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      Simulating Heterogeneous Tumor Cell Populations

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      1 , 3 , * , 2 , 3
      PLoS ONE
      Public Library of Science

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          Abstract

          Certain tumor phenomena, like metabolic heterogeneity and local stable regions of chronic hypoxia, signify a tumor’s resistance to therapy. Although recent research has shed light on the intracellular mechanisms of cancer metabolic reprogramming, little is known about how tumors become metabolically heterogeneous or chronically hypoxic, namely the initial conditions and spatiotemporal dynamics that drive these cell population conditions. To study these aspects, we developed a minimal, spatially-resolved simulation framework for modeling tissue-scale mixed populations of cells based on diffusible particles the cells consume and release, the concentrations of which determine their behavior in arbitrarily complex ways, and on stochastic reproduction. We simulate cell populations that self-sort to facilitate metabolic symbiosis, that grow according to tumor-stroma signaling patterns, and that give rise to stable local regions of chronic hypoxia near blood vessels. We raise two novel questions in the context of these results: (1) How will two metabolically symbiotic cell subpopulations self-sort in the presence of glucose, oxygen, and lactate gradients? We observe a robust pattern of alternating striations. (2) What is the proper time scale to observe stable local regions of chronic hypoxia? We observe the stability is a function of the balance of three factors related to O 2—diffusion rate, local vessel release rate, and viable and hypoxic tumor cell consumption rate. We anticipate our simulation framework will help researchers design better experiments and generate novel hypotheses to better understand dynamic, emergent whole-tumor behavior.

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          Most cited references30

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          On the origin of cancer cells.

          O WARBURG (1956)
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            Oncogenic Kras Maintains Pancreatic Tumors through Regulation of Anabolic Glucose Metabolism

            Tumor maintenance relies on continued activity of driver oncogenes, although their rate-limiting role is highly context dependent. Oncogenic Kras mutation is the signature event in pancreatic ductal adenocarcinoma (PDAC), serving a critical role in tumor initiation. Here, an inducible Kras(G12D)-driven PDAC mouse model establishes that advanced PDAC remains strictly dependent on Kras(G12D) expression. Transcriptome and metabolomic analyses indicate that Kras(G12D) serves a vital role in controlling tumor metabolism through stimulation of glucose uptake and channeling of glucose intermediates into the hexosamine biosynthesis and pentose phosphate pathways (PPP). These studies also reveal that oncogenic Kras promotes ribose biogenesis. Unlike canonical models, we demonstrate that Kras(G12D) drives glycolysis intermediates into the nonoxidative PPP, thereby decoupling ribose biogenesis from NADP/NADPH-mediated redox control. Together, this work provides in vivo mechanistic insights into how oncogenic Kras promotes metabolic reprogramming in native tumors and illuminates potential metabolic targets that can be exploited for therapeutic benefit in PDAC. Copyright © 2012 Elsevier Inc. All rights reserved.
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              Hypoxia in cancer: significance and impact on clinical outcome.

              Hypoxia, a characteristic feature of locally advanced solid tumors, has emerged as a pivotal factor of the tumor (patho-)physiome since it can promote tumor progression and resistance to therapy. Hypoxia represents a "Janus face" in tumor biology because (a) it is associated with restrained proliferation, differentiation, necrosis or apoptosis, and (b) it can also lead to the development of an aggressive phenotype. Independent of standard prognostic factors, such as tumor stage and nodal status, hypoxia has been suggested as an adverse prognostic factor for patient outcome. Studies of tumor hypoxia involving the direct assessment of the oxygenation status have suggested worse disease-free survival for patients with hypoxic cervical cancers or soft tissue sarcomas. In head & neck cancers the studies suggest that hypoxia is prognostic for survival and local control. Technical limitations of the direct O(2) sensing technique have prompted the use of surrogate markers for tumor hypoxia, such as hypoxia-related endogenous proteins (e.g., HIF-1alpha, GLUT-1, CA IX) or exogenous bioreductive drugs. In many - albeit not in all - studies endogenous markers showed prognostic significance for patient outcome. The prognostic relevance of exogenous markers, however, appears to be limited. Noninvasive assessment of hypoxia using imaging techniques can be achieved with PET or SPECT detection of radiolabeled tracers or with MRI techniques (e.g., BOLD). Clinical experience with these methods regarding patient prognosis is so far only limited. In the clinical studies performed up until now, the lack of standardized treatment protocols, inconsistencies of the endpoints characterizing the oxygenation status and methodological differences (e.g., different immunohistochemical staining procedures) may compromise the power of the prognostic parameter used.
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                Author and article information

                Contributors
                Role: Editor
                Journal
                PLoS One
                PLoS ONE
                plos
                plosone
                PLoS ONE
                Public Library of Science (San Francisco, CA USA )
                1932-6203
                2016
                28 December 2016
                : 11
                : 12
                : e0168984
                Affiliations
                [1 ]Department of Pharmacology and Systems Therapeutics, Icahn School of Medicine at Mount Sinai, New York, NY, United States of America
                [2 ]Department of Biochemistry and Molecular Pharmacology, NYU School of Medicine, New York, NY, United States of America
                [3 ]Department of Computer Science, Courant Institute of Mathematical Sciences, New York, NY, United States of America
                Universidade de Sao Paulo, BRAZIL
                Author notes

                Competing Interests: The authors have declared that no competing interests exist.

                • Conceptualization: AS.

                • Data curation: AS.

                • Formal analysis: AS.

                • Funding acquisition: AS BM.

                • Investigation: AS.

                • Methodology: AS.

                • Project administration: AS.

                • Resources: AS DB BM.

                • Software: AS.

                • Supervision: DB BM.

                • Validation: AS.

                • Visualization: AS.

                • Writing – original draft: AS.

                • Writing – review & editing: AS.

                Author information
                http://orcid.org/0000-0002-3378-4513
                Article
                PONE-D-15-48781
                10.1371/journal.pone.0168984
                5193460
                28030620
                329cb962-de58-4859-b1a3-efe76a566754
                © 2016 Sundstrom et al

                This is an open access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.

                History
                : 7 November 2015
                : 9 December 2016
                Page count
                Figures: 16, Tables: 39, Pages: 42
                Funding
                Funded by: funder-id http://dx.doi.org/10.13039/100000001, National Science Foundation;
                Award ID: DGE-0333389
                Award Recipient :
                Funded by: funder-id http://dx.doi.org/10.13039/100000001, National Science Foundation;
                Award ID: CNS-0926166
                Award Recipient :
                AS was supported by National Science Foundation - DGE-0333389 - IGERT: Program in Computation - http://www.nsf.gov/. BM was supported by National Science Foundation - CNS-0926166 - Collaborative Research: Next-Generation Model Checking and Abstract Interpretation with a Focus on Embedded Control and Systems Biology - http://www.nsf.gov/. The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript.
                Categories
                Research Article
                Biology and Life Sciences
                Cell Biology
                Cell Physiology
                Cell Metabolism
                Biology and Life Sciences
                Cell Biology
                Hypoxia
                Biology and Life Sciences
                Cell Biology
                Cellular Types
                Animal Cells
                Connective Tissue Cells
                Fibroblasts
                Biology and Life Sciences
                Anatomy
                Biological Tissue
                Connective Tissue
                Connective Tissue Cells
                Fibroblasts
                Medicine and Health Sciences
                Anatomy
                Biological Tissue
                Connective Tissue
                Connective Tissue Cells
                Fibroblasts
                Biology and Life Sciences
                Species Interactions
                Symbiosis
                Medicine and Health Sciences
                Pulmonology
                Medical Hypoxia
                Biology and Life Sciences
                Biochemistry
                Metabolism
                Carbohydrate Metabolism
                Glucose Metabolism
                Biology and Life Sciences
                Biophysics
                Biophysical Simulations
                Physical Sciences
                Physics
                Biophysics
                Biophysical Simulations
                Biology and Life Sciences
                Computational Biology
                Biophysical Simulations
                Biology and Life Sciences
                Population Biology
                Population Metrics
                Population Size
                Custom metadata
                All Matlab code files are available in the GitHub repository at: https://github.com/aesundstrom/tumor-hypoxia-simulation All histology image data are available in the Harvard Dataverse repository at: http://dx.doi.org/10.7910/DVN/SI32FV.

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                Uncategorized

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