman JD, Schmitt DL, Maley CC.

JAMA. 2016 Apr 26;315(16):1790-1. doi: 10.1001/jama.2016.0457. No abstract available.


Bulk Genotyping of Biopsies Can Create Spurious Evidence for Hetereogeneity in Mutation Content.

Kostadinov R, Maley CC, Kuhner MK.

PLoS Comput Biol. 2016 Apr 22;12(4):e1004413. doi: 10.1371/journal.pcbi.1004413. eCollection 2016 Apr.


When (distant) relatives stay too long: implications for cancer medicine.

Chowell D, Boddy AM, Mallo D, Tollis M, Maley CC.

Genome Biol. 2016 Feb 24;17:34. doi: 10.1186/s13059-016-0906-3.


Pan-cancer analysis of the extent and consequences of intratumor heterogeneity.

Andor N, Graham TA, Jansen M, Xia LC, Aktipis CA, Petritsch C, Ji HP, Maley CC.

Nat Med. 2016 Jan;22(1):105-13. doi: 10.1038/nm.3984. Epub 2015 Nov 30.


Potential Mechanisms for Cancer Resistance in Elephants and Comparative Cellular Response to DNA Damage in Humans.

Abegglen LM, Caulin AF, Chan A, Lee K, Robinson R, Campbell MS, Kiso WK, Schmitt DL, Waddell PJ, Bhaskara S, Jensen ST, Maley CC, Schiffman JD.

JAMA. 2015 Nov 3;314(17):1850-60. doi: 10.1001/jama.2015.13134.


An ecological measure of immune-cancer colocalization as a prognostic factor for breast cancer.

Maley CC, Koelble K, Natrajan R, Aktipis A, Yuan Y.

Breast Cancer Res. 2015 Sep 22;17(1):131. doi: 10.1186/s13058-015-0638-4.


Assessment of Esophageal Adenocarcinoma Risk Using Somatic Chromosome Alterations in Longitudinal Samples in Barrett's Esophagus.

Li X, Paulson TG, Galipeau PC, Sanchez CA, Liu K, Kuhner MK, Maley CC, Self SG, Vaughan TL, Reid BJ, Blount PL.

Cancer Prev Res (Phila). 2015 Sep;8(9):845-56. doi: 10.1158/1940-6207.CAPR-15-0130. Epub 2015 Jun 30.


Derivation of genetic biomarkers for cancer risk stratification in Barrett's oesophagus: a prospective cohort study.

Timmer MR, Martinez P, Lau CT, Westra WM, Calpe S, Rygiel AM, Rosmolen WD, Meijer SL, Ten Kate FJ, Dijkgraaf MG, Mallant-Hent RC, Naber AH, van Oijen AH, Baak LC, Scholten P, Böhmer CJ, Fockens P, Maley CC, Graham TA, Bergman JJ, Krishnadath KK.

Gut. 2016 Oct;65(10):1602-10. doi: 10.1136/gutjnl-2015-309642. Epub 2015 Jun 23.


Solutions to Peto's paradox revealed by mathematical modelling and cross-species cancer gene analysis.

Caulin AF, Graham TA, Wang LS, Maley CC.

Philos Trans R Soc Lond B Biol Sci. 2015 Jul 19;370(1673). pii: 20140222. doi: 10.1098/rstb.2014.0222.


Cancer across the tree of life: cooperation and cheating in multicellularity.

Aktipis CA, Boddy AM, Jansen G, Hibner U, Hochberg ME, Maley CC, Wilkinson GS.

Philos Trans R Soc Lond B Biol Sci. 2015 Jul 19;370(1673). pii: 20140219. doi: 10.1098/rstb.2014.0219. Review.


Peto's paradox and the promise of comparative oncology.

Nunney L, Maley CC, Breen M, Hochberg ME, Schiffman JD.

Philos Trans R Soc Lond B Biol Sci. 2015 Jul 19;370(1673). pii: 20140177. doi: 10.1098/rstb.2014.0177.


Can oncology recapitulate paleontology? Lessons from species extinctions.

Walther V, Hiley CT, Shibata D, Swanton C, Turner PE, Maley CC.

Nat Rev Clin Oncol. 2015 May;12(5):273-85. doi: 10.1038/nrclinonc.2015.12. Epub 2015 Feb 17. Review.


Is eating behavior manipulated by the gastrointestinal microbiota? Evolutionary pressures and potential mechanisms.

Alcock J, Maley CC, Aktipis CA.

Bioessays. 2014 Oct;36(10):940-9. doi: 10.1002/bies.201400071. Epub 2014 Aug 8. Review.


Temporal and spatial evolution of somatic chromosomal alterations: a case-cohort study of Barrett's esophagus.

Li X, Galipeau PC, Paulson TG, Sanchez CA, Arnaudo J, Liu K, Sather CL, Kostadinov RL, Odze RD, Kuhner MK, Maley CC, Self SG, Vaughan TL, Blount PL, Reid BJ.

Cancer Prev Res (Phila). 2014 Jan;7(1):114-27. doi: 10.1158/1940-6207.CAPR-13-0289. Epub 2013 Nov 19.


Life history trade-offs in cancer evolution.

Aktipis CA, Boddy AM, Gatenby RA, Brown JS, Maley CC.

Nat Rev Cancer. 2013 Dec;13(12):883-92. doi: 10.1038/nrc3606. Epub 2013 Nov 11. Review.


NSAIDs modulate clonal evolution in Barrett's esophagus.

Kostadinov RL, Kuhner MK, Li X, Sanchez CA, Galipeau PC, Paulson TG, Sather CL, Srivastava A, Odze RD, Blount PL, Vaughan TL, Reid BJ, Maley CC.

PLoS Genet. 2013 Jun;9(6):e1003553. doi: 10.1371/journal.pgen.1003553. Epub 2013 Jun 13.


An evolutionary explanation for the presence of cancer nonstem cells in neoplasms.

Sprouffske K, Athena Aktipis C, Radich JP, Carroll M, Nedelcu AM, Maley CC.

Evol Appl. 2013 Jan;6(1):92-101. doi: 10.1111/eva.12030. Epub 2012 Nov 26.


Modelling the evolution of genetic instability during tumour progression.

S Datta R, Gutteridge A, Swanton C, Maley CC, Graham TA.

Evol Appl. 2013 Jan;6(1):20-33. doi: 10.1111/eva.12024. Epub 2012 Nov 26.


Cancer in light of experimental evolution.

Sprouffske K, Merlo LM, Gerrish PJ, Maley CC, Sniegowski PD.

Curr Biol. 2012 Sep 11;22(17):R762-71. doi: 10.1016/j.cub.2012.06.065. Review.


Natural resistance to cancers: a Darwinian hypothesis to explain Peto's paradox.

Roche B, Hochberg ME, Caulin AF, Maley CC, Gatenby RA, Misse D, Thomas F.

BMC Cancer. 2012 Sep 3;12:387. doi: 10.1186/1471-2407-12-387.


Spatial structure increases the waiting time for cancer.

Martens EA, Kostadinov R, Maley CC, Hallatschek O.

New J Phys. 2011 Nov 1;13. pii: 115014. Epub 2011 Nov 28.


Clonal evolution in cancer.

Greaves M, Maley CC.

Nature. 2012 Jan 18;481(7381):306-13. doi: 10.1038/nature10762. Review.


Overlooking evolution: a systematic analysis of cancer relapse and therapeutic resistance research.

Aktipis CA, Kwan VS, Johnson KA, Neuberg SL, Maley CC.

PLoS One. 2011;6(11):e26100. doi: 10.1371/journal.pone.0026100. Epub 2011 Nov 17.


An in vitro co-culture model of esophageal cells identifies ascorbic acid as a modulator of cell competition.

Merlo LM, Kosoff RE, Gardiner KL, Maley CC.

BMC Cancer. 2011 Oct 25;11:461. doi: 10.1186/1471-2407-11-461.


Dispersal evolution in neoplasms: the role of disregulated metabolism in the evolution of cell motility.

Aktipis CA, Maley CC, Pepper JW.

Cancer Prev Res (Phila). 2012 Feb;5(2):266-75. doi: 10.1158/1940-6207.CAPR-11-0004. Epub 2011 Sep 19.


Development and characterization of an organotypic model of Barrett's esophagus.

Kosoff RE, Gardiner KL, Merlo LM, Pavlov K, Rustgi AK, Maley CC.

J Cell Physiol. 2012 Jun;227(6):2654-9. doi: 10.1002/jcp.23007.


Solving the puzzle of metastasis: the evolution of cell migration in neoplasms.

Chen J, Sprouffske K, Huang Q, Maley CC.

PLoS One. 2011 Apr 27;6(4):e17933. doi: 10.1371/journal.pone.0017933.


New strategies in Barrett's esophagus: integrating clonal evolutionary theory with clinical management.

Reid BJ, Kostadinov R, Maley CC.

Clin Cancer Res. 2011 Jun 1;17(11):3512-9. doi: 10.1158/1078-0432.CCR-09-2358. Epub 2011 Apr 15.


Accurate reconstruction of the temporal order of mutations in neoplastic progression.

Sprouffske K, Pepper JW, Maley CC.

Cancer Prev Res (Phila). 2011 Jul;4(7):1135-44. doi: 10.1158/1940-6207.CAPR-10-0374. Epub 2011 Apr 13.


Peto's Paradox: evolution's prescription for cancer prevention.

Caulin AF, Maley CC.

Trends Ecol Evol. 2011 Apr;26(4):175-82. doi: 10.1016/j.tree.2011.01.002. Review.


A comprehensive survey of clonal diversity measures in Barrett's esophagus as biomarkers of progression to esophageal adenocarcinoma.

Merlo LM, Shah NA, Li X, Blount PL, Vaughan TL, Reid BJ, Maley CC.

Cancer Prev Res (Phila). 2010 Nov;3(11):1388-97. doi: 10.1158/1940-6207.CAPR-10-0108. Epub 2010 Oct 12.


Polyploidy, aneuploidy and the evolution of cancer.

Merlo LM, Wang LS, Pepper JW, Rabinovitch PS, Maley CC.

Adv Exp Med Biol. 2010;676:1-13. Review.


Deletion at fragile sites is a common and early event in Barrett's esophagus.

Lai LA, Kostadinov R, Barrett MT, Peiffer DA, Pokholok D, Odze R, Sanchez CA, Maley CC, Reid BJ, Gunderson KL, Rabinovitch PS.

Mol Cancer Res. 2010 Aug;8(8):1084-94. doi: 10.1158/1541-7786.MCR-09-0529. Epub 2010 Jul 20.


Neoplasia without dysplasia: lessons from Barrett esophagus and other tubal gut neoplasms.

Odze RD, Maley CC.

Arch Pathol Lab Med. 2010 Jun;134(6):896-906. doi: 10.1043/1543-2165-134.6.896. Review.


New models of neoplastic progression in Barrett's oesophagus.

Pavlov K, Maley CC.

Biochem Soc Trans. 2010 Apr;38(2):331-6. doi: 10.1042/BST0380331. Review.

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