AllegroGraph statistics

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Citations per year

Number of citations per year for the bioinformatics software tool AllegroGraph

Tool usage distribution map

This map represents all the scientific publications referring to AllegroGraph per scientific context
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Associated diseases

This word cloud represents AllegroGraph usage per disease context

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AllegroGraph specifications


Unique identifier OMICS_18616
Name AllegroGraph
Software type Framework/Library
Interface Command line interface
Restrictions to use License purchase required
Operating system Unix/Linux
Computer skills Advanced
Version 6.2.1
Stability Stable
Maintained Yes


No version available



  • person_outline AllegroGraph Team

Additional information . A free edition and a paid edition are both available.

AllegroGraph citations


A framework for ontology based question answering with application to parasite immunology

J Biomed Semantics
PMCID: 4504081
PMID: 26185615
DOI: 10.1186/s13326-015-0029-x

[…] As an example, we may utilize the display of RDF triple sequences by a system such as Cuebee [].The SPARQL query is then sent to any query endpoint such as OpenLink Virtuoso [], OpenRDF Sesame [] or AllegroGraph [], all which allow storing large amounts of annotated RDF data and query it using SPARQL. The answers may be displayed to end users in a tabular or any other visual format depending on t […]


KaBOB: ontology based semantic integration of biomedical databases

BMC Bioinformatics
PMCID: 4448321
PMID: 25903923
DOI: 10.1186/s12859-015-0559-3
call_split See protocol

[…] Command-line build scripts for installations in both AllegroGraph (v4.14) [] (a state-of-the-art commercial triplestore provided by Franz Inc.) and Virtuoso (v7) [] (an open-source triplestore based on relational databases provided by OpenLink Software) […]


Nanopublications for exposing experimental data in the life sciences: a Huntington’s Disease case study

J Biomed Semantics
PMCID: 4603842
PMID: 26464783
DOI: 10.1186/2041-1480-6-5

[…] lts with their own data). Moreover, we provide provenance containing the origin and experimental context for the data in order to increase trust and confidence. Our nanopublications are stored in the AllegroGraph triple store []. The link to the browsable user interface and the SPARQL endpoint can be found on the myExperiment link: The user can log in an […]


Open source libraries and frameworks for biological data visualisation: A guide for developers

PMCID: 4409855
PMID: 25475079
DOI: 10.1002/pmic.201400377

[…] ble solutions are needed. In this context, high hopes have been deposited in the development of graph databases such as Neo4j (, FlockDB ( and AllegroGraph ( All of them use graph structures with nodes, edges and attributes to represent and store data. Compared with the traditional relational databases, […]


BioTCM SE: A Semantic Search Engine for the Information Retrieval of Modern Biology and Traditional Chinese Medicine

PMCID: 3989774
PMID: 24772189
DOI: 10.1155/2014/957231

[…] of semantic web. Enabling technologies such as ontology editors (e.g., Protege) [], OWL reasoners (e.g., Pellet [], Racer [], and FaCT++ []), and triplestores with SPARQL endpoint (e.g., Virtuoso [], AllegroGraph [], and Sesame []) help make the Semantic Web vision a reality.The Semantic Web technologies provide us with a good way to model the complicated and large-scale realms of biomedical knowl […]


Are graph databases ready for bioinformatics?

PMCID: 3842757
PMID: 24135261
DOI: 10.1093/bioinformatics/btt549

[…] of their advantages in scalability. The term NoSQL is used to refer to schemaless databases such as key/value stores (e.g. Apache Cassandra), document stores (e.g. MongoDB) and graph databases (e.g. AllegroGraph, Neo4J, OpenLink Virtuoso), which do not fit within the traditional relational paradigm. Most NoSQL databases do not have a declarative query language. The widely used Neo4J graph databas […]

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AllegroGraph institution(s)
Franz Inc., Oakland, CA, USA

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