Senior Group Leader

Research Group Home Page: 

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

Triage-driven diagnosis of Barrett’s esophagus for early detection of esophageal adenocarcinoma using deep learning.

E-pub date: 31 Mar 2021


FrenchFISH: Poisson Models for Quantifying DNA Copy Number From Fluorescence In Situ Hybridization of Tissue Sections.

E-pub date: 01 Feb 2021


Ultrasound-guided targeted biopsies of CT-based radiomic tumour habitats: technical development and initial experience in metastatic ovarian cancer.

E-pub date: 30 Nov 2020


Intestinal region-specific Wnt signalling profiles reveal interrelation between cell identity and oncogenic pathway activity in cancer development.

E-pub date: 30 Nov 2020


Three-Dimensional Printed Molds for Image-Guided Surgical Biopsies: An Open Source Computational Platform.

E-pub date: 31 Aug 2020


Integrative radiogenomics for virtual biopsy and treatment monitoring in ovarian cancer.

E-pub date: 31 Jul 2020


Unraveling tumor-immune heterogeneity in advanced ovarian cancer uncovers immunogenic effect of chemotherapy.

E-pub date: 08 Jun 2020


Tissue-specific and interpretable sub-segmentation of whole tumour burden on CT images by unsupervised fuzzy clustering.

E-pub date: 01 May 2020


Allele-specific multi-sample copy number segmentation in ASCAT.

E-pub date: 30 Apr 2020


A high-content RNAi screen reveals multiple roles for long noncoding RNAs in cell division.

E-pub date: 31 Mar 2020


The evolutionary history of 2,658 cancers.

E-pub date: 01 Feb 2020


Inferring structural variant cancer cell fraction.

E-pub date: 31 Jan 2020


ARID1A influences HDAC1/BRD4 activity, intrinsic proliferative capacity and breast cancer treatment response.

E-pub date: 31 Dec 2019


Data generation and network reconstruction strategies for single cell transcriptomic profiles of CRISPR-mediated gene perturbations.

E-pub date: 31 Oct 2019


IDENTIFYING THE ZIKA VIRUS TARGET CELL IN MALIGNANT GLIOMA

E-pub date: 01 Oct 2019


ZMIZ1 — A novel Estrogen Receptor co-activator that enhances the growth of ER+ breast cancer

E-pub date: 30 Sep 2019


Estimating the predictability of cancer evolution.

E-pub date: 30 Jun 2019


A high-content RNAi screen reveals multiple roles for long noncoding RNAs in cell division

E-pub date: 30 Jun 2019


Centriolar satellites are acentriolar assemblies of centrosomal proteins.

E-pub date: 31 May 2019


Correction to: VULCAN integrates ChIP-seq with patient-derived co-expression networks to identify GRHL2 as a key co-regulator of ERa at enhancers in breast cancer.

E-pub date: 31 May 2019


EN1 is a transcriptional dependency in triple-negative breast cancer associated with brain metastasis.

E-pub date: 31 May 2019


3D-printed moulds of renal tumours for image-guided tissue sampling in the clinical setting

E-pub date: 31 May 2019


Low perfusion compartments in glioblastoma quantified by advanced magnetic resonance imaging and correlated with patient survival.

E-pub date: 01 May 2019


VULCAN integrates ChIP-seq with patient-derived co-expression networks to identify GRHL2 as a key co-regulator of ERa at enhancers in breast cancer.

E-pub date: 30 Apr 2019


The Genomic and Immune Landscapes of Lethal Metastatic Breast Cancer.

E-pub date: 30 Apr 2019


Characterizing tumor invasiveness of glioblastoma using multiparametric magnetic resonance imaging.

E-pub date: 31 Mar 2019


Decoding the Interdependence of Multiparametric Magnetic Resonance Imaging to Reveal Patient Subgroups Correlated with Survivals.

E-pub date: 28 Feb 2019


Multi-parametric and multi-regional histogram analysis of MRI: modality integration reveals imaging phenotypes of glioblastoma.

E-pub date: 31 Jan 2019


Immuno-phenotypes of Pancreatic Ductal Adenocarcinoma: Meta-analysis of transcriptional subtypes.

E-pub date: 31 Jan 2019


Identification of ChIP-seq and RIME grade antibodies for Estrogen Receptor alpha.

E-pub date: 01 Jan 2019


Anti-mitotic therapies in cancer.

E-pub date: 30 Nov 2018


Ccube: A fast and robust method for estimating cancer cell fractions

E-pub date: 30 Nov 2018


frenchFISH: Poisson models for quantifying DNA copy-number from fluorescence in situ hybridisation of tissue sections

E-pub date: 30 Nov 2018


Intratumor heterogeneity defines treatment-resistant HER2+ breast tumors.

E-pub date: 01 Nov 2018


Genome-wide Estrogen Receptor-α activation is sustained, not cyclical.

E-pub date: 31 Oct 2018


Neutral tumor evolution?

E-pub date: 30 Sep 2018


Intratumoral Heterogeneity of Glioblastoma Infiltration Revealed by Joint Histogram Analysis of Diffusion Tensor Imaging.

E-pub date: 31 Aug 2018


Refining cellular pathway models using an ensemble of heterogeneous data sources

E-pub date: 31 Aug 2018


KHS101 disrupts energy metabolism in human glioblastoma cells and reduces tumor growth in mice.

E-pub date: 31 Jul 2018


Copy number signatures and mutational processes in ovarian carcinoma.

E-pub date: 31 Jul 2018


Genome-wide Estrogen Receptor-α activation is sustained, not cyclical

E-pub date: 31 Jul 2018


The evolutionary history of 2,658 cancers

E-pub date: 01 Jul 2018


Pervasive intra-tumour heterogeneity and subclonal selection across cancer types

E-pub date: 01 Jul 2018


11 The heterogeneous genomic and immune landscapes of lethal metastatic breast cancer

E-pub date: 01 Jul 2018


A quantitative mass spectrometry-based approach to monitor the dynamics of endogenous chromatin-associated protein complexes.

E-pub date: 13 Jun 2018


Specificity of RNAi, LNA and CRISPRi as loss-of-function methods in transcriptional analysis.

E-pub date: 01 Jun 2018


Disease-Associated Mutations in CEP120 Destabilize the Protein and Impair Ciliogenesis.

E-pub date: 29 May 2018


The integrated genomic and immune landscapes of lethal metastatic breast cancer (MBC)

E-pub date: 30 Apr 2018


Characterizing genetic intra-tumor heterogeneity across 2,658 human cancer genomes

E-pub date: 30 Apr 2018


Parallel factor ChIP provides essential internal control for quantitative differential ChIP-seq.

E-pub date: 17 Apr 2018


Mitotic spindle association of TACC3 requires Aurora-A-dependent stabilization of a cryptic α-helix.

E-pub date: 13 Apr 2018


Intra-tumor heterogeneity defines treatment-resistant HER2+ breast tumors

E-pub date: 31 Mar 2018


Asparagine bioavailability governs metastasis in a model of breast cancer.

E-pub date: 15 Feb 2018


O-GlcNAc-Dependent Regulation of Progesterone Receptor Function in Breast Cancer.

E-pub date: 01 Feb 2018


Network analysis of ChIP-seq data by VULCAN identifies GRHL2 as a key co-regulator of ERa in luminal breast cancer

E-pub date: 31 Jan 2018


Specificity of RNAi, LNA and CRISPRi as loss-of-function methods in transcriptional analysis

E-pub date: 30 Nov 2017


Fumarate Hydratase Loss Causes Combined Respiratory Chain Defects.

E-pub date: 24 Oct 2017


The small molecule KHS101 induces bioenergetic dysfunction in glioblastoma cells through inhibition of mitochondrial HSPD1

E-pub date: 30 Sep 2017


Immuno-phenotypes of Pancreatic Ductal Adenocarcinoma: Metaanalysis of transcriptional subtypes

E-pub date: 30 Sep 2017


Analysis of heterogeneity in T2-weighted MR images can differentiate pseudoprogression from progression in glioblastoma.

E-pub date: 31 Aug 2017


Novel Quantitative ChIP-seq Methods Measure Absolute Fold-Change in ER Binding Upon Fulvestrant Treatment

E-pub date: 31 Jul 2017


Copy-number signatures and mutational processes in ovarian carcinoma

E-pub date: 31 Jul 2017


Neurodevelopmental protein Musashi-1 interacts with the Zika genome and promotes viral replication.

E-pub date: 07 Jul 2017


The evolutionary history of 2,658 cancers

E-pub date: 30 Jun 2017


Allele-specific multi-sample copy number segmentation

E-pub date: 30 Jun 2017


Inferring modulators of genetic interactions with epistatic nested effects models.

E-pub date: 01 Apr 2017


All biology is computational biology.

E-pub date: 31 Mar 2017


BaalChIP: Bayesian analysis of allele-specific transcription factor binding in cancer genomes.

E-pub date: 24 Feb 2017


How Subclonal Modeling Is Changing the Metastatic Paradigm.

E-pub date: 01 Feb 2017


Master Regulators of Oncogenic KRAS Response in Pancreatic Cancer: An Integrative Network Biology Analysis.

E-pub date: 31 Jan 2017


Practical and Robust Identification of Molecular Subtypes in Colorectal Cancer by Immunohistochemistry.

E-pub date: 15 Jan 2017


Patterns of Immune Infiltration in Breast Cancer and Their Clinical Implications: A Gene-Expression-Based Retrospective Study.

E-pub date: 31 Dec 2016


A phylogenetic latent feature model for clonal deconvolution

E-pub date: 30 Nov 2016


BaalChIP: Bayesian analysis of allele-specific transcription factor binding in cancer genomes

E-pub date: 30 Nov 2016


Fanni Gergely: Exploring centrosome biology.

E-pub date: 31 Oct 2016


A saltationist theory of cancer evolution.

E-pub date: 28 Sep 2016


Quantifying tumor heterogeneity in the microenvironment

E-pub date: 01 Jul 2016


OncoNEM: inferring tumor evolution from single-cell sequencing data.

E-pub date: 15 Apr 2016


Quantifying patterns of tumor evolution

E-pub date: 01 Apr 2016


A CEP215-HSET complex links centrosomes with spindle poles and drives centrosome clustering in cancer.

E-pub date: 18 Mar 2016


Accumulated Metabolites of Hydroxybutyric Acid Serve as Diagnostic and Prognostic Biomarkers of Ovarian High-Grade Serous Carcinomas.

E-pub date: 15 Feb 2016


Transcriptional silencing of long noncoding RNA GNG12-AS1 uncouples its transcriptional and product-related functions.

E-pub date: 02 Feb 2016


Rapid immunoprecipitation mass spectrometry of endogenous proteins (RIME) for analysis of chromatin complexes.

E-pub date: 01 Feb 2016


Regulators of genetic risk of breast cancer identified by integrative network analysis.

E-pub date: 31 Jan 2016


Five selfish reasons to work reproducibly.

E-pub date: 08 Dec 2015


Hitting the brakes: targeting microtubule motors in cancer.

E-pub date: 01 Sep 2015


You Are Not Working for Me; I Am Working with You.

E-pub date: 01 Sep 2015


Tackling centrosome biology through gene targeting in chicken B cells.

E-pub date: 31 Aug 2015


Automated immunohistochemistry-based identification of molecular subtypes in colorectal cancer

E-pub date: 31 Jul 2015


Aurora-A-Dependent Control of TACC3 Influences the Rate of Mitotic Spindle Assembly.

E-pub date: 31 Jul 2015


BitPhylogeny: a probabilistic framework for reconstructing intra-tumor phylogenies.

E-pub date: 13 Feb 2015


Spatial and temporal heterogeneity in high-grade serous ovarian cancer: a phylogenetic analysis.

E-pub date: 01 Feb 2015


Centrosomes and mitotic spindle poles: a recent liaison?

E-pub date: 01 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


Cancer evolution: mathematical models and computational inference.

E-pub date: 31 Jan 2015


Joining the dots: Network analysis of gene perturbation data

E-pub date: 31 Dec 2014


Systems genetics: Linking genotypes and phenotypes

E-pub date: 31 Dec 2014


An introduction to systems genetics

E-pub date: 31 Dec 2014


Combined image and genomic analysis of high-grade serous ovarian cancer reveals PTEN loss as a common driver event and prognostic classifier.

E-pub date: 17 Dec 2014


Gene regulatory network approaches to interpreting breast cancer GWAS results

E-pub date: 30 Nov 2014


Small organelle, big responsibility: the role of centrosomes in development and disease.

E-pub date: 05 Sep 2014


SANTA: quantifying the functional content of molecular networks.

E-pub date: 01 Sep 2014


GoIFISH: a system for the quantification of single cell heterogeneity from IFISH images.

E-pub date: 26 Aug 2014


Phylogenetic quantification of intra-tumour heterogeneity.

E-pub date: 01 Apr 2014


Reconstructing evolving signalling networks by hidden Markov nested effects models

E-pub date: 31 Dec 2013


Loss of centrioles causes chromosomal instability in vertebrate somatic cells.

E-pub date: 09 Dec 2013


Design, synthesis, and biological evaluation of an allosteric inhibitor of HSET that targets cancer cells with supernumerary centrosomes.

E-pub date: 21 Nov 2013


Dissecting cancer heterogeneity–an unsupervised classification approach.

E-pub date: 01 Nov 2013


Design, synthesis and biological evaluation of a novel allosteric inhibitor of HSET that damages cancer cells with supernumerary centrosomes.

E-pub date: 01 Nov 2013


Cilia born out of shock and stress.

E-pub date: 31 Oct 2013


Abnormal centrosomal structure and duplication in Cep135-deficient vertebrate cells.

E-pub date: 01 Sep 2013


Master regulators of FGFR2 signalling and breast cancer risk.

E-pub date: 31 Aug 2013


Poor-prognosis colon cancer is defined by a molecularly distinct subtype and develops from serrated precursor lesions.

E-pub date: 31 May 2013


The shotgun proteomic study of the human ThinPrep cervical smear using iTRAQ mass-tagging and 2D LC-FT-Orbitrap-MS: the detection of the human papillomavirus at the protein level.

E-pub date: 30 Apr 2013


Quantitative image analysis of cellular heterogeneity in breast tumors complements genomic profiling (Science Translational Medicine (2012) 4, (161er6))

E-pub date: 31 Oct 2012


Quantitative image analysis of cellular heterogeneity in breast tumors complements genomic profiling.

E-pub date: 24 Oct 2012


Disruption of mouse Cenpj, a regulator of centriole biogenesis, phenocopies Seckel syndrome.

E-pub date: 31 Aug 2012


Posterior association networks and functional modules inferred from rich phenotypes of gene perturbations.

E-pub date: 31 Aug 2012


A sparse regulatory network of copy-number driven gene expression reveals putative breast cancer oncogenes.

E-pub date: 31 Jul 2012


Diverse epigenetic strategies interact to control epidermal differentiation.

E-pub date: 24 Jun 2012


RedeR: R/Bioconductor package for representing modular structures, nested networks and multiple levels of hierarchical associations.

E-pub date: 24 Apr 2012


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

E-pub date: 18 Apr 2012


Casein kinase I delta controls centrosome positioning during T cell activation.

E-pub date: 28 Nov 2011


Patient-specific data fusion defines prognostic cancer subtypes.

E-pub date: 31 Oct 2011


A primary microcephaly protein complex forms a ring around parental centrioles.

E-pub date: 09 Oct 2011


Penalized regression elucidates aberration hotspots mediating subtype-specific transcriptional responses in breast cancer.

E-pub date: 01 Oct 2011


Differential C3NET reveals disease networks of direct physical interactions.

E-pub date: 21 Jul 2011


Deregulation upon DNA damage revealed by joint analysis of context-specific perturbation data.

E-pub date: 21 Jun 2011


The essential role of centrosomal NDE1 in human cerebral cortex neurogenesis.

E-pub date: 13 May 2011


HTSanalyzeR: an R/Bioconductor package for integrated network analysis of high-throughput screens.

E-pub date: 15 Mar 2011


Evolutionary distances in the twilight zone–a rational kernel approach.

E-pub date: 31 Dec 2010


Mapping dynamic histone acetylation patterns to gene expression in nanog-depleted murine embryonic stem cells.

E-pub date: 16 Dec 2010


WDR62 is associated with the spindle pole and is mutated in human microcephaly.

E-pub date: 01 Nov 2010


Antivascular and anticancer activity of dihalogenated A-ring analogues of combretastatin A-4

E-pub date: 01 Sep 2010


CDK5RAP2 functions in centrosome to spindle pole attachment and DNA damage response.

E-pub date: 05 Apr 2010


How to understand the cell by breaking it: network analysis of gene perturbation screens.

E-pub date: 26 Feb 2010


Systems-level dynamic analyses of fate change in murine embryonic stem cells.

E-pub date: 19 Nov 2009


INPP5E mutations cause primary cilium signaling defects, ciliary instability and ciliopathies in human and mouse.

E-pub date: 01 Sep 2009


Knock-in and knock-out: the use of reverse genetics in somatic cells to dissect mitotic pathways.

E-pub date: 31 Aug 2009


Centrosome function in cancer: guilty or innocent?

E-pub date: 31 Jul 2009


MCAK-independent functions of ch-Tog/XMAP215 in microtubule plus-end dynamics.

E-pub date: 31 Dec 2008


Mitosis: Cdh1 clears the way for anaphase spindle assembly.

E-pub date: 11 Nov 2008


Analyzing gene perturbation screens with nested effects models in R and bioconductor.

E-pub date: 01 Nov 2008


Multiple centrosomes: together they stand, divided they fall.

E-pub date: 01 Sep 2008


Computational diagnostics with gene expression profiles.

E-pub date: 31 Aug 2008


Structure learning in Nested Effects Models.

E-pub date: 31 Aug 2008


Loss of Rassf1a cooperates with Apc(Min) to accelerate intestinal tumourigenesis.

E-pub date: 24 Jul 2008


Inferring cellular networks–a review.

E-pub date: 27 Sep 2007


Aurora-A: the maker and breaker of spindle poles.

E-pub date: 01 Sep 2007


Computational identification of cellular networks and pathways.

E-pub date: 31 Jul 2007


Nested effects models for high-dimensional phenotyping screens.

E-pub date: 01 Jul 2007


BRCA1-independent ubiquitination of FANCD2.

E-pub date: 01 Jul 2003


Computational Diagnostics

E-pub date: 01 Jan 1970


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Research Integrity Conflict of Interest Disclosure: 
Last revised: 
12/09/2018
Company Active Research funding Ownership Royalty payments Commitment to carry out work for a fee Ad hoc reimbursed work Travel Gifts/ other
Definiens No No No Yes No No No Yes
Agilent Yes Yes No No No No No No
Cambridge University Press Yes No No Yes No No No No
Kristkeitz Verlag Yes No No Yes No No No No
Tailor Bio Yes No Yes No No No No No
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