skip to main content
OSTI.GOV title logo U.S. Department of Energy
Office of Scientific and Technical Information

Title: Genomic Evolution of Breast Cancer Metastasis and Relapse

Journal Article · · Cancer Cell
 [1];  [2];  [3];  [4];  [5];  [6];  [7];  [8];  [9];  [9];  [10];  [5];  [10];  [11];  [6];  [6];  [6];  [6];  [6];  [12] more »;  [13];  [13];  [6];  [14];  [4];  [15];  [16];  [17];  [2];  [6] « less
  1. Wellcome Trust Sanger Inst., Hinxton (United Kingdom); English National Health Service (NHS), London (United Kingdom). Guys and St Thomas' NHS Trust, Dept. of Clinical Oncology
  2. Univ. of Bergen (Norway). Section of Oncology, Dept. of Clinical Science; Haukeland University Hospital, Bergen (Norway). Dept. of Clinical Science
  3. Wellcome Trust Sanger Inst., Hinxton (United Kingdom); Univ. of Oxford (United Kingdom). Big Data Inst.
  4. Univ. of Cambridge (United Kingdom). Cancer Research UK Cambridge Inst.
  5. Wellcome Trust Sanger Inst., Hinxton (United Kingdom); European Bioinformatics Inst. EMBL-EBI, Hinxton (United Kingdom)
  6. Wellcome Trust Sanger Inst., Hinxton (United Kingdom)
  7. Los Alamos National Lab. (LANL), Los Alamos, NM (United States); Univ. of New Mexico Comprehensive Cancer Center, Albuquerque, NM (United States)
  8. Francis Crick Inst., London (United Kingdom); Univ. of Leuven (Belgium)
  9. Haukeland Univ. Hospital, Bergen (Norway). Dept. of Pathology; Univ. of Bergen, Bergen (Norway). Gade Lab. for Pathology, Dept. of Clinical Medicine
  10. Wellcome Trust Sanger Inst., Hinxton (United Kingdom); Memorial Sloan Kettering Cancer Inst., New York, NY (United States). Computational Oncology, Epidemiology and Biostatistics
  11. King's College London (United Kingdom). Division of Cancer Studies
  12. English National Health Service (NHS), London (United Kingdom). Guys and St Thomas' NHS Trust, Dept. of Clinical Oncology; King's College London (United Kingdom). Division of Cancer Studies
  13. Univ. Libre de Bruxelles, Brussels (Belgium). Breast Cancer Translational Research Lab.
  14. Erasmus Univ. Medical Center, Rotterdam (Netherlands). Erasmus MC Cancer Inst. and Cancer Genomics Netherlands
  15. Erasmus Univ. Medical Center, Rotterdam (Netherlands). Erasmus MC Cancer Inst. and Cancer Genomics Netherlands
  16. Brigham and Women's Hospital (Harvard Medical School), Boston, MA (United States). Dept. of Pathology; Dana-Farber Cancer Inst., Boston, MA (United States)
  17. King's College Lo Division of Cancer Studies; King's College London (United Kingdom). Breast Cancer Now Research Unit; Inst. of Cancer Research, London (United Kingdom). Breast Cancer Now Toby Robins Research Centre

Patterns of genomic evolution between primary and metastatic breast cancer have not been studied in large numbers, despite patients with metastatic breast cancer having dismal survival. We sequenced whole genomes or a panel of 365 genes on 299 samples from 170 patients with locally relapsed or metastatic breast cancer. Several lines of analysis indicate that clones seeding metastasis or relapse disseminate late from primary tumors, but continue to acquire mutations, mostly accessing the same mutational processes active in the primary tumor. Most distant metastases acquired driver mutations not seen in the primary tumor, drawing from a wider repertoire of cancer genes than early drivers. Lastly, these include a number of clinically actionable alterations and mutations inactivating SWI-SNF and JAK2-STAT3 pathways.

Research Organization:
Los Alamos National Laboratory (LANL), Los Alamos, NM (United States)
Sponsoring Organization:
USDOE Laboratory Directed Research and Development (LDRD) Program; USDOE National Nuclear Security Administration (NNSA); Wellcome Trust; Bergen Research Foundation; Norwegian Cancer Society; Norwegian Research Council
Grant/Contract Number:
AC52-06NA25396
OSTI ID:
1392804
Report Number(s):
LA-UR-16-27672
Journal Information:
Cancer Cell, Vol. 32, Issue 2; ISSN 1535-6108
Publisher:
ElsevierCopyright Statement
Country of Publication:
United States
Language:
English
Citation Metrics:
Cited by: 388 works
Citation information provided by
Web of Science

References (59)

Specific P53 mutations are associated with de novo resistance to doxorubicin in breast cancer patients journal July 1996
Signatures of mutational processes in human cancer journal August 2013
Deciphering Signatures of Mutational Processes Operative in Human Cancer journal January 2013
Precision medicine for metastatic breast cancer—limitations and solutions journal July 2015
Molecular Profiling of the Residual Disease of Triple-Negative Breast Cancers after Neoadjuvant Chemotherapy Identifies Actionable Therapeutic Targets journal December 2013
Triple-negative breast cancers with amplification of JAK2 at the 9p24 locus demonstrate JAK2-specific dependence journal April 2016
Sequence analysis of mutations and translocations across breast cancer subtypes journal June 2012
Mutational signatures of ionizing radiation in second malignancies journal September 2016
p53 protein accumulation predicts poor response to tamoxifen therapy of patients with recurrent breast cancer. journal January 1998
The landscape of somatic copy-number alteration across human cancers journal February 2010
Phylogenetic analysis of metastatic progression in breast cancer using somatic mutations and copy number aberrations journal April 2017
Prevalence of ESR1 Mutations in Cell-Free DNA and Outcomes in Metastatic Breast Cancer: A Secondary Analysis of the BOLERO-2 Clinical Trial journal October 2016
Comprehensive Molecular Portraits of Invasive Lobular Breast Cancer journal October 2015
Discovery and characterization of artifactual mutations in deep coverage targeted capture sequencing data due to oxidative DNA damage during sample preparation journal January 2013
Capturing intra-tumor genetic heterogeneity by de novo mutation profiling of circulating cell-free tumor DNA: a proof-of-principle journal September 2014
Tracing the origin of disseminated tumor cells in breast cancer using single-cell sequencing journal December 2016
Genome remodelling in a basal-like breast cancer metastasis and xenograft journal April 2010
Whole-genome analysis informs breast cancer response to aromatase inhibition journal June 2012
A census of human cancer genes journal March 2004
Punctuated copy number evolution and clonal stasis in triple-negative breast cancer journal August 2016
Impact of mutational profiles on response of primary oestrogen receptor-positive breast cancers to oestrogen deprivation journal November 2016
The genomic landscape and evolution of endometrial carcinoma progression and abdominopelvic metastasis journal June 2016
Use of Biomarkers to Guide Decisions on Adjuvant Systemic Therapy for Women With Early-Stage Invasive Breast Cancer: American Society of Clinical Oncology Clinical Practice Guideline journal April 2016
Decreased expression of ARID1A associates with poor prognosis and promotes metastases of hepatocellular carcinoma journal May 2015
Tumor Evolution in Two Patients with Basal-like Breast Cancer: A Retrospective Genomics Study of Multiple Metastases journal December 2016
A Flexible and Accurate Genotype Imputation Method for the Next Generation of Genome-Wide Association Studies journal June 2009
Convergent loss of PTEN leads to clinical resistance to a PI(3)Kα inhibitor journal November 2014
Mutational landscape and significance across 12 major cancer types journal October 2013
Loss of ARID1A expression is related to shorter progression-free survival and chemoresistance in ovarian clear cell carcinoma journal November 2011
Parallel progression of primary tumours and metastases journal April 2009
Discovery and saturation analysis of cancer genes across 21 tumour types journal January 2014
High burden and pervasive positive selection of somatic mutations in normal human skin journal May 2015
Aromatase inhibition remodels the clonal architecture of estrogen-receptor-positive breast cancers journal August 2016
Intra-tumor genetic heterogeneity and alternative driver genetic alterations in breast cancers with heterogeneous HER2 gene amplification journal May 2015
Landscape of somatic mutations in 560 breast cancer whole-genome sequences journal May 2016
The Life History of 21 Breast Cancers journal May 2012
Whole–genome characterization of chemoresistant ovarian cancer journal May 2015
Impact of mutant p53 functional properties on TP53 mutation patterns and tumor phenotype: lessons from recent developments in the IARC TP53 database journal June 2007
Methods and challenges in timing chromosomal abnormalities within cancer samples journal September 2013
Activating ESR1 mutations in hormone-resistant metastatic breast cancer journal November 2013
The Subclonal Architecture of Metastatic Breast Cancer: Results from a Prospective Community-Based Rapid Autopsy Program “CASCADE” journal December 2016
Mutational evolution in a lobular breast tumour profiled at single nucleotide resolution journal October 2009
The clonal and mutational evolution spectrum of primary triple-negative breast cancers journal April 2012
Massive Genomic Rearrangement Acquired in a Single Catastrophic Event during Cancer Development journal January 2011
The landscape of cancer genes and mutational processes in breast cancer journal May 2012
Survival in patients with metastatic recurrent breast cancer after adjuvant chemotherapy: Little evidence of improvement over the past 30 years journal October 2012
ESR1 ligand-binding domain mutations in hormone-resistant breast cancer journal November 2013
Extrachromosomal oncogene amplification drives tumour evolution and genetic heterogeneity journal February 2017
FGFR1 Amplification Drives Endocrine Therapy Resistance and Is a Therapeutic Target in Breast Cancer journal February 2010
Allele-specific copy number analysis of tumors journal September 2010
Clonal evolution in breast cancer revealed by single nucleus genome sequencing journal July 2014
Subclonal diversification of primary breast cancer revealed by multiregion sequencing journal June 2015
Mutations Associated with Acquired Resistance to PD-1 Blockade in Melanoma journal September 2016
Mutational landscape of metastatic cancer revealed from prospective clinical sequencing of 10,000 patients journal May 2017
ESR1Mutations in Cell-Free DNA of Breast Cancer journal October 2016
Genomic Characterization of Brain Metastases Reveals Branched Evolution and Potential Therapeutic Targets journal September 2015
Who's driving anyway? Herculean efforts to identify the drivers of breast cancer journal October 2012
Xenografts as Models of Clonal Selection and Acquired Resistance to Therapy journal May 2015
Genetic alterations of FGF receptors: an emerging field in clinical cancer diagnostics and therapeutics journal September 2010

Cited By (102)

STAT3 in Breast Cancer Onset and Progression: A Matter of Time and Context journal September 2018
The microcosmos of intratumor heterogeneity: the space-time of cancer evolution journal November 2019
5-Fluorouracil treatment induces characteristic T>G mutations in human cancer journal October 2019
Development of Personalized Therapeutic Strategies by Targeting Actionable Vulnerabilities in Metastatic and Chemotherapy-Resistant Breast Cancer PDXs journal June 2019
ESR1 mutations in metastatic lobular breast cancer patients journal February 2019
Integrative analysis of copy number and gene expression data identifies potential oncogenic drivers that promote mammary tumor recurrence journal January 2019
CXCR4‐Enriched Nano‐Trap Targeting CXCL12 in Lung for Early Prevention and Enhanced Photodynamic Therapy of Breast Cancer Metastasis journal September 2019
Patterns of genomic evolution in advanced melanoma journal July 2018
DNA methylation in breast cancers: Differences based on estrogen receptor status and recurrence journal August 2018
Genomic data analysis workflows for tumors from patient-derived xenografts (PDXs): challenges and guidelines journal July 2019
Extreme intratumour heterogeneity and driver evolution in mismatch repair deficient gastro-oesophageal cancer journal January 2020
Determinants and clinical implications of chromosomal instability in cancer journal January 2018
Molecular characterisation of aromatase inhibitor-resistant advanced breast cancer: the phenotypic effect of ESR1 mutations journal December 2018
Early circulating tumor DNA dynamics and clonal selection with palbociclib and fulvestrant for breast cancer journal March 2018
Interplay between c-Src and the APC/C co-activator Cdh1 regulates mammary tumorigenesis journal August 2019
Organotropism: new insights into molecular mechanisms of breast cancer metastasis journal February 2018
The evolutionary history of 2,658 cancers journal February 2020
Glucose Transporter 3 Is Essential for the Survival of Breast Cancer Cells in the Brain journal December 2019
Pan-cancer whole-genome analyses of metastatic solid tumours journal October 2019
ARID1A influences HDAC1/BRD4 activity, intrinsic proliferative capacity and breast cancer treatment response journal January 2020
Beyond 5 years: enduring risk of recurrence in oestrogen receptor-positive breast cancer journal December 2018
The genomic landscape of metastatic breast cancer highlights changes in mutation and signature frequencies journal September 2019
Divide and conquer: A perspective on biochips for single-cell and rare-molecule analysis by next-generation sequencing journal June 2019
Mechanisms of resistance to estrogen receptor modulators in ER+/HER2− advanced breast cancer journal August 2019
Improving Cancer Drug Discovery by Studying Cancer across the Tree of Life journal November 2019
Signaling pathways and steroid receptors modulating estrogen receptor α function in breast cancer journal September 2018
Timing somatic events in the evolution of cancer journal July 2018
PIM1 is responsible for IL-6-induced breast cancer cell EMT and stemness via c-myc activation journal April 2019
Roles of the immune system in cancer: from tumor initiation to metastatic progression journal October 2018
Establishment and Characterization of Paired Primary Cultures of Human Pancreatic Cancer Cells and Stellate Cells Derived from the Same Tumor journal January 2020
The JAK2 V617F mutation in breast cancer? journal March 2020
GOLPH3: a Golgi phosphatidylinositol(4)phosphate effector that directs vesicle trafficking and drives cancer journal September 2018
BCMA (TNFRSF17) Induces APRIL and BAFF Mediated Breast Cancer Cell Stemness journal August 2018
Uncovering the signaling landscape controlling breast cancer cell migration identifies novel metastasis driver genes journal July 2019
Coexisting genomic aberrations associated with lymph node metastasis in breast cancer journal April 2018
TGFβ promotes breast cancer stem cell self-renewal through an ILEI/LIFR signaling axis journal January 2019
Molecular Biology and Evolution of Cancer: From Discovery to Action journal October 2019
Targeting of JAK-STAT Signaling in Breast Cancer: Therapeutic Strategies to Overcome Drug Resistance book August 2019
Enhancer mapping uncovers phenotypic heterogeneity and evolution in patients with luminal breast cancer journal July 2018
Novel and Alternative Targets Against Breast Cancer Stemness to Combat Chemoresistance journal October 2019
CUTseq is a versatile method for preparing multiplexed DNA sequencing libraries from low-input samples journal October 2019
Endocrine Resistance in Hormone Receptor Positive Breast Cancer–From Mechanism to Therapy journal May 2019
NF1 deficiency correlates with estrogen receptor signaling and diminished survival in breast cancer journal August 2018
Untargeted Assessment of Tumor Fractions in Plasma for Monitoring and Prognostication from Metastatic Breast Cancer Patients Undergoing Systemic Treatment journal August 2019
Targeting the complexity of Src signalling in the tumour microenvironment of pancreatic cancer: from mechanism to therapy journal August 2019
Liquid biopsy for HER2-positive breast cancer brain metastasis: the role of the cerebrospinal fluid journal October 2017
Reconstructing evolutionary trajectories of mutation signature activities in cancer using TrackSig journal February 2020
High-resolution clonal mapping of multi-organ metastasis in triple negative breast cancer journal November 2018
Tumor-Targeted and Biocompatible MoSe2 Nanodots@Albumin Nanospheres as a Dual-Modality Therapy Agent for Synergistic Photothermal Radiotherapy journal February 2019
Quantitative evidence for early metastatic seeding in colorectal cancer journal June 2019
Breast cancer journal September 2019
High-resolution deconstruction of evolution induced by chemotherapy treatments in breast cancer xenografts journal December 2018
Ampelopsin E Reduces the Invasiveness of the Triple Negative Breast Cancer Cell Line, MDA-MB-231 journal July 2019
KRT19 and CEACAM5 mRNA-marked circulated tumor cells indicate unfavorable prognosis of breast cancer patients journal December 2018
Moving Breast Cancer Therapy up a Notch journal November 2018
Targeting of the Eukaryotic Translation Initiation Factor 4A Against Breast Cancer Stemness journal December 2019
Molecular patterns of cancer colonisation in lymph nodes of breast cancer patients journal November 2018
Genomic characterization of metastatic breast cancers journal May 2019
Therapy-induced mutations drive the genomic landscape of relapsed acute lymphoblastic leukemia journal January 2020
Blockade of TLR4 using TAK-242 (resatorvid) enhances anti-cancer effects of chemotherapeutic agents: a novel synergistic approach for breast and ovarian cancers journal December 2019
Tailored NEOadjuvant epirubicin, cyclophosphamide and Nanoparticle Albumin-Bound paclitaxel for breast cancer: The phase II NEONAB trial—Clinical outcomes and molecular determinants of response journal February 2019
Genetic insights into the morass of metastatic heterogeneity journal February 2018
KRT19 and CEACAM5 mRNA-marked circulated tumor cells indicate unfavorable prognosis of breast cancer patients journal March 2019
Genetic and transcriptional evolution alters cancer cell line drug response journal August 2018
ARID1A influences HDAC1/BRD4 activity, intrinsic proliferative capacity and breast cancer treatment response. text January 2020
The evolutionary history of 2,658 cancers. text January 2020
Molecular biology and evolution of cancer: from discovery to action. text January 2020
Reconstructing evolutionary trajectories of mutation signature activities in cancer using TrackSig. text January 2020
Genomic characterization of metastatic breast cancers. text January 2019
The JAK2 V617F mutation in breast cancer? journal March 2020
Signaling pathways and steroid receptors modulating estrogen receptor α function in breast cancer. text January 2018
The evolutionary history of 2,658 cancers. text January 2020
The evolutionary history of 2,658 cancers. text January 2020
Reconstructing evolutionary trajectories of mutation signature activities in cancer using TrackSig. text January 2020
Quantifying local malignant adaptation in tissue‐specific evolutionary trajectories by harnessing cancer’s repeatability at the genetic level journal January 2019
The evolutionary history of 2,658 cancers. text January 2020
The Genomic Landscape of Endocrine-Resistant Advanced Breast Cancers journal September 2018
Multi-regional Sequencing Elucidates the Evolution of Clear Cell Renal Cell Carcinoma journal April 2018
Characterizing Mutational Signatures in Human Cancer Cell Lines Reveals Episodic APOBEC Mutagenesis journal March 2019
The Genomic and Immune Landscapes of Lethal Metastatic Breast Cancer journal May 2019
Dynamic Emergence of Observed and Hidden Intra-tumor Heterogeneity journal November 2019
Establishment and characterization of paired primary cultures of human pancreatic cancer cells and stellate cells derived from the same tumor journal November 2020
Elucidating therapeutic molecular targets in premenopausal Asian women with recurrent breast cancers journal April 2018
Molecular heterogeneity and early metastatic clone selection in testicular germ cell cancer development journal February 2019
Induction of 3-hydroxy-3-methylglutaryl-CoA reductase mediates statin resistance in breast cancer cells journal January 2019
Mapping the breast cancer metastatic cascade onto ctDNA using genetic and epigenetic clonal tracking journal March 2020
Subclonal cooperation drives metastasis by modulating local and systemic immune microenvironments journal July 2019
Does early metastatic seeding occur in colorectal cancer? journal August 2019
The Omics Revolution Continues: The Maturation of High-Throughput Biological Data Sources journal August 2018
PRISM: methylation pattern-based, reference-free inference of subclonal makeup journal July 2019
Cooperation among Tumor Cell Subpopulations Leads to Intratumor Heterogeneity journal June 2020
Separating the Local and Malignant Dimensions of Cancer Adaptation journal January 2019
The role of poly(ADP-ribose) polymerase inhibitors in the treatment of cancer and methods to overcome resistance: a review journal March 2020
Pan-cancer inference of intra-tumor heterogeneity reveals associations with different forms of genomic instability journal September 2018
Constitutional Mosaic Epimutations – a hidden cause of cancer? journal April 2019
‘Omics Approaches to Explore the Breast Cancer Landscape journal January 2020
Landscape of CDKN1B Mutations in Luminal Breast Cancer and Other Hormone-Driven Human Tumors journal July 2018
Phylogenetic Tree Inference: A Top-Down Approach to Track Tumor Evolution journal February 2020
Targeting Genome Stability in Melanoma—A New Approach to an Old Field journal March 2021
A proteomic analysis of chemoresistance development via sequential treatment with doxorubicin reveals novel players in MCF‑7 breast cancer cells journal July 2018
Outcome of Omani Women with Breast Cancer-associated Brain Metastases Experience from a University Hospital journal September 2019
Phase I/II clinical trial of everolimus combined with gemcitabine/cisplatin for metastatic triple-negative breast cancer journal January 2018