EmBiology (formerly EMBiology) is a web-based Software as a service tool from Elsevier in which researchers can view biological relationships between entities, such as genes, proteins, and cells.
Launched in 2023, EmBiology queries a Biological Knowledge Graph with 1.4 million entities connected by 15.7 million relationships. It uses a Sankey diagram to visualize search findings, and displays "snippets" of text from relevant scientific literature.
Previous version EmBiology was originally launched as EMBiology in 2005 as a life science bibliographic database in a partnership with Ovid Technologies as a smaller version of Embase.Description of EMBiology Press release
Content coverage EmBiology Data sources include:
7.2 million PubMed abstracts
430,000 from Clinicaltrials.gov
7.2 million Full-text articles from 936 Elsevier journals and 939 non-Elsevier journals
Biological concepts The following biological concepts are included in EmBiology: Concept DescriptionDrugs & chemicalsNaturally occurring metabolites, small molecules found in cell, drugs (incl. small molecules & biologics)DiseasesHealth conditions and disease termsProteinsRepresents both genes and the gene products, including proteins and miRNAsFunctional classesProteins classes based on biological functionProtein complexesOne or more polypeptides that form a complex via physical interactionsGenetic variantVariants searchable by SNPID and textCellsMammalian cell types & cell linesCell ProcessBiological processes (e.g., apoptosis, inflammation)OrgansMammalian organ typesTissuesMammalian tissue typesVirusesAn agent that causes infectious diseasesClinical parameterMeasured parameters of the human body used in clinical practiceTreatmentNon-chemical treatments and environmental conditionsCell objectOrganelles, cell structural components
Biological Relationships The following biological relationships are included in EmBiology Relation Description ExampleExpressionChanges protein abundance by affecting levels of transcript or protein stabilityMDM2 has a negative "Expression" relationship with TP53miRNA EffectInhibitory effect of an miRNA on its mRNA targetmiR-30 has a negative "miRNAEffect" relationship with TP53Promoter BindingBinds to the promoter of a geneFOXC1 has a positive "PromoterBinding" relationship with MMP7RegulationChanges activity by an unknown mechanism (may be direct or indirect)SOCS3 has a positive "Regulation" relationship with diabetes mellitusDirect RegulationInfluences activity by direct physical interactionBRCA1 has a "DirectRegulation" relationship with BARD1BindingDirect physical interaction between two moleculesFANCD2 has a "Binding" relationship with BRCA1Protein ModificationChanges the modification of the target molecule, usually by direct interactionSRC has a "ProtModification" relationship with GRB2BiomarkerIdentification of proteins/complexes/functional classes/metabolites that are prognostic or diagnostic biomarkers for a diseaseLung cancer has a "Biomarker" relationship with IL6Genetic ChangeGenetic changes such as gene deletions, amplifications, mutations or epigenetic changesLung cancer has a "GeneticChange" relationship with ALKQuantitative ChangeChanges in abundance/activity/expression of a gene/protein/small molecule in a disease stateBreast cancer has a positive "QuantitativeChange" relationship with AGKState ChangeChanges in a protein's post-translational modification status or alternative splicing eventsBreast cancer has a "StateChange" relationship with estrogen receptorFunctional Assoc.Between a disease and a cellular process or another diseaseChronic pancreatitis has a "FunctionalAssociation" relationship with pancreatic cancerChemical ReactionEither enzyme catalysed or spontaneous chemical reactionCYP3A has a "ChemicalReaction" relationship with ticagrelorMolecular SynthesisChanges the concentration of the targetCYP3A has a "MolSynthesis" relationship with midazolamMolecular TransportChanges the localization of the targetTamoxifen has a positive "MolTransport" relationship with MAPK3Clinical TrialClinical trials conducted for a drug against a disease (from CT.gov)Tamoxifen has a positive "Clinical Trial" relationship with breast cancerCell ExpressionExpression of proteins within or on the surface of a cellHepatocyte has a "CellExpression" relationship with EGFR
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