| scholarly article | Q13442814 |
| P50 | author | Douglas A. Lauffenburger | Q59755238 |
| Benjamin D Cosgrove | Q88915578 | ||
| Leonidas G Alexopoulos | Q90911115 | ||
| Julio Saez-Rodriguez | Q41044850 | ||
| Peter K. Sorger | Q42127905 | ||
| P2860 | cites work | ARACNE: An Algorithm for the Reconstruction of Gene Regulatory Networks in a Mammalian Cellular Context | Q21284234 |
| Towards a proteome-scale map of the human protein–protein interaction network | Q21735930 | ||
| Functional organization of the yeast proteome by systematic analysis of protein complexes | Q24292209 | ||
| A proteomics strategy to elucidate functional protein-protein interactions applied to EGF signaling | Q24294449 | ||
| A physical and regulatory map of host-influenza interactions reveals pathways in H1N1 infection | Q24294658 | ||
| A human protein-protein interaction network: a resource for annotating the proteome | Q24324450 | ||
| Cytoscape: a software environment for integrated models of biomolecular interaction networks | Q24515682 | ||
| Toll-like receptor signalling | Q24570126 | ||
| Unbiased reconstruction of a mammalian transcriptional network mediating pathogen responses | Q24602140 | ||
| A comprehensive catalogue of somatic mutations from a human cancer genome | Q24628532 | ||
| Integrated genomic analysis identifies clinically relevant subtypes of glioblastoma characterized by abnormalities in PDGFRA, IDH1, EGFR, and NF1 | Q24651548 | ||
| Large-scale mapping of human protein-protein interactions by mass spectrometry | Q24670192 | ||
| Inflammatory tales of liver cancer | Q46044616 | ||
| Bioinformatics in the human interactome project | Q46207640 | ||
| IKKbeta couples hepatocyte death to cytokine-driven compensatory proliferation that promotes chemical hepatocarcinogenesis | Q46576855 | ||
| Adaptive immunity maintains occult cancer in an equilibrium state | Q46891052 | ||
| Lipopolysaccharide signaling induces serum amyloid A (SAA) synthesis in human hepatocytes in vitro | Q47268236 | ||
| Expression of vascular endothelial growth factor in human hepatocellular carcinoma | Q47872949 | ||
| Chemokine system and tissue infiltration in aggressive NK-cell leukemia | Q50714007 | ||
| Primary mouse hepatocytes for systems biology approaches: a standardized in vitro system for modelling of signal transduction pathways | Q51926243 | ||
| MLR-tagging: informative SNP selection for unphased genotypes based on multiple linear regression | Q51935853 | ||
| Establishment and characterization of a new human hepatocellular carcinoma cell line | Q52830047 | ||
| Systematic mapping of genetic interactions in Caenorhabditis elegans identifies common modifiers of diverse signaling pathways | Q55554520 | ||
| Liver regeneration | Q55883809 | ||
| Human Kupffer cells secrete IL-10 in response to lipopolysaccharide (LPS) challenge | Q57079517 | ||
| Deletion of NEMO/IKKγ in Liver Parenchymal Cells Causes Steatohepatitis and Hepatocellular Carcinoma | Q58619568 | ||
| Cytokine-induced neutrophil chemoattractant release from hepatocytes is modulated by Kupffer cells | Q70978415 | ||
| Antibodies to tumor necrosis factor alpha prevent increases in cell replication in liver due to the potent peroxisome proliferator, WY-14,643 | Q73248678 | ||
| Lipopolysaccharide-induced IL-18 secretion from murine Kupffer cells independently of myeloid differentiation factor 88 that is critically involved in induction of production of IL-12 and IL-1beta | Q73401111 | ||
| Vascular adhesion protein-1 and ICAM-1 support the adhesion of tumor-infiltrating lymphocytes to tumor endothelium in human hepatocellular carcinoma | Q74477264 | ||
| Reverse-phase protein arrays for application-orientated cancer research | Q82776188 | ||
| Relationships between transcriptional and translational control of gene expression in Saccharomyces cerevisiae: a multiple regression analysis | Q42691371 | ||
| A novel IKKbeta inhibitor stimulates adiponectin levels and ameliorates obesity-linked insulin resistance | Q42825735 | ||
| An integrated systems analysis implicates EGR1 downregulation in simian immunodeficiency virus encephalitis-induced neural dysfunction | Q42941992 | ||
| Increased expression of T cell chemokines and their receptors in chronic hepatitis C: relationship with the histological activity of liver disease | Q43040925 | ||
| Expression of the chemokine IP-10 (CXCL10) by hepatocytes in chronic hepatitis C virus infection correlates with histological severity and lobular inflammation. | Q43046782 | ||
| Tissue specificity and the human protein interaction network | Q43125316 | ||
| Rat liver slices as a tool to study LPS-induced inflammatory response in the liver. | Q43753005 | ||
| Bayesian network approach to cell signaling pathway modeling | Q44123846 | ||
| Cutting edge: TLR4 activation mediates liver ischemia/reperfusion inflammatory response via IFN regulatory factor 3-dependent MyD88-independent pathway | Q45178588 | ||
| Interleukin-1beta gene polymorphisms associated with hepatocellular carcinoma in hepatitis C virus infection. | Q45729743 | ||
| Human hepatocytes express an array of proinflammatory cytokines after agonist stimulation or bacterial invasion | Q45979869 | ||
| Reactome: a knowledgebase of biological pathways | Q24795413 | ||
| A new look at the statistical model identification | Q26778401 | ||
| Global cancer statistics, 2002 | Q27860562 | ||
| Network biology: understanding the cell's functional organization | Q27861027 | ||
| Global landscape of protein complexes in the yeast Saccharomyces cerevisiae | Q27938796 | ||
| The genetic landscape of a cell | Q28131628 | ||
| A protein interaction map of Drosophila melanogaster | Q28131783 | ||
| Liver tumor development. c-Jun antagonizes the proapoptotic activity of p53 | Q28205515 | ||
| Profibrogenic transforming growth factor-beta/activin receptor-like kinase 5 signaling via connective tissue growth factor expression in hepatocytes | Q28238030 | ||
| Cell-specific information processing in segregating populations of Eph receptor ephrin-expressing cells | Q28267574 | ||
| Specificity and mechanism of action of some commonly used protein kinase inhibitors | Q28344791 | ||
| Integration of biological networks and gene expression data using Cytoscape | Q28681323 | ||
| Pathway databases and tools for their exploitation: benefits, current limitations and challenges | Q28751984 | ||
| NF-kappaB: linking inflammation and immunity to cancer development and progression | Q29614597 | ||
| NF-kappaB functions as a tumour promoter in inflammation-associated cancer | Q29614598 | ||
| Hepatocellular carcinoma | Q29615841 | ||
| Senescence and tumour clearance is triggered by p53 restoration in murine liver carcinomas | Q29616243 | ||
| The immunobiology of cancer immunosurveillance and immunoediting | Q29616246 | ||
| Using Bayesian networks to analyze expression data | Q29617295 | ||
| Human hepatocellular carcinoma cell lines secrete the major plasma proteins and hepatitis B surface antigen | Q29617963 | ||
| Genome-wide RNAi analysis of Caenorhabditis elegans fat regulatory genes | Q29618442 | ||
| Causal protein-signaling networks derived from multiparameter single-cell data | Q29619136 | ||
| Literature mining for the biologist: from information retrieval to biological discovery | Q30002370 | ||
| Reverse engineering of regulatory networks in human B cells | Q30004211 | ||
| Using graphical models and genomic expression data to statistically validate models of genetic regulatory networks | Q30641188 | ||
| Multiplexed particle-based flow cytometric assays | Q30925110 | ||
| Context-sensitive data integration and prediction of biological networks | Q31117193 | ||
| Flexible informatics for linking experimental data to mathematical models via DataRail | Q31143834 | ||
| Towards a rigorous assessment of systems biology models: the DREAM3 challenges | Q33534661 | ||
| The transcriptional network for mesenchymal transformation of brain tumours. | Q33572162 | ||
| Toward the dynamic interactome: it's about time | Q33605065 | ||
| Discrete logic modelling as a means to link protein signalling networks with functional analysis of mammalian signal transduction | Q33668279 | ||
| Tracing pathway activities with kinase inhibitors and reverse phase protein arrays | Q33764423 | ||
| Hepatitis B virus biology | Q33855246 | ||
| Systems analysis of EGF receptor signaling dynamics with microwestern arrays | Q33896605 | ||
| Pathophysiological roles of interleukin-18 in inflammatory liver diseases | Q33916627 | ||
| Recognizing and exploiting differences between RNAi and small-molecule inhibitors | Q34074675 | ||
| Functional proteomic profiling of AML predicts response and survival | Q34184598 | ||
| Genomic analysis of regulatory network dynamics reveals large topological changes | Q34348943 | ||
| Distinct poly(I-C) and virus-activated signaling pathways leading to interferon-beta production in hepatocytes | Q34398825 | ||
| Circuitry of nuclear factor kappaB signaling | Q34514908 | ||
| Dynamic modularity in protein interaction networks predicts breast cancer outcome | Q34934057 | ||
| Does the immune system see tumors as foreign or self? | Q35077428 | ||
| An inducible autocrine cascade regulates rat hepatocyte proliferation and apoptosis responses to tumor necrosis factor-alpha | Q35082775 | ||
| Wnt signaling in liver cancer | Q35659072 | ||
| An evaluation of the role of insulin-like growth factors (IGF) and of type-I IGF receptor signalling in hepatocarcinogenesis and in the resistance of hepatocarcinoma cells against drug-induced apoptosis | Q35863982 | ||
| Interactome: gateway into systems biology | Q36257382 | ||
| Toll-like receptor signaling in the liver | Q36477368 | ||
| A systems biology approach to prediction of oncogenes and molecular perturbation targets in B-cell lymphomas | Q36496243 | ||
| Hepatitis C virus infection reduces hepatocellular polarity in a vascular endothelial growth factor-dependent manner | Q36694938 | ||
| Genetic screening for signal transduction in the era of network biology | Q36718781 | ||
| Transforming growth factor-beta and the immune response to malignant disease | Q36987655 | ||
| Loss of Raf kinase inhibitor protein promotes cell proliferation and migration of human hepatoma cells | Q36996036 | ||
| Liver: An organ with predominant innate immunity | Q37048206 | ||
| Protein networking: insights into global functional organization of proteomes | Q37093734 | ||
| Identifying the proteins to which small-molecule probes and drugs bind in cells | Q37114227 | ||
| Toll-like receptors and adaptor molecules in liver disease: update | Q37174620 | ||
| Protein and lysate array technologies in cancer research | Q37178134 | ||
| Literature-curated protein interaction datasets. | Q37196237 | ||
| Targeting and tinkering with interaction networks | Q37303853 | ||
| Conservation and rewiring of functional modules revealed by an epistasis map in fission yeast. | Q37365634 | ||
| Applying mass spectrometry-based proteomics to genetics, genomics and network biology | Q37581410 | ||
| Biological context networks: a mosaic view of the interactome | Q38517285 | ||
| State-based discovery: a multidimensional screen for small-molecule modulators of EGF signaling | Q40228748 | ||
| Inhibiting Stat3 signaling in the hematopoietic system elicits multicomponent antitumor immunity | Q40351340 | ||
| Inflammatory pathway analysis using a high content screening platform | Q40406256 | ||
| Core transcriptional regulatory circuitry in human hepatocytes | Q40511599 | ||
| Design, synthesis, and biological evaluation of novel 7-azaindolyl-heteroaryl-maleimides as potent and selective glycogen synthase kinase-3beta (GSK-3beta) inhibitors | Q40552812 | ||
| Regulation of the innate and adaptive immune responses by Stat-3 signaling in tumor cells | Q40602668 | ||
| Treatment of hepatocellular carcinoma: a systematic review of randomized controlled trials | Q41419107 | ||
| Cytokines and the hepatic acute phase response | Q41474260 | ||
| P433 | issue | 9 | |
| P921 | main subject | inflammation | Q101991 |
| toll-like receptor | Q408004 | ||
| P304 | page(s) | 1849-1865 | |
| P577 | publication date | 2010-05-10 | |
| P1433 | published in | Molecular & Cellular Proteomics | Q6895932 |
| P1476 | title | Networks inferred from biochemical data reveal profound differences in toll-like receptor and inflammatory signaling between normal and transformed hepatocytes | |
| P478 | volume | 9 |
| Q33700424 | A Boolean approach to linear prediction for signaling network modeling |
| Q37029832 | A Perspective on Implementing a Quantitative Systems Pharmacology Platform for Drug Discovery and the Advancement of Personalized Medicine. |
| Q35661487 | A Semiquantitative Framework for Gene Regulatory Networks: Increasing the Time and Quantitative Resolution of Boolean Networks |
| Q36933677 | A Six-Stage Workflow for Robust Application of Systems Pharmacology |
| Q36300039 | A dual array-based approach to assess the abundance and posttranslational modification state of signaling proteins |
| Q38622213 | A parallel metaheuristic for large mixed-integer dynamic optimization problems, with applications in computational biology |
| Q33880802 | Adaptive informatics for multifactorial and high-content biological data |
| Q34522964 | Analysis of growth factor signaling in genetically diverse breast cancer lines |
| Q35148271 | Bacteriophages: an underestimated role in human and animal health? |
| Q38184909 | Cancer Systems Biology: a peek into the future of patient care? |
| Q30573980 | CellNOptR: a flexible toolkit to train protein signaling networks to data using multiple logic formalisms |
| Q35060993 | Central role for MCP-1/CCL2 in injury-induced inflammation revealed by in vitro, in silico, and clinical studies |
| Q47116087 | Combined Virtual and Experimental Screening for CK1 Inhibitors Identifies a Modulator of p53 and Reveals Important Aspects of in Silico Screening Performance |
| Q33950966 | Combined logical and data-driven models for linking signalling pathways to cellular response. |
| Q38925118 | Comparing signaling networks between normal and transformed hepatocytes using discrete logical models |
| Q38256973 | Computational modelling of the inflammatory response in trauma, sepsis and wound healing: implications for modelling resilience |
| Q34207814 | Construction of large signaling pathways using an adaptive perturbation approach with phosphoproteomic data |
| Q38540474 | Correlating phosphoproteomic signaling with castration resistant prostate cancer survival through regression analysis |
| Q28727977 | Creating and analyzing pathway and protein interaction compendia for modelling signal transduction networks |
| Q36300033 | Crowdsourcing network inference: the DREAM predictive signaling network challenge |
| Q90293599 | Decoding the secreted inflammatory response of primary human hepatocytes to hypoxic stress in vitro |
| Q36027759 | Designing Experiments to Discriminate Families of Logic Models |
| Q30667165 | Detecting and removing inconsistencies between experimental data and signaling network topologies using integer linear programming on interaction graphs |
| Q34426359 | Enhancing the Prioritization of Disease-Causing Genes through Tissue Specific Protein Interaction Networks |
| Q34818955 | Exhaustively characterizing feasible logic models of a signaling network using Answer Set Programming |
| Q39460817 | Hepatocellular carcinoma: a systems biology perspective |
| Q38871403 | Human hepatocytes derived from pluripotent stem cells: a promising cell model for drug hepatotoxicity screening. |
| Q28480501 | Identifying biological network structure, predicting network behavior, and classifying network state with High Dimensional Model Representation (HDMR) |
| Q52671165 | Inflammatory but not mitogenic contexts prime synovial fibroblasts for compensatory signaling responses to p38 inhibition |
| Q37451325 | Innate immunity interactome dynamics |
| Q26770510 | Integrating Multiscale Modeling with Drug Effects for Cancer Treatment |
| Q61813504 | Interactions between Bacteriophage, Bacteria, and the Mammalian Immune System |
| Q46684257 | Large-scale network models of IL-1 and IL-6 signalling and their hepatocellular specification |
| Q28539118 | Leveraging systems biology approaches in clinical pharmacology |
| Q35625099 | Mixed-effects model of epithelial-mesenchymal transition reveals rewiring of signaling networks |
| Q37967513 | Modeling Signaling Networks Using High-throughput Phospho-proteomics |
| Q37977173 | Multi-pathway network analysis of mammalian epithelial cell responses in inflammatory environments |
| Q92739613 | Network inference performance complexity: a consequence of topological, experimental and algorithmic determinants |
| Q28547548 | Network reconstruction based on proteomic data and prior knowledge of protein connectivity using graph theory |
| Q35861710 | Network-Based Analysis of Nutraceuticals in Human Hepatocellular Carcinomas Reveals Mechanisms of Chemopreventive Action |
| Q34505131 | Non Linear Programming (NLP) formulation for quantitative modeling of protein signal transduction pathways |
| Q34318470 | Nonparametric simulation of signal transduction networks with semi-synchronized update |
| Q35834359 | Protein-based identification of quantitative trait loci associated with malignant transformation in two HER2+ cellular models of breast cancer |
| Q38097847 | Proteomics and NF-κB: an update |
| Q47765217 | Qualitative Reasoning for Biological Network Inference from Systematic Perturbation Experiments |
| Q36027002 | Quantifying crosstalk among interferon-γ, interleukin-12, and tumor necrosis factor signaling pathways within a TH1 cell model |
| Q37121662 | Recent advances in 2D and 3D in vitro systems using primary hepatocytes, alternative hepatocyte sources and non-parenchymal liver cells and their use in investigating mechanisms of hepatotoxicity, cell signaling and ADME. |
| Q38438015 | Reconstruction and analysis of nutrient-induced phosphorylation networks in Arabidopsis thaliana |
| Q36045478 | Reverse engineering of logic-based differential equation models using a mixed-integer dynamic optimization approach |
| Q26864172 | Strategic applications of gene expression: from drug discovery/development to bedside |
| Q34325849 | Stress response and adaptation: A new molecular toolkit for the 21st century |
| Q34472387 | Systems Pharmacology to Predict Drug Toxicity: Integration Across Levels of Biological Organization |
| Q37103538 | Systems biology approaches to dissect mammalian innate immunity |
| Q37236770 | Systems biology of Ewing sarcoma: a network model of EWS-FLI1 effect on proliferation and apoptosis |
| Q38005250 | Systems biology of virus-host signaling network interactions |
| Q37945786 | Targeted protein-omic methods are bridging the gap between proteomic and hypothesis-driven protein analysis approaches |
| Q35066534 | The species translation challenge-a systems biology perspective on human and rat bronchial epithelial cells |
| Q39140524 | Three-dimensional perfused human in vitro model of non-alcoholic fatty liver disease |
| Q28477321 | Training signaling pathway maps to biochemical data with constrained fuzzy logic: quantitative analysis of liver cell responses to inflammatory stimuli |
| Q30617646 | Using Partial Least Squares Regression to Analyze Cellular Response Data |
| Q37345998 | Vascular endothelial growth factor-A signaling in bone marrow-derived endothelial progenitor cells exposed to hypoxic stress |
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