EMBiology
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.{{Cite web |title=Elsevier launches EmBiology to deliver the unparalleled insights into biological activities that accelerate drug discovery |url=https://www.elsevier.com/about/press-releases/research-and-journals/elsevier-launches-embiology-to-deliver-the-unparalleled-insights-into-biological-activities-that-accelerate-drug-discovery |access-date=2023-09-18 |website=elsevier.com}}
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
{{Cite web |year=2005 |title=Ovid and Elsevier announce exclusive partnership... |url=http://www.ovid.com/site/about/press_release20050606.jsp?top=42&mid=52 |access-date=2011-01-30 |publisher=Ovid Technologies, Inc. |format=Online}} Press release
Content coverage
EmBiology Data sources include:{{Cite web |title=Biological data structured for insights {{!}} EmBiology {{!}} Elsevier |url=https://beta.elsevier.com/products/embiology |access-date=2023-09-18 |website=beta.elsevier.com |language=en-US}}
- 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:{{Cite web |title=What biological concepts are included in EmBiology? – EmBiology Support Center |url=https://service.elsevier.com/app/answers/detail/a_id/36493/p/17919/supporthub/embiology/related/1/session/L2F2LzEvdGltZS8xNjk0NDM5ODg4L2dlbi8xNjk0NDM5ODg4L3NpZC9mVWRycmZoeVJIbDBYTjRsMk9VdFpPaXQ0aENZZFEzRTNxRDh5TTVRQVl5ekVCN1FwNkFDclZtUTk1ekJpMENEJTdFS1lNZDlUUzclN0VpYlRMNzlueE14WXVGd3MxWEpFV1FYeU1BSTI4aXlXaUR0Mm03VGttSko0WE9BJTIxJTIx/ |access-date=2023-09-18 |website=service.elsevier.com}}
| class="wikitable"
! Concept ! Description |
| Drugs & chemicals
|Naturally occurring metabolites, small molecules found in cell, drugs (incl. small molecules & biologics) |
| Diseases
|Health conditions and disease terms |
| Proteins
|Represents both genes and the gene products, including proteins and miRNAs |
| Functional classes
|Proteins classes based on biological function |
| Protein complexes
|One or more polypeptides that form a complex via physical interactions |
| Genetic variant
|Variants searchable by SNPID and text |
| Cells
|Mammalian cell types & cell lines |
| Cell Process
|Biological processes (e.g., apoptosis, inflammation) |
| Organs
|Mammalian organ types |
| Tissues
|Mammalian tissue types |
| Viruses
|An agent that causes infectious diseases |
| Clinical parameter
|Measured parameters of the human body used in clinical practice |
| Treatment
|Non-chemical treatments and environmental conditions |
| Cell object
|Organelles, cell structural components |
Biological Relationships
The following biological relationships are included in EmBiology{{Cite web |title=What biological relationships are extracted in EmBiology? – EmBiology Support Center |url=https://service.elsevier.com/app/answers/detail/a_id/36494/c/10547/supporthub/embiology/ |access-date=2023-09-18 |website=service.elsevier.com}}
| class="wikitable"
! Relation ! Description ! Example |
| Expression
|Changes protein abundance by affecting levels of transcript or protein stability |MDM2 has a negative "Expression" relationship with TP53 |
| miRNA Effect
|Inhibitory effect of an miRNA on its mRNA target |miR-30 has a negative "miRNAEffect" relationship with TP53 |
| Promoter Binding
|Binds to the promoter of a gene |FOXC1 has a positive "PromoterBinding" relationship with MMP7 |
| Regulation
|Changes activity by an unknown mechanism (may be direct or indirect) |SOCS3 has a positive "Regulation" relationship with diabetes mellitus |
| Direct Regulation
|Influences activity by direct physical interaction |BRCA1 has a "DirectRegulation" relationship with BARD1 |
| Binding
|Direct physical interaction between two molecules |FANCD2 has a "Binding" relationship with BRCA1 |
| Protein Modification
|Changes the modification of the target molecule, usually by direct interaction |SRC has a "ProtModification" relationship with GRB2 |
| Biomarker
|Identification of proteins/complexes/functional classes/metabolites that are prognostic or diagnostic biomarkers for a disease |Lung cancer has a "Biomarker" relationship with IL6 |
| Genetic Change
|Genetic changes such as gene deletions, amplifications, mutations or epigenetic changes |Lung cancer has a "GeneticChange" relationship with ALK |
| Quantitative Change
|Changes in abundance/activity/expression of a gene/protein/small molecule in a disease state |Breast cancer has a positive "QuantitativeChange" relationship with AGK |
| State Change
|Changes in a protein's post-translational modification status or alternative splicing events |Breast cancer has a "StateChange" relationship with estrogen receptor |
| Functional Assoc.
|Between a disease and a cellular process or another disease |Chronic pancreatitis has a "FunctionalAssociation" relationship with pancreatic cancer |
| Chemical Reaction
|Either enzyme catalysed or spontaneous chemical reaction |CYP3A has a "ChemicalReaction" relationship with ticagrelor |
| Molecular Synthesis
|Changes the concentration of the target |CYP3A has a "MolSynthesis" relationship with midazolam |
| Molecular Transport
|Changes the localization of the target |Tamoxifen has a positive "MolTransport" relationship with MAPK3 |
| Clinical Trial
|Clinical trials conducted for a drug against a disease (from CT.gov) |Tamoxifen has a positive "Clinical Trial" relationship with breast cancer |
| Cell Expression
|Expression of proteins within or on the surface of a cell |Hepatocyte has a "CellExpression" relationship with EGFR |
References
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Category:Bibliographic databases and indexes
Category:Publications established in 2005
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