Director of the CRI

Research Group Home Page: 
Tavaré Group

Work address: 
Cancer Research UK Cambridge Institute University of Cambridge Li Ka Shing Centre Robinson Way Cambridge CB2 0RE

The landscape of selection in 551 esophageal adenocarcinomas defines genomic biomarkers for the clinic.

E-pub date: 31 Jan 2019

Author Correction: Authentication and characterisation of a new oesophageal adenocarcinoma cell line: MFD-1.

E-pub date: 31 Dec 2018

Identification of Prognostic Phenotypes of Esophageal Adenocarcinoma in 2 Independent Cohorts.

E-pub date: 01 Dec 2018

Introduction to the Paul Joyce special issue.

E-pub date: 01 Jul 2018

Fixation and Spread of Somatic Mutations in Adult Human Colonic Epithelium.

E-pub date: 01 Jun 2018

Sequencing of prostate cancers identifies new cancer genes, routes of progression and drug targets.

E-pub date: 31 May 2018

Ancestral inference from haplotypes and mutations.

E-pub date: 25 Apr 2018

Division-independent differentiation mandates proliferative competition among stem cells.

E-pub date: 03 Apr 2018

Simulating the component counts of combinatorial structures.

E-pub date: 09 Feb 2018

Multicentre cohort study to define and validate pathological assessment of response to neoadjuvant therapy in oesophagogastric adenocarcinoma.

E-pub date: 31 Dec 2017

Corrigendum: A comparative analysis of whole genome sequencing of esophageal adenocarcinoma pre- and post-chemotherapy.

E-pub date: 31 Oct 2017

Synthetic lethality between androgen receptor signalling and the PARP pathway in prostate cancer.

E-pub date: 29 Aug 2017

New Model for Estimating Glomerular Filtration Rate in Patients With Cancer.

E-pub date: 20 Aug 2017

A comparative analysis of whole genome sequencing of esophageal adenocarcinoma pre- and post-chemotherapy.

E-pub date: 01 Jun 2017

Corrigendum: Mutational signatures in esophageal adenocarcinoma define etiologically distinct subgroups with therapeutic relevance.

E-pub date: 31 Jan 2017

Mutational signatures in esophageal adenocarcinoma define etiologically distinct subgroups with therapeutic relevance.

E-pub date: 31 Oct 2016

Mutational signatures of ionizing radiation in second malignancies.

E-pub date: 12 Sep 2016

Authentication and characterisation of a new oesophageal adenocarcinoma cell line: MFD-1.

E-pub date: 07 Sep 2016

HDTD: analyzing multi-tissue gene expression data.

E-pub date: 15 Jul 2016

Choline Kinase Alpha as an Androgen Receptor Chaperone and Prostate Cancer Therapeutic Target.

E-pub date: 31 May 2016

Erratum to: Transcriptional profiling of MnSOD-mediated lifespan extension in Drosophila reveals a species-general network of aging and metabolic genes.

E-pub date: 06 May 2016

Whole-genome sequencing provides new insights into the clonal architecture of Barrett’s esophagus and esophageal adenocarcinoma.

E-pub date: 01 Sep 2015

Metabolomic changes during cellular transformation monitored by metabolite-metabolite correlation analysis and correlated with gene expression.

E-pub date: 31 Aug 2015

Mobile element insertions are frequent in oesophageal adenocarcinomas and can mislead paired-end sequencing analysis.

E-pub date: 10 Jul 2015

multiSNV: a probabilistic approach for improving detection of somatic point mutations from multiple related tumour samples.

E-pub date: 19 May 2015

HES5 silencing is an early and recurrent change in prostate tumourigenesis.

E-pub date: 01 Apr 2015

Phenotype specific analyses reveal distinct regulatory mechanism for chronically activated p53.

E-pub date: 31 Mar 2015

Epigenetic profile of human adventitial progenitor cells correlates with therapeutic outcomes in a mouse model of limb ischemia.

E-pub date: 31 Mar 2015

Testing the mean matrix in high-dimensional transposable data.

E-pub date: 31 Mar 2015

Genetic mapping of natural variation in schooling tendency in the threespine stickleback.

E-pub date: 25 Feb 2015

A tumor DNA complex aberration index is an independent predictor of survival in breast and ovarian cancer.

E-pub date: 31 Jan 2015

Contributions to drug resistance in glioblastoma derived from malignant cells in the sub-ependymal zone.

E-pub date: 01 Jan 2015

Boosting Wnt activity during colorectal cancer progression through selective hypermethylation of Wnt signaling antagonists.

E-pub date: 29 Nov 2014

Ordering of mutations in preinvasive disease stages of esophageal carcinogenesis.

E-pub date: 31 Aug 2014

Quantifying the impact of inter-site heterogeneity on the distribution of ChIP-seq data.

E-pub date: 31 Aug 2014

Fkh1 and Fkh2 bind multiple chromosomal elements in the S. cerevisiae genome with distinct specificities and cell cycle dynamics.

E-pub date: 31 Aug 2014

Normalization of metabolomics data with applications to correlation maps.

E-pub date: 01 Aug 2014

PTU-153 The Timing Of Oncogenic Events In The Evolution Of The Oesophageal Adenocarcinoma Genome And Implications For Clinical Diagnostics.

E-pub date: 01 Jun 2014

Flexible analysis of RNA-seq data using mixed effects models.

E-pub date: 15 Jan 2014

Defining stem cell dynamics in models of intestinal tumor initiation.

E-pub date: 22 Nov 2013

Continuous clonal labeling reveals small numbers of functional stem cells in intestinal crypts and adenomas.

E-pub date: 07 Nov 2013

Transcriptional dynamics elicited by a short pulse of notch activation involves feed-forward regulation by E(spl)/Hes genes.

E-pub date: 31 Aug 2013

Assessing senescence in Drosophila using video tracking.

E-pub date: 31 Aug 2013

The relative timing of mutations in a breast cancer genome.

E-pub date: 31 Aug 2013

The level of origin firing inversely affects the rate of replication fork progression.

E-pub date: 29 Apr 2013

Intratumor heterogeneity in human glioblastoma reflects cancer evolutionary dynamics.

E-pub date: 05 Mar 2013

Three-dimensional tracking and behaviour monitoring of multiple fruit flies.

E-pub date: 06 Jan 2013

Single-molecule genomic data delineate patient-specific tumor profiles and cancer stem cell organization.

E-pub date: 01 Jan 2013

Calling sample mix-ups in cancer population studies.

E-pub date: 31 Aug 2012

Using GFP video to track 3D movement and conditional gene expression in free-moving flies.

E-pub date: 31 Aug 2012

Independence of repressive histone marks and chromatin compaction during senescent heterochromatic layer formation.

E-pub date: 27 Jul 2012

The genomic and transcriptomic architecture of 2,000 breast tumours reveals novel subgroups.

E-pub date: 18 Apr 2012

Forkhead transcription factors establish origin timing and long-range clustering in S. cerevisiae.

E-pub date: 20 Jan 2012

A Bayesian approach to phylogeographic clustering.

E-pub date: 06 Dec 2011

High DNA methylation pattern intratumoral diversity implies weak selection in many human colorectal cancers.

E-pub date: 31 Aug 2011

Modeling evolutionary dynamics of epigenetic mutations in hierarchically organized tumors.

E-pub date: 31 May 2011

Spatial coupling of mTOR and autophagy augments secretory phenotypes.

E-pub date: 20 May 2011

Sequential DNA methylation changes are associated with DNMT3B overexpression in colorectal neoplastic progression.

E-pub date: 01 Apr 2011

BayesPeak–an R package for analysing ChIP-seq data.

E-pub date: 01 Mar 2011

Dating primate divergences through an integrated analysis of palaeontological and molecular data.

E-pub date: 31 Jan 2011

CNAseg–a novel framework for identification of copy number changes in cancer from second-generation sequencing data.

E-pub date: 15 Dec 2010

The cost of reducing starting RNA quantity for Illumina BeadArrays: a bead-level dilution experiment.

E-pub date: 06 Oct 2010

The importance of platform annotation in interpreting microarray data.

E-pub date: 31 Aug 2010

The microRNA miR-124 controls gene expression in the sensory nervous system of Caenorhabditis elegans.

E-pub date: 01 Jun 2010

CNAnova: a new approach for finding recurrent copy number abnormalities in cancer SNP microarray data.

E-pub date: 01 Jun 2010

Data analysis issues for allele-specific expression using Illumina’s GoldenGate assay.

E-pub date: 26 May 2010

Identification and correction of previously unreported spatial phenomena using raw Illumina BeadArray data.

E-pub date: 27 Apr 2010

High-throughput analysis of candidate imprinted genes and allele-specific gene expression in the human term placenta.

E-pub date: 19 Apr 2010

A re-annotation pipeline for Illumina BeadArrays: improving the interpretation of gene expression data.

E-pub date: 31 Jan 2010

The pitfalls of platform comparison: DNA copy number array technologies assessed.

E-pub date: 08 Dec 2009

Characterisation of microRNA expression in post-natal mouse mammary gland development.

E-pub date: 20 Nov 2009

Genome-wide analysis of a G-quadruplex-specific single-chain antibody that regulates gene expression.

E-pub date: 01 Nov 2009

Hydrogen peroxide stimulates activity and alters behavior in Drosophila melanogaster.

E-pub date: 28 Oct 2009

Drosophila melanogaster p53 has developmental stage-specific and sex-specific effects on adult life span indicative of sexual antagonistic pleiotropy.

E-pub date: 27 Oct 2009

R/Bioconductor software for Illumina’s Infinium whole-genome genotyping BeadChips.

E-pub date: 01 Oct 2009

Strategies for analyzing highly enriched IP-chip datasets.

E-pub date: 22 Sep 2009

BayesPeak: Bayesian analysis of ChIP-seq data.

E-pub date: 21 Sep 2009

Product length, dye choice, and detection chemistry in the bead-emulsion amplification of millions of single DNA molecules in parallel.

E-pub date: 15 Jul 2009

Many colorectal cancers are “flat” clonal expansions.

E-pub date: 15 Jul 2009

Estimating primate divergence times by using conditioned birth-and-death processes.

E-pub date: 01 Jun 2009

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.

E-pub date: 01 May 2009

Simultaneous tracking of movement and gene expression in multiple Drosophila melanogaster flies using GFP and DsRED fluorescent reporter transgenes.

E-pub date: 17 Apr 2009

Autophagy mediates the mitotic senescence transition.

E-pub date: 01 Apr 2009

Older individuals appear to acquire mitotically older colorectal cancers.

E-pub date: 31 Mar 2009

Inferring clonal expansion and cancer stem cell dynamics from DNA methylation patterns in colorectal cancers.

E-pub date: 24 Mar 2009

Population genetic inference from resequencing data.

E-pub date: 31 Jan 2009

A screen of apoptosis and senescence regulatory genes for life span effects when over-expressed in Drosophila.

E-pub date: 30 Jan 2009

Simultaneous tracking of fly movement and gene expression using GFP.

E-pub date: 16 Dec 2008

Modifier effects between regulatory and protein-coding variation.

E-pub date: 31 Oct 2008

Species-specific transcription in mice carrying human chromosome 21.

E-pub date: 17 Oct 2008

O fly, where art thou?

E-pub date: 06 Oct 2008

An integrated resource for genome-wide identification and analysis of human tissue-specific differentially methylated regions (tDMRs).

E-pub date: 01 Sep 2008

Endometrial-peritoneal interactions during endometriotic lesion establishment.

E-pub date: 01 Sep 2008

A Bayesian deconvolution strategy for immunoprecipitation-based DNA methylome analysis.

E-pub date: 31 Jul 2008

Hidden copy number variation in the HapMap population.

E-pub date: 22 Jul 2008

Rad53 regulates replication fork restart after DNA damage in Saccharomyces cerevisiae.

E-pub date: 15 Jul 2008

Piwi and piRNAs act upstream of an endogenous siRNA pathway to suppress Tc3 transposon mobility in the Caenorhabditis elegans germline.

E-pub date: 11 Jul 2008

Spike-in validation of an Illumina-specific variance-stabilizing transformation.

E-pub date: 04 Jun 2008

Inferring relative numbers of human leucocyte genome replications.

E-pub date: 01 Jun 2008

Pediatric malignant germ cell tumors show characteristic transcriptome profiles.

E-pub date: 01 Jun 2008

Statistical issues in the analysis of Illumina data.

E-pub date: 06 Feb 2008

Population genomics of human gene expression.

E-pub date: 31 Oct 2007

Cell cycle genes are the evolutionarily conserved targets of the E2F4 transcription factor.

E-pub date: 24 Oct 2007

Breaking the waves: improved detection of copy number variation from microarray-based comparative genomic hybridization.

E-pub date: 31 Aug 2007

Numbers of copy-number variations and false-negative rates will be underestimated if we do not account for the dependence between repeated experiments.

E-pub date: 31 Aug 2007

MicroRNA expression profiling of human breast cancer identifies new markers of tumor subtype.

E-pub date: 31 Aug 2007

High-resolution aCGH and expression profiling identifies a novel genomic subtype of ER negative breast cancer.

E-pub date: 31 Aug 2007

Explaining differences in saturation levels for Affymetrix GeneChip arrays.

E-pub date: 31 Aug 2007

Transcriptional profiling of MnSOD-mediated lifespan extension in Drosophila reveals a species-general network of aging and metabolic genes.

E-pub date: 31 Aug 2007

Primate origins: implications of a cretaceous ancestry.

E-pub date: 31 Aug 2007

beadarray: R classes and methods for Illumina bead-based data.

E-pub date: 15 Aug 2007

Lack of increases in methylation at three CpG-rich genomic loci in non-mitotic adult tissues during aging.

E-pub date: 31 Jul 2007

Using expression arrays for copy number detection: an example from E. coli.

E-pub date: 14 Jun 2007

Using array-comparative genomic hybridization to define molecular portraits of primary breast cancers.

E-pub date: 22 Mar 2007

The stem cell population of the human colon crypt: analysis via methylation patterns.

E-pub date: 02 Mar 2007

Relative impact of nucleotide and copy number variation on gene expression phenotypes.

E-pub date: 09 Feb 2007

Genetic reconstruction of individual colorectal tumor histories.

E-pub date: 31 Jan 2000

Estimating substitution rates from molecular data using the coalescent.

E-pub date: 30 Jun 1992

New approaches for computer analysis of nucleic acid sequences.

E-pub date: 01 Sep 1983

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