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Citations to this article

Cellular and genetic diversity in the progression of in situ human breast carcinomas to an invasive phenotype
So Yeon Park, … , Franziska Michor, Kornelia Polyak
So Yeon Park, … , Franziska Michor, Kornelia Polyak
Published January 25, 2010
Citation Information: J Clin Invest. 2010;120(2):636-644. https://doi.org/10.1172/JCI40724.
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Cellular and genetic diversity in the progression of in situ human breast carcinomas to an invasive phenotype

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Abstract

Intratumor genetic heterogeneity is a key mechanism underlying tumor progression and therapeutic resistance. The prevailing model for explaining intratumor diversity, the clonal evolution model, has recently been challenged by proponents of the cancer stem cell hypothesis. To investigate this issue, we performed combined analyses of markers associated with cellular differentiation states and genotypic alterations in human breast carcinomas and evaluated diversity with ecological and evolutionary methods. Our analyses showed a high degree of genetic heterogeneity both within and between distinct tumor cell populations that were defined based on markers of cellular phenotypes including stem cell–like characteristics. In several tumors, stem cell–like and more-differentiated cancer cell populations were genetically distinct, leading us to question the validity of a simple differentiation hierarchy–based cancer stem cell model. The degree of diversity correlated with clinically relevant breast tumor subtypes and in some tumors was markedly different between the in situ and invasive cell populations. We also found that diversity measures were associated with clinical variables. Our findings highlight the importance of genetic diversity in intratumor heterogeneity and the value of analyzing tumors as distinct populations of cancer cells to more effectively plan treatments.

Authors

So Yeon Park, Mithat Gönen, Hee Jung Kim, Franziska Michor, Kornelia Polyak

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Tumor Evolution in Response to Chemotherapy: Phenotype versus Genotype
NE Navin
Cell Reports 2014
Single-cell genetic analysis reveals the composition of initiating clones and phylogenetic patterns of branching and parallel evolution in myeloma
L Melchor, A Brioli, CP Wardell, A Murison, NE Potter, MF Kaiser, RA Fryer, DC Johnson, DB Begum, SH Wilson, G Vijayaraghavan, I Titley, M Cavo, FE Davies, BA Walker, GJ Morgan
Leukemia 2014
Breast cancer intra-tumor heterogeneity
LG Martelotto, CK Ng, S Piscuoglio, B Weigelt, JS Reis-Filho
Breast Cancer Research 2014
Inference of Tumor Evolution during Chemotherapy by Computational Modeling and In Situ Analysis of Genetic and Phenotypic Cellular Diversity
V Almendro, YK Cheng, A Randles, S Itzkovitz, A Marusyk, E Ametller, X Gonzalez-Farre, M Muñoz, HG Russnes, Å Helland, IH Rye, AL Borresen-Dale, R Maruyama, A van Oudenaarden, M Dowsett, RL Jones, J Reis-Filho, P Gascon, M Gönen, F Michor, K Polyak
Cell Reports 2014
Phylogenetic quantification of intra-tumour heterogeneity
RF Schwarz, A Trinh, B Sipos, JD Brenton, N Goldman, F Markowetz
PLoS computational biology 2014
Current challenges in the bioinformatics of single cell genomics
L Ning, G Liu, G Li, Y Hou, Y Tong, J He
Frontiers in Oncology 2014
Single-Cell Genetic Analysis Reveals Insights into Clonal Development of Prostate Cancers and Indicates Loss of PTEN as a Marker of Poor Prognosis
KM Heselmeyer-Haddad, LY Garcia, A Bradley, L Hernandez, Y Hu, JK Habermann, C Dumke, C Thorns, S Perner, E Pestova, C Burke, SA Chowdhury, R Schwartz, AA Schäffer, PL Paris, T Ried
The American Journal of Pathology 2014
Bimodal Tumor-Targeting from Microenvironment Responsive Hyaluronan Layer-by-Layer (LbL) Nanoparticles
EC Dreaden, SW Morton, KE Shopsowitz, JH Choi, ZJ Deng, NJ Cho, PT Hammond
ACS Nano 2014
Clonal evolution in breast cancer revealed by single nucleus genome sequencing
Y Wang, J Waters, ML Leung, A Unruh, W Roh, X Shi, K Chen, P Scheet, S Vattathil, H Liang, A Multani, H Zhang, R Zhao, F Michor, F Meric-Bernstam, NE Navin
Nature 2014
Microfluidics for single-cell genetic analysis
AM Thompson, AL Paguirigan, JE Kreutz, JP Radich, DT Chiu
Lab on a Chip 2014
Dielectrophoretic Capture and Genetic Analysis of Single Neuroblastoma Tumor Cells
EL Carpenter, JA Rader, J Ruden, EF Rappaport, KN Hunter, PL Hallberg, K Krytska, PJ O’Dwyer, YP Mosse
Frontiers in Oncology 2014
Algorithms to model single gene, single chromosome, and whole genome copy number changes jointly in tumor phylogenetics
SA Chowdhury, SE Shackney, K Heselmeyer-Haddad, T Ried, AA Schäffer, R Schwartz
PLoS computational biology 2014
Immortalization of normal human mammary epithelial cells in two steps by direct targeting of senescence barriers does not require gross genomic alterations
JC Garbe, L Vrba, K Sputova, L Fuchs, P Novak, AR Brothman, M Jackson, K Chin, MA LaBarge, G Watts, BW Futscher, MR Stampfer
Cell cycle (Georgetown, Tex.) 2014
Polygenic in vivo validation of cancer mutations using transposons
SK Chew, D Lu, LS Campos, KL Scott, A Saci, J Wang, A Collinson, K Raine, J Hinton, JW Teague, D Jones, A Menzies, AP Butler, J Gamble, S O’Meara, S McLaren, L Chin, P Liu, PA Futreal
Genome biology 2014
Molecular profiling of single circulating tumor cells with diagnostic intention
B Polzer, G Medoro, S Pasch, F Fontana, L Zorzino, A Pestka, U Andergassen, F Meier-Stiegen, ZT Czyz, B Alberter, S Treitschke, T Schamberger, M Sergio, G Bregola, A Doffini, S Gianni, A Calanca, G Signorini, C Bolognesi, A Hartmann, PA Fasching, MT Sandri, B Rack, T Fehm, G Giorgini, N Manaresi, CA Klein
EMBO Molecular Medicine 2014
Sequencing of breast cancer stem cell populations indicates a dynamic conversion between differentiation states in vivo
D Klevebring, G Rosin, R Ma, J Lindberg, K Czene, J Kere, I Fredriksson, J Bergh, J Hartman
Breast Cancer Research 2014
Genetic and Phenotypic Diversity in Breast Tumor Metastases
V Almendro, HJ Kim, YK Cheng, M Gonen, S Itzkovitz, P Argani, A Oudenaarden, S Sukumar, F Michor, K Polyak
Cancer research 2014
Cancer Stem Cells: Constantly Evolving and Functionally Heterogeneous Therapeutic Targets
T Yang, K Rycaj, ZM Liu, DG Tang
Cancer research 2014
Combining functional genomics strategies identifies modular heterogeneity of breast cancer intrinsic subtypes
N Pouladi, R Cowper-Sallari, JH Moore
BioData mining 2014
Tumour heterogeneity and immune-modulation
M Jamal-Hanjani, E Thanopoulou, KS Peggs, SA Quezada, C Swanton
Current Opinion in Pharmacology 2013
Dietary Suppression of the Mammary CD29hiCD24+ Epithelial Subpopulation and Its Cytokine/Chemokine Transcriptional Signatures Modifies Mammary Tumor Risk in MMTV-Wnt1 Transgenic Mice
OM Rahal, HL Machado, MT Montales, JM Pabona, ME Heard, S Nagarajan, RC Simmen
Stem Cell Research 2013
Sensitive detection of somatic point mutations in impure and heterogeneous cancer samples
K Cibulskis, MS Lawrence, SL Carter, A Sivachenko, D Jaffe, C Sougnez, S Gabriel, M Meyerson, ES Lander, G Getz
Nature Biotechnology 2013
Evolutionary foundations for cancer biology
CA Aktipis, RM Nesse
Evolutionary Applications 2013
Phylogenetic analysis of multiprobe fluorescence in situ hybridization data from tumor cell populations
SA Chowdhury, SE Shackney, K Heselmeyer-Haddad, T Ried, AA Schaffer, R Schwartz
Bioinformatics 2013
TrAp: a tree approach for fingerprinting subclonal tumor composition
F Strino, F Parisi, M Micsinai, Y Kluger
Nucleic Acids Research 2013
Selection and adaptation during metastatic cancer progression
CA Klein
Nature 2013
Single-cell mutational profiling and clonal phylogeny in cancer
NE Potter, L Ermini, E Papaemmanuil, G Cazzaniga, G Vijayaraghavan, I Titley, A Ford, P Campbell, L Kearney, M Greaves
Genome research 2013
Multi-study integration of brain cancer transcriptomes reveals organ-level molecular signatures
J Sung, PJ Kim, S Ma, CC Funk, AT Magis, Y Wang, L Hood, D Geman, ND Price
PLoS computational biology 2013
Intra-tumoral heterogeneity in metastatic potential and survival signaling between iso-clonal HCT116 and HCT116b human colon carcinoma cell lines
S Chowdhury, M Ongchin, E Sharratt, I Dominguez, J Wang, MG Brattain, A Rajput
PloS one 2013
Low-cost fabrication of centimetre-scale periodic arrays of single plasmid DNA molecules
B Kirkland, Z Wang, P Zhang, SI Takebayashi, S Lenhert, DM Gilbert, J Guan
Lab on a Chip 2013
High intra-tumor genetic heterogeneity is related to worse outcome in head and neck squamous cell carcinoma
EA Mroz, AD Tward, CR Pickering, JN Myers, RL Ferris, JW Rocco
Cancer 2013
Established breast cancer stem cell markers do not correlate with in vivo tumorigenicity of tumor-initiating cells
C Lehmann, G Jobs, M Thomas, H Burtscher, M Kubbies
International journal of oncology 2012
Tumor Heterogeneity: Mechanisms and Bases for a Reliable Application of Molecular Marker Design
SJ Diaz-Cano
International journal of molecular sciences 2012
Understanding cancer stem cell heterogeneity and plasticity
DG Tang
Cell Research 2012
Clonal evolution in cancer
M Greaves, CC Maley
Nature 2012
Genomic and mutational profiling of ductal carcinomas in situ and matched adjacent invasive breast cancers reveals intra-tumour genetic heterogeneity and clonal selection
L Hernandez, PM Wilkerson, MB Lambros, A Campion-Flora, DN Rodrigues, A Gauthier, C Cabral, V Pawar, A Mackay, R A'Hern, C Marchiò, J Palacios, R Natrajan, B Weigelt, JS Reis-Filho
The Journal of Pathology 2012
Intra-tumour heterogeneity: a looking glass for cancer?
A Marusyk, V Almendro, K Polyak
Nature Reviews Cancer 2012
Selfish Spermatogonial Selection: Evidence from an Immunohistochemical Screen in Testes of Elderly Men
J Lim, GJ Maher, GD Turner, W Dudka-Ruszkowska, S Taylor, ER Meyts, A Goriely, AO Wilkie
PloS one 2012
Cancer in Light of Experimental Evolution
K Sprouffske, LM Merlo, PJ Gerrish, CC Maley, PD Sniegowski
Current Biology 2012
Spontaneous Formation of Tumorigenic Hybrids between Breast Cancer and Multipotent Stromal Cells Is a Source of Tumor Heterogeneity
G Rappa, J Mercapide, A Lorico
The American Journal of Pathology 2012
Signatures of tumor–immune interactions as biomarkers for breast cancer prognosis
MH Manjili, K Najarian, XY Wang
Future Oncology 2012
Single-Cell Genetic Analysis of Ductal Carcinoma in Situ and Invasive Breast Cancer Reveals Enormous Tumor Heterogeneity yet Conserved Genomic Imbalances and Gain of MYC during Progression
K Heselmeyer-Haddad, LY Garcia, A Bradley, C Ortiz-Melendez, WJ Lee, R Christensen, SA Prindiville, KA Calzone, PW Soballe, Y Hu, SA Chowdhury, R Schwartz, AA Schäffer, T Ried
The American Journal of Pathology 2012
An evolutionary explanation for the presence of cancer nonstem cells in neoplasms
K Sprouffske, CA Aktipis, JP Radich, M Carroll, AM Nedelcu, CC Maley
Evolutionary Applications 2012
MATH, a novel measure of intratumor genetic heterogeneity, is high in poor-outcome classes of head and neck squamous cell carcinoma
EA Mroz, JW Rocco
Oral Oncology 2012
Evolutionary pathways in BRCA1-associated breast tumors
FC Martins, S De, V Almendro, M Gönen, SY Park, JL Blum, W Herlihy, G Ethington, SJ Schnitt, N Tung, JE Garber, K Fetten, F Michor, K Polyak
Cancer Discovery 2012
Potential for the embryonic morphogen Nodal as a prognostic and predictive biomarker in breast cancer
L Strizzi, KM Hardy, NV Margaryan, DW Hillman, EA Seftor, B Chen, XJ Geiger, EA Thompson, WL Lingle, CA Andorfer, EA Perez, MJ Hendrix
Breast Cancer Research 2012
An “elite hacker”
A Boudreau, LJ van Veer, MJ Bissell
Cell adhesion & migration 2012
Evolution of the cancer genome
O Podlaha, M Riester, S De, F Michor
Trends in genetics : TIG 2012
Detection of Tumor PIK3CA Status in Metastatic Breast Cancer Using Peripheral Blood
MJ Higgins, D Jelovac, E Barnathan, B Blair, S Slater, P Powers, J Zorzi, SC Jeter, GR Oliver, J Fetting, L Emens, C Riley, V Stearns, F Diehl, P Angenendt, P Huang, L Cope, P Argani, KM Murphy, KE Bachman, J Greshock, AC Wolff, BH Park
Clinical cancer research 2012
Signaling pathways required by CD44+/CD24- stem-cell-like breast cancer cells in human tumors
Lauren Marotta, Vanessa Almendro, Michail Shipitsin, Andriy Marusyk, Janina Schemme, Sarah Walker, Noga Bloushtain-Qimron, Jessica Kim, Sibgat Choudhury, Reo Maruyama, Zhenhua Wu, Mithat Gönen, Laura Mulvey, Marina Bessarabova, Sung Jin Huh, Serena Silver, So Young Kim, So Yeon Park, Hee Eun Lee, Karen Anderson, Andrea Richardson, Tatiana Nikolskaya, Yuri Nikolsky, X. Shirley Liu, David Root, William Hahn, David Frank, Kornelia Polyak
Journal of Clinical Investigation 2011
Heterogeneity in breast cancer
Kornelia Polyak
Journal of Clinical Investigation 2011
Overlooking Evolution: A Systematic Analysis of Cancer Relapse and Therapeutic Resistance Research
CA Aktipis, VS Kwan, KA Johnson, SL Neuberg, CC Maley
PloS one 2011
Phenotypic Heterogeneity of Breast Cancer Stem Cells
A Lorico, G Rappa
Journal of Oncology 2011
Tumour evolution inferred by single-cell sequencing
N Navin, J Kendall, J Troge, P Andrews, L Rodgers, J McIndoo, K Cook, A Stepansky, D Levy, D Esposito, L Muthuswamy, A Krasnitz, WR McCombie, J Hicks, M Wigler
Nature 2011
Future medical applications of single-cell sequencing in cancer
N Navin, J Hicks
Genome Medicine 2011
The sociobiology of molecular systems
KR Foster
Nature Reviews Genetics 2011
Validating transcripts with probes and imaging technology
S Itzkovitz, A Oudenaarden
Nature Methods 2011
Evidence of distinct tumour-propagating cell populations with different properties in primary human hepatocellular carcinoma
F Colombo, F Baldan, S Mazzucchelli, I Martin-Padura, P Marighetti, A Cattaneo, B Foglieni, M Spreafico, S Guerneri, M Baccarin, F Bertolini, G Rossi, V Mazzaferro, M Cadamuro, M Maggioni, L Agnelli, P Rebulla, D Prati, L Porretti
PloS one 2011
Modeling evolutionary dynamics of epigenetic mutations in hierarchically organized tumors
A Sottoriva, L Vermeulen, S Tavaré
PLoS computational biology 2011
Evolutionary dynamics of intratumor heterogeneity
Y Iwasa, F Michor
PloS one 2011
Human primary ductal carcinoma in situ (DCIS) subtype-specific pathology is preserved in a mouse intraductal (MIND) xenograft model
KE Valdez, F Fan, W Smith, DC Allred, D Medina, F Behbod
The Journal of Pathology 2011
Maintenance of primary tumor phenotype and genotype in glioblastoma stem cells
H Wakimoto, G Mohapatra, R Kanai, WT Curry, S Yip, M Nitta, AP Patel, ZR Barnard, AO Stemmer-Rachamimov, DN Louis, RL Martuza, SD Rabkin
Neuro-Oncology 2011
Single-cell dissection of transcriptional heterogeneity in human colon tumors
P Dalerba, T Kalisky, D Sahoo, PS Rajendran, ME Rothenberg, AA Leyrat, S Sim, J Okamoto, DM Johnston, D Qian, M Zabala, J Bueno, NF Neff, J Wang, AA Shelton, B Visser, S Hisamori, Y Shimono, M de Wetering, H Clevers, MF Clarke, SR Quake
Nature Biotechnology 2011
Monosomy of chromosome 8 could be considered as a primary preneoplastic event in breast cancer: A preliminary study
FA Parra-Pérez, A Zavala-Pompa, J Pacheco-Calleros, EI Cortés-Gutiérrez, RM Cerda-Flores, S Lara-Miranda, MI Dávila-Rodríguez
Oncology Letters 2011
Accurate reconstruction of the temporal order of mutations in neoplastic progression
K Sprouffske, JW Pepper, CC Maley
Cancer prevention research (Philadelphia, Pa.) 2011
A functional in vivo screen for regulators of tumor progression identifies HOXB2 as a regulator of tumor growth in breast cancer
PJ Boimel, C Cruz, JE Segall
Genomics 2011
Maintenance of hormone responsiveness in luminal breast cancers by suppression of Notch
JM Haughian, MP Pinto, JC Harrell, BS Bliesner, KM Joensuu, WW Dye, CA Sartorius, AC Tan, P Heikkilä, CM Perou, KB Horwitz
Proceedings of the National Academy of Sciences 2011
Evolution of human BCR–ABL1 lymphoblastic leukaemia-initiating cells
F Notta, CG Mullighan, JC Wang, A Poeppl, S Doulatov, LA Phillips, J Ma, MD Minden, JR Downing, JE Dick
Nature 2011
The role of genetic diversity in cancer
Lauren M.F. Merlo, Carlo Maley
Journal of Clinical Investigation 2010
Genetic variegation of clonal architecture and propagating cells in leukaemia
K Anderson, C Lutz, FW van Delft, CM Bateman, Y Guo, SM Colman, H Kempski, AV Moorman, I Titley, J Swansbury, L Kearney, T Enver, M Greaves
Nature 2010
Molecular Markers for the Diagnosis and Management of Ductal Carcinoma In Situ
K Polyak
JNCI Monographs 2010
Oncogenes and tumor suppressor genes
EY Lee, WJ Muller
Cold Spring Harbor perspectives in biology 2010
Methylation profiling with a panel of cancer related genes: Association with estrogen receptor, TP53 mutation status and expression subtypes in sporadic breast cancer
JA Rønneberg, T Fleischer, HK Solvang, SH Nordgard, H Edvardsen, I Potapenko, D Nebdal, C Daviaud, I Gut, I Bukholm, B Naume, AL Børresen-Dale, J Tost, V Kristensen
Molecular Oncology 2010
Long-term cultures of stem/progenitor cells from lobular and ductal breast carcinomas under non-adherent conditions
A Nardone, S Corvigno, A Brescia, D D'Andrea, G Limite, BM Veneziani
Cytotechnology 2010
Cancer stem cells in glioblastoma—molecular signaling and therapeutic targeting
Z Huang, L Cheng, OA Guryanova, Q Wu, S Bao
Protein & Cell 2010
Exploration of the postponing mechanism that delays carcinoma onset
CN Qian
Cancer Cell International 2010
Potential Therapeutic Implications of Cancer Stem Cells in Glioblastoma
L Cheng, S Bao, JN Rich
Biochemical Pharmacology 2010
Combined inhibitory effect of formestane and herceptin on a subpopulation of CD44+/CD24low breast cancer cells
C Cavaliere, S Corvigno, M Galgani, G Limite, A Nardone, BM Veneziani
Cancer Science 2010
Population genetics of cancer cell clones: possible implications of cancer stem cells
CT Naugler
Theoretical Biology and Medical Modelling 2010
Gene Expression Profiles of Estrogen Receptor–Positive and Estrogen Receptor–Negative Breast Cancers Are Detectable in Histologically Normal Breast Epithelium
K Graham, X Ge, A de las Morenas, A Tripathi, CL Rosenberg
Clinical cancer research 2010
The Origins and Implications of Intratumor Heterogeneity: Fig. 1
F Michor, K Polyak
Cancer prevention research (Philadelphia, Pa.) 2010
A Comprehensive Survey of Clonal Diversity Measures in Barrett's Esophagus as Biomarkers of Progression to Esophageal Adenocarcinoma
LM Merlo, NA Shah, X Li, PL Blount, TL Vaughan, BJ Reid, CC Maley
Cancer prevention research (Philadelphia, Pa.) 2010
Pulmonary surfactant: an immunological perspective
ZC Chroneos, Z Sever-Chroneos, VL Shepherd
Cellular physiology and biochemistry : international journal of experimental cellular physiology, biochemistry, and pharmacology 2009
Tumor heterogeneity: causes and consequences
A Marusyk, K Polyak
Biochimica et Biophysica Acta 2009

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