Reconstructing metastatic seeding patterns of human cancers

Metastatic colonization by circulating tumour cells

(2016) Joan Massagué et al.   NATURE

Divergent modes of clonal spread and intraperitoneal mixing in high-grade serous ovarian cancer

(2016) Andrew McPherson et al.   NATURE GENETICS

Identification of neutral tumor evolution across cancer types

(2016) Marc J Williams et al.   NATURE GENETICS

Substantial interindividual and limited intraindividual genomic diversity among tumors from men with metastatic prostate cancer

(2016) Akash Kumar et al.   NATURE MEDICINE

Metastasis as an evolutionary process

(2016) S. Turajlic et al.   SCIENCE

Quantifying Clonal and Subclonal Passenger Mutations in Cancer Evolution

(2016) Ivana Bozic et al.   PLoS Computational Biology

Reconstruction of clonal trees and tumor composition from multi-sample sequencing data

(2015) Mohammed El-Kebir et al.   BIOINFORMATICS

Clonality inference in multiple tumor samples using phylogeny

(2015) Salem Malikic et al.   BIOINFORMATICS

Biological and Therapeutic Impact of Intratumor Heterogeneity in Cancer Evolution

(2015) Nicholas McGranahan et al.   CANCER CELL

Inferring the Origin of Metastases from Cancer Phylogenies

(2015) W. S. Hong et al.   CANCER RESEARCH

The evolutionary history of lethal metastatic prostate cancer

(2015) Gunes Gundem et al.   NATURE

Mutations driving CLL and their evolution in progression and relapse

(2015) Dan A. Landau et al.   NATURE

Analysis of the genetic phylogeny of multifocal prostate cancer identifies multiple independent clonal expansions in neoplastic and morphologically normal prostate tissue

(2015) Colin S Cooper et al.   NATURE GENETICS

Subclonal diversification of primary breast cancer revealed by multiregion sequencing

(2015) Lucy R Yates et al.   NATURE MEDICINE

Using tumour phylogenetics to identify the roots of metastasis in humans

(2015) Kamila Naxerova et al.   Nature Reviews Clinical Oncology

Genomic Characterization of Brain Metastases Reveals Branched Evolution and Potential Therapeutic Targets

(2015) P. K. Brastianos et al.   Cancer Discovery

Pancreatic Cancer Metastases Harbor Evidence of Polyclonality

(2015) R. Maddipati et al.   Cancer Discovery

SubClonal Hierarchy Inference from Somatic Mutations: Automatic Reconstruction of Cancer Evolutionary Trees from Multi-region Next Generation Sequencing

(2015) Noushin Niknafs et al.   PLoS Computational Biology

BitPhylogeny: a probabilistic framework for reconstructing intra-tumor phylogenies

(2015) Ke Yuan et al.   GENOME BIOLOGY

Fast and scalable inference of multi-sample cancer lineages

(2015) Victoria Popic et al.   GENOME BIOLOGY

PhyloWGS: Reconstructing subclonal composition and evolution from whole-genome sequencing of tumors

(2015) Amit G Deshwar et al.   GENOME BIOLOGY

Colon cancer cells colonize the lung from established liver metastases through p38 MAPK signalling and PTHLH

(2014) Jelena Urosevic et al.   NATURE CELL BIOLOGY

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

(2014) Marco Gerlinger et al.   NATURE GENETICS

PyClone: statistical inference of clonal population structure in cancer

(2014) Andrew Roth et al.   NATURE METHODS

Hypermutable DNA chronicles the evolution of human colon cancer

(2014) K. Naxerova et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Intratumor heterogeneity in localized lung adenocarcinomas delineated by multiregion sequencing

(2014) J. Zhang et al.   SCIENCE

Spatial and temporal diversity in genomic instability processes defines lung cancer evolution

(2014) E. C. de Bruin et al.   SCIENCE

Cancer Evolution: Mathematical Models and Computational Inference

(2014) Niko Beerenwinkel et al.   SYSTEMATIC BIOLOGY

SciClone: Inferring Clonal Architecture and Tracking the Spatial and Temporal Patterns of Tumor Evolution

(2014) Christopher A. Miller et al.   PLoS Computational Biology

Inference of Tumor Phylogenies with Improved Somatic Mutation Discovery

(2013) Raheleh Salari et al.   JOURNAL OF COMPUTATIONAL BIOLOGY

Distinct evolutionary trajectories of primary high-grade serous ovarian cancers revealed through spatial mutational profiling

(2013) Ali Bashashati et al.   JOURNAL OF PATHOLOGY

Emerging landscape of oncogenic signatures across human cancers

(2013) Giovanni Ciriello et al.   NATURE GENETICS

TrAp: a tree approach for fingerprinting subclonal tumor composition

(2013) Francesco Strino et al.   NUCLEIC ACIDS RESEARCH

Evolutionary dynamics of cancer in response to targeted combination therapy

(2013) Ivana Bozic et al.   eLife

Monitoring chronic lymphocytic leukemia progression by whole genome sequencing reveals heterogeneous clonal evolution patterns

(2012) A. Schuh et al.   BLOOD

Computational Modeling of Pancreatic Cancer Reveals Kinetics of Metastasis Suggesting Optimum Treatment Strategies

(2012) Hiroshi Haeno et al.   CELL

The Life History of 21 Breast Cancers

(2012) Serena Nik-Zainal et al.   CELL

The effect of one additional driver mutation on tumor progression

(2012) Johannes G. Reiter et al.   Evolutionary Applications

Intratumor Heterogeneity and Branched Evolution Revealed by Multiregion Sequencing

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

Fast Computation and Applications of Genome Mappability

(2012) Thomas Derrien et al.   PLoS One

phangorn: phylogenetic analysis in R

(2010) Klaus Peter Schliep   BIOINFORMATICS

AACR Centennial Series: The Biology of Cancer Metastasis: Historical Perspective

(2010) J. E. Talmadge et al.   CANCER RESEARCH

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

The landscape of somatic copy-number alteration across human cancers

(2010) Rameen Beroukhim et al.   NATURE

Accumulation of driver and passenger mutations during tumor progression

(2010) I. Bozic et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Subclonal phylogenetic structures in cancer revealed by ultra-deep sequencing

(2008) P. J. Campbell et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The infinite sites model of genome evolution

(2008) J. Ma et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

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