Simon Tavare - Publications

Affiliations: 
Applied Mathematics: Doctor of Philosophy University of Southern California, Los Angeles, CA, United States 
Area:
Mathematics, Molecular Biology, Oncology
Website:
https://dornsife.usc.edu/cf/faculty-and-staff/faculty.cfm?pid=1003753

79/234 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2020 Jammula S, Katz-Summercorn AC, Li X, Linossi C, Smyth E, Killcoyne S, Biasci D, Subash VV, Abbas S, Blasko A, Devonshire G, Grantham A, Wronowski F, O'Donovan M, Grehan N, et al. Identification of Subtypes of Barrett's Esophagus and Esophageal Adenocarcinoma Based on DNA Methylation Profiles and Integration of Transcriptome and Genome Data. Gastroenterology. PMID 32032585 DOI: 10.1053/J.Gastro.2020.01.044  0.314
2020 Dinh KN, Jaksik R, Kimmel M, Lambert A, Tavaré S. Statistical Inference for the Evolutionary History of Cancer Genomes Statistical Science. 35: 129-144. DOI: 10.1214/19-Sts7561  0.339
2019 Frankell AM, Jammula S, Li X, Contino G, Killcoyne S, Abbas S, Perner J, Bower L, Devonshire G, Ococks E, Grehan N, Mok J, O'Donovan M, MacRae S, Eldridge MD, et al. The landscape of selection in 551 esophageal adenocarcinomas defines genomic biomarkers for the clinic. Nature Genetics. PMID 30718927 DOI: 10.1038/S41588-018-0331-5  0.314
2016 Touloumis A, Marioni JC, Tavaré S. HDTD: analyzing multi-tissue gene expression data. Bioinformatics (Oxford, England). PMID 27266441 DOI: 10.1093/Bioinformatics/Btw224  0.321
2016 Curtis C, Landis GN, Folk D, Wehr NB, Hoe N, Waskar M, Abdueva D, Skvortsov D, Ford D, Luu A, Badrinath A, Levine RL, Bradley TJ, Tavaré S, Tower J. Erratum to: Transcriptional profiling of MnSOD-mediated lifespan extension in Drosophila reveals a species-general network of aging and metabolic genes. Genome Biology. 17: 93. PMID 27154433 DOI: 10.1186/s13059-016-0959-3  0.756
2015 Greenwood AK, Ardekani R, McCann SR, Dubin ME, Sullivan A, Bensussen S, Tavaré S, Peichel CL. Genetic mapping of natural variation in schooling tendency in the threespine stickleback. G3 (Bethesda, Md.). 5: 761-9. PMID 25717151 DOI: 10.1534/G3.114.016519  0.709
2015 Paterson A, Weaver J, Eldridge M, Tavare S, Fitzgerald R, Edwards P. PWE-171 Mobile element insertions are frequent and potentially mutagenic events in oesophageal carcinogenesis Gut. 64: A287.2-A287. DOI: 10.1136/Gutjnl-2015-309861.618  0.318
2014 Cairns J, Lynch AG, Tavaré S. Quantifying the impact of inter-site heterogeneity on the distribution of ChIP-seq data. Frontiers in Genetics. 5: 399. PMID 25452765 DOI: 10.3389/Fgene.2014.00399  0.313
2014 Ostrow AZ, Nellimoottil T, Knott SR, Fox CA, Tavaré S, Aparicio OM. Fkh1 and Fkh2 bind multiple chromosomal elements in the S. cerevisiae genome with distinct specificities and cell cycle dynamics. Plos One. 9: e87647. PMID 24504085 DOI: 10.1371/Journal.Pone.0087647  0.754
2014 Turro E, Astle WJ, Tavaré S. Flexible analysis of RNA-seq data using mixed effects models. Bioinformatics (Oxford, England). 30: 180-8. PMID 24281695 DOI: 10.1093/Bioinformatics/Btt624  0.336
2014 Watts C, Piccirillo S, Spiteri I, Sottoriva A, Touloumis A, Marioni J, Curtis C, Tavare S. COMPLEX EVOLUTIONARY DYNAMICS GENERATES GENETIC DIVERSITY AND INTRA-TUMOR HETEROGENEITY IN INDIVIDUAL PATIENTS WITH GLIOBLASTOMA Neuro-Oncology. 16: iii7-iii7. DOI: 10.1093/Neuonc/Nou206.23  0.512
2014 Weaver JM, Ross-Innes C, Shannon NB, Lynch A, Forshew T, Barbera M, Ong CJ, Murtaza M, Lao-Sirieix P, Dunning MJ, Smith L, Smith M, Carvalho B, Underwood T, May A, et al. 935 The Timing of Oncogenic Events in the Evolution of the Oesophageal Adenocarcinoma Genome and Implications for Clinical Diagnostics Gastroenterology. 146: S-161. DOI: 10.1016/S0016-5085(14)60576-X  0.306
2013 Housden BE, Fu AQ, Krejci A, Bernard F, Fischer B, Tavaré S, Russell S, Bray SJ. Transcriptional dynamics elicited by a short pulse of notch activation involves feed-forward regulation by E(spl)/Hes genes. Plos Genetics. 9: e1003162. PMID 23300480 DOI: 10.1371/Journal.Pgen.1003162  0.332
2013 Ardekani R, Tavaré S, Tower J. Assessing senescence in Drosophila using video tracking. Methods in Molecular Biology (Clifton, N.J.). 965: 501-16. PMID 23296680 DOI: 10.1007/978-1-62703-239-1_33  0.724
2013 Sottoriva A, Spiteri I, Shibata D, Curtis C, Tavaré S. Single-molecule genomic data delineate patient-specific tumor profiles and cancer stem cell organization. Cancer Research. 73: 41-9. PMID 23090114 DOI: 10.1158/0008-5472.Can-12-2273  0.51
2013 Ardekani R, Biyani A, Dalton JE, Saltz JB, Arbeitman MN, Tower J, Nuzhdin S, Tavaré S. Three-dimensional tracking and behaviour monitoring of multiple fruit flies. Journal of the Royal Society, Interface / the Royal Society. 10: 20120547. PMID 23034355 DOI: 10.1098/Rsif.2012.0547  0.758
2013 Fu AQ, Russell S, Bray SJ, Tavaré S. Bayesian clustering of replicated time-course gene expression data with weak signals Annals of Applied Statistics. 7: 1334-1361. DOI: 10.1214/13-Aoas650  0.304
2013 Ardekani R, Greenwood AK, Peichel CL, Tavaré S. Automated quantification of the schooling behaviour of sticklebacks Eurasip Journal On Image and Video Processing. 2013. DOI: 10.1186/1687-5281-2013-61  0.707
2013 Piccirillo SGM, Spiteri I, Sottoriva A, Touloumis A, Ber S, Price SJ, Heywood R, Francis N, Collins VP, Venkitaraman AR, Curtis C, Marioni JC, Tavare S, Watts C. Abstract 5016: The human sub-ependymal zone harbors glioblastoma precursors and represents a distinct therapeutic target. Cancer Research. 73: 5016-5016. DOI: 10.1158/1538-7445.Am2013-5016  0.517
2013 Weaver J, Shannon N, Ross-Innes C, Lynch A, Forshew T, Barbera M, Ong C, Lao-Sirieix P, Dunning M, Smith L, Smith M, Carvalho B, O’Donovan M, Underwood T, Murtaza M, ... ... Tavare S, et al. OC-066 The Cancer Research UK (Cruk) Funded ICGC Oesophageal Adenocarcinoma Project: MRC Research Centre and Cruk Cambridge Research Institute Gut. 62: A29.1-A29. DOI: 10.1136/Gutjnl-2013-304907.065  0.314
2013 Adachi K, Sasaki H, Nagahisa S, Yoshida K, Hattori N, Nishiyama Y, Kawase T, Hasegawa M, Abe M, Hirose Y, Alentorn A, Marie Y, Poggioli S, Alshehhi H, Boisselier B, ... ... Tavare S, et al. OMICS AND PROGNSTIC MARKERS Neuro-Oncology. 15: iii136-iii155. DOI: 10.1093/Neuonc/Not183  0.469
2012 Knott SR, Peace JM, Ostrow AZ, Gan Y, Rex AE, Viggiani CJ, Tavaré S, Aparicio OM. Forkhead transcription factors establish origin timing and long-range clustering in S. cerevisiae. Cell. 148: 99-111. PMID 22265405 DOI: 10.1016/J.Cell.2011.12.012  0.692
2012 Weaver JMJ, Shannon NB, Smith M, Dunning M, Ong CA, Ross-Innes C, Underwood T, Lynch A, Eldridge M, Caldas C, Edwards P, Tavare S, Fitzgerald RC. OC-008 Defining the genetic landscape of oesophageal adenocarcinoma by next-generation sequencing Gut. 61: A3.3-A4. DOI: 10.1136/Gutjnl-2012-302514A.8  0.335
2012 Samarajiwa SA, Spiteri I, Lynch A, Jauhiainen A, Morrissey E, Cairns J, Narita M, Tavaré S. O039 The interferonscape: Systems biology of interferon stimulated pathways and networks Cytokine. 59: 515-516. DOI: 10.1016/J.Cyto.2012.06.076  0.313
2011 Siegmund KD, Marjoram P, Tavaré S, Shibata D. High DNA methylation pattern intratumoral diversity implies weak selection in many human colorectal cancers. Plos One. 6: e21657. PMID 21738754 DOI: 10.1371/Journal.Pone.0021657  0.307
2011 Cairns J, Spyrou C, Stark R, Smith ML, Lynch AG, Tavaré S. BayesPeak--an R package for analysing ChIP-seq data. Bioinformatics (Oxford, England). 27: 713-4. PMID 21245054 DOI: 10.1093/Bioinformatics/Btq685  0.307
2011 Wilkinson RD, Steiper ME, Soligo C, Martin RD, Yang Z, Tavaré S. Dating primate divergences through an integrated analysis of palaeontological and molecular data. Systematic Biology. 60: 16-31. PMID 21051775 DOI: 10.1093/Sysbio/Syq054  0.321
2010 Ivakhno S, Royce T, Cox AJ, Evers DJ, Cheetham RK, Tavaré S. CNAseg--a novel framework for identification of copy number changes in cancer from second-generation sequencing data. Bioinformatics (Oxford, England). 26: 3051-8. PMID 20966003 DOI: 10.1093/Bioinformatics/Btq587  0.309
2010 Dunning MJ, Curtis C, Barbosa-Morais NL, Caldas C, Tavaré S, Lynch AG. The importance of platform annotation in interpreting microarray data. The Lancet. Oncology. 11: 717. PMID 20688273 DOI: 10.1016/S1470-2045(10)70115-7  0.515
2010 Ritchie ME, Forrest MS, Dimas AS, Daelemans C, Dermitzakis ET, Deloukas P, Tavaré S. Data analysis issues for allele-specific expression using Illumina's GoldenGate assay. Bmc Bioinformatics. 11: 280. PMID 20504309 DOI: 10.1186/1471-2105-11-280  0.329
2010 Barbosa-Morais NL, Dunning MJ, Samarajiwa SA, Darot JF, Ritchie ME, Lynch AG, Tavaré S. A re-annotation pipeline for Illumina BeadArrays: improving the interpretation of gene expression data. Nucleic Acids Research. 38: e17. PMID 19923232 DOI: 10.1093/Nar/Gkp942  0.331
2010 Curtis C, Chin S, Shah S, Tavaré S, Aparicio S, Caldas C. 825 Towards a systems-level view of breast cancer through the joint analysis of multi-dimensional data European Journal of Cancer Supplements. 8: 208. DOI: 10.1016/S1359-6349(10)71621-9  0.475
2009 Waskar M, Landis GN, Shen J, Curtis C, Tozer K, Abdueva D, Skvortsov D, Tavaré S, Tower J. Drosophila melanogaster p53 has developmental stage-specific and sex-specific effects on adult life span indicative of sexual antagonistic pleiotropy. Aging. 1: 903-36. PMID 20157574  0.745
2009 Shen J, Curtis C, Tavaré S, Tower J. A screen of apoptosis and senescence regulatory genes for life span effects when over-expressed in Drosophila. Aging. 1: 191-211. PMID 20157509  0.463
2009 Grover D, Ford D, Brown C, Hoe N, Erdem A, Tavaré S, Tower J. Hydrogen peroxide stimulates activity and alters behavior in Drosophila melanogaster. Plos One. 4: e7580. PMID 19862323 DOI: 10.1371/Journal.Pone.0007580  0.564
2009 Knott SR, Viggiani CJ, Aparicio OM, Tavaré S. Strategies for analyzing highly enriched IP-chip datasets. Bmc Bioinformatics. 10: 305. PMID 19772646 DOI: 10.1186/1471-2105-10-305  0.706
2009 Spyrou C, Stark R, Lynch AG, Tavaré S. BayesPeak: Bayesian analysis of ChIP-seq data. Bmc Bioinformatics. 10: 299. PMID 19772557 DOI: 10.1186/1471-2105-10-299  0.346
2009 Fernando H, Sewitz S, Darot J, Tavaré S, Huppert JL, Balasubramanian S. Genome-wide analysis of a G-quadruplex-specific single-chain antibody that regulates gene expression. Nucleic Acids Research. 37: 6716-22. PMID 19745055 DOI: 10.1093/Nar/Gkp740  0.484
2009 Knott SR, Viggiani CJ, Tavaré S, Aparicio OM. Genome-wide replication profiles indicate an expansive role for Rpd3L in regulating replication initiation timing or efficiency, and reveal genomic loci of Rpd3 function in Saccharomyces cerevisiae. Genes & Development. 23: 1077-90. PMID 19417103 DOI: 10.1101/Gad.1784309  0.708
2009 Grover D, Yang J, Ford D, Tavaré S, Tower J. Simultaneous tracking of movement and gene expression in multiple Drosophila melanogaster flies using GFP and DsRED fluorescent reporter transgenes. Bmc Research Notes. 2: 58. PMID 19374758 DOI: 10.1186/1756-0500-2-58  0.587
2009 Jiang R, Tavaré S, Marjoram P. Population genetic inference from resequencing data. Genetics. 181: 187-97. PMID 18984575 DOI: 10.1534/Genetics.107.080630  0.476
2009 Grover D, Tavare S. Finding Behavioral Motifs in Fly Trajectories Communications in Information and Systems. 9: 283-294. DOI: 10.4310/Cis.2009.V9.N3.A5  0.533
2008 Grover D, Yang J, Tavaré S, Tower J. Simultaneous tracking of fly movement and gene expression using GFP. Bmc Biotechnology. 8: 93. PMID 19087237 DOI: 10.1186/1472-6750-8-93  0.589
2008 Wilson MD, Barbosa-Morais NL, Schmidt D, Conboy CM, Vanes L, Tybulewicz VL, Fisher EM, Tavaré S, Odom DT. Species-specific transcription in mice carrying human chromosome 21. Science (New York, N.Y.). 322: 434-8. PMID 18787134 DOI: 10.1126/Science.1160930  0.309
2008 Dunning MJ, Ritchie ME, Barbosa-Morais NL, Tavaré S, Lynch AG. Spike-in validation of an Illumina-specific variance-stabilizing transformation. Bmc Research Notes. 1: 18. PMID 18710543 DOI: 10.1186/1756-0500-1-18  0.3
2008 Marioni JC, White M, Tavaré S, Lynch AG. Hidden copy number variation in the HapMap population. Proceedings of the National Academy of Sciences of the United States of America. 105: 10067-72. PMID 18632583 DOI: 10.1073/Pnas.0711252105  0.31
2008 Szyjka SJ, Aparicio JG, Viggiani CJ, Knott S, Xu W, Tavaré S, Aparicio OM. Rad53 regulates replication fork restart after DNA damage in Saccharomyces cerevisiae. Genes & Development. 22: 1906-20. PMID 18628397 DOI: 10.1101/Gad.1660408  0.722
2008 Down TA, Rakyan VK, Turner DJ, Flicek P, Li H, Kulesha E, Gräf S, Johnson N, Herrero J, Tomazou EM, Thorne NP, Bäckdahl L, Herberth M, Howe KL, Jackson DK, et al. A Bayesian deconvolution strategy for immunoprecipitation-based DNA methylome analysis. Nature Biotechnology. 26: 779-85. PMID 18612301 DOI: 10.1038/Nbt1414  0.304
2008 Rakyan VK, Down TA, Thorne NP, Flicek P, Kulesha E, Gräf S, Tomazou EM, Bäckdahl L, Johnson N, Herberth M, Howe KL, Jackson DK, Miretti MM, Fiegler H, Marioni JC, et al. An integrated resource for genome-wide identification and analysis of human tissue-specific differentially methylated regions (tDMRs). Genome Research. 18: 1518-29. PMID 18577705 DOI: 10.1101/Gr.077479.108  0.307
2008 Palmer RD, Barbosa-Morais NL, Gooding EL, Muralidhar B, Thornton CM, Pett MR, Roberts I, Schneider DT, Thorne N, Tavaré S, Nicholson JC, Coleman N. Pediatric malignant germ cell tumors show characteristic transcriptome profiles. Cancer Research. 68: 4239-47. PMID 18519683 DOI: 10.1158/0008-5472.Can-07-5560  0.306
2008 Chu M, Siegmund KD, Hao QL, Crooks GM, Tavaré S, Shibata D. Inferring relative numbers of human leucocyte genome replications. British Journal of Haematology. 141: 862-71. PMID 18410448 DOI: 10.1111/J.1365-2141.2008.07142.X  0.312
2008 Grover D, Tower J, Tavaré S. O fly, where art thou? Journal of the Royal Society, Interface / the Royal Society. 5: 1181-91. PMID 18367442 DOI: 10.1098/Rsif.2007.1333  0.559
2008 Dunning MJ, Barbosa-Morais NL, Lynch AG, Tavaré S, Ritchie ME. Statistical issues in the analysis of Illumina data. Bmc Bioinformatics. 9: 85. PMID 18254947 DOI: 10.1186/1471-2105-9-85  0.322
2008 Tiemann-Boege I, Curtis C, Shibata D, Tavaré S. High-throughput analysis of methylation patterns to track cell divisions Gbm Annual Spring Meeting Mosbach 2008. 2008. DOI: 10.1240/sav_gbm_2008_m_002227  0.432
2007 Curtis C, Landis GN, Folk D, Wehr NB, Hoe N, Waskar M, Abdueva D, Skvortsov D, Ford D, Luu A, Badrinath A, Levine RL, Bradley TJ, Tavaré S, Tower J. Transcriptional profiling of MnSOD-mediated lifespan extension in Drosophila reveals a species-general network of aging and metabolic genes. Genome Biology. 8: R262. PMID 18067683 DOI: 10.1186/Gb-2007-8-12-R262  0.769
2007 Marioni JC, Thorne NP, Valsesia A, Fitzgerald T, Redon R, Fiegler H, Andrews TD, Stranger BE, Lynch AG, Dermitzakis ET, Carter NP, Tavaré S, Hurles ME. Breaking the waves: improved detection of copy number variation from microarray-based comparative genomic hybridization. Genome Biology. 8: R228. PMID 17961237 DOI: 10.1186/Gb-2007-8-10-R228  0.308
2007 Conboy CM, Spyrou C, Thorne NP, Wade EJ, Barbosa-Morais NL, Wilson MD, Bhattacharjee A, Young RA, Tavaré S, Lees JA, Odom DT. Cell cycle genes are the evolutionarily conserved targets of the E2F4 transcription factor. Plos One. 2: e1061. PMID 17957245 DOI: 10.1371/Journal.Pone.0001061  0.311
2007 Stranger BE, Nica AC, Forrest MS, Dimas A, Bird CP, Beazley C, Ingle CE, Dunning M, Flicek P, Koller D, Montgomery S, Tavaré S, Deloukas P, Dermitzakis ET. Population genomics of human gene expression. Nature Genetics. 39: 1217-24. PMID 17873874 DOI: 10.1038/Ng2142  0.336
2007 Skvortsov D, Abdueva D, Curtis C, Schaub B, Tavaré S. Explaining differences in saturation levels for Affymetrix GeneChip arrays. Nucleic Acids Research. 35: 4154-63. PMID 17567617 DOI: 10.1093/Nar/Gkm348  0.757
2007 Soligo C, Will OA, Tavaré S, Marshall CR, Martin RD. New light on the dates of primate origins and divergence Primate Origins: Adaptations and Evolution. 29-49. DOI: 10.1007/978-0-387-33507-0_2  0.641
2006 Xu W, Aparicio JG, Aparicio OM, Tavaré S. Genome-wide mapping of ORC and Mcm2p binding sites on tiling arrays and identification of essential ARS consensus sequences in S. cerevisiae. Bmc Genomics. 7: 276. PMID 17067396 DOI: 10.1186/1471-2164-7-276  0.5
2006 Abdueva D, Skvortsov D, Tavaré S. Non-linear analysis of GeneChip arrays. Nucleic Acids Research. 34: e105. PMID 16936321 DOI: 10.1093/Nar/Gkl435  0.772
2006 Jiang R, Marjoram P, Borevitz JO, Tavaré S. Inferring population parameters from single-feature polymorphism data. Genetics. 173: 2257-67. PMID 16702439 DOI: 10.1534/Genetics.105.047472  0.447
2006 Jakobsson M, Hagenblad J, Tavaré S, Säll T, Halldén C, Lind-Halldén C, Nordborg M. A unique recent origin of the allotetraploid species Arabidopsis suecica: Evidence from nuclear DNA markers. Molecular Biology and Evolution. 23: 1217-31. PMID 16549398 DOI: 10.1093/Molbev/Msk006  0.325
2005 Stranger BE, Forrest MS, Clark AG, Minichiello MJ, Deutsch S, Lyle R, Hunt S, Kahl B, Antonarakis SE, Tavaré S, Deloukas P, Dermitzakis ET. Genome-wide associations of gene expression variation in humans. Plos Genetics. 1: e78. PMID 16362079 DOI: 10.1371/Journal.Pgen.0010078  0.341
2005 Clark RM, Tavaré S, Doebley J. Estimating a nucleotide substitution rate for maize from polymorphism at a major domestication locus. Molecular Biology and Evolution. 22: 2304-12. PMID 16079248 DOI: 10.1093/Molbev/Msi228  0.307
2004 Landis GN, Abdueva D, Skvortsov D, Yang J, Rabin BE, Carrick J, Tavaré S, Tower J. Similar gene expression patterns characterize aging and oxidative stress in Drosophila melanogaster. Proceedings of the National Academy of Sciences of the United States of America. 101: 7663-8. PMID 15136717 DOI: 10.1073/Pnas.0307605101  0.768
2003 Marjoram P, Molitor J, Plagnol V, Tavare S. Markov chain Monte Carlo without likelihoods. Proceedings of the National Academy of Sciences of the United States of America. 100: 15324-8. PMID 14663152 DOI: 10.1073/Pnas.0306899100  0.525
2002 Tavaré S, Marshall CR, Will O, Soligo C, Martin RD. Using the fossil record to estimate the age of the last common ancestor of extant primates. Nature. 416: 726-9. PMID 11961552 DOI: 10.1038/416726A  0.701
2002 Nordborg M, Tavaré S. Linkage disequilibrium: what history has to tell us. Trends in Genetics : Tig. 18: 83-90. PMID 11818140 DOI: 10.1016/S0168-9525(02)02557-X  0.307
2001 Markovtsova L, Marjoram P, Tavare S. On a test of Depaulis and Veuille. Molecular Biology and Evolution. 18: 1132-3; author reply. PMID 11371600 DOI: 10.1093/Oxfordjournals.Molbev.A003883  0.723
2000 Markovtsova L, Marjoram P, Tavaré S. The effects of rate variation on ancestral inference in the coalescent. Genetics. 156: 1427-36. PMID 11063714  0.76
2000 Markovtsova L, Marjoram P, Tavaré S. The age of a unique event polymorphism. Genetics. 156: 401-9. PMID 10978303  0.762
1996 Donnelly P, Tavaré S. Coalescents and genealogical structure under neutrality. Annual Review of Genetics. 29: 401-21. PMID 8825481 DOI: 10.1146/Annurev.Ge.29.120195.002153  0.314
1996 Griffiths R, Tavaré S. Monte Carlo inference methods in population genetics Mathematical and Computer Modelling. 23: 141-158. DOI: 10.1016/0895-7177(96)00046-5  0.305
1994 Raftery A, Tavare S. Estimation and Modelling Repeated Patterns in High Order Markov Chains with the Mixture Transition Distribution Model Applied Statistics. 43: 179. DOI: 10.2307/2986120  0.302
1994 Griffiths RC, Tavare S. Simulating Probability Distributions in the Coalescent Theoretical Population Biology. 46: 131-159. DOI: 10.1006/Tpbi.1994.1023  0.302
1992 Arratia R, Lander ES, Tavaré S, Waterman MS. Genomic mapping by anchoring random clones: a mathematical analysis. Genomics. 11: 806-27. PMID 1783390 DOI: 10.1016/0888-7543(91)90004-X  0.537
1984 Saunders IW, Tavaré S, Watterson GA. On the genealogy of nested subsamples from a haploid population Advances in Applied Probability. 16: 471-491. DOI: 10.2307/1427285  0.308
Low-probability matches (unlikely to be authored by this person)
2010 Ivakhno S, Tavaré S. CNAnova: a new approach for finding recurrent copy number abnormalities in cancer SNP microarray data. Bioinformatics (Oxford, England). 26: 1395-402. PMID 20403815 DOI: 10.1093/Bioinformatics/Btq145  0.297
2009 Young AR, Narita M, Ferreira M, Kirschner K, Sadaie M, Darot JF, Tavaré S, Arakawa S, Shimizu S, Watt FM, Narita M. Autophagy mediates the mitotic senescence transition. Genes & Development. 23: 798-803. PMID 19279323 DOI: 10.1101/Gad.519709  0.297
2007 Stranger BE, Forrest MS, Dunning M, Ingle CE, Beazley C, Thorne N, Redon R, Bird CP, de Grassi A, Lee C, Tyler-Smith C, Carter N, Scherer SW, Tavaré S, Deloukas P, et al. Relative impact of nucleotide and copy number variation on gene expression phenotypes. Science (New York, N.Y.). 315: 848-53. PMID 17289997 DOI: 10.1126/Science.1136678  0.297
2015 Josephidou M, Lynch AG, Tavaré S. multiSNV: a probabilistic approach for improving detection of somatic point mutations from multiple related tumour samples. Nucleic Acids Research. 43: e61. PMID 25722372 DOI: 10.1093/Nar/Gkv135  0.293
2006 Marjoram P, Tavaré S. Modern computational approaches for analysing molecular genetic variation data. Nature Reviews. Genetics. 7: 759-70. PMID 16983372 DOI: 10.1038/Nrg1961  0.293
2017 Noorani A, Bornschein J, Lynch AG, Secrier M, Achilleos A, Eldridge M, Bower L, Weaver JMJ, Crawte J, Ong CA, Shannon N, MacRae S, Grehan N, Nutzinger B, O'Donovan M, et al. A comparative analysis of whole genome sequencing of oesophageal adenocarcinoma pre- and post-chemotherapy. Genome Research. PMID 28465312 DOI: 10.1101/Gr.214296.116  0.293
1992 Lundstrom R, Tavaré S, Ward RH. Modeling the evolution of the human mitochondrial genome. Mathematical Biosciences. 112: 319-35. PMID 1490056 DOI: 10.1016/0025-5564(92)90030-Z  0.293
2020 Perner J, Abbas S, Nowicki-Osuch K, Devonshire G, Eldridge MD, Tavaré S, Fitzgerald RC. The mutREAD method detects mutational signatures from low quantities of cancer DNA. Nature Communications. 11: 3166. PMID 32576827 DOI: 10.1038/S41467-020-16974-3  0.291
1981 Karlin S, Tavare S. The detection of a recessive visible gene in finite populations Genetical Research. 37: 33-46. DOI: 10.1017/S0016672300019996  0.291
1992 Lundstrom R, Tavaré S, Ward RH. Estimating substitution rates from molecular data using the coalescent. Proceedings of the National Academy of Sciences of the United States of America. 89: 5961-5. PMID 1631081 DOI: 10.1073/Pnas.89.13.5961  0.291
2006 Shibata D, Tavaré S. Counting divisions in a human somatic cell tree: how, what and why? Cell Cycle (Georgetown, Tex.). 5: 610-4. PMID 16582617 DOI: 10.4161/Cc.5.6.2570  0.29
1998 Griffiths R, Tavaré S. The age of a mutation in a general coalescent tree Communications in Statistics. Stochastic Models. 14: 273-295. DOI: 10.1080/15326349808807471  0.289
2007 Nicolas P, Kim KM, Shibata D, Tavaré S. The stem cell population of the human colon crypt: analysis via methylation patterns. Plos Computational Biology. 3: e28. PMID 17335343 DOI: 10.1371/Journal.Pcbi.0030028  0.289
2014 Jauhiainen A, Madhu B, Narita M, Narita M, Griffiths J, Tavaré S. Normalization of metabolomics data with applications to correlation maps. Bioinformatics (Oxford, England). 30: 2155-61. PMID 24711654 DOI: 10.1093/Bioinformatics/Btu175  0.289
2016 Secrier M, Li X, de Silva N, Eldridge MD, Contino G, Bornschein J, MacRae S, Grehan N, O'Donovan M, Miremadi A, Yang TP, Bower L, Chettouh H, Crawte J, Galeano-Dalmau N, et al. Mutational signatures in esophageal adenocarcinoma define etiologically distinct subgroups with therapeutic relevance. Nature Genetics. PMID 27595477 DOI: 10.1038/Ng.3659  0.288
2021 Touloumis A, Marioni JC, Tavaré S. Hypothesis Testing for the Covariance Matrix in High-Dimensional Transposable Data with Kronecker Product Dependence Structure Statistica Sinica. DOI: 10.5705/Ss.202018.0268  0.288
2011 Speed D, Tavaré S. Sparse Partitioning: Nonlinear regression with binary or tertiary predictors, with application to association studies The Annals of Applied Statistics. 5: 873-893. DOI: 10.1214/10-Aoas411  0.287
2014 Silva AL, Dawson SN, Arends MJ, Guttula K, Hall N, Cameron EA, Huang TH, Brenton JD, Tavaré S, Bienz M, Ibrahim AE. Boosting Wnt activity during colorectal cancer progression through selective hypermethylation of Wnt signaling antagonists. Bmc Cancer. 14: 891. PMID 25432628 DOI: 10.1186/1471-2407-14-891  0.287
2004 Millman K, Black CM, Johnson RE, Stamm WE, Jones RB, Hook EW, Martin DH, Bolan G, Tavaré S, Dean D. Population-based genetic and evolutionary analysis of Chlamydia trachomatis urogenital strain variation in the United States. Journal of Bacteriology. 186: 2457-65. PMID 15060049 DOI: 10.1128/Jb.186.8.2457-2465.2004  0.286
2006 Marioni JC, Thorne NP, Tavaré S. BioHMM: a heterogeneous hidden Markov model for segmenting array CGH data. Bioinformatics (Oxford, England). 22: 1144-6. PMID 16533818 DOI: 10.1093/Bioinformatics/Btl089  0.285
2015 Kirschner K, Samarajiwa SA, Cairns JM, Menon S, Pérez-Mancera PA, Tomimatsu K, Bermejo-Rodriguez C, Ito Y, Chandra T, Narita M, Lyons SK, Lynch AG, Kimura H, Ohbayashi T, Tavaré S, et al. Phenotype specific analyses reveal distinct regulatory mechanism for chronically activated p53. Plos Genetics. 11: e1005053. PMID 25790137 DOI: 10.1371/Journal.Pgen.1005053  0.284
2015 Touloumis A, Tavaré S, Marioni JC. Testing the mean matrix in high-dimensional transposable data. Biometrics. 71: 157-66. PMID 25615804 DOI: 10.1111/Biom.12257  0.284
2010 Smith ML, Dunning MJ, Tavaré S, Lynch AG. Identification and correction of previously unreported spatial phenomena using raw Illumina BeadArray data. Bmc Bioinformatics. 11: 208. PMID 20423502 DOI: 10.1186/1471-2105-11-208  0.284
2000 Tsao JL, Yatabe Y, Salovaara R, Järvinen HJ, Mecklin JP, Aaltonen LA, Tavare S, Shibata D. Genetic reconstruction of individual colorectal tumor histories Proceedings of the National Academy of Sciences of the United States of America. 97: 1236-1241. PMID 10655514 DOI: 10.1073/Pnas.97.3.1236  0.283
2011 Sottoriva A, Vermeulen L, Tavaré S. Modeling evolutionary dynamics of epigenetic mutations in hierarchically organized tumors. Plos Computational Biology. 7: e1001132. PMID 21573198 DOI: 10.1371/Journal.Pcbi.1001132  0.283
1999 Griffiths RC, Tavaré S. The ages of mutations in gene trees The Annals of Applied Probability. 9: 567-590. DOI: 10.1214/Aoap/1029962804  0.283
2009 Wilkinson RD, Tavaré S. Estimating primate divergence times by using conditioned birth-and-death processes. Theoretical Population Biology. 75: 278-85. PMID 19269300 DOI: 10.1016/J.Tpb.2009.02.003  0.283
1979 Tavaré S. Sojourn times for conditioned Markov chains in genetics Theoretical Population Biology. 15: 108-113. DOI: 10.1016/0040-5809(79)90029-7  0.282
1995 Joyce P, Tavaré S. The distribution of rare alleles. Journal of Mathematical Biology. 33: 602-18. PMID 7608640 DOI: 10.1007/Bf00298645  0.282
2018 Griffiths RC, Tavaré S. Ancestral inference from haplotypes and mutations. Theoretical Population Biology. PMID 29704515 DOI: 10.1016/J.Tpb.2018.04.006  0.281
2015 Kirschner K, Samarajiwa SA, Cairns JM, Menon S, Pérez-Mancera PA, Tomimatsu K, Bermejo-Rodríguez C, Ito Y, Chandra T, Narita M, Lyons SK, Lynch AG, Kimura H, Ohbayashi T, Tavaré S, et al. Phenotype-associated p53-responsive gene expression in IMR90 cells. Plos Genetics. DOI: 10.1371/Journal.Pgen.1005053.G001  0.281
1982 Karlin S, Tavaré S. Detecting particular genotypes in populations under nonrandom mating Mathematical Biosciences. 59: 57-75. DOI: 10.1016/0025-5564(82)90109-2  0.281
2011 Ibrahim AE, Arends MJ, Silva AL, Wyllie AH, Greger L, Ito Y, Vowler SL, Huang TH, Tavaré S, Murrell A, Brenton JD. Sequential DNA methylation changes are associated with DNMT3B overexpression in colorectal neoplastic progression. Gut. 60: 499-508. PMID 21068132 DOI: 10.1136/Gut.2010.223602  0.28
2004 Calabrese P, Tsao JL, Yatabe Y, Salovaara R, Mecklin JP, Järvinen HJ, Aaltonen LA, Tavaré S, Shibata D. Colorectal pretumor progression before and after loss of DNA mismatch repair. The American Journal of Pathology. 164: 1447-53. PMID 15039232 DOI: 10.1016/S0002-9440(10)63231-2  0.279
1986 Donnelly P, Tavare S. The Ages Of Alleles And A Coalescent Advances in Applied Probability. 18: 1-19. DOI: 10.2307/1427237  0.279
2008 Dimas AS, Stranger BE, Beazley C, Finn RD, Ingle CE, Forrest MS, Ritchie ME, Deloukas P, Tavaré S, Dermitzakis ET. Modifier effects between regulatory and protein-coding variation. Plos Genetics. 4: e1000244. PMID 18974877 DOI: 10.1371/Journal.Pgen.1000244  0.279
2015 Paterson AL, Weaver JM, Eldridge MD, Tavaré S, Fitzgerald RC, Edwards PA. Mobile element insertions are frequent in oesophageal adenocarcinomas and can mislead paired-end sequencing analysis. Bmc Genomics. 16: 473. PMID 26159513 DOI: 10.1186/S12864-015-1685-Z  0.279
1990 Joyce P, Tavaré S. Random permutations and neutral evolution models Stochastic Processes and Their Applications. 36: 245-261. DOI: 10.1016/0304-4149(90)90094-9  0.278
2018 Nicholson AM, Olpe C, Hoyle A, Thorsen AS, Rus T, Colombé M, Brunton-Sim R, Kemp R, Marks K, Quirke P, Malhotra S, Ten Hoopen R, Ibrahim A, Lindskog C, Myers MB, et al. Fixation and Spread of Somatic Mutations in Adult Human Colonic Epithelium. Cell Stem Cell. PMID 29779891 DOI: 10.1016/J.Stem.2018.04.020  0.278
2007 Chin SF, Teschendorff AE, Marioni JC, Wang Y, Barbosa-Morais NL, Thorne NP, Costa JL, Pinder SE, van de Wiel MA, Green AR, Ellis IO, Porter PL, Tavaré S, Brenton JD, Ylstra B, et al. High-resolution aCGH and expression profiling identifies a novel genomic subtype of ER negative breast cancer. Genome Biology. 8: R215. PMID 17925008 DOI: 10.1186/Gb-2007-8-10-R215  0.278
2010 Sottoriva A, Tavaré S. Abstract PL04-03: Cancer stem cells Cancer Prevention Research. 3. DOI: 10.1158/1940-6207.Prev-10-Pl04-03  0.277
2006 Ibrahim AE, Thorne NP, Baird K, Barbosa-Morais NL, Tavaré S, Collins VP, Wyllie AH, Arends MJ, Brenton JD. MMASS: an optimized array-based method for assessing CpG island methylation. Nucleic Acids Research. 34: e136. PMID 17041235 DOI: 10.1093/Nar/Gkl551  0.277
2001 Millman KL, Tavaré S, Dean D. Recombination in the ompA gene but not the omcB gene of Chlamydia contributes to serovar-specific differences in tissue tropism, immune surveillance, and persistence of the organism. Journal of Bacteriology. 183: 5997-6008. PMID 11567000 DOI: 10.1128/Jb.183.20.5997-6008.2001  0.277
2007 Lynch AG, Marioni JC, Tavaré S. Numbers of copy-number variations and false-negative rates will be underestimated if we do not account for the dependence between repeated experiments. American Journal of Human Genetics. 81: 418-20; author reply. PMID 17668395 DOI: 10.1086/519393  0.276
2009 Siegmund KD, Marjoram P, Woo YJ, Tavaré S, Shibata D. Inferring clonal expansion and cancer stem cell dynamics from DNA methylation patterns in colorectal cancers. Proceedings of the National Academy of Sciences of the United States of America. 106: 4828-33. PMID 19261858 DOI: 10.1073/Pnas.0810276106  0.276
1985 Tavaré S. Line-of-descent and genealogical processes, and their applications in population genetics models. Theoretical Population Biology. 26: 119-64. PMID 6505980 DOI: 10.1017/S000186780002228X  0.275
1983 Karlin S, Ghandour G, Ost F, Tavare S, Korn LJ. New approaches for computer analysis of nucleic acid sequences. Proceedings of the National Academy of Sciences of the United States of America. 80: 5660-4. PMID 6577449 DOI: 10.1073/Pnas.80.18.5660  0.275
2004 Calabrese P, Tavaré S, Shibata D. Pretumor progression: clonal evolution of human stem cell populations. The American Journal of Pathology. 164: 1337-46. PMID 15039221 DOI: 10.1016/S0002-9440(10)63220-8  0.274
2012 Chandra T, Kirschner K, Thuret JY, Pope BD, Ryba T, Newman S, Ahmed K, Samarajiwa SA, Salama R, Carroll T, Stark R, Janky R, Narita M, Xue L, Chicas A, et al. Independence of repressive histone marks and chromatin compaction during senescent heterochromatic layer formation. Molecular Cell. 47: 203-14. PMID 22795131 DOI: 10.1016/J.Molcel.2012.06.010  0.272
1980 Tavaré S. Time reversal and age distributions, I. Discrete-time Markov chains Journal of Applied Probability. 17: 33-46. DOI: 10.1017/S0021900200046787  0.27
2017 Janowitz T, Williams EH, Marshall A, Ainsworth N, Thomas PB, Sammut SJ, Shepherd S, White J, Mark PB, Lynch AG, Jodrell DI, Tavaré S, Earl H. New Model for Estimating Glomerular Filtration Rate in Patients With Cancer. Journal of Clinical Oncology : Official Journal of the American Society of Clinical Oncology. JCO2017727578. PMID 28686534 DOI: 10.1200/Jco.2017.72.7578  0.27
2005 Kim JY, Tavaré S, Shibata D. Counting human somatic cell replications: methylation mirrors endometrial stem cell divisions. Proceedings of the National Academy of Sciences of the United States of America. 102: 17739-44. PMID 16314580 DOI: 10.1073/Pnas.0503976102  0.27
1989 Tavaré S, Song B. Codon preference and primary sequence structure in protein-coding regions Bulletin of Mathematical Biology. 51: 95-115. PMID 2706404 DOI: 10.1016/S0092-8240(89)80050-3  0.269
2005 Innan H, Zhang K, Marjoram P, Tavaré S, Rosenberg NA. Statistical tests of the coalescent model based on the haplotype frequency distribution and the number of segregating sites. Genetics. 169: 1763-77. PMID 15654103 DOI: 10.1534/Genetics.104.032219  0.269
1982 Karlin S, Tavaré S. A diffusion process with killing: the time to formation of recurrent deleterious mutant genes Stochastic Processes and Their Applications. 13: 249-261. DOI: 10.1016/0304-4149(82)90012-6  0.269
1987 Joyce P, Tavaré S. Cycles, permutations and the structure of the yule process with immigration Stochastic Processes and Their Applications. 25: 309-314. DOI: 10.1016/0304-4149(87)90209-2  0.268
1999 Fan F, Liu CP, Tavaré S, Arnheim N. Polymorphisms in the human DNA repair gene XPF Mutation Research - Mutation Research Genomics. 406: 115-120. PMID 10479728 DOI: 10.1016/S1383-5726(99)00008-4  0.268
2018 Williams E, Geisler RS, Beh I, Bertelli G, Cathomas R, Dooley MJ, Earl HM, Fehr M, Giglio D, Lewis PD, Mark P, Ocen J, Poole SG, Shepherd STC, Quinton A, et al. Validation of a new model for estimating glomerular filtration rate in patients with cancer. Journal of Clinical Oncology. 36: 2565-2565. DOI: 10.1200/Jco.2018.36.15_Suppl.2565  0.268
2009 Siegmund KD, Marjoram P, Tavaré S, Shibata D. Many colorectal cancers are "flat" clonal expansions. Cell Cycle (Georgetown, Tex.). 8: 2187-93. PMID 19556889 DOI: 10.4161/Cc.8.14.9151  0.267
1983 TAVARÉ S, ALTHAM PME. Serial dependence of observations leading to contingency tables, and corrections to chi-squared statistics Biometrika. 70: 139-144. DOI: 10.1093/Biomet/70.1.139  0.267
1999 Tsao JL, Tavaré S, Salovaara R, Jass JR, Aaltonen LA, Shibata D. Colorectal adenoma and cancer divergence. Evidence of multilineage progression. The American Journal of Pathology. 154: 1815-24. PMID 10362806 DOI: 10.1016/S0002-9440(10)65437-5  0.266
1983 Tavaré S. Serial Dependence in Contingency Tables Journal of the Royal Statistical Society: Series B (Methodological). 45: 100-106. DOI: 10.1111/J.2517-6161.1983.Tb01236.X  0.265
2009 Woo YJ, Siegmund KD, Tavaré S, Shibata D. Older individuals appear to acquire mitotically older colorectal cancers. The Journal of Pathology. 217: 483-8. PMID 19165870 DOI: 10.1002/Path.2506  0.263
2007 Chin SF, Wang Y, Thorne NP, Teschendorff AE, Pinder SE, Vias M, Naderi A, Roberts I, Barbosa-Morais NL, Garcia MJ, Iyer NG, Kranjac T, Robertson JF, Aparicio S, Tavaré S, et al. Using array-comparative genomic hybridization to define molecular portraits of primary breast cancers. Oncogene. 26: 1959-70. PMID 17001317 DOI: 10.1038/Sj.Onc.1209985  0.263
2009 Ritchie ME, Carvalho BS, Hetrick KN, Tavaré S, Irizarry RA. R/Bioconductor software for Illumina's Infinium whole-genome genotyping BeadChips. Bioinformatics (Oxford, England). 25: 2621-3. PMID 19661241 DOI: 10.1093/Bioinformatics/Btp470  0.262
1987 Donnelly P, Tavaré S. The population genealogy of the infinitely--many neutral alleles model. Journal of Mathematical Biology. 25: 381-91. PMID 3668395 DOI: 10.1007/Bf00277163  0.262
2011 Manolopoulou I, Legarreta L, Emerson BC, Brooks S, Tavaré S. A Bayesian approach to phylogeographic clustering. Interface Focus. 1: 909-21. PMID 23226589 DOI: 10.1098/Rsfs.2011.0054  0.261
2001 Yatabe Y, Tavaré S, Shibata D. Investigating stem cells in human colon by using methylation patterns Proceedings of the National Academy of Sciences of the United States of America. 98: 10839-10844. PMID 11517339 DOI: 10.1073/Pnas.191225998  0.26
2004 Kim KM, Calabrese P, Tavaré S, Shibata D. Enhanced stem cell survival in familial adenomatous polyposis. The American Journal of Pathology. 164: 1369-77. PMID 15039224 DOI: 10.1016/S0002-9440(10)63223-3  0.258
2018 Arratia R, Barbour AD, Ewens WJ, Tavaré S. Simulating the component counts of combinatorial structures. Theoretical Population Biology. PMID 29432792 DOI: 10.1016/J.Tpb.2018.02.002  0.258
2005 Calabrese P, Mecklin JP, Järvinen HJ, Aaltonen LA, Tavaré S, Shibata D. Numbers of mutations to different types of colorectal cancer. Bmc Cancer. 5: 126. PMID 16202134 DOI: 10.1186/1471-2407-5-126  0.257
1987 Tavaré S. The birth process with immigration, and the genealogical structure of large populations. Journal of Mathematical Biology. 25: 161-8. PMID 3611979 DOI: 10.1007/Bf00276387  0.257
2015 Massie CE, Spiteri I, Ross-Adams H, Luxton H, Kay J, Whitaker HC, Dunning MJ, Lamb AD, Ramos-Montoya A, Brewer DS, Cooper CS, Eeles R, Warren AY, Tavaré S, et al. HES5 silencing is an early and recurrent change in prostate tumourigenesis. Endocrine-Related Cancer. 22: 131-44. PMID 25560400 DOI: 10.1530/Erc-14-0454  0.255
2007 Shibata D, Tavaré S. Stem cell chronicles: autobiographies within genomes. Stem Cell Reviews. 3: 94-103. PMID 17873386 DOI: 10.1007/S12015-007-0022-6  0.255
2018 Wedge DC, Gundem G, Mitchell T, Woodcock DJ, Martincorena I, Ghori M, Zamora J, Butler A, Whitaker H, Kote-Jarai Z, Alexandrov LB, Van Loo P, Massie CE, Dentro S, Warren AY, et al. Sequencing of prostate cancers identifies new cancer genes, routes of progression and drug targets. Nature Genetics. PMID 29662167 DOI: 10.1038/S41588-018-0086-Z  0.255
1994 Arratia R, Tavare S. Independent Process Approximations for Random Combinatorial Structures Advances in Mathematics. 104: 90-154. DOI: 10.1006/Aima.1994.1022  0.254
1983 Karlin S, Tavaré S. A Class of Diffusion Processes with Killing Arising in Population Genetics Siam Journal On Applied Mathematics. 43: 31-41. DOI: 10.1137/0143003  0.253
2005 Kim JY, Siegmund KD, Tavaré S, Shibata D. Age-related human small intestine methylation: evidence for stem cell niches. Bmc Medicine. 3: 10. PMID 15975143 DOI: 10.1186/1741-7015-3-10  0.252
2018 Reilein A, Melamed D, Tavaré S, Kalderon D. Division-independent differentiation mandates proliferative competition among stem cells. Proceedings of the National Academy of Sciences of the United States of America. PMID 29555768 DOI: 10.1073/Pnas.1718646115  0.251
2017 Noorani A, Bornschein J, Lynch AG, Secrier M, Achilleos A, Eldridge M, Bower L, Weaver JMJ, Crawte J, Ong CA, Shannon N, MacRae S, Grehan N, Nutzinger B, O'Donovan M, et al. Corrigendum: A comparative analysis of whole genome sequencing of esophageal adenocarcinoma pre- and post-chemotherapy. Genome Research. 27: 1782. PMID 28974564 DOI: 10.1101/Gr.229153.117  0.249
1980 Tavaré S. Dual diffusions, killed diffusions, and the age distribution problem in population genetics. Theoretical Population Biology. 16: 253-66. PMID 545731 DOI: 10.1016/0040-5809(79)90016-9  0.249
1992 Arratia R, Tavaré S. Limit Theorems for Combinatorial Structures via Discrete Process Approximations Random Structures and Algorithms. 3: 321-345. DOI: 10.1002/Rsa.3240030310  0.249
2015 Gubernator M, Slater SC, Spencer HL, Spiteri I, Sottoriva A, Riu F, Rowlinson J, Avolio E, Katare R, Mangialardi G, Oikawa A, Reni C, Campagnolo P, Spinetti G, Touloumis A, et al. Epigenetic profile of human adventitial progenitor cells correlates with therapeutic outcomes in a mouse model of limb ischemia. Arteriosclerosis, Thrombosis, and Vascular Biology. 35: 675-88. PMID 25573856 DOI: 10.1161/Atvbaha.114.304989  0.249
1983 Seneta E, Tavaré S. Some stochastic models for plasmid copy number. Theoretical Population Biology. 23: 241-56. PMID 6612634 DOI: 10.1016/0040-5809(83)90016-3  0.249
2007 Dunning MJ, Smith ML, Ritchie ME, Tavaré S. beadarray: R classes and methods for Illumina bead-based data. Bioinformatics (Oxford, England). 23: 2183-4. PMID 17586828 DOI: 10.1093/Bioinformatics/Btm311  0.248
2017 Secrier M, Li X, de Silva N, Eldridge MD, Contino G, Bornschein J, MacRae S, Grehan N, O'Donovan M, Miremadi A, Yang TP, Bower L, Chettouh H, Crawte J, Galeano-Dalmau N, et al. Corrigendum: Mutational signatures in esophageal adenocarcinoma define etiologically distinct subgroups with therapeutic relevance. Nature Genetics. 49: 317. PMID 28138154 DOI: 10.1038/Ng0217-317A  0.247
2011 Wilkinson R, Tavare S. ABC for ancestral inference Nature Precedings. DOI: 10.1038/Npre.2011.5963.1  0.247
2007 Martin RD, Soligo C, Tavaré S. Primate origins: implications of a cretaceous ancestry. Folia Primatologica; International Journal of Primatology. 78: 277-96. PMID 17855783 DOI: 10.1159/000105145  0.245
2000 Arratia R, Barbour AD, Tavaré S. Limits of logarithmic combinatorial structures The Annals of Probability. 28: 1620-1644. DOI: 10.1214/Aop/1019160500  0.244
2018 Wendler A, Perner J, Field S, Lynch A, Watts C, Tavare S. GENE-24. IMPACT OF THERAPY ON EVOLUTION OF GBM Neuro-Oncology. 20: vi108-vi108. DOI: 10.1093/Neuonc/Noy148.450  0.242
2012 Piccirillo SGM, Spiteri I, Sottoriva A, Marko N, Tavare S, Collins P, Watts C. Abstract 3342: Tumor-initiating cells in human glioblastoma are heterogeneous populations which reside in distinct environmental niches Cancer Research. 72: 3342-3342. DOI: 10.1158/1538-7445.Am2012-3342  0.239
1996 Fu YX, Li WH, Donnelly P, Tavare S, Balding DJ, Griffiths RC, Weiss G, Von Haeseler A, Rogers J, Samollow PB, Comuzzie AG, Dorit RL, Akashi H, Gilbert W. Estimating the age of the common ancestor of men from the ZFY intron Science. 272: 1356-1362. PMID 8650550 DOI: 10.1126/Science.272.5266.1356  0.239
2011 Andy Lynch SS, Spiteri I, Smith ML, Caldas C, Narita M, Tavaré S. PS1-022. The InterferonScape: An insight into the Integrative Systems Biology of Interferon Stimulated Genes Cytokine. 56: 22. DOI: 10.1016/J.Cyto.2011.07.041  0.239
2019 Williams EH, Connell CM, Weaver JMJ, Beh I, Potts H, Whitley CT, Bird N, Al-Sayed T, Monaghan PJ, Fehr M, Cathomas R, Bertelli G, Quinton A, Lewis P, Shamash J, et al. Multicenter Validation of the CamGFR Model for Estimated Glomerular Filtration Rate. Jnci Cancer Spectrum. 3: pkz068. PMID 31750418 DOI: 10.1093/Jncics/Pkz068  0.238
2000 Arratia R, Barbour AD, Tavaré S. The number of components in a logarithmic combinatorial structure The Annals of Applied Probability. 10: 331-361. DOI: 10.1214/Aoap/1019487347  0.237
1981 Pakes AG, Tavaré S. Comments on the age distribution of Markov processes Advances in Applied Probability. 13: 681-703. DOI: 10.2307/1426967  0.236
2015 Madhu B, Narita M, Jauhiainen A, Menon S, Stubbs M, Tavaré S, Narita M, Griffiths JR. Metabolomic changes during cellular transformation monitored by metabolite-metabolite correlation analysis and correlated with gene expression. Metabolomics : Official Journal of the Metabolomic Society. 11: 1848-1863. PMID 26491426 DOI: 10.1007/S11306-015-0838-Z  0.235
1994 Griffiths RC, Tavare S. Ancestral Inference in Population Genetics Statistical Science. 9: 307-319. DOI: 10.1214/Ss/1177010378  0.234
2012 Birks S, Altinkaya M, Altinkaya A, Pilkington G, Kurian KM, Crosby C, Hopkins K, Williams M, Donovan L, Birks S, Eason A, Bosak V, Pilkington G, Birks S, Holliday J, ... ... Tavare S, et al. Abstracts from the 2012 BNOS Conference Neuro-Oncology. 14: ii1-ii12. DOI: 10.1093/Neuonc/Nos198  0.234
2011 Narita M, Young AR, Arakawa S, Samarajiwa SA, Nakashima T, Yoshida S, Hong S, Berry LS, Reichelt S, Ferreira M, Tavaré S, Inoki K, Shimizu S, Narita M. Spatial coupling of mTOR and autophagy augments secretory phenotypes. Science (New York, N.Y.). 332: 966-70. PMID 21512002 DOI: 10.1126/Science.1205407  0.234
1981 Karlin S, Tavaré S. The detection of particular genotypes in finite populations. I. Natural selection effects. Theoretical Population Biology. 19: 187-214. PMID 7256680 DOI: 10.1016/0040-5809(81)90017-4  0.233
2010 Clark AM, Goldstein LD, Tevlin M, Tavaré S, Shaham S, Miska EA. The microRNA miR-124 controls gene expression in the sensory nervous system of Caenorhabditis elegans. Nucleic Acids Research. 38: 3780-93. PMID 20176573 DOI: 10.1093/Nar/Gkq083  0.233
2010 Lynch AG, Hadfield J, Dunning MJ, Osborne M, Thorne NP, Tavaré S. The cost of reducing starting RNA quantity for Illumina BeadArrays: a bead-level dilution experiment. Bmc Genomics. 11: 540. PMID 20925945 DOI: 10.1186/1471-2164-11-540  0.233
2009 Avril-Sassen S, Goldstein LD, Stingl J, Blenkiron C, Le Quesne J, Spiteri I, Karagavriilidou K, Watson CJ, Tavaré S, Miska EA, Caldas C. Characterisation of microRNA expression in post-natal mouse mammary gland development. Bmc Genomics. 10: 548. PMID 19930549 DOI: 10.1186/1471-2164-10-548  0.231
1978 Tavare S. Conference on Ecological Statistics-A Summary Report Applied Statistics. 27: 344. DOI: 10.2307/2347171  0.229
2006 Arratia R, Barbour AD, Tavaré S. A Tale of Three Couplings: Poisson–Dirichlet and GEM Approximations for Random Permutations Combinatorics, Probability & Computing. 15: 31-62. DOI: 10.1017/S0963548305007054  0.229
1999 ARRATIA R, BARBOUR AD, TAVARÉ S. On Poisson–Dirichlet Limits for Random Decomposable Combinatorial Structures Combinatorics, Probability and Computing. 8: 193-208. DOI: 10.1017/S0963548399003788  0.227
2016 Asim M, Zecchini H, Tarish F, Massie C, Baridi A, Warren A, Zhao W, McDuffus L, Mascalchi P, Shaw G, Dev H, Wadhwa K, Wijnhoven P, Forment J, Lyons S, ... ... Tavare S, et al. Abstract LB-176: The human androgen receptor regulates DNA damage response (DDR) in prostate cancer Cancer Research. 76. DOI: 10.1158/1538-7445.Am2016-Lb-176  0.226
1976 Tavaré S. Sojourn times for conditioned Markov chains in genetics Advances in Applied Probability. 8: 645-648. DOI: 10.2307/1425926  0.226
2017 Asim M, Tarish F, Zecchini HI, Sanjiv K, Gelali E, Massie CE, Baridi A, Warren AY, Zhao W, Ogris C, McDuffus LA, Mascalchi P, Shaw G, Dev H, Wadhwa K, et al. Synthetic lethality between androgen receptor signalling and the PARP pathway in prostate cancer. Nature Communications. 8: 374. PMID 28851861 DOI: 10.1038/S41467-017-00393-Y  0.225
2019 Spencer S, Köstel Bal S, Egner W, Lango Allen H, Raza SI, Ma CA, Gürel M, Zhang Y, Sun G, Sabroe RA, Greene D, Rae W, Shahin T, Kania K, Ardy RC, et al. Loss of the interleukin-6 receptor causes immunodeficiency, atopy, and abnormal inflammatory responses. The Journal of Experimental Medicine. PMID 31235509 DOI: 10.1084/Jem.20190344  0.225
2013 Weaver JM, Shannon NB, Lynch A, Ross-Innes C, O'Donovan M, Tavaré S, Edwards P, Fitzgerald R. Sa2074 The mutational architecture of oesophageal adenocarcinoma Gastroenterology. 144. DOI: 10.1016/S0016-5085(13)61383-9  0.224
2007 Blenkiron C, Goldstein LD, Thorne NP, Spiteri I, Chin SF, Dunning MJ, Barbosa-Morais NL, Teschendorff AE, Green AR, Ellis IO, Tavaré S, Caldas C, Miska EA. MicroRNA expression profiling of human breast cancer identifies new markers of tumor subtype. Genome Biology. 8: R214. PMID 17922911 DOI: 10.1186/Gb-2007-8-10-R214  0.223
1992 Arratia R, Barbour AD, Tavare S. Poisson Process Approximations for the Ewens Sampling Formula Annals of Applied Probability. 2: 519-535. DOI: 10.1214/Aoap/1177005647  0.221
2006 Kim JY, Tavaré S, Shibata D. Human hair genealogies and stem cell latency. Bmc Biology. 4: 2. PMID 16457718 DOI: 10.1186/1741-7007-4-2  0.221
1999 Arratia R, Barbour AD, Tavaré S. The Poisson–Dirichlet Distribution and the Scale-Invariant Poisson Process Combinatorics, Probability & Computing. 8: 407-416. DOI: 10.1017/S0963548399003910  0.22
1981 Karlin S, Tavaré S. The detection of particular genotypes in finite populations. II. The effects of partial penetrance and family structure. Theoretical Population Biology. 19: 215-29. PMID 7256681 DOI: 10.1016/0040-5809(81)90018-6  0.219
1994 Barbour AD, Tavaré S. A Rate for the Erdos-Turan Law* Combinatorics, Probability & Computing. 3: 167-176. DOI: 10.1017/S0963548300001097  0.218
2005 Marioni JC, Thorne NP, Pole JC, Edwards PAW, Tavaré S. O10: An improved algorithm for segmenting array-CGH data European Journal of Medical Genetics. 48: 466-467. DOI: 10.1016/J.Ejmg.2005.10.035  0.215
1983 Ethier SN, Tavaré S. The proportional bettor's return on investment Journal of Applied Probability. 20: 563-573. DOI: 10.2307/3213893  0.214
2016 Arratia R, Barbour AD, Tavaré S. Exploiting the feller coupling for the ewens sampling formula Statistical Science. 31: 27-29. DOI: 10.1214/15-Sts537  0.21
2016 Asim M, Massie CE, Orafidiya F, Pértega-Gomes N, Warren AY, Esmaeili M, Selth LA, Zecchini HI, Luko K, Qureshi A, Baridi A, Menon S, Madhu B, Escriu C, Lyons S, et al. Choline Kinase Alpha as an Androgen Receptor Chaperone and Prostate Cancer Therapeutic Target. Journal of the National Cancer Institute. 108. PMID 26657335 DOI: 10.1093/Jnci/Djv371  0.209
2011 Narita M, Young AR, Arakawa S, Samarajiwa SA, Nakashima T, Yoshida S, Hong S, Berry LS, Reichelt S, Ferreira M, Tavaré S, Inoki K, Shimizu S, Narita M. TOR autophagy spatial coupling compartment (TASCC) augments secretory phenotypes F1000research. 2. DOI: 10.7490/F1000Research.2232.1  0.208
1982 Karlin S, Tavaré S. Linear birth and death processes with killing Journal of Applied Probability. 19: 477-487. DOI: 10.2307/3213507  0.208
1991 Donnelly P, Kurtz TG, Tavare S. On the Functional Central Limit Theorem for the Ewens Sampling Formula The Annals of Applied Probability. 1: 539-545. DOI: 10.1214/Aoap/1177005837  0.206
1992 Joyce P, Tavaré S. A convergence theorem for symmetric functionals of random partitions Journal of Applied Probability. 29: 280-290. DOI: 10.1017/S0021900200043047  0.205
1992 Arratia R, Tavare S. The Cycle Structure of Random Permutations The Annals of Probability. 20: 1567-1591. DOI: 10.1214/Aop/1176989707  0.205
1995 Arratia R, Stark D, Tavare S. Total Variation Asymptotics for Poisson Process Approximations of Logarithmic Combinatorial Assemblies The Annals of Probability. 23: 1347-1388. DOI: 10.1214/Aop/1176988188  0.204
1992 Tavaré S. International Conference on Random Mappings, Partitions, and Permutations Advances in Applied Probability. 24: 761-763. DOI: 10.1017/S0001867800024587  0.204
2022 Ng AWT, Contino G, Killcoyne S, Devonshire G, Hsu R, Abbas S, Su J, Redmond AM, Weaver JMJ, Eldridge MD, Tavaré S, Edwards PAW, Fitzgerald RC. Rearrangement processes and structural variations show evidence of selection in oesophageal adenocarcinomas. Communications Biology. 5: 335. PMID 35396535 DOI: 10.1038/s42003-022-03238-7  0.203
2015 Tavaré S, Sottoriva A, Piccirillo S, Spiteri I, Touloumis A, Marioni JC, Curtis CN, Watts C. Abstract IA04: Understanding tumor heterogeneity in glioblastoma Brain. 75. DOI: 10.1158/1538-7445.Brain15-Ia04  0.203
2018 Tavaré S. The linear birth‒death process: an inferential retrospective Advances in Applied Probability. 50: 253-269. DOI: 10.1017/Apr.2018.84  0.2
1993 Arratia R, Tavare S. Review: D. Aldous, Probability Approximations via the Poisson Clumping Heuristic ; A. D. Barbour, L. Holst, S. Janson, Poisson Approximation The Annals of Probability. 21: 2269-2279. DOI: 10.1214/Aop/1176989020  0.188
2008 Oakley JR, Tavare S. Another Approach to the Assessment of Growth in Early Infancy Developmental Medicine & Child Neurology. 21: 186-193. DOI: 10.1111/J.1469-8749.1979.Tb01600.X  0.188
2018 Tavaré S, Buzbas EO. Introduction to the Paul Joyce special issue. Theoretical Population Biology. 122: 1-2. PMID 30025565 DOI: 10.1016/J.Tpb.2018.07.001  0.184
2007 Soligo C, Martin RD, Soligo C, Tavaré S, Seiffert ER, Andrews P, Kelley J, Elton S, Antón SC, Kingdon J, Godfrey LR, Irwin MT, Thalmann U. Subject Index Vol. 78, 2007 Folia Primatologica. 78: 447-448. DOI: 10.1159/000108331  0.173
1984 Tavaré S. Lines-of-descent and genealogical processes, and their applications in population genetics models Advances in Applied Probability. 16: 27-27. DOI: 10.1017/S000186780002228X  0.138
2016 Andrews DJ, Lynch AG, Tavaré S. Using Methylation Patterns for Reconstructing Cell Division Dynamics: Assessing Validation Experiments Emerging Trends in Applications and Infrastructures For Computational Biology, Bioinformatics, and Systems Biology: Systems and Applications. 3-15. DOI: 10.1016/B978-0-12-804203-8.00001-8  0.138
2023 González-Solares EA, Dariush A, González-Fernández C, Küpcü Yoldaş A, Molaeinezhad A, Al Sa'd M, Smith L, Whitmarsh T, Millar N, Chornay N, Falciatori I, Fatemi A, Goodwin D, Kuett L, Mulvey CM, et al. Imaging and Molecular Annotation of Xenographs and Tumours (IMAXT): High throughput data and analysis infrastructure. Biological Imaging. 3: e11. PMID 38487685 DOI: 10.1017/S2633903X23000090  0.136
2023 Melamed D, Choi A, Reilein A, Tavaré S, Kalderon D. Spatial regulation of Drosophila ovarian Follicle Stem Cell division rates and cell cycle transitions. Plos Genetics. 19: e1010965. PMID 37747936 DOI: 10.1371/journal.pgen.1010965  0.124
2024 Dinh KN, Vázquez-García I, Chan A, Malhotra R, Weiner A, McPherson AW, Tavaré S. CINner: modeling and simulation of chromosomal instability in cancer at single-cell resolution. Biorxiv : the Preprint Server For Biology. PMID 38617259 DOI: 10.1101/2024.04.03.587939  0.12
2015 Madhu B, Narita M, Jauhiainen A, Menon S, Stubbs M, Tavaré S, Griffiths JR. Metabolomic changes during cellular transformation monitored by metabolite–metabolite correlation analysis and correlated with gene expression Metabolomics. 11: 1848-1863. DOI: 10.1007/s11306-015-0838-z  0.118
2014 Weaver J, Ross-Innes C, Shannon N, Lynch A, Murtaza M, Forshew T, Dunning M, Underwood T, Hardwick R, Eldridge M, Edwards P, Rosenfeld N, Tavare S, Fitzgerald R. PTU-153 The Timing Of Oncogenic Events In The Evolution Of The Oesophageal Adenocarcinoma Genome And Implications For Clinical Diagnostics Gut. 63: A105.2-A106. DOI: 10.1136/gutjnl-2014-307263.227  0.103
1999 Leeflang EP, Tavare S, Marjoram P, Neal COS, Srinidhi J, MacFarlane H, MacDonald ME, Gusella JF, De Young M, Wexler NS, Amheim N. Corrigendum: Analysis of germline mutation spectra at the Huntington's disease locus supports a mitotic mutation mechanism (Human Molecular Genetics (1999) 8 (173-183)) Human Molecular Genetics. 8: 717.  0.1
2023 Nowicki-Osuch K, Zhuang L, Cheung TS, Black EL, Masque-Soler N, Devonshire G, Redmond AM, Freeman A, di Pietro M, Pilonis N, Januszewicz W, O'Donovan M, Tavare S, Shields JD, Fitzgerald RC. Single-cell RNA sequencing unifies developmental programs of Esophageal and Gastric Intestinal Metaplasia. Cancer Discovery. PMID 36929873 DOI: 10.1158/2159-8290.CD-22-0824  0.099
1978 Tavaré S. Age distributions for Markov processes in genetics Advances in Applied Probability. 10: 17-19. DOI: 10.2307/1426715  0.098
2024 da Silva PH, Jamshidpey A, Tavaré S. Another view of sequential sampling in the birth process with immigration. Journal of Mathematical Biology. 88: 27. PMID 38329536 DOI: 10.1007/s00285-023-02041-0  0.093
2008 Ivakhno S, Teschendorff A, Caldas C, Tavare S. Analysis of copy number independent regions of expression bias in breast cancer using partial correlation European Journal of Cancer Supplements. 6: 116. DOI: 10.1016/S1359-6349(08)71615-X  0.091
2020 Williams EH, Flint TR, Connell CM, Giglio D, Lee H, Ha T, Gablenz E, Bird NJ, Weaver JMJ, Potts H, Whitley CT, Bookman MA, Lynch AG, Meyer HV, Tavaré S, et al. CamGFR v2: a new model for estimating the glomerular filtration rate from standardized or non-standardized creatinine in patients with cancer. Clinical Cancer Research : An Official Journal of the American Association For Cancer Research. PMID 33303580 DOI: 10.1158/1078-0432.CCR-20-3201  0.085
2015 Paterson AL, Weaver JMJ, Eldridge MD, Tavaré S, Fitzgerald RC, Edwards PAW. Mobile element insertions are frequent in oesophageal adenocarcinomas and can mislead paired-end sequencing analysis Bmc Genomics. 16. DOI: 10.1186/s12864-015-1685-z  0.083
2023 Melamed D, Choi A, Reilein A, Tavaré S, Kalderon D. Correction: Spatial regulation of Drosophila ovarian Follicle Stem Cell division rates and cell cycle transitions. Plos Genetics. 19: e1011040. PMID 37956120 DOI: 10.1371/journal.pgen.1011040  0.079
1993 Arratia R, Barbour AD, Tavaré S. On random polynomials over finite fields Mathematical Proceedings of the Cambridge Philosophical Society. 114: 347-368. DOI: 10.1017/S0305004100071620  0.077
2006 Millman K, Black CM, Stamm WE, Jones RB, Hook EW, Martin DH, Bolan G, Tavaré S, Dean D. Population-based genetic epidemiologic analysis of Chlamydia trachomatis serotypes and lack of association between ompA polymorphisms and clinical phenotypes. Microbes and Infection / Institut Pasteur. 8: 604-11. PMID 16527508 DOI: 10.1016/J.Micinf.2005.08.012  0.074
1979 Tavare S. A Note on Finite Homogeneous Continuous-Time Markov Chains Biometrics. 35: 831. DOI: 10.2307/2530117  0.056
1992 Fooks T, Tavare S. Coronary heart disease [3] British Journal of General Practice. 42: 303-304. PMID 1419271  0.01
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