BioModels

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https://www.ebi.ac.uk/biomodels/model/download/MODEL1012090005?filename=MODEL1012090005.pdfhttps://www.ebi.ac.uk/biomodels/model/download/MODEL1012090005?filename=MODEL1012090005-biopax2.owlhttps://www.ebi.ac.uk/biomodels/model/download/MODEL1012090005?filename=MODEL1012090005-biopax3.owlhttps://www.ebi.ac.uk/biomodels/model/download/MODEL1012090005?filename=MODEL1012090005_url.xmlhttps://www.ebi.ac.uk/biomodels/model/download/MODEL1012090005?filename=MODEL1012090005_urn.xmlhttps://www.ebi.ac.uk/biomodels/model/download/MODEL1012090005?filename=MODEL1012090005.vcmlhttps://www.ebi.ac.uk/biomodels/model/download/MODEL1012090005?filename=MODEL1012090005.mhttps://www.ebi.ac.uk/biomodels/model/download/MODEL1012090005?filename=MODEL1012090005.scihttps://www.ebi.ac.uk/biomodels/model/download/MODEL1012090005?filename=MODEL1012090005.pnghttps://www.ebi.ac.uk/biomodels/model/download/MODEL1012090005?filename=MODEL1012090005.xppprimary200OKjongmin kimNon-curatedordinary differential equation modelL2V4https://www.ebi.ac.uk/biomodels/MODEL101209000521283141falseBioModelsSBMLModelsKim2011 Oscillator ExtendedI2011MODEL1012090005Jongmin Kim, Erik WinfreeJongmin Kim21283141, The construction of synthetic biochemical circuits from simple components illuminates how complex behaviors can arise in chemistry and builds a foundation for future biological technologies. A simplified analog of genetic regulatory networks, in vitro transcriptional circuits, provides a modular platform for the systematic construction of arbitrary circuits and requires only two essential enzymes, bacteriophage T7 RNA polymerase and Escherichia coli ribonuclease H, to produce and degrade RNA signals. In this study, we design and experimentally demonstrate three transcriptional oscillators in vitro. First, a negative feedback oscillator comprising two switches, regulated by excitatory and inhibitory RNA signals, showed up to five complete cycles. To demonstrate modularity and to explore the design space further, a positive-feedback loop was added that modulates and extends the oscillatory regime. Finally, a three-switch ring oscillator was constructed and analyzed. Mathematical modeling guided the design process, identified experimental conditions likely to yield oscillations, and explained the system's robust response to interference by short degradation products. Synthetic transcriptional oscillators could prove valuable for systematic exploration of biochemical circuit design principles and for controlling nanoscale devices and orchestrating processes within artificial cells.. null, 7. Department of Biology, California Institute of Technology, Pasadena, CA 91125, USA.jongmin@dna.caltech.educalifornia institute of technologyThe construction of synthetic biochemical circuits from simple components illuminates how complex behaviors can arise in chemistry and builds a foundation for future biological technologies. A simplified analog of genetic regulatory networks, in vitro transcriptional circuits, provides a modular platform for the systematic construction of arbitrary circuits and requires only two essential enzymes, bacteriophage T7 RNA polymerase and Escherichia coli ribonuclease H, to produce and degrade RNA signals. In this study, we design and experimentally demonstrate three transcriptional oscillators in vitro. First, a negative feedback oscillator comprising two switches, regulated by excitatory and inhibitory RNA signals, showed up to five complete cycles. To demonstrate modularity and to explore the design space further, a positive-feedback loop was added that modulates and extends the oscillatory regime. Finally, a three-switch ring oscillator was constructed and analyzed. Mathematical modeling guided the design process, identified experimental conditions likely to yield oscillations, and explained the system's robust response to interference by short degradation products. Synthetic transcriptional oscillators could prove valuable for systematic exploration of biochemical circuit design principles and for controlling nanoscale devices and orchestrating processes within artificial cells.Synthetic in vitro transcriptional oscillators.Kim Jongmin J, Winfree Erik ETranscriptional, Transcription, transcription, In, artificial sequence, In Vitro, In Vitro as Topic, Testings, Tests, synthetic genetic interaction defined by inequality, Genetic Transcription, artificial gene, Test, synthetic DNA, synthetic constructs, Testing, Gene Transcription, In Vitro Testing, SYNTHETIC CONSTRUCT sequences, Techniques, In Vitro Test, In Vitro Technique, RNA Expression., In Vitro Testings, synthetic, artificial, synthetic genetic interaction (sensu inequality), Vitro Testing, Technique, In Vitro TestsOscillator Device, Oscillator.UVO Gene Mutation, Ribonucleic, ERBB2 Gene Amplification Negative, artificial sequence, H. pylori Positive, CDH1 Wild-Type, Cytogenetically Normal, CEK Gene Mutation Negative, BCC7 Gene Mutation Negative, ESTRB Negative, bacterium E3, ECT1 Gene Rearrangement Negative, ERBB2 Amplification, Positive Charge, TRT Promoter Mutation Negative, GNA11 Gene Mutation Negative, Normal Tissue, RET/PTC Rearrangement, Hepatitis C Virus RNA Positive, p53 Mutation, Biological, Met Proto-Oncogene (Hepatocyte Growth Factor Receptor) Gene Amplification Negative, PGR Positive, analysis, Likely, HOW, node-negative, Response Inhibition, BRAF Wildtype, Analog, Analysis, H. pylori Negative, Non Polyadenylated, Hepatitis B Virus Core Antibody Negative, Transcriptional, Methylated MGMT Promoter, Ad, ERA Positive, No rearrangement detected, HER2/neu Gene Mutation Negative, Biologic Drugs, Escherichia/Shigella coli, G Protein Subunit Alpha q Gene Mutation, IDH Gene Mutation, CD324 Gene Mutation, ESR Negative, FGFBR Gene Mutation Negative, Hepatitis B Virus Core Antibody Positive, KGFR Gene Mutation Negative, PDCD1L1 Negative, N, c-KIT Positive, Tissue, Flavoprotein Subunit of Complex II Positive, stru, B7H1 Positive, BEK Gene Mutation, Biochemical Diagnosis, l(3)S053606, MET Amplification Negative, node-positive, Cadherin 1 Gene Mutation, HER2 Non-Amplified, ESTRB Positive, PGR Negative, XH2 Gene Mutation, Eschericia coli, ATRX Mutation Negative, XNP Gene Mutation Negative, Biological Medicine, Catenin Beta 1 Gene Mutation, ER Beta Positive, FMS-Like Tyrosine Kinase 2 Gene Rearrangement Negative, PAX8 Gene Rearrangement Negative, Hepatitis B DNA Positive, Telomerase Reverse Transcriptase Gene Promoter Mutation, FGFR1 Rearrangement Negative, Methylated MGMT Gene Promoter, anatomical protrusion, TP53 Gene Mutation Negative, Human Immunodeficiency Virus Positive, Interfere, Biologic Products, Anti-HBc Negative, KGFR Gene Rearrangement, c-erbB2 Gene Amplification, Serum CA 19-9 Normal, TP53 Mutation Negative, B-RAF Gene Rearrangement, Anti-HBc Positive, BRAF wt, Test, Normal skin, Normalcy, Hepatitis B Virus Surface Antibody Positive, Enteroaggregative E. coli, Estrogen Receptor Alpha Positive, 1p/19q Co-deletion Negative, Human Immunodeficiency Virus Negative, RING1, TMEM16A Negative, SDHIP Positive, PIG7, CTNNB1 Wildtype, SEND-DESIGN, secretion, Ribonucleic acids, FGFR-2 Gene Rearrangement, FLT2 Gene Mutation, FGFR-1 Gene Rearrangement, LCAM Gene Mutation Negative, Flavoprotein Subunit of Complex II Negative, RET Gene Rearrangement, Ret Proto-Oncogene Rearrangement Negative, FGFR3 Wild-Type, DmelCG5595, NRAS Gene Mutation, Enteroinvasive E. coli, ECAD Gene Mutation, Biologics, Androgen Receptor Negative, EST2 Promoter Mutation, B7-H Negative, Present, ESR Positive, c-KIT Negative, PDCD1L1 Positive, Condition, p16INK4a Negative, v-Ets Erythroblastosis Virus E26 Oncogene Like Gene Rearrangement Negative, Positive EBV Serum Test, IDH Gene Family Mutation, ATRX Gene Mutation Negative, Unmethylated O-6-Methylguanine-DNA Methyltransferase Gene Promoter, EBV Negative, Cells, Sce/dRing, N-RAS Gene Mutation, HER2/Neu Amplification, TRP53 Gene Mutation Negative, B7H1 Negative, KRAS Gene Mutation, Feedbacks, Expression of PD-L1, Hepatitis B Core Antibody Negative, Facility Construction, HERV-K10 Pol protein, SDHF Positive, Nuclear Receptor Subfamily 3 Group A Member 2 Positive, Biologic Pharmaceuticals, In Vitro as Topic, BRCA1-Associated Protein 1 Gene Mutation, CDHE Gene Mutation, HER-2 Gene Mutation Negative, B-RAF1 Gene Rearrangement Negative, Alpha Thalassemia/Mental Retardation Syndrome X-Linked Gene Mutation Negative, Anti-HBc Antibody Negative, Analytical, Succinate Dehydrogenase [Ubiquinone] Iron-Sulfur Subunit, Inhibition, Hepatitis B Virus Surface Antigen Positive, dRing, cellular catabolism, IN, SDHF Negative, Escherchia coli, BRCA1 Associated Protein 1 Gene Mutation Negative, K-SAM Gene Mutation Negative, Gene Products, Nuclear Receptor Subfamily 3 Group A Member 2 Negative, Projections and Predictions, HERV-K18 Pol protein, N-SAM Gene Rearrangement Negative, NRAS Wildtype, G Protein Subunit Alpha 11 Gene Mutation, Technique, CD333 Gene Mutation Negative, Expression Negative, KRAS Wildtype, GNA11 Wild-Type, ETV Rearrangement Negative, Ding, ESR1 Negative, c-MET Gene Amplification Negative, Inhibiting, B7-H Positive, Cadherin-Associated Protein, In, B-RAF1 Gene Mutation Negative, anatomical systems, MGMT Gene Methylation, Tissues, Hepatitis B Core Antibody Positive, FGFR1 Gene Mutation Negative, FGFR-2 Gene Mutation Negative, CDH1 Mutation Negative, FGFR-2 Gene Rearrangement Negative, SDHA Negative, KRAS2 Gene Mutation Negative, BEK Gene Rearrangement, RET Rearrangement, Alpha 11 Gene Mutation Negative, Analogue, Enzyme, RAD54 Homolog Gene Mutation, Mathematical, HERV-K_7p22.1 provirus ancestral Pol protein, Estrogen Receptor Alpha Negative, ETV Family Rearrangement Negative, FLT2 Gene Mutation Negative, Keratinocyte Growth Factor Receptor Gene Rearrangement Negative, T7 RNA polymerase, ERBB2 wt, p53 Gene Mutation Negative, HBsAg Negative, HER-2 Gene Amplification, chemical composition, NORMAL, Pharmaceuticals, Alkalescens-Dispar Group, Positive EBV Test, Hepatitis B Virus Surface Antibody Negative, lumen, Q Polypeptide Gene Mutation Negative, Fibroblast Growth Factor Receptor 1 Gene Rearrangement Negative, degradation, Biologic Medicines, ETS Transcription Factor ERG Gene Rearrangement Negative, Harvey Rat Sarcoma Viral Oncogene Homolog Gene Mutation Negative, PR Positive, Hepatitis B Surface Protein Antigen Positive, SDHIP Negative, Estrogen Receptor Positive, EAggEC, FGFR2 Wild-Type, l(3)S090417, Negative Number, Beta Catenin Gene Mutation Negative, B-RAF1 Gene Rearrangement, del(10q23)/PTEN Gene Locus Deletion Negative, In Vitro Test, CTNNB1 Gene Mutation Negative, ATRX, Interference, BRAF Gene Rearrangement, TP53 wt, 3.1.26.4, FLG Gene Mutation, PAX8 Rearrangement, Alpha-11 Gene Mutation Negative, anatomical spaces, Androgen Receptor Positive, Calf Thymus, Hepatitis B Surface Protein Antigen Negative, HGFR Gene Amplification, ESR1 Positive, NEGATIVE, MET Gene Amplification, c-MET Gene Amplification, Paired Domain Gene 8 Gene Rearrangement Negative, Artificial, ER-Alpha Positive, BEK Gene Mutation Negative, Methylated MGMT, Unmethylated MGMT Promoter, ERG Rearrangement, Likeliness, HBsAg Positive, Ribonucleic Acid, TERT Gene Promoter Mutation, ERBB2 Wildtype, No, Ret Proto-Oncogene Rearrangement, Lack of Expression of PD-L1, Catenin Beta 1 Gene Mutation Negative, IDH Mutation, Synthetic Organelles, 1p/19q Co-deletion, SDHA Positive, Q Polypeptide Gene Mutation, Succinate Dehydrogenase [Ubiquinone] Flavoprotein Subunit, Anti-Hepatitis B Core Antibody Negative, Estrogen Receptor 2 Positive, biochemical pathways, XNP Gene Mutation, O-6-Methylguanine-DNA Methyltransferase Gene Promoter Methylation, LFS1 Gene Mutation Negative, Synthetic Organelle, Normal Male External Genitalia, ER Positive, BAP1 Wildtype, Telomerase Reverse Transcriptase Gene Promoter Mutation Negative, v-Ets Erythroblastosis Virus E26 Oncogene Like Gene Rearrangement, RING, Organelle, Human Herpesvirus-4 Negative, Foundation, HRAS1 Gene Mutation, G-ALPHA-q Gene Mutation, GDC Platform Terminology, BAP1 Gene Mutation, Techniques, cellular degradation, ESR2 Negative, ORAOV2 Negative, v-Erb-B2 Avian Erythroblastic Leukemia Viral Oncogene Homolog 2 Gene Mutation, l(3)j5D5, TP53, Abnormal, gene expression, ATRX Wildtype, BRAF Mutation Negative, 24B, RT, DESIGN, ESR-Beta Negative, Estrogen Receptor Beta Positive, Identification, Natural, CD274 Negative, Keratinocyte Growth Factor Receptor Gene Mutation Negative, DOG1 Positive, Biological Drugs, BAP1 wt, ETV Family Gene Rearrangement, Ets Variant Family Rearrangement, FLT2 Gene Rearrangement, genetic, Gene Transcription, PAX8 Rearrangement Negative, Enteroaggregative Escherichia coli, l(3)j5B5, Rearrangement identified, How Often Felt Normal, Chromatin Remodeler Gene Mutation Negative, FGFR3 Gene Rearrangement, HERV-K_11q22.1 provirus ancestral Pol protein, FGFR-1 Gene Rearrangement Negative, ECT1 Gene Mutation, Estrogen Receptor 1 Positive, Fibroblast Growth Factor Receptor 2 Gene Mutation, Erb-B2 Receptor Tyrosine Kinase Gene Mutation Negative, IDH Family Mutation, Normal, CD333 Gene Rearrangement, None detected, BAP1 Wild-Type, biotransformation, Anti-Hepatitis C Antibody Positive, CG5595, ER-Alpha Negative, None Detected, SDHB Loss, ATRX Gene Mutation, Ha-ras Gene Mutation Negative, ERG Gene Rearrangement, GNA-11 Gene Mutation Negative, GNAQ Wildtype, HBsAb Negative, HERV-K_5q33.3 provirus ancestral Pol protein, ribose nucleic acid, FGFR-1 Gene Mutation Negative, ribonucleic acids, Negative, HER2 Gene Mutation, FLT-2 Gene Mutation Negative, BRAF Wild Type, Gene Expression, Ets Variant Gene Family Rearrangement Negative, Artificial., ESRA Negative, FGFR3 Rearrangement Negative, Hepatitis B Surface Antibody Positive, KAL2 Gene Mutation Negative, SZ1, Biopharmaceuticals, ESTRR Negative, HERV-K_19q11 provirus ancestral Pol protein, HIV Positive, Biologic Product, Fibroblast Growth Factor Receptor 2 Gene Mutation Negative, HIV positive, FGFR2 Mutation Negative, 1p/19q Codeletion, POSITIVE, p16INK4 Negative, Diffusely Adherent Escherichia coli, Guanine Nucleotide Binding Protein (G Protein), Yes, In Vitro, HERV-K_3q27.2 provirus ancestral Pol protein, HHV-4 Negative, Modeling, Tests, SDH2 Positive, HRAS Gene Mutation Negative, E-Cadherin Gene Mutation Negative, ERBB2 Gene Mutation, chemical content, estrogen receptor negative, 1p/19q Intact, HER2 Wildtype, Up to, SYNTHETIC CONSTRUCT sequences, FLT-2 Gene Rearrangement Negative, Expressed, ER-Beta Positive, Synthetic Cells, Tumor Protein p53 Gene Mutation Negative, HRAS Gene Mutation, Unmethylated MGMT Gene Promoter, HERV-K(HML-2.HOM) Pol protein, Harvey Rat Sarcoma Viral Oncogene Homolog Gene Mutation, short, Regulation, PR Negative, Normal Chest Appearance, BRAF Rearrangement, CDH1 Gene Mutation, Ribonuclease H, KAL2 Gene Rearrangement Negative, Testings, tissue, experimental, Math, P62, GAQ Gene Mutation Negative, Negative Finding, v-Kit Hardy-Zuckerman 4 Feline Sarcoma Viral Oncogene Homolog Negative, Anti-HBs Positive, c-erbB2 Gene Activation, JKT4 Gene Mutation Negative, Added, Nucleic Acid Sequencing Technology Platform Name, FGFR1 Wildtype, Neuroblastoma RAS Viral Oncogene Homolog Gene Mutation Negative, OGD Gene Mutation Negative, Fp Positive, Fibroblast Growth Factor Receptor 1 Gene Rearrangement, SDHB Deficient, OGD Gene Mutation, Anti-HBcAb Positive, analog, Hep C RNA Positive, Enteroinvasive Escherichia coli, Anti-Hepatitis B Virus Surface Antibody Negative, c-K-ras Gene Mutation Negative, CD274 Antigen Positive, Epithelial Gene Mutation, MET Proto-Oncogene, Mitochondrial Negative, study, methods, NR3A1 Negative, HHV4 Negative, ANALYSIS, NRAS Wild-Type, SWS Gene Mutation, TAOS2 Positive, experimental section, GNA11 Wildtype, Natural Product, Normal Gait, stubby, synthetic genetic interaction defined by inequality, G-ALPHA-q Gene Mutation Negative, PDL1 Negative, Methylguanine-DNA Methyltransferase Gene Promoter Methylation, FGFR1 Gene Rearrangement Negative, Non-Polyadenylated RNA, CD331 Gene Mutation Negative, p16(INK4a) Negative, Neuroblastoma RAS Viral Oncogene Homolog Gene Mutation, H-ras Gene Mutation, ETV Gene Rearrangement, Erg-3 Gene Rearrangement Negative, Switch Device, CD332 Gene Rearrangement, Normal Abdomen on Visual Inspection, Ets Variant Gene Family Rearrangement, N-RAS Gene Mutation Negative, HER2 Gene Amplification, Anti-Hepatitis C Virus Antibody Positive, CTNNB Gene Mutation, progesterone receptor positive, RASH1 Gene Mutation, Controlled, KGFR Gene Rearrangement Negative, CD332 Gene Rearrangement Negative, Controlling, Bacterium coli, Succinate Dehydrogenase Complex Flavoprotein Subunit A Negative, Dring, Regulatory, FLG Gene Rearrangement Negative, Beta Gene Mutation Negative, Anti-Hepatitis B Virus Core Antibody Positive, clone 2.39, FGFR3 Gene Mutation Negative, DRING, FGFR1 Mutation Negative, enzyme activity, Normal Precordial Palpation Finding, Anti-HBs Antibody Negative, NR3A2 Positive, Bacillus coli, GNA11 wt, MGMT Gene Promoter Methylation, TMEM16A Positive, Catenin Beta-1 Gene Mutation, MGMT Methylation, AR Positive, who, Acceptance, Anoctamin-1 Negative, ER Beta Negative, RNAase H, UVO Gene Mutation Negative, FMS-Like Tyrosine Kinase 2 Gene Mutation, biodegradation, HIV Positivity, ERBB2 Mutation Negative, Normality, Mast/Stem Cell Growth Factor Receptor Kit Positive, FGFR3 wt, Non Polyadenylated RNA, Succinate Dehydrogenase Complex Iron Sulfur Subunit B Negative, Non-Polyadenylated, FGFR-2 Gene Mutation, KIT Negative, ERA Negative, OGD Gene Rearrangement Negative, B-RAF Gene Mutation Negative, CTNNB1 wt, Calcium-Dependent Adhesion Protein, Absent, Drug, SDH1 Negative, NEU Gene Amplification Negative, GTPase Gene Mutation Negative, CD324 Gene Mutation Negative, B7 Homolog 1 Negative, qkr[93F], IDH wt Allele, HBs Antigen Positive, CD274 Molecule Positive, BAP1 Gene Mutation Negative, 2.7.7.49, GTPase Gene Mutation, HERV-K(III) Pol protein, Anti-HBsAb Positive, Beta Gene Mutation, chemical properties, Product, CDKN2A-p16(INK4a) Negative, Cyclin-Dependent Kinase 4 Inhibitor A Negative, Design, Hepatitis B Surface Antigen Negative, Progesterone Receptor Positive, sci, GNAQ Gene Mutation Negative, CDH1 Wildtype, FGFBR Gene Rearrangement, UCHL2 Gene Mutation Negative, Integrase, ad, Nuclear Receptor Subfamily 3 Group A Member 1 Negative, GNAQ Mutation Negative, Progesterone Receptor Negative, FGFR-3 Gene Mutation Negative, H-ras Gene Mutation Negative, Normal Appearance of the Extremities, C-HA-RAS1 Gene Mutation Negative, How, HCV Antibody Positive, Nuclear Receptor Subfamily 3 Group A Member 1 Positive, CDKN2A-p16 Negative, Biological Product, HERV-K_19p13.11 provirus ancestral Pol protein, Erg-3 Gene Rearrangement, CD332 Gene Mutation, Ha-ras Gene Mutation, v-raf Murine Sarcoma Viral Oncogene Homolog B1 Gene Rearrangement Negative, average, EXPRESSED, HRas Proto-Oncogene, Loss of Expression, BFGFR Gene Rearrangement Negative, TRT Promoter Mutation, catabolism, HBcAb Negative, GAQ Gene Mutation, Met Proto-Oncogene (Hepatocyte Growth Factor Receptor) Gene Amplification, Isocitrate Dehydrogenase (NADP+) Gene Family Wildtype, Cytogenetic Abnormalities Absent, IP Negative, Normality-Based Dosing Unit, FGFR1 Gene Rearrangement, PD-L1+, Normal Capillary Refill Time, Arbitrary, NEU Gene Mutation, v-raf Murine Sarcoma Viral Oncogene Homolog B1 Gene Rearrangement, Anti-HBsAb Negative, FGFR3 Gene Mutation, SDHB Positive, bacteriophage T7 induced RNA polymerase, Receptor Tyrosine Kinase Gene Amplification Negative, K-RAS Mutation, CD331 Gene Rearrangement, Medicine, Catenin Beta-1 Gene Mutation Negative, C-HA-RAS1 Gene Mutation, MET Amplification, Negative Charge, ZNF-HX Gene Mutation, SIMPLE, Biologic Drug, HBs Antigen Negative, ERBB2 Gene Amplification, FGFR-3 Gene Rearrangement Negative, ER Alpha Negative, Beta Catenin Gene Mutation, ERB Negative, ERBB2 Wild-Type, FGFR1 wt, CDH1 Gene Mutation Negative, chemical characterization, familial, Protocell, Acceptance Processes, GNA11 Mutation Negative, Alpha 11 Gene Mutation, Oscillator Device, CD331 Gene Mutation, ERB Positive, CD117 Negative, Diffusely Adherent E. coli, Artificial Organelle, Cadherin, JKT4 Gene Rearrangement, Helicobacter pylori Negative, Arc-1 Gene Mutation Negative, Regulated, Artificial Cell, CMC1 Gene Mutation, Acid, P53 Gene Mutation, Epstein Barr Virus Negative, Mathematics, EST2 Promoter Mutation Negative, HGFR Gene Amplification Negative, Biological Medicines, Guanine Nucleotide-Binding Protein, PAX8 Gene Rearrangement, Biological Drug, HRAS Mutation Negative, v-Erb-B2 Avian Erythroblastic Leukemia Viral Oncogene Homolog 2 Gene Amplification Negative, NR3A1 Positive, Keratinocyte Growth Factor Receptor Gene Rearrangement, HER2 Amplification, Beta-Catenin Gene Mutation Negative, ATRX wt, CD333 Gene Mutation, experimental procedures, Positive Epstein-Barr Virus Test, Reverse transcriptase, Anti-Hepatitis B Virus Core Antibody Negative, HBs Negative, TERT Promoter Mutation Negative, ERG Gene Rearrangement Negative, HERV-K(C19) Pol protein, GNAQ wt, CDHE Gene Mutation Negative, FGFBR Gene Mutation, CTNNB Gene Mutation Negative, TCS1 Promoter Mutation, MET Gene Amplification Negative, KRAS Gene Mutation Negative, BRAF Gene Mutation Negative, BFGFR Gene Mutation, Epstein-Barr Virus Negative, c-Met Amplification Negative, transcription, HER2 Gene Mutation Negative, G Protein Subunit Alpha q Gene Mutation Negative, Not Expressed, Processes, Biocatalysts, HCV RNA Positive, Negative Estrogen Receptor, HER2 wt, ER+, ER-, In Vitro Testing, Receptor Tyrosine Kinase Gene Amplification, dring, HERV-K115 Pol protein, FGFR1 Gene Mutation, Sequencing Platform Name, p55 Gene Rearrangement, FLG Gene Rearrangement, CMC1 Gene Mutation Negative, FGFBR Gene Rearrangement Negative, Li-Fraumeni Syndrome Gene Mutation Negative, PDCD1LG1 Positive, dRING, synthetic genetic interaction (sensu inequality), IDH Family Gene Mutation Negative, NRAS Gene Mutation Negative, In Vitro Tests, Biologicals, Negative Lymph Node, Normalities, Synthetic, ETV Rearrangement, androgen receptor positive, Transcription, Normal Skin, HBs Positive, RNA Expression, HERV-K(C1a) Pol protein, FGFR3 Mutation Negative, Positive Number, JKT4 Gene Rearrangement Negative, Genetic Transcription, positive test result, ZNF-HX Gene Mutation Negative, GA11 Gene Mutation Negative, v-Ki-ras2 Kirsten Rat Sarcoma Viral Oncogene Homolog Gene Mutation, Ets Variant Family Rearrangement Negative, Paired Box Gene 8 Gene Rearrangement Negative, dRING1, GNAQ Gene Mutation, PDCD1LG1 Negative, NEU Gene Mutation Negative, PD-L1 Positive, CTNNB1 Gene Mutation, FGFR2 Gene Rearrangement, del10q23/Phosphatase and Tensin Homolog Gene Locus Negative, ANO1 Positive, CTNNB1 Wild-Type, RAD54 Gene Mutation, NEG, ER-Beta Negative, BRCA1-Associated Protein 1 Gene Mutation Negative, Programmed Cell Death 1 Ligand 1 Negative, Expression, Synthetic Cell, BFGFR Gene Mutation Negative, constitutitional genetic, chemical structure, RNase H, Biologic, TCS1 Promoter Mutation Negative, HER2/neu Gene Amplification Negative, CD117 Positive, FGFR2 Gene Mutation, Products, cellular breakdown, Probably, RNA, Epithelial Gene Mutation Negative, Helicobacter pylori Positive, FGFR3 Wildtype, Essential, Conditions, ESRB Positive, RNS, synthetic DNA, qkr, CTNNB1 Mutation Negative, Hepatocyte Growth Factor Receptor Gene Amplification Negative, Cell, Positive Finding, TERT Gene Promoter Mutation Negative, HERV-K108 Pol protein, GNA11 Gene Mutation, KH93F, Organelles, Biopharmaceutical, KRAS Wild-Type, synthetic, ATRX Wild-Type, CD333 Gene Rearrangement Negative, Ring/Sce, KIT Proto-Oncogene Tyrosine Protein Kinase Negative, Hepatocyte Growth Factor Receptor Gene Amplification, Vitro Testing, ESRB Negative, B-RAF Gene Rearrangement Negative, RET Rearrangement Negative, BRAF Rearrangement Negative, IDH Mutation Negative, Erb-B2 Receptor Tyrosine Kinase Gene Amplification Negative, lumen space, Biochemical Response, Regulator, p16 Negative, HBcAb Positive, PD-L1 Negative, HER2 Gene Amplification Negative, Tumor Protein p53 Gene Mutation, Fibroblast Growth Factor Receptor 1 Gene Mutation Negative, HERV-K(C7) Pol protein, IP Positive, Hepatitis B Surface Antigen Positive, Normal Appearance of Extremities, Normal Capillary Refill, RAD54L Gene Mutation Negative, Anti-HCV Antibody Positive, N-RAS Mutation, FLT-2 Gene Mutation, ETS Transcription Factor ERG Gene Rearrangement, BED-Biochemical Evidence of Disease, Fibroblast Growth Factor Receptor 3 Gene Rearrangement Negative, Protocells, Bacterium coli commune, IDP Gene Mutation Negative, NRAS Mutation Negative, CDH1 wt, ETV Family Gene Rearrangement Negative, In Vitro Technique, CEK Gene Mutation, ANO1 Negative, FGFR1 Wild-Type, p16-INK4 Negative, Alpha-11 Gene Mutation, hereditary, Chromatin Remodeler Gene Mutation, CEK Gene Rearrangement Negative, Fibroblast Growth Factor Receptor 1 Gene Mutation, SWS Gene Mutation Negative, G Protein Subunit Alpha 11 Gene Mutation Negative, PLATFORM, Hepatitis C Viral RNA Positive, ER Negative, Biochemical, FLT-2 Gene Rearrangement, JKT4 Gene Mutation, AR+, KRAS Mutation, BRAF Gene Rearrangement Negative, Construction, ESR-Beta Positive, Fibroblast Growth Factor Receptor 2 Gene Rearrangement, FGFR-3 Gene Rearrangement, FLG Gene Mutation Negative, HRAS Wild-Type, Inhibitory, Enterococcus coli, KGFR Gene Mutation, Human Herpesvirus 4 Negative, BAP1 Mutation Negative, RNA Gene Products, estrogen receptor positive, CD332 Gene Mutation Negative, No mutation detected, enzymes, reference sample, HERV-K_1q23.3 provirus ancestral Pol protein, p55 Gene Rearrangement Negative, Cyclin-Dependent Kinase Inhibitor 2A Negative, CD331 Gene Rearrangement Negative, E coli, Alpha Thalassemia/Mental Retardation Syndrome X-Linked Gene Mutation, Futurology, CG10293, E. coli, c-Met Gene Amplification, PR+, FMS-Like Tyrosine Kinase 2 Gene Rearrangement, PR-, TP53 Wildtype, FGFR2 Gene Rearrangement Negative, Estrogen Receptor 2 Negative, FGFR2 Gene Mutation Negative, Anti-Hepatitis B Core Antibody Positive, B7 Homolog 1 Positive, Beta 1 (88kD) Gene Mutation, Analyzed, Medicines, Positive, Ring, CD274 Molecule Negative, SDH2 Negative, Predictions and Projections, v-Ha-ras Harvey Rat Sarcoma Viral Oncogene Homolog Gene Mutation Negative, Normal Thoracic Appearance, negative test result, Platform Version, 0904/17, FMS-Like Tyrosine Kinase 2 Gene Mutation Negative, Estrogen Receptor 1 Negative, Anti-HBs Antibody Positive, Process, XH2 Gene Mutation Negative, TP53 Gene Mutation, Technology Platform Version, Paired Box 8 Gene Rearrangement Negative, Hepatitis B Surface Antibody Negative, Normal Reference Range, Oscillator, 1p/19q co-deletion, KIT Proto-Oncogene Tyrosine Protein Kinase Positive, v-Ha-ras Harvey Rat Sarcoma Viral Oncogene Homolog Gene Mutation, Positive Estrogen Receptor, NR3A2 Negative, HBsAb Positive, K-SAM Gene Mutation, shortened, HERV-K107 Pol protein, Acceptance Process, Succinate Dehydrogenase Complex Flavoprotein Subunit A Positive, dRing1, HRAS wt, Artificial Organelles, Ribonukleinsaeure, pentosenucleic acids, NOS, Estrogen Receptor Negative, Succinate Dehydrogenase Complex Iron Sulfur Subunit B Positive, Study Design, Normal Immune Presence, KRAS2 Gene Mutation, Biochemical Markers Diagnosis, ETV Gene Rearrangement Negative, IDH Gene Family Wildtype, HER-2 Gene Amplification Negative, ERBB2 Gene Mutation Negative, Paired Domain Gene 8 Gene Rearrangement, RASH1 Gene Mutation Negative, IDH Gene Mutation Negative, Isocitrate Dehydrogenase Gene Family Wild Type, GNAQ Wild-Type, 10q23/PTEN Locus Deletion Negative, HERV-K110 Pol protein, Programmed Cell Death 1 Ligand 1 Positive, BEK Gene Rearrangement Negative, ESR2 Positive, Hepatitis C RNA Positive, Type 1, Identified, Positive Laboratory Test Result, Paired Box 8 Gene Rearrangement, ECAD Gene Mutation Negative, Health, LCAM Gene Mutation, spine, DOG1 Negative, E-Cadherin Gene Mutation, v-Ki-ras2 Kirsten Rat Sarcoma Viral Oncogene Homolog Gene Mutation Negative, Biocatalyst, FGFR2 Wildtype, artificial, anon-EST:Liang-2.39, Hepatitis B Virus Surface Antigen Negative, inherited genetic, HERV-K_8p23.1 provirus ancestral Pol protein, Arc-1 Gene Mutation, N-SAM Gene Mutation, N-SAM Gene Rearrangement, CDISC SEND Study Design Terminology, HERV-K_1q22 provirus ancestral Pol protein, CD274 Positive, Platform, LOST, v-Erb-B2 Avian Erythroblastic Leukemia Viral Oncogene Homolog 2 Gene Mutation Negative, KRAS-2 Gene Mutation, Technology Platform, PDL1 Positive, IDH Family Wildtype, KIT Positive, Anti-HBc Antibody Positive, ECT1 Gene Mutation Negative, TERT Promoter Mutation, KAL2 Gene Mutation, ECT1 Gene Rearrangement, Anti-HBcAb Negative, protrusion, FGFR2 wt, Anoctamin-1 Positive, FGFR-3 Gene Mutation, FLT2 Gene Rearrangement Negative, CD274 Antigen Negative, HRAS Wildtype, Anti-Hepatitis B Virus Surface Antibody Positive, Fp Negative, Negative Test Result, Anti-HBs Negative, Switch, HIV test positive, FGFR3 Gene Rearrangement Negative, N-SAM Gene Mutation Negative, Drugs, Erb-B2 Receptor Tyrosine Kinase Gene Mutation, BFGFR Gene Rearrangement, SDHB Deficiency, l(3)s2612, 1p/19q Codeletion Negative, breakdown of chemical, Fibroblast Growth Factor Receptor 3 Gene Mutation, Mast/Stem Cell Growth Factor Receptor Kit Negative, Cadherin 1, E-Cadherin (Epithelial) Gene Mutation, HER2/neu Gene Mutation, BRCA1 Associated Protein 1 Gene Mutation, v-Kit Hardy-Zuckerman 4 Feline Sarcoma Viral Oncogene Homolog Positive, T16H5_60, RAD54 Gene Mutation Negative, Positive Lymph Node, TISSUE, DmelCG10293, C-H-RAS Gene Mutation, OGD Gene Rearrangement, KAL2 Gene Rearrangement, Behaviors, SDH1 Positive, Switch/Relay, ER Alpha Positive, Cadherin 1 Gene Mutation Negative, TP53I7, v-raf Murine Sarcoma Viral Oncogene Homolog B1 Gene Mutation Negative, UCHL2 Gene Mutation, AR Negative, RAD54L Gene Mutation, GNA-11 Gene Mutation, RET Gene Rearrangement Negative, HIV Negative, CEK Gene Rearrangement, NRAS wt, KRAS-2 Gene Mutation Negative, del(1p/19q) Negative, space, Hepatitis C Antibody Positive, artificial gene, FGFR2 Rearrangement Negative, ERBB2 Non-Amplified, Fibroblast Growth Factor Receptor 3 Gene Mutation Negative, Loss of Chromosomes 1p/19q, ESTRR Positive, K-SAM Gene Rearrangement, KRAS wt, Testing, HERV-K102 Pol protein, TP2 Promoter Mutation Negative, IDH Wild Type, del(1p/19q), Normal Point of Maximum Impulse, T16H5.60, yeast nucleic acid, HER2 Wild-Type, Fibroblast Growth Factor Receptor 3 Gene Rearrangement, In Vitro Testings, Fibroblast Growth Factor Receptor 2 Gene Rearrangement Negative, ERG Rearrangement Negative, ESRA Positive, Interfered, K-SAM Gene Rearrangement Negative, breakdown of molecule, ERBB2 Mutation, ribonucleic acid, progesterone receptor negative, ETV Family Rearrangement, Hepatitis C Virus Antibody Positive, Beta-Catenin Gene Mutation, GA11 Gene Mutation, MGMT Gene Promoter Methylation Negative, Paired Box Gene 8 Gene Rearrangement, TP2 Promoter Mutation, platform, Rnf2, ORAOV2 Positive, Endoribonuclease H, Who/How, Unit of Concentration, Biochemical Evidence of Disease, HERV-K113 Pol protein, RET/PTC Rearrangement Negative, Unmethylated Methylguanine-DNA Methyltransferase Gene Promoter, synthetic constructs, No abnormality detected, BAP1 Mutation, breakdown of substance, c-K-ras Gene Mutation, Estrogen Receptor Beta Negative, SDHB Negative, Natural Products, FGFR-1 Gene Mutation, SCE, Future, Mitochondrial Positive, TAOS2 Negativeextent, AW488255, Sectors, Public Sectors, Tb11, YB, NetrinA, AUTSX5, number, D430049E23Rik, Copyrights, NOVH, CCN3, QM, FBXW4, netrin, Yb, Hek6, Cek6, Public Enterprise, Enterprises, CG2706, fs(1)M104, ENSMUSG00000074119, ERP, APUDoma, Erp, Elkh, Ebi, EBI, Public Domains, Tyrosine-protein kinase receptor EPH-2, EK6, SAP-2, Sap-2, IGFBP9, Public Enterprises, DmelCG4063, IBP-9, neuroendocrine tumour, Kiaa4053, 2.7.10.1, Solute carrier family 6 member 2, L10, Etrp, CT27014, NET1, SLC6A5, Tbl1, TBL1, NAT1, netA, NOVh, Enterprise, NET, Net, Elk, ELK, C130099E04Rik, completeness, Neuronally-expressed EPH-related tyrosine kinase, DmelCG2706, EPH tyrosine kinase 2, DXS648, SAP2, SMAP55, 9330129L11, neuroendocrine tumor, net, neuroendocrine neoplasm, presence., count in organism, Norepinephrine transporter, IGFBP-9, Public, Public Domain, Domains, EPH-like kinase 6, NOV, PlexA1, Domain, Data Base, Plxn1, CG4063, nov, hEK6, CG18657, E-2f, mKIAA4053, E-2g, fs(1)Y[b], l(2)k16213, DmelCG18657, Sector, EPHT2, C130088N23Rik, EG:95B7.8, 2600013D04Rik, PLXN1, DXS648E, netrin AfalseKim2011_Oscillator_ExtendedI This model originates from BioModels Database: A Database of Annotated Published Models (http://www.ebi.ac.uk/biomodels/). It is copyright (c) 2005-2011 The BioModels.net Team. To the extent possible under law, all copyright and related or neighbouring rights to this encoded model have been dedicated to the public domain worldwide. Please refer to CC0 Public Domain Dedication for more information. In summary, you are entitled to use this encoded model in absolutely any manner you deem suitable, verbatim, or with modification, alone or embedded it in a larger context, redistribute it, commercially or not, in a restricted way or not.. To cite BioModels Database, please use: Li C, Donizelli M, Rodriguez N, Dharuri H, Endler L, Chelliah V, Li L, He E, Henry A, Stefan MI, Snoep JL, Hucka M, Le Novère N, Laibe C (2010) BioModels Database: An enhanced, curated and annotated resource for published quantitative kinetic models. BMC Syst Biol., 4:92. 2011-02-172005-01-012010-12-09MODEL101209000521283141MODEL1012090005GO:0010468562