Systems pathology—taking molecular pathology into a new dimension

[1]  S. Hohmann.  UNICELLSYS - Understanding the cell's functional organization , 2010 .

[2]  J. Geddes,et al.  What is a randomised controlled trial? , 2009, Epidemiologia e Psichiatria Sociale.

[3]  Ruedi Aebersold,et al.  Mass spectrometry based targeted protein quantification: methods and applications. , 2009, Journal of proteome research.

[4]  B. Gusterson.  Do 'basal-like' breast cancers really exist? , 2009, Nature Reviews Cancer.

[5]  Carolyn R. Bertozzi,et al.  Methods and Applications , 2009 .

[6]  R. Milo,et al.  Dynamic Proteomics of Individual Cancer Cells in Response to a Drug , 2008, Science.

[7]  Jacco van Rheenen,et al.  Intravital imaging of metastatic behavior through a mammary imaging window , 2008, Nature Methods.

[8]  Igor Goryanin,et al.  Kinetic modelling in systems biology , 2008 .

[9]  A. Henney,et al.  A network solution , 2008, Nature.

[10]  Frank T. Bergmann,et al.  Standards and ontologies in computational systems biology. , 2008, Essays in biochemistry.

[11]  W. Lam,et al.  Technical demonstration of whole genome array comparative genomic hybridization. , 2008, Journal of visualized experiments : JoVE.

[12]  J. Reis-Filho,et al.  Comparative Genomic Hybridisation Arrays: High-Throughput Tools to Determine Targeted Therapy in Breast Cancer , 2008, Pathobiology.

[13]  Boris N. Kholodenko,et al.  Giving Space to Cell Signaling , 2008, Cell.

[14]  J. Bartlett,et al.  Predictive markers in breast cancer – the future , 2007, Histopathology.

[15]  A. Tutt,et al.  Triple negative tumours: a critical review , 2007, Histopathology.

[16]  M. Barenco,et al.  Fitting ordinary differential equations to short time course data , 2008, Philosophical Transactions of the Royal Society A: Mathematical, Physical and Engineering Sciences.

[17]  I. Goryanin,et al.  Dynamic computational modeling in the search for better breast cancer drug therapy. , 2007, Pharmacogenomics.

[18]  A. Sparks,et al.  The Genomic Landscapes of Human Breast and Colorectal Cancers , 2007, Science.

[19]  G. Mills,et al.  A functional genetic approach identifies the PI3K pathway as a major determinant of trastuzumab resistance in breast cancer. , 2007, Cancer cell.

[20]  Robert A Edwards.  Laser capture microdissection of mammalian tissue. , 2007, Journal of visualized experiments : JoVE.

[21]  R. Steuer.  Computational approaches to the topology, stability and dynamics of metabolic networks. , 2007, Phytochemistry.

[22]  F. Montemurro,et al.  Trastuzumab: mechanism of action, resistance and future perspectives in HER2-overexpressing breast cancer. , 2007, Annals of oncology : official journal of the European Society for Medical Oncology.

[23]  C. Perou,et al.  The Triple Negative Paradox: Primary Tumor Chemosensitivity of Breast Cancer Subtypes , 2007, Clinical Cancer Research.

[24]  Mitch Dowsett,et al.  Prognostic value of Ki67 expression after short-term presurgical endocrine therapy for primary breast cancer. , 2007, Journal of the National Cancer Institute.

[25]  David Cameron,et al.  2-year follow-up of trastuzumab after adjuvant chemotherapy in HER2-positive breast cancer: a randomised controlled trial , 2007, The Lancet.

[26]  William J. Bosl,et al.  Systems biology by the rules: hybrid intelligent systems for pathway modeling and discovery , 2007, BMC Systems Biology.

[27]  J. Bown,et al.  The role of modelling in identifying drug targets for diseases of the cell cycle , 2006, Journal of The Royal Society Interface.

[28]  G. Mills,et al.  Reverse phase protein array: validation of a novel proteomic technology and utility for analysis of primary leukemia specimens and hematopoietic stem cells , 2006, Molecular Cancer Therapeutics.

[29]  J. Reis-Filho,et al.  Basal-like breast cancer and the BRCA1 phenotype , 2006, Oncogene.

[30]  M. Peitsch,et al.  The application of systems biology to drug discovery. , 2006, Current opinion in chemical biology.

[31]  S. Lakhani,et al.  Metaplastic breast carcinomas are basal‐like tumours , 2006, Histopathology.

[32]  P J Noble,et al.  Late sodium current in the pathophysiology of cardiovascular disease: consequences of sodium–calcium overload , 2006, Heart.

[33]  J. Shryock,et al.  Inhibition of the late sodium current as a potential cardioprotective principle: effects of the late sodium current inhibitor ranolazine , 2006, Heart.

[34]  Haluk Resat,et al.  Modeling the effects of HER/ErbB1-3 coexpression on receptor dimerization and biological response. , 2006, Biophysical journal.

[35]  David L Rimm,et al.  Quantitative in situ analysis of beta-catenin expression in breast cancer shows decreased expression is associated with poor outcome. , 2006, Cancer research.

[36]  B. Kholodenko.  Cell-signalling dynamics in time and space , 2006, Nature Reviews Molecular Cell Biology.

[37]  D. Noble.  Systems biology and the heart. , 2006, Bio Systems.

[38]  Gordon B Mills,et al.  mTOR inhibition induces upstream receptor tyrosine kinase signaling and activates Akt. , 2006, Cancer research.

[39]  M. Dowsett,et al.  Proliferation and Apoptosis as Markers of Benefit in Neoadjuvant Endocrine Therapy of Breast Cancer , 2006, Clinical Cancer Research.

[40]  D. Lauffenburger,et al.  Computational modelling of ErbB family phosphorylation dynamics in response to transforming growth factor alpha and heregulin indicates spatial compartmentation of phosphatase activity. , 2006, Systems biology.

[41]  Jeffrey T. Chang,et al.  Oncogenic pathway signatures in human cancers as a guide to targeted therapies , 2006, Nature.

[42]  D. Lauffenburger,et al.  A Systems Model of Signaling Identifies a Molecular Basis Set for Cytokine-Induced Apoptosis , 2005, Science.

[43]  Roman Rouzier,et al.  Breast Cancer Molecular Subtypes Respond Differently to Preoperative Chemotherapy , 2005, Clinical Cancer Research.

[44]  Werner Dubitzky,et al.  Mathematical models of cell cycle regulation , 2005, Briefings Bioinform..

[45]  Y Wang,et al.  Effects of chemotherapy and hormonal therapy for early breast cancer on recurrence and 15-year survival: an overview of the randomised trials , 2005, The Lancet.

[46]  Hiroaki Kitano,et al.  Biological robustness , 2008, Nature Reviews Genetics.

[47]  I. Nagtegaal,et al.  Radiation induces different changes in expression profiles of normal rectal tissue compared with rectal carcinoma , 2005, Virchows Archiv.

[48]  I. Kola,et al.  Can the pharmaceutical industry reduce attrition rates? , 2004, Nature Reviews Drug Discovery.

[49]  Ming Tan,et al.  PTEN activation contributes to tumor inhibition by trastuzumab, and loss of PTEN predicts trastuzumab resistance in patients. , 2004, Cancer cell.

[50]  B. Kholodenko,et al.  Signaling switches and bistability arising from multisite phosphorylation in protein kinase cascades , 2004, The Journal of cell biology.

[51]  A. Barabasi,et al.  Network biology: understanding the cell's functional organization , 2004, Nature Reviews Genetics.

[52]  J. Dixon,et al.  The scientific value of preoperative studies and how they can be used , 2004, Breast Cancer Research and Treatment.

[53]  S. Kimura,et al.  A computational model on the modulation of mitogen-activated protein kinase (MAPK) and Akt pathways in heregulin-induced ErbB signalling. , 2003, The Biochemical journal.

[54]  Hiroaki Kitano,et al.  The systems biology markup language (SBML): a medium for representation and exchange of biochemical network models , 2003, Bioinform..

[55]  Eberhard O Voit,et al.  Models-of-data and models-of-processes in the post-genomic era. , 2002, Mathematical biosciences.

[56]  D. Rimm,et al.  Automated subcellular localization and quantification of protein expression in tissue microarrays , 2002, Nature Medicine.

[57]  D. Alberts,et al.  Intraperitoneal therapy for stage III ovarian cancer: a therapy whose time has come! , 2002, Journal of clinical oncology : official journal of the American Society of Clinical Oncology.

[58]  E. Gilles,et al.  Computational modeling of the dynamics of the MAP kinase cascade activated by surface and internalized EGF receptors , 2002, Nature Biotechnology.

[59]  Pedro de Atauri,et al.  Metabolic control analysis in drug discovery and disease , 2002, Nature Biotechnology.

[60]  Goldberg,et al.  Genetic algorithms , 1993, Robust Control Systems with Genetic Algorithms.

[61]  M. Edward.  Melanoma cell‐derived factors stimulate glycosaminoglycan synthesis by fibroblasts cultured as monolayers and within contracted collagen lattices , 2001, The British journal of dermatology.

[62]  F. Hamdy,et al.  Gene expression &Assays , 2001, Nature Biotechnology.

[63]  Christian A. Rees,et al.  Molecular portraits of human breast tumours , 2000, Nature.

[64]  Doyle,et al.  Highly optimized tolerance: robustness and design in complex systems , 2000, Physical review letters.

[65]  D. Hanahan,et al.  The Hallmarks of Cancer , 2000, Cell.

[66]  B. Kholodenko,et al.  Quantification of Short Term Signaling by the Epidermal Growth Factor Receptor* , 1999, The Journal of Biological Chemistry.

[67]  I. Ellis,et al.  Pathological prognostic factors in breast cancer. , 1999, Critical reviews in oncology/hematology.

[68]  Mike Clarke,et al.  Tamoxifen for early breast cancer: an overview of the randomised trials , 1998, The Lancet.

[69]  C. Sherr.  Cancer Cell Cycles , 1996, Science.

[70]  I. Ellis,et al.  Pathological prognostic factors in breast cancer. I. The value of histological grade in breast cancer: experience from a large study with long-term follow-up. , 2002, Histopathology.

[71]  A Sorribas,et al.  A comparison of variant theories of intact biochemical systems. I. Enzyme-enzyme interactions and biochemical systems theory. , 1989, Mathematical biosciences.

[72]  D. E. Goldberg,et al.  Genetic Algorithms in Search , 1989 .

[73]  David E. Goldberg,et al.  Genetic Algorithms in Search Optimization and Machine Learning , 1988 .

[74]  L. Sobin,et al.  TNM Classification of Malignant Tumours , 1987, UICC International Union Against Cancer.

[75]  Eberhard O. Voit,et al.  Power-Law Approach to Modeling Biological Systems : I. Theory , 1982 .

[76]  M. Uschold,et al.  Methods and applications , 1953 .

[77]  C. Aring,et al.  A CRITICAL REVIEW , 1939, Journal of neurology and psychiatry.