The Network Data Exchange
Names
More detailed information about this field from each metasource.
The Network Data Exchange
metasource: Fairsharing.org
version: FAIRsharing.org: NDEx; The Network Data Exchange; DOI: https://doi.org/10.25504/FAIRsharing.8nq9t6; Last edited: April 27, 2021, 7:41 a.m.; Last accessed: Jan 03 2022 7:06 p.m.
NDEx
metasource: Fairsharing.org
version: FAIRsharing.org: NDEx; The Network Data Exchange; DOI: https://doi.org/10.25504/FAIRsharing.8nq9t6; Last edited: April 27, 2021, 7:41 a.m.; Last accessed: Jan 03 2022 7:06 p.m.
metasource: re3data.org
version: re3data.org: Network Data Exchange; editing status 2021-08-11; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R31NJMAA last accessed: 2022-11-04
Network Data Exchange
metasource: re3data.org
version: re3data.org: Network Data Exchange; editing status 2021-08-11; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R31NJMAA last accessed: 2022-11-04
Names
More detailed information about this field from each metasource.
The Network Data Exchange
metasource: Fairsharing.orgversion: FAIRsharing.org: NDEx; The Network Data Exchange; DOI: https://doi.org/10.25504/FAIRsharing.8nq9t6; Last edited: April 27, 2021, 7:41 a.m.; Last accessed: Jan 03 2022 7:06 p.m.
NDEx
metasource: Fairsharing.orgversion: FAIRsharing.org: NDEx; The Network Data Exchange; DOI: https://doi.org/10.25504/FAIRsharing.8nq9t6; Last edited: April 27, 2021, 7:41 a.m.; Last accessed: Jan 03 2022 7:06 p.m.
metasource: re3data.org
version: re3data.org: Network Data Exchange; editing status 2021-08-11; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R31NJMAA last accessed: 2022-11-04
Network Data Exchange
metasource: re3data.orgversion: re3data.org: Network Data Exchange; editing status 2021-08-11; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R31NJMAA last accessed: 2022-11-04
Other names: NDEx, Network Data Exchange
Names
More detailed information about this field from each metasource.
The Network Data Exchange
metasource: Fairsharing.orgversion: FAIRsharing.org: NDEx; The Network Data Exchange; DOI: https://doi.org/10.25504/FAIRsharing.8nq9t6; Last edited: April 27, 2021, 7:41 a.m.; Last accessed: Jan 03 2022 7:06 p.m.
NDEx
metasource: Fairsharing.orgversion: FAIRsharing.org: NDEx; The Network Data Exchange; DOI: https://doi.org/10.25504/FAIRsharing.8nq9t6; Last edited: April 27, 2021, 7:41 a.m.; Last accessed: Jan 03 2022 7:06 p.m.
metasource: re3data.org
version: re3data.org: Network Data Exchange; editing status 2021-08-11; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R31NJMAA last accessed: 2022-11-04
Network Data Exchange
metasource: re3data.orgversion: re3data.org: Network Data Exchange; editing status 2021-08-11; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R31NJMAA last accessed: 2022-11-04
NDEx is an online commons where scientists can upload, share, and publicly distribute biological networks and pathway models. The NDEx Project maintains a web-accessible public server, a documentation website, provides seamless connectivity to Cytoscape as well as programmatic access using a variety of languages including Python and Java. NDEx users can easily create accounts or sign in using their Google credentials thanks to the supported open authentication (OAUTH2) method and mint DOIs for their networks to use in publications or include in other resources for long term access.
Description
More detailed information about this field from each metasource.
NDEx is an online commons where scientists can upload, share, and publicly distribute biological networks and pathway models. The NDEx Project maintains a web-accessible public server, a documentation website, provides seamless connectivity to Cytoscape as well as programmatic access using a variety of languages including Python and Java. NDEx users can easily create accounts or sign in using their Google credentials thanks to the supported open authentication (OAUTH2) method and mint DOIs for their networks to use in publications or include in other resources for long term access.
metasource: Fairsharing.orgversion: FAIRsharing.org: NDEx; The Network Data Exchange; DOI: https://doi.org/10.25504/FAIRsharing.8nq9t6; Last edited: April 27, 2021, 7:41 a.m.; Last accessed: Jan 03 2022 7:06 p.m.
The NDEx Project provides an open-source framework where scientists and organizations can share, store, manipulate, and publish biological network knowledge. The NDEx Project maintains a free, public website; alternatively, users can also decide to run their own copies of the NDEx Server software in cases where the stored networks must be kept in a highly secure environment (such as for HIPAA compliance) or where high application load is incompatible with a shared public resource.
metasource: re3data.orgversion: re3data.org: Network Data Exchange; editing status 2021-08-11; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R31NJMAA last accessed: 2022-11-04
Webpage:
http://www.ndexbio.orgWebpage
More detailed information about this field from each metasource.
http://www.ndexbio.org
metasource: Fairsharing.orgversion: FAIRsharing.org: NDEx; The Network Data Exchange; DOI: https://doi.org/10.25504/FAIRsharing.8nq9t6; Last edited: April 27, 2021, 7:41 a.m.; Last accessed: Jan 03 2022 7:06 p.m.
https://home.ndexbio.org/index/
metasource: re3data.orgversion: re3data.org: Network Data Exchange; editing status 2021-08-11; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R31NJMAA last accessed: 2022-11-04
Licence:
Name: NDEx Terms, License and SourcesLicence name
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NDEx Terms, License and Sources
metasource: Fairsharing.orgversion: FAIRsharing.org: NDEx; The Network Data Exchange; DOI: https://doi.org/10.25504/FAIRsharing.8nq9t6; Last edited: April 27, 2021, 7:41 a.m.; Last accessed: Jan 03 2022 7:06 p.m.
other
metasource: re3data.orgversion: re3data.org: Network Data Exchange; editing status 2021-08-11; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R31NJMAA last accessed: 2022-11-04
Licence URL
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https://www.home.ndexbio.org/disclaimer-license/
metasource: Fairsharing.orgversion: FAIRsharing.org: NDEx; The Network Data Exchange; DOI: https://doi.org/10.25504/FAIRsharing.8nq9t6; Last edited: April 27, 2021, 7:41 a.m.; Last accessed: Jan 03 2022 7:06 p.m.
https://opensource.org/licenses/MPL-2.0
metasource: re3data.orgversion: re3data.org: Network Data Exchange; editing status 2021-08-11; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R31NJMAA last accessed: 2022-11-04
Publications:
Publications
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NDEx, the Network Data Exchange
PMID: 26594663
metasource: Fairsharing.org
version: FAIRsharing.org: NDEx; The Network Data Exchange; DOI: https://doi.org/10.25504/FAIRsharing.8nq9t6; Last edited: April 27, 2021, 7:41 a.m.; Last accessed: Jan 03 2022 7:06 p.m.
NDEx: A Community Resource for Sharing and Publishing of Biological Networks
PMID: 28150243
metasource: Fairsharing.org
version: FAIRsharing.org: NDEx; The Network Data Exchange; DOI: https://doi.org/10.25504/FAIRsharing.8nq9t6; Last edited: April 27, 2021, 7:41 a.m.; Last accessed: Jan 03 2022 7:06 p.m.
NDEx 2.0: A Clearinghouse for Research on Cancer Pathways
PMID: 29092941
metasource: Fairsharing.org
version: FAIRsharing.org: NDEx; The Network Data Exchange; DOI: https://doi.org/10.25504/FAIRsharing.8nq9t6; Last edited: April 27, 2021, 7:41 a.m.; Last accessed: Jan 03 2022 7:06 p.m.
Publications
More detailed information about this field from each metasource.
NDEx, the Network Data Exchange
PMID: 26594663
metasource: Fairsharing.org
version: FAIRsharing.org: NDEx; The Network Data Exchange; DOI: https://doi.org/10.25504/FAIRsharing.8nq9t6; Last edited: April 27, 2021, 7:41 a.m.; Last accessed: Jan 03 2022 7:06 p.m.
NDEx: A Community Resource for Sharing and Publishing of Biological Networks
PMID: 28150243
metasource: Fairsharing.org
version: FAIRsharing.org: NDEx; The Network Data Exchange; DOI: https://doi.org/10.25504/FAIRsharing.8nq9t6; Last edited: April 27, 2021, 7:41 a.m.; Last accessed: Jan 03 2022 7:06 p.m.
NDEx 2.0: A Clearinghouse for Research on Cancer Pathways
PMID: 29092941
metasource: Fairsharing.org
version: FAIRsharing.org: NDEx; The Network Data Exchange; DOI: https://doi.org/10.25504/FAIRsharing.8nq9t6; Last edited: April 27, 2021, 7:41 a.m.; Last accessed: Jan 03 2022 7:06 p.m.
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NDEx, the Network Data Exchange
PubMed citations: 111.
111 articles citing: NDEx, the Network Data Exchange
Transcriptional regulatory networks of circulating immune cells in type 1 diabetes: A community knowledgebase. PMID:35832893
Domination based classification algorithms for the controllability analysis of biological interaction networks. PMID:35831440
Data-dependent visualization of biological networks in the web-browser with NDExEdit. PMID:35675360
A BioID-Derived Proximity Interactome for SARS-CoV-2 Proteins. PMID:35337019
Network Approaches for Precision Oncology. PMID:35230690
Visualization of a curated Oryza sativa L. CDPKs Protein-Protein Interaction Network (CDPK-OsPPIN). PMID:35098050
Harnessing Synthetic Lethal Interactions for Personalized Medicine. PMID:35055413
Artificial intelligence, molecular subtyping, biomarkers, and precision oncology. PMID:34881776
Genetic Determinants in Salmonella enterica Serotype Typhimurium Required for Overcoming In Vitro Stressors in the Mimicking Host Environment. PMID:34878334
Author-sourced capture of pathway knowledge in computable form using Biofactoid. PMID:34860157
Convergent molecular mechanisms underlying cognitive impairment in mucopolysaccharidosis type II. PMID:34797484
Comparison of metabolic states using genome-scale metabolic models. PMID:34748535
Humans and machines in biomedical knowledge curation: hypertrophic cardiomyopathy molecular mechanisms' representation. PMID:34600580
Interpretation of cancer mutations using a multiscale map of protein systems. PMID:34591613
A BioID-derived proximity interactome for SARS-CoV-2 proteins. PMID:34580671
NDEx: Accessing Network Models and Streamlining Network Biology Workflows. PMID:34570431
GRAND: a database of gene regulatory network models across human conditions. PMID:34508353
Shared Molecular Mechanisms of Hypertrophic Cardiomyopathy and Its Clinical Presentations: Automated Molecular Mechanisms Extraction Approach. PMID:34440529
A convergent molecular network underlying autism and congenital heart disease. PMID:34411509
Ten simple rules for creating reusable pathway models for computational analysis and visualization. PMID:34411100
A Computational Approach Identified Andrographolide as a Potential Drug for Suppressing COVID-19-Induced Cytokine Storm. PMID:34248936
Integrative proteomic network analyses support depot-specific roles for leucine rich repeat LGI family member 3 in adipose tissues. PMID:34149883
netgsa: Fast computation and interactive visualization for topology-based pathway enrichment analysis. PMID:34115744
Measuring pathway database coverage of the phosphoproteome. PMID:34113485
Critical COVID-19 is associated with distinct leukocyte phenotypes and transcriptome patterns. PMID:34080738
Graphery: interactive tutorials for biological network algorithms. PMID:34037782
Dual proteome-scale networks reveal cell-specific remodeling of the human interactome. PMID:33961781
RNA-seq Characterization of Sex-Differences in Adipose Tissue of Obesity Affected Patients: Computational Analysis of Differentially Expressed Coding and Non-Coding RNAs. PMID:33924951
MultiVERSE: a multiplex and multiplex-heterogeneous network embedding approach. PMID:33888761
Accurate cancer phenotype prediction with AKLIMATE, a stacked kernel learner integrating multimodal genomic data and pathway knowledge. PMID:33861732
Transcriptome Analysis of Subcutaneous Adipose Tissue from Severely Obese Patients Highlights Deregulation Profiles in Coding and Non-Coding Oncogenes. PMID:33671464
Mucociliary Respiratory Epithelium Integrity in Molecular Defense and Susceptibility to Pulmonary Viral Infections. PMID:33572760
The status of causality in biological databases: data resources and data retrieval possibilities to support logical modeling. PMID:33378765
A Network-Based Analysis Reveals the Mechanism Underlying Vitamin D in Suppressing Cytokine Storm and Virus in SARS-CoV-2 Infection. PMID:33362771
Multi-omics integration in biomedical research - A metabolomics-centric review. PMID:33248648
LL-37-Induced Autophagy Contributed to the Elimination of Live Porphyromonas gingivalis Internalized in Keratinocytes. PMID:33178622
Dissecting Herpes Simplex Virus 1-Induced Host Shutoff at the RNA Level. PMID:33148793
Identification of Novel Therapeutic Molecular Targets in Inflammatory Bowel Disease by Using Genetic Databases. PMID:33116744
Predicting Drug Response and Synergy Using a Deep Learning Model of Human Cancer Cells. PMID:33096023
Multiscale community detection in Cytoscape. PMID:33095781
The BioGRID database: A comprehensive biomedical resource of curated protein, genetic, and chemical interactions. PMID:33070389
FLUTE: Fast and reliable knowledge retrieval from biomedical literature. PMID:32761077
Voltage-Dependent Anion Channels Influence Cytotoxicity of ME-344, a Therapeutic Isoflavone. PMID:32546528
Guilt-by-Association - Functional Insights Gained From Studying the LRRK2 Interactome. PMID:32508578
Transcriptome and Network Analyses of Heterostyly in Turnera subulata Provide Mechanistic Insights: Are S-Loci a Red-Light for Pistil Elongation? PMID:32503265
Comparative (Within Species) Genomics of the Vitis vinifera L. Terpene Synthase Family to Explore the Impact of Genotypic Variation Using Phased Diploid Genomes. PMID:32431727
Integrated querying and version control of context-specific biological networks. PMID:32294194
Multi-omics Visualization Platform: An extensible Galaxy plug-in for multi-omics data visualization and exploration. PMID:32236523
A Computational Approach for Mapping Heme Biology in the Context of Hemolytic Disorders. PMID:32211383
A census of pathway maps in cancer systems biology. PMID:32066900
EFMviz: A COBRA Toolbox extension to visualize Elementary Flux Modes in Genome-Scale Metabolic Models. PMID:32059585
Enhancing reproducibility of gene expression analysis with known protein functional relationships: The concept of well-associated protein. PMID:32058996
Dynamic post-translational modification profiling of Mycobacterium tuberculosis-infected primary macrophages. PMID:31951200
Widespread Dysregulation of Long Noncoding Genes Associated With Fatty Acid Metabolism, Cell Division, and Immune Response Gene Networks in Xenobiotic-exposed Rat Liver. PMID:31926019
PHI-Nets: A Network Resource for Ascomycete Fungal Pathogens to Annotate and Identify Putative Virulence Interacting Proteins and siRNA Targets. PMID:31866958
Deep learning of pharmacogenomics resources: moving towards precision oncology. PMID:31813953
Mapping the perturbome network of cellular perturbations. PMID:31723137
Co-regulation map of the human proteome enables identification of protein functions. PMID:31690884
Proteogenomic Network Analysis of Context-Specific KRAS Signaling in Mouse-to-Human Cross-Species Translation. PMID:31521603
HENA, heterogeneous network-based data set for Alzheimer's disease. PMID:31413325
Re-curation and rational enrichment of knowledge graphs in Biological Expression Language. PMID:31225582
A Fast and Flexible Framework for Network-Assisted Genomic Association. PMID:31174177
PathMe: merging and exploring mechanistic pathway knowledge. PMID:31092193
INDRA-IPM: interactive pathway modeling using natural language with automated assembly. PMID:31070726
A system-wide network reconstruction of gene regulation and metabolism in Escherichia coli. PMID:31050661
Strategies for Network GWAS Evaluated Using Classroom Crowd Science. PMID:31022372
DDOT: A Swiss Army Knife for Investigating Data-Driven Biological Ontologies. PMID:30878356
netDx: interpretable patient classification using integrated patient similarity networks. PMID:30872331
Epstein-Barr virus microRNAs regulate B cell receptor signal transduction and lytic reactivation. PMID:30615681
BEL Commons: an environment for exploration and analysis of networks encoded in Biological Expression Language. PMID:30576488
Integrating molecular networks with genetic variant interpretation for precision medicine. PMID:30548534
The BioGRID interaction database: 2019 update. PMID:30476227
Analysis of the Genome and Metabolome of Marine Myxobacteria Reveals High Potential for Biosynthesis of Novel Specialized Metabolites. PMID:30413766
mully: An R Package to Create, Modify and Visualize Multilayered Graphs. PMID:30360563
Clustering approaches for visual knowledge exploration in molecular interaction networks. PMID:30157777
Simulation of the Dynamics of Primary Immunodeficiencies in B Cells. PMID:30116248
On entropy and information in gene interaction networks. PMID:30102349
Classifying tumors by supervised network propagation. PMID:29949979
Network Modeling Unravels Mechanisms of Crosstalk between Ethylene and Salicylate Signaling in Potato. PMID:29934298
Synthetic Lethal Networks for Precision Oncology: Promises and Pitfalls. PMID:29932943
A Proteomic Variant Approach (ProVarA) for Personalized Medicine of Inherited and Somatic Disease. PMID:29924966
Proteomics Versus Clinical Data and Stochastic Local Search Based Feature Selection for Acute Myeloid Leukemia Patients' Classification. PMID:29869179
Patient Similarity Networks for Precision Medicine. PMID:29860027
A logic-based method to build signaling networks and propose experimental plans. PMID:29777117
New perspectives: systems medicine in cardiovascular disease. PMID:29699591
Community-driven roadmap for integrated disease maps. PMID:29688273
Navigating the disease landscape: knowledge representations for contextualizing molecular signatures. PMID:29684165
Systematic Evaluation of Molecular Networks for Discovery of Disease Genes. PMID:29605183
Discriminate the response of Acute Myeloid Leukemia patients to treatment by using proteomics data and Answer Set Programming. PMID:29536824
NSAID use and somatic exomic mutations in Barrett's esophagus. PMID:29486792
From word models to executable models of signaling networks using automated assembly. PMID:29175850
NDEx 2.0: A Clearinghouse for Research on Cancer Pathways. PMID:29092941
CRAVAT 4: Cancer-Related Analysis of Variants Toolkit. PMID:29092935
ndexr-an R package to interface with the network data exchange. PMID:29087446
PyBEL: a computational framework for Biological Expression Language. PMID:29048466
Polypharmacology-based ceritinib repurposing using integrated functional proteomics. PMID:28991240
GraphSpace: stimulating interdisciplinary collaborations in network biology. PMID:28957495
Multitype Network-Guided Target Controllability in Phenotypically Characterized Osteosarcoma: Role of Tumor Microenvironment. PMID:28824643
Immuno-Oncology Integrative Networks: Elucidating the Influences of Osteosarcoma Phenotypes. PMID:28804242
MINERVA-a platform for visualization and curation of molecular interaction networks. PMID:28725475
Architecture of the human interactome defines protein communities and disease networks. PMID:28514442
Methods, Tools and Current Perspectives in Proteogenomics. PMID:28456751
Tracking the evolution of 3D gene organization demonstrates its connection to phenotypic divergence. PMID:28369658
MEDICI: Mining Essentiality Data to Identify Critical Interactions for Cancer Drug Target Discovery and Development. PMID:28118365
VaProS: a database-integration approach for protein/genome information retrieval. PMID:28012137
Recon2Neo4j: applying graph database technologies for managing comprehensive genome-scale networks. PMID:27993779
Systems Approaches to Cancer Biology. PMID:27864348
Cross-species Conservation of context-specific networks. PMID:27531214
A Network of Conserved Synthetic Lethal Interactions for Exploration of Precision Cancer Therapy. PMID:27453043
Web-based network analysis and visualization using CellMaps. PMID:27296979
Translation of Genotype to Phenotype by a Hierarchy of Cell Subsystems. PMID:26949740 -
NDEx: A Community Resource for Sharing and Publishing of Biological Networks
PubMed citations: 37.
37 articles citing: NDEx: A Community Resource for Sharing and Publishing of Biological Networks
Data-dependent visualization of biological networks in the web-browser with NDExEdit. PMID:35675360
KeyPathwayMineR: De Novo Pathway Enrichment in the R Ecosystem. PMID:35173764
COVID19 Disease Map, a computational knowledge repository of virus-host interaction mechanisms. PMID:34664389
Humans and machines in biomedical knowledge curation: hypertrophic cardiomyopathy molecular mechanisms' representation. PMID:34600580
NDEx: Accessing Network Models and Streamlining Network Biology Workflows. PMID:34570431
Therapeutic radiation exposure of the abdomen during childhood induces chronic adipose tissue dysfunction. PMID:34554929
Shared Molecular Mechanisms of Hypertrophic Cardiomyopathy and Its Clinical Presentations: Automated Molecular Mechanisms Extraction Approach. PMID:34440529
KLF10 integrates circadian timing and sugar signaling to coordinate hepatic metabolism. PMID:34402428
The DisGeNET cytoscape app: Exploring and visualizing disease genomics data. PMID:34136095
Extremes of age are associated with differences in the expression of selected pattern recognition receptor genes and ACE2, the receptor for SARS-CoV-2: implications for the epidemiology of COVID-19 disease. PMID:34030677
Mucociliary Respiratory Epithelium Integrity in Molecular Defense and Susceptibility to Pulmonary Viral Infections. PMID:33572760
Multi-omics integration in biomedical research - A metabolomics-centric review. PMID:33248648
WikiPathways: connecting communities. PMID:33211851
LL-37-Induced Autophagy Contributed to the Elimination of Live Porphyromonas gingivalis Internalized in Keratinocytes. PMID:33178622
Comparative host-coronavirus protein interaction networks reveal pan-viral disease mechanisms. PMID:33060197
Consensus transcriptional regulatory networks of coronavirus-infected human cells. PMID:32963239
From Persian Gulf to Indonesia: interrelated phylogeographic distance and chemistry within the genus Peronia (Onchidiidae, Gastropoda, Mollusca). PMID:32747696
A Coordinated Approach by Public Domain Bioinformatics Resources to Aid the Fight Against Alzheimer's Disease Through Expert Curation of Key Protein Targets. PMID:32716361
Voltage-Dependent Anion Channels Influence Cytotoxicity of ME-344, a Therapeutic Isoflavone. PMID:32546528
Consensus transcriptional regulatory networks of coronavirus-infected human cells. PMID:32511379
Mechanisms of Action of Autophagy Modulators Dissected by Quantitative Systems Pharmacology Analysis. PMID:32325894
A Guide to Conquer the Biological Network Era Using Graph Theory. PMID:32083072
A systems approach to infectious disease. PMID:32060427
Enhancing reproducibility of gene expression analysis with known protein functional relationships: The concept of well-associated protein. PMID:32058996
Expression of SMARCD1 interacts with age in association with asthma control on inhaled corticosteroid therapy. PMID:31992292
PHI-Nets: A Network Resource for Ascomycete Fungal Pathogens to Annotate and Identify Putative Virulence Interacting Proteins and siRNA Targets. PMID:31866958
Vascular PPARβ/δ Promotes Tumor Angiogenesis and Progression. PMID:31842402
Identification of microRNAs in skeletal muscle associated with lung cancer cachexia. PMID:31828982
SIGNOR 2.0, the SIGnaling Network Open Resource 2.0: 2019 update. PMID:31665520
Proteogenomic Network Analysis of Context-Specific KRAS Signaling in Mouse-to-Human Cross-Species Translation. PMID:31521603
Classifying tumors by supervised network propagation. PMID:29949979
New perspectives: systems medicine in cardiovascular disease. PMID:29699591
Systematic Evaluation of Molecular Networks for Discovery of Disease Genes. PMID:29605183
NSAID use and somatic exomic mutations in Barrett's esophagus. PMID:29486792
NDEx 2.0: A Clearinghouse for Research on Cancer Pathways. PMID:29092941
Graphettes: Constant-time determination of graphlet and orbit identity including (possibly disconnected) graphlets up to size 8. PMID:28832661
Immuno-Oncology Integrative Networks: Elucidating the Influences of Osteosarcoma Phenotypes. PMID:28804242 -
NDEx 2.0: A Clearinghouse for Research on Cancer Pathways
PubMed citations: 28.
28 articles citing: NDEx 2.0: A Clearinghouse for Research on Cancer Pathways
A BioID-Derived Proximity Interactome for SARS-CoV-2 Proteins. PMID:35337019
Deep analysis of neuroblastoma core regulatory circuitries using online databases and integrated bioinformatics shows their pan-cancer roles as prognostic predictors. PMID:35201514
Open-source Software Sustainability Models: Initial White Paper From the Informatics Technology for Cancer Research Sustainability and Industry Partnership Working Group. PMID:34860667
Humans and machines in biomedical knowledge curation: hypertrophic cardiomyopathy molecular mechanisms' representation. PMID:34600580
Interpretation of cancer mutations using a multiscale map of protein systems. PMID:34591613
A BioID-derived proximity interactome for SARS-CoV-2 proteins. PMID:34580671
CytokineLink: A Cytokine Communication Map to Analyse Immune Responses-Case Studies in Inflammatory Bowel Disease and COVID-19. PMID:34571891
NDEx: Accessing Network Models and Streamlining Network Biology Workflows. PMID:34570431
Shared Molecular Mechanisms of Hypertrophic Cardiomyopathy and Its Clinical Presentations: Automated Molecular Mechanisms Extraction Approach. PMID:34440529
Biomolecule and Bioentity Interaction Databases in Systems Biology: A Comprehensive Review. PMID:34439912
A Computational Approach Identified Andrographolide as a Potential Drug for Suppressing COVID-19-Induced Cytokine Storm. PMID:34248936
Genomic Correlates of DNA Damage in Breast Cancer Subtypes. PMID:33925616
Knowledge Beacons: Web services for data harvesting of distributed biomedical knowledge. PMID:33755673
Mucociliary Respiratory Epithelium Integrity in Molecular Defense and Susceptibility to Pulmonary Viral Infections. PMID:33572760
HiDeF: identifying persistent structures in multiscale 'omics data. PMID:33413539
A Network-Based Analysis Reveals the Mechanism Underlying Vitamin D in Suppressing Cytokine Storm and Virus in SARS-CoV-2 Infection. PMID:33362771
Multi-omics integration in biomedical research - A metabolomics-centric review. PMID:33248648
Integration of the Drug-Gene Interaction Database (DGIdb 4.0) with open crowdsource efforts. PMID:33237278
Pathway information extracted from 25 years of pathway figures. PMID:33168034
Consensus transcriptional regulatory networks of coronavirus-infected human cells. PMID:32963239
Informatics Tools for Cancer Research and Care: Bridging the Gap Between Innovation and Implementation. PMID:32870722
Identifying persistent structures in multiscale 'omics data. PMID:32587977
Voltage-Dependent Anion Channels Influence Cytotoxicity of ME-344, a Therapeutic Isoflavone. PMID:32546528
Consensus transcriptional regulatory networks of coronavirus-infected human cells. PMID:32511379
Comprehensive Map of the Regulated Cell Death Signaling Network: A Powerful Analytical Tool for Studying Diseases. PMID:32316560
Enhancing reproducibility of gene expression analysis with known protein functional relationships: The concept of well-associated protein. PMID:32058996
Proteogenomic Network Analysis of Context-Specific KRAS Signaling in Mouse-to-Human Cross-Species Translation. PMID:31521603
Classifying tumors by supervised network propagation. PMID:29949979
Tags:
Tags
More detailed information about this field from each metasource.
cancer
metasource: Fairsharing.org
version: FAIRsharing.org: NDEx; The Network Data Exchange; DOI: https://doi.org/10.25504/FAIRsharing.8nq9t6; Last edited: April 27, 2021, 7:41 a.m.; Last accessed: Jan 03 2022 7:06 p.m.
metasource: re3data.org
version: re3data.org: Network Data Exchange; editing status 2021-08-11; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R31NJMAA last accessed: 2022-11-04
genetic interaction
metasource: Fairsharing.org
version: FAIRsharing.org: NDEx; The Network Data Exchange; DOI: https://doi.org/10.25504/FAIRsharing.8nq9t6; Last edited: April 27, 2021, 7:41 a.m.; Last accessed: Jan 03 2022 7:06 p.m.
molecular interaction
metasource: Fairsharing.org
version: FAIRsharing.org: NDEx; The Network Data Exchange; DOI: https://doi.org/10.25504/FAIRsharing.8nq9t6; Last edited: April 27, 2021, 7:41 a.m.; Last accessed: Jan 03 2022 7:06 p.m.
metasource: re3data.org
version: re3data.org: Network Data Exchange; editing status 2021-08-11; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R31NJMAA last accessed: 2022-11-04
network model
metasource: Fairsharing.org
version: FAIRsharing.org: NDEx; The Network Data Exchange; DOI: https://doi.org/10.25504/FAIRsharing.8nq9t6; Last edited: April 27, 2021, 7:41 a.m.; Last accessed: Jan 03 2022 7:06 p.m.
pathway model
metasource: Fairsharing.org
version: FAIRsharing.org: NDEx; The Network Data Exchange; DOI: https://doi.org/10.25504/FAIRsharing.8nq9t6; Last edited: April 27, 2021, 7:41 a.m.; Last accessed: Jan 03 2022 7:06 p.m.
metasource: re3data.org
version: re3data.org: Network Data Exchange; editing status 2021-08-11; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R31NJMAA last accessed: 2022-11-04
covid-19
metasource: re3data.org
version: re3data.org: Network Data Exchange; editing status 2021-08-11; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R31NJMAA last accessed: 2022-11-04
biological networks
metasource: re3data.org
version: re3data.org: Network Data Exchange; editing status 2021-08-11; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R31NJMAA last accessed: 2022-11-04
Tags
More detailed information about this field from each metasource.
cancer
metasource: Fairsharing.orgversion: FAIRsharing.org: NDEx; The Network Data Exchange; DOI: https://doi.org/10.25504/FAIRsharing.8nq9t6; Last edited: April 27, 2021, 7:41 a.m.; Last accessed: Jan 03 2022 7:06 p.m.
metasource: re3data.org
version: re3data.org: Network Data Exchange; editing status 2021-08-11; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R31NJMAA last accessed: 2022-11-04
genetic interaction
metasource: Fairsharing.orgversion: FAIRsharing.org: NDEx; The Network Data Exchange; DOI: https://doi.org/10.25504/FAIRsharing.8nq9t6; Last edited: April 27, 2021, 7:41 a.m.; Last accessed: Jan 03 2022 7:06 p.m.
molecular interaction
metasource: Fairsharing.orgversion: FAIRsharing.org: NDEx; The Network Data Exchange; DOI: https://doi.org/10.25504/FAIRsharing.8nq9t6; Last edited: April 27, 2021, 7:41 a.m.; Last accessed: Jan 03 2022 7:06 p.m.
metasource: re3data.org
version: re3data.org: Network Data Exchange; editing status 2021-08-11; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R31NJMAA last accessed: 2022-11-04
network model
metasource: Fairsharing.orgversion: FAIRsharing.org: NDEx; The Network Data Exchange; DOI: https://doi.org/10.25504/FAIRsharing.8nq9t6; Last edited: April 27, 2021, 7:41 a.m.; Last accessed: Jan 03 2022 7:06 p.m.
pathway model
metasource: Fairsharing.orgversion: FAIRsharing.org: NDEx; The Network Data Exchange; DOI: https://doi.org/10.25504/FAIRsharing.8nq9t6; Last edited: April 27, 2021, 7:41 a.m.; Last accessed: Jan 03 2022 7:06 p.m.
metasource: re3data.org
version: re3data.org: Network Data Exchange; editing status 2021-08-11; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R31NJMAA last accessed: 2022-11-04
covid-19
metasource: re3data.orgversion: re3data.org: Network Data Exchange; editing status 2021-08-11; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R31NJMAA last accessed: 2022-11-04
biological networks
metasource: re3data.orgversion: re3data.org: Network Data Exchange; editing status 2021-08-11; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R31NJMAA last accessed: 2022-11-04
cancer genetic interaction molecular interaction network model pathway model covid-19 biological networks
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