Intra-tumour heterogeneity - going beyond genetics

DNA Methylation and Somatic Mutations Converge on the Cell Cycle and Define Similar Evolutionary Histories in Brain Tumors

(2015) Tali Mazor et al.   CANCER CELL

Design and Analysis of Single-Cell Sequencing Experiments

(2015) Dominic Grün et al.   CELL

Epigenetic Control of Stem Cell Potential during Homeostasis, Aging, and Disease

(2015) Isabel Beerman et al.   Cell Stem Cell

Single-Cell Transcriptomics Enters the Age of Mass Production

(2015) Jan Philipp Junker et al.   MOLECULAR CELL

Mutations driving CLL and their evolution in progression and relapse

(2015) Dan A. Landau et al.   NATURE

Studying clonal dynamics in response to cancer therapy using high-complexity barcoding

(2015) Hyo-eun C Bhang et al.   NATURE MEDICINE

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

(2015) Noemi Andor et al.   NATURE MEDICINE

RNA-Seq of single prostate CTCs implicates noncanonical Wnt signaling in antiandrogen resistance

(2015) D. T. Miyamoto et al.   SCIENCE

Single-cell genotyping demonstrates complex clonal diversity in acute myeloid leukemia

(2015) Amy L. Paguirigan et al.   Science Translational Medicine

Combining gene mutation with gene expression data improves outcome prediction in myelodysplastic syndromes

(2015) Moritz Gerstung et al.   Nature Communications

Locally Disordered Methylation Forms the Basis of Intratumor Methylome Variation in Chronic Lymphocytic Leukemia

(2014) Dan A. Landau et al.   CANCER CELL

Evolution of the Cancer Stem Cell Model

(2014) Antonija Kreso et al.   Cell Stem Cell

Single cell analysis of cancer genomes

(2014) Peter Van Loo et al.   CURRENT OPINION IN GENETICS & DEVELOPMENT

Cellular barcoding: A technical appraisal

(2014) Shalin H. Naik et al.   EXPERIMENTAL HEMATOLOGY

Beyond genome sequencing: Lineage tracking with barcodes to study the dynamics of evolution, infection, and cancer

(2014) Jamie R. Blundell et al.   GENOMICS

Cancer Epigenetics: Tumor Heterogeneity, Plasticity of Stem-like States, and Drug Resistance

(2014) Hariharan Easwaran et al.   MOLECULAR CELL

Non-cell-autonomous driving of tumour growth supports sub-clonal heterogeneity

(2014) Andriy Marusyk et al.   NATURE

Genomic architecture and evolution of clear cell renal cell carcinomas defined by multiregion sequencing

(2014) Marco Gerlinger et al.   NATURE GENETICS

Tumor Heterogeneity Confounds and Illuminates: Assessing the implications

(2014) Maria Kleppe et al.   NATURE MEDICINE

Tumor Heterogeneity Confounds and Illuminates: A case for Darwinian tumor evolution

(2014) Kornelia Polyak   NATURE MEDICINE

Single-cell RNA-seq highlights intratumoral heterogeneity in primary glioblastoma

(2014) A. P. Patel et al.   SCIENCE

DNA barcoding reveals diverse growth kinetics of human breast tumour subclones in serially passaged xenografts

(2014) Long V. Nguyen et al.   Nature Communications

Intratumor DNA Methylation Heterogeneity Reflects Clonal Evolution in Aggressive Prostate Cancer

(2014) David Brocks et al.   Cell Reports

Clonal Architecture of Secondary Acute Myeloid Leukemia Defined by Single-Cell Sequencing

(2014) Andrew E. O. Hughes et al.   PLoS Genetics

Lentiviral and targeted cellular barcoding reveals ongoing clonal dynamics of cell lines in vitro and in vivo

(2014) Shaina N Porter et al.   GENOME BIOLOGY

Advances for studying clonal evolution in cancer

(2013) Li Ding et al.   CANCER LETTERS

Evolution and Impact of Subclonal Mutations in Chronic Lymphocytic Leukemia

(2013) Dan A. Landau et al.   CELL

Cancer gene expression signatures – The rise and fall?

(2013) Frederic Chibon   EUROPEAN JOURNAL OF CANCER

Clonal Heterogeneity As Detected by Metaphase Karyotyping Is an Indicator of Poor Prognosis in Acute Myeloid Leukemia

(2013) Tilmann Bochtler et al.   JOURNAL OF CLINICAL ONCOLOGY

Pervasive genetic hitchhiking and clonal interference in forty evolving yeast populations

(2013) Gregory I. Lang et al.   NATURE

Quantitative assessment of single-cell RNA-sequencing methods

(2013) Angela R Wu et al.   NATURE METHODS

Mutations in regulators of the epigenome and their connections to global chromatin patterns in cancer

(2013) Christoph Plass et al.   NATURE REVIEWS GENETICS

Prostate cancer originating in basal cells progresses to adenocarcinoma propagated by luminal-like cells

(2013) T. Stoyanova et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Cancer Genome Landscapes

(2013) B. Vogelstein et al.   SCIENCE

Evolution of DNA Methylation Is Linked to Genetic Aberrations in Chronic Lymphocytic Leukemia

(2013) C. C. Oakes et al.   Cancer Discovery

Parallel Evolutionary Dynamics of Adaptive Diversification in Escherichia coli

(2013) Matthew D. Herron et al.   PLOS BIOLOGY

Whole Genome, Whole Population Sequencing Reveals That Loss of Signaling Networks Is the Major Adaptive Strategy in a Constant Environment

(2013) Daniel J. Kvitek et al.   PLoS Genetics

Cellular Heterogeneity and Molecular Evolution in Cancer

(2012) Vanessa Almendro et al.   Annual Review of Pathology-Mechanisms of Disease

Accessories to the Crime: Functions of Cells Recruited to the Tumor Microenvironment

(2012) Douglas Hanahan et al.   CANCER CELL

MicroRNA dysregulation in cancer: diagnostics, monitoring and therapeutics. A comprehensive review

(2012) Marilena V. Iorio et al.   EMBO Molecular Medicine

Cancer stem cells as ‘units of selection’

(2012) Mel Greaves   Evolutionary Applications

Genetic Diversity and the Structure of Genealogies in Rapidly Adapting Populations

(2012) M. M. Desai et al.   GENETICS

Clonal evolution in cancer

(2012) Mel Greaves et al.   NATURE

Clonal selection drives genetic divergence of metastatic medulloblastoma

(2012) Xiaochong Wu et al.   NATURE

Clonal evolution in relapsed acute myeloid leukaemia revealed by whole-genome sequencing

(2012) Li Ding et al.   NATURE

Intratumor Heterogeneity and Branched Evolution Revealed by Multiregion Sequencing

(2012) Marco Gerlinger et al.   NEW ENGLAND JOURNAL OF MEDICINE

Detection of ultra-rare mutations by next-generation sequencing

(2012) M. W. Schmitt et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Variable Clonal Repopulation Dynamics Influence Chemotherapy Response in Colorectal Cancer

(2012) A. Kreso et al.   SCIENCE

Using Gene Expression Noise to Understand Gene Regulation

(2012) B. Munsky et al.   SCIENCE

Macrophage Binding to Receptor VCAM-1 Transmits Survival Signals in Breast Cancer Cells that Invade the Lungs

(2011) Qing Chen et al.   CANCER CELL

Stochastic State Transitions Give Rise to Phenotypic Equilibrium in Populations of Cancer Cells

(2011) Piyush B. Gupta et al.   CELL

Distinct Types of Tumor-Initiating Cells Form Human Colon Cancer Tumors and Metastases

(2011) Sebastian M. Dieter et al.   Cell Stem Cell

Functional and phylogenetic diversity as predictors of biodiversity–ecosystem-function relationships

(2011) Dan F. B. Flynn et al.   ECOLOGY

Macrophages and cathepsin proteases blunt chemotherapeutic response in breast cancer

(2011) T. Shree et al.   GENES & DEVELOPMENT

Clonal selection in xenografted human T cell acute lymphoblastic leukemia recapitulates gain of malignancy at relapse

(2011) Emmanuelle Clappier et al.   JOURNAL OF EXPERIMENTAL MEDICINE

Evolution of human BCR–ABL1 lymphoblastic leukaemia-initiating cells

(2011) Faiyaz Notta et al.   NATURE

Tumour evolution inferred by single-cell sequencing

(2011) Nicholas Navin et al.   NATURE

Stem cell gene expression programs influence clinical outcome in human leukemia

(2011) Kolja Eppert et al.   NATURE MEDICINE

A Chromatin-Mediated Reversible Drug-Tolerant State in Cancer Cell Subpopulations

(2010) Sreenath V. Sharma et al.   CELL

Prevalence and Heterogeneity of KRAS, BRAF, and PIK3CA Mutations in Primary Colorectal Adenocarcinomas and Their Corresponding Metastases

(2010) S. E. Baldus et al.   CLINICAL CANCER RESEARCH

Variability in gene expression underlies incomplete penetrance

(2010) Arjun Raj et al.   NATURE

Genetic variegation of clonal architecture and propagating cells in leukaemia

(2010) Kristina Anderson et al.   NATURE

The patterns and dynamics of genomic instability in metastatic pancreatic cancer

(2010) Peter J. Campbell et al.   NATURE

Distant metastasis occurs late during the genetic evolution of pancreatic cancer

(2010) Shinichi Yachida et al.   NATURE

Inferring tumor progression from genomic heterogeneity

(2009) N. Navin et al.   GENOME RESEARCH

Mutational evolution in a lobular breast tumour profiled at single nucleotide resolution

(2009) Sohrab P. Shah et al.   NATURE

DNA sequencing of a cytogenetically normal acute myeloid leukaemia genome

(2008) Timothy J. Ley et al.   NATURE

Comparative lesion sequencing provides insights into tumor evolution

(2008) S. Jones et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Dynamic Proteomics of Individual Cancer Cells in Response to a Drug

(2008) A. A. Cohen et al.   SCIENCE