Now showing items 1-20 of 22

    • (A)Symmetric Stem Cell Replication and Cancer 

      Dingli, David; Traulsen, Arne; Michor, Franziska L. (Public Library of Science, 2007)
      Most tissues in metazoans undergo continuous turnover due to cell death or epithelial shedding. Since cellular replication is associated with an inherent risk of mutagenesis, tissues are maintained by a small group of stem ...
    • ABCG2 regulates self-renewal and stem cell marker expression but not tumorigenicity or radiation resistance of glioma cells 

      Wee, Boyoung; Pietras, Alexander; Ozawa, Tatsuya; Bazzoli, Elena; Podlaha, Ondrej; Antczak, Christophe; Westermark, Bengt; Nelander, Sven; Uhrbom, Lene; Forsberg-Nilsson, Karin; Djaballah, Hakim; Michor, Franziska; Holland, Eric C. (Nature Publishing Group, 2016)
      Glioma cells with stem cell traits are thought to be responsible for tumor maintenance and therapeutic failure. Such cells can be enriched based on their inherent drug efflux capability mediated by the ABC transporter ABCG2 ...
    • Aberration in DNA Methylation in B-Cell Lymphomas Has a Complex Origin and Increases with Disease Severity 

      De, Subhajyoti; Shaknovich, Rita; Riester, Markus; Elemento, Olivier; Geng, Huimin; Kormaksson, Matthias; Jiang, Yanwen; Woolcock, Bruce; Johnson, Nathalie; Polo, Jose M.; Cerchietti, Leandro; Gascoyne, Randy D.; Melnick, Ari; Michor, Franziska L. (Public Library of Science, 2013)
      Despite mounting evidence that epigenetic abnormalities play a key role in cancer biology, their contributions to the malignant phenotype remain poorly understood. Here we studied genome-wide DNA methylation in normal ...
    • Clonal Evolution in Breast Cancer Revealed by Single Nucleus Genome Sequencing 

      Wang, Yong; Waters, Jill; Leung, Marco L.; Unruh, Anna; Roh, Whijae; Shi, Xiuqing; Chen, Ken; Scheet, Paul; Vattathil, Selina; Liang, Han; Multani, Asha; Zhang, Hong; Zhao, Rui; Michor, Franziska; Meric-Bernstam, Funda; Navin, Nicholas E. (2014)
      SUMMARY Sequencing studies of breast tumor cohorts have identified many prevalent mutations, but provide limited insight into the genomic diversity within tumors. Here, we developed a whole-genome and exome single cell ...
    • DNA replication timing and higher-order nuclear organization determine single nucleotide substitution patterns in cancer genomes 

      Liu, Lin; De, Subhajyoti; Michor, Franziska (2013)
      Single nucleotide substitutions (SNS) are a defining characteristic of cancer genomes. Many SNS in cancer genomes arise due to errors in DNA replication, which is spatio-temporally stratified. Here we propose that DNA ...
    • Dose-Dependent Mutation Rates Determine Optimum Erlotinib Dosing Strategies for EGFR Mutant Non-Small Cell Lung Cancer Patients 

      Liu, Lin L.; Li, Fei; Pao, William; Michor, Franziska (Public Library of Science, 2015)
      Background: The advent of targeted therapy for cancer treatment has brought about a paradigm shift in the clinical management of human malignancies. Agents such as erlotinib used for EGFR-mutant non-small cell lung cancer ...
    • An Evolutionary Approach for Identifying Driver Mutations in Colorectal Cancer 

      Foo, Jasmine; Liu, Lin L; Leder, Kevin; Riester, Markus; Iwasa, Yoh; Lengauer, Christoph; Michor, Franziska (Public Library of Science, 2015)
      The traditional view of cancer as a genetic disease that can successfully be treated with drugs targeting mutant onco-proteins has motivated whole-genome sequencing efforts in many human cancer types. However, only a subset ...
    • Evolutionary Dynamics of Intratumor Heterogeneity 

      Iwasa, Yoh; Michor, Franziska L. (Public Library of Science, 2011)
      Intraneoplastic diversity in human tumors is a widespread phenomenon of critical importance for tumor progression and the response to therapeutic intervention. Insights into the evolutionary events that control tumor ...
    • FGFR3 expression in primary and metastatic urothelial carcinoma of the bladder 

      Guancial, Elizabeth A; Werner, Lillian; Bellmunt, Joaquim; Bamias, Aristotle; Choueiri, Toni K; Ross, Robert; Schutz, Fabio A; Park, Rachel S; O'Brien, Robert J; Hirsch, Michelle S; Barletta, Justine A; Berman, David M; Lis, Rosina; Loda, Massimo; Stack, Edward C; Garraway, Levi A; Riester, Markus; Michor, Franziska; Kantoff, Philip W; Rosenberg, Jonathan E (BlackWell Publishing Ltd, 2014)
      While fibroblast growth factor receptor 3 (FGFR3) is frequently mutated or overexpressed in nonmuscle-invasive urothelial carcinoma (UC), the prevalence of FGFR3 protein expression and mutation remains unknown in muscle-invasive ...
    • Histone Modifications Are Associated with Transcript Isoform Diversity in Normal and Cancer Cells 

      Podlaha, Ondrej; De, Subhajyoti; Gonen, Mithat; Michor, Franziska (Public Library of Science, 2014)
      Mechanisms that generate transcript diversity are of fundamental importance in eukaryotes. Although a large fraction of human protein-coding genes and lincRNAs produce more than one mRNA isoform each, the regulation of ...
    • The Impact of Microenvironmental Heterogeneity on the Evolution of Drug Resistance in Cancer Cells 

      Mumenthaler, Shannon M; Foo, Jasmine; Choi, Nathan C; Heise, Nicholas; Leder, Kevin; Agus, David B; Pao, William; Michor, Franziska; Mallick, Parag (Libertas Academica, 2015)
      Therapeutic resistance arises as a result of evolutionary processes driven by dynamic feedback between a heterogeneous cell population and environmental selective pressures. Previous studies have suggested that mutations ...
    • In situ single cell analysis identifies heterogeneity for PIK3CA mutation and HER2 amplification in HER2+ breast cancer 

      Janiszewska, Michalina; Liu, Lin; Almendro, Vanessa; Kuang, Yanan; Paweletz, Cloud; Sakr, Rita A.; Weigelt, Britta; Hanker, Ariella B.; Chandarlapaty, Sarat; King, Tari A.; Reis-Filho, Jorge S.; Arteaga, Carlos L.; Park, So Yeon; Michor, Franziska; Polyak, Kornelia (2015)
      Detection of minor genetically distinct subpopulations within tumors is a key challenge in cancer genomics. Here we report STAR-FISH (Specific-To-Allele PCR – FISH), a novel method for the combined detection of single ...
    • A Mathematical Methodology for Determining the Temporal Order of Pathway Alterations Arising during Gliomagenesis 

      Cheng, Yu-Kang; Beroukhim, Rameen; Levine, Ross L.; Mellinghoff, Ingo K.; Holland, Eric C.; Michor, Franziska L. (Public Library of Science, 2012)
      Human cancer is caused by the accumulation of genetic alterations in cells. Of special importance are changes that occur early during malignant transformation because they may result in oncogene addiction and thus represent ...
    • Non-cell autonomous tumor-growth driving supports sub-clonal heterogeneity 

      Marusyk, Andriy; Tabassum, Doris P.; Altrock, Philipp M.; Almendro, Vanessa; Michor, Franziska; Polyak, Kornelia (2014)
      SUMMARY Cancers arise through a process of somatic evolution that can result in substantial sub-clonal heterogeneity within tumors. The mechanisms responsible for the coexistence of distinct sub-clones and the biological ...
    • On the Validity of Using Increases in 5-Year Survival Rates to Measure Success in the Fight against Cancer 

      Maruvka, Yosef E.; Tang, Min; Michor, Franziska (Public Library of Science, 2014)
      Background: The 5-year survival rate of cancer patients is the most commonly used statistic to reflect improvements in the war against cancer. This idea, however, was refuted based on an analysis showing that changes in ...
    • Patterns of Proliferative Activity in the Colonic Crypt Determine Crypt Stability and Rates of Somatic Evolution 

      Zhao, Rui; Michor, Franziska (Public Library of Science, 2013)
      Epithelial cells in the colon are arranged in cylindrical structures called crypts in which cellular proliferation and migration are tightly regulated. We hypothesized that the proliferation patterns of cells may determine ...
    • A physical sciences network characterization of non-tumorigenic and metastatic cells 

      Agus, David B.; Alexander, Jenolyn F.; Arap, Wadih; Ashili, Shashanka; Aslan, Joseph E.; Austin, Robert H.; Backman, Vadim; Bethel, Kelly J.; Bonneau, Richard; Chen, Wei-Chiang; Chen-Tanyolac, Chira; Choi, Nathan C.; Curley, Steven A.; Dallas, Matthew; Damania, Dhwanil; Davies, Paul C. W.; Decuzzi, Paolo; Dickinson, Laura; Estevez-Salmeron, Luis; Estrella, Veronica; Ferrari, Mauro; Fischbach, Claudia; Foo, Jasmine; Fraley, Stephanie I.; Frantz, Christian; Fuhrmann, Alexander; Gascard, Philippe; Gatenby, Robert A.; Geng, Yue; Gerecht, Sharon; Gillies, Robert J.; Godin, Biana; Grady, William M.; Greenfield, Alex; Hemphill, Courtney; Hempstead, Barbara L.; Hielscher, Abigail; Hillis, W. Daniel; Holland, Eric C.; Ibrahim-Hashim, Arig; Jacks, Tyler; Johnson, Roger H.; Joo, Ahyoung; Katz, Jonathan E.; Kelbauskas, Laimonas; Kesselman, Carl; King, Michael R.; Konstantopoulos, Konstantinos; Kraning-Rush, Casey M.; Kuhn, Peter; Kung, Kevin; Kwee, Brian; Lakins, Johnathon N.; Lambert, Guillaume; Liao, David; Licht, Jonathan D.; Liphardt, Jan T.; Liu, Liyu; Lloyd, Mark C.; Lyubimova, Anna; Mallick, Parag; Marko, John; McCarty, Owen J. T.; Meldrum, Deirdre R.; Michor, Franziska L.; Mumenthaler, Shannon M.; Nandakumar, Vivek; O’Halloran, Thomas V.; Oh, Steve; Pasqualini, Renata; Paszek, Matthew J.; Philips, Kevin G.; Poultney, Christopher S.; Rana, Kuldeepsinh; Reinhart-King, Cynthia A.; Ros, Robert; Semenza, Gregg L.; Senechal, Patti; Shuler, Michael L.; Srinivasan, Srimeenakshi; Staunton, Jack R.; Stypula, Yolanda; Subramanian, Hariharan; Tlsty, Thea D.; Tormoen, Garth W.; Tseng, Yiider; van Oudenaarden, Alexander; Verbridge, Scott S.; Wan, Jenny C.; Weaver, Valerie M.; Widom, Jonathan; Will, Christine; Wirtz, Denis; Wojtkowiak, Jonathan; Wu, Pei-Hsun (Nature Publishing Group, 2013)
      To investigate the transition from non-cancerous to metastatic from a physical sciences perspective, the Physical Sciences–Oncology Centers (PS-OC) Network performed molecular and biophysical comparative studies of the ...
    • Polyploidy can drive rapid adaptation in yeast 

      Selmecki, Anna; Maruvka, Yosef E.; Richmond, Phillip A.; Guillet, Marie; Shoresh, Noam; Sorenson, Amber; De, Subhajyoti; Kishony, Roy; Michor, Franziska; Dowell, Robin; Pellman, David (2015)
      Polyploidy is observed across the tree of life, yet its influence on evolution remains incompletely understood1–4. Polyploidy, usually whole genome duplication (WGD), is proposed to alter the rate of evolutionary adaptation. ...
    • Punctuated copy number evolution and clonal stasis in triple-negative breast cancer 

      Gao, Ruli; Davis, Alexander; McDonald, Thomas; Sei, Emi; Shi, Xiuqing; Wang, Yong; Tsai, Pei-Ching; Casasent, Anna; Waters, Jill; Zhang, Hong; Meric-Bernstam, Funda; Michor, Franziska L.; Navin, Nicholas E. (Springer Nature, 2016)
      Aneuploidy is a hallmark of breast cancer; however, our knowledge of how these complex rearrangements evolve during tumorigenesis is limited. In this study we developed a highly-multiplexed single-nucleus-sequencing ...
    • A Race Between Tumor Immunoescape and Genome Maintenance Selects for Optimum Levels of (Epi)genetic Instability 

      Iwami, Shingo; Haeno, Hiroshi; Michor, Franziska L. (Public Library of Science, 2012)
      The human immune system functions to provide continuous body-wide surveillance to detect and eliminate foreign agents such as bacteria and viruses as well as the body's own cells that undergo malignant transformation. To ...