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UMLtoGraphDB: Mapping Conceptual Schemas to Graph Databases [chapter]

Gwendal Daniel, Gerson Sunyé, Jordi Cabot
2016 Lecture Notes in Computer Science  
Graph databases are a particular kind of NoSQL databases that have proven their efficiency to store and query highly interconnected data, and have become a promising solution for multiple applications.  ...  In this article we describe a mapping from UML/OCL conceptual schemas to Blueprints, an abstraction layer on top of a variety of graph databases, and Gremlin, a graph traversal language, via an intermediate  ...  While this creates duplicated elements in the GraphDB model, it is the more direct representation to facilitate queries on the GraphDB model.  ... 
doi:10.1007/978-3-319-46397-1_33 fatcat:6sobmg3n5vcmfj5nmxgob4tkgu

BigDataGrapes D4.2 - Methods and Tools for Distributed Inference

Milena Yankova, Boyan SImeonov, Atanas Kiryakov, Vladimir Alexiev
2020 Zenodo  
We address the main principles applied to data inference and different types of inference – rulebased, query-based, model-based and fuzzy inference – and their application in BigDataGrapes project.  ...  There are many challenges in data reasoning and inference based on distributed data. The first one is addressing data security and access rights to both original data and inferred information.  ...  GraphDB is a highly-efficient and robust graph database with RDF and SPARQL support.  ... 
doi:10.5281/zenodo.4546071 fatcat:qwkhk7crvzgwvfz3dxzaqmy46m

BigDataGrapes D4.2 - Methods and Tools for Distributed Inference

Milena Yankova, Boyan SImeonov, Atanas Kiryakov, Vladimir Alexiev
2019 Zenodo  
We address the main principles applied to data inference and different types of inference – rule-based, query-based, model-based and fuzzy inference – and their application in BigDataGrapes project.  ...  There are many challenges in data reasoning and inference based on distributed data. The first one is addressing data security and access rights to both original data and inferred information.  ...  Main disadvantage of this scenario comes from the fact that the knowledge graph data in GraphDB can evolve and this requires proper synchronisation mechanisms between already materialised inference in  ... 
doi:10.5281/zenodo.2629568 fatcat:amfv6a5euncnndfhsbgubr4i6q

MSSG: A Framework for Massive-Scale Semantic Graphs

Timothy Hartley, Umit Catalyurek, Fusun Ozguner, Andy Yoo, Scott Kohn, Keith Henderson
2006 2006 IEEE International Conference on Cluster Computing  
in the storage and retrieval of scale-free graphs.  ...  We therefore propose a new graph database, grDB, for the efficient storage and retrieval of large scale-free semantic graphs on secondary storage.  ...  The Query Service allows for analysis of the stored graph, while the GraphDB Service provides a unified mechanism for storing and accessing graph data.  ... 
doi:10.1109/clustr.2006.311857 dblp:conf/cluster/HartleyCOYKH06 fatcat:nnd5f7hrxrhihah6yfm22nii4u

BigDataGrapes D4.2 - Methods and Tools for Distributed Inference

Milena Yankova, Boyan SImeonov, Atanas Kiryakov, Vladimir Alexiev
2018 Zenodo  
We address the main principles applied to data inference and different types of inference – rule-based, query-based, model-based and fuzzy inference – and their application in BigDataGrapes project.  ...  There are many challenges in data reasoning and inference based on distributed data. The first one is addressing data security and access rights to both original data and inferred information.  ...  GraphDB is a highly-efficient and robust graph database with RDF and SPARQL support.  ... 
doi:10.5281/zenodo.1481809 fatcat:7jkignzjnfdmxomknr5vjrwhhm

Development of a knowledge system for Big Data

Unknown
2016 Proceedings of the 6th International Conference on Web Intelligence, Mining and Semantics - WIMS '16  
Nevertheless, we can summarize it in two main directions: the query re-writing and data transformation to RDF graphs.  ...  In the recent years, the data deluge in many areas of scientific research brings challenges in the treatment and improvement of agricultural data.  ...  Then the native RDF data model is optimized for medium sized graphs. Finally, the inference mechanism of Sesame creates many new triplets and increases the size of the database.  ... 
doi:10.1145/2912845.2912869 dblp:conf/wims/LuyenTVNL16 fatcat:c5iq55ji5velvfdqsgdlfkv4dy

Open Web Ontobud: An Open Source RDF4J Frontend (Short Paper)

Francisco José Moreira Oliveira, José Carlos Ramalho, Ricardo Queirós, Pedro Rangel Henriques, Alberto Simões
2020 Symposium on Languages, Applications and Technologies  
Along with this new paradigm, a new kind of database emerged to support the new needs, graph databases!  ...  We live in a world where everything is connected, and our data mimics this. Data model focus changed from a square structure like the relational model to a model centered on the relations.  ...  GraphDB GraphDB is a highly efficient, robust, and scalable graph database [10] , owned by Ontotext.  ... 
doi:10.4230/oasics.slate.2020.15 dblp:conf/slate/OliveiraR20 fatcat:qtmmqjwj7jfktmwhtlp4zilch4

Assessing RDF Graph Databases for Smart City Services

Paolo Nesi, Pierfrancesco Bellini
2017 Proceedings of the 23rd International Conference on Distributed Multimedia Systems  
The paper also reports the adoption of the proposed Smart City RDF Benchmark on the basis of Florence Smart City model, data sets and tools accessible as Km4City http://www.km4city.org, and adopted in  ...  The assessment model allows a full understanding of whether they are suitable as a basis for Smart City modeling and application.  ...  This works has been developed in the framework of Km4City activity for RESOLUTE H2020, and for REPLICATE H2020 (both are European Commission funded International Projects) and for Sii-Mobility Smart City  ... 
doi:10.18293/dms2017-008 dblp:conf/dms/NesiB17 fatcat:n2noz2dnevc5pn4z7jgp3w6bfq

Research on Construction of Knowledge Graph of Intestinal Cells

Fengfeng He, Ling Zhang, Wei Qu, Chong Teng, Dan Xie
2020 Journal of Artificial Intelligence for Medical Sciences  
Conceptual layer design defines data model of knowledge graph.  ...  In this paper, we present two processes to construct a knowledge graph of intestinal cells: conceptual layer design and instance layer construction.  ...  in 2019 (2019YFC1712500), as well as by the project, Research on categorizing and demonstrating the characteristic diagnoses and treatment techniques, methods, prescriptions for preventing common diseases  ... 
doi:10.2991/jaims.d.200902.001 fatcat:qrg7eu3btnabfkps2mro7kwqie

Querying RDF Data from a Graph Database Perspective [chapter]

Renzo Angles, Claudio Gutierrez
2005 Lecture Notes in Computer Science  
From this point of view it is compared with other database models, particularly with graph database models, which are very close in motivations and use cases to RDF.  ...  graph database research. 10  ...  Güting [G94] proposed an object-oriented data model and query language for graph databases called GraphDB.  ... 
doi:10.1007/11431053_24 fatcat:gia7gzrs2jhjdlecw3vvexop6y

Data2Services: enabling automated conversion of data to services

Vincent Emonet, Alexander Malic, Amrapali Zaveri, Andreea Grigoriu, Michel Dumontier
2018 Figshare  
The data can be loaded in a number of databases and are made accessible through native and autogenerated APIs.  ...  We describe the architecture and a prototype implementation for data in the life sciences.  ...  Those SPARQL queries are manually designed by a user aware of the input file structure, the target data model and the SPARQL query language.  ... 
doi:10.6084/m9.figshare.7345868.v1 fatcat:2fhhjnk2fjfophz3k6zbm6crty

NoSQL evaluation: A use case oriented survey

Robin Hecht, Stefan Jablonski
2011 2011 International Conference on Cloud and Service Computing  
These systems are compared by their data models, query possibilities, concurrency controls, partitioning and replication opportunities.  ...  Motivated by requirements of Web 2.0 applications, a plethora of non-relational databases raised in recent years.  ...  Besides support for Ne04j and GraphDB, also Sesame can be queried with Gremlin after a graph transformation.  ... 
doi:10.1109/csc.2011.6138544 dblp:conf/IEEEcsc/HechtJ11 fatcat:zy4sfh335rgrjiinuykhu3qlrq

BioGraphDB: a New GraphDB Collecting Heterogeneous Data for Bioinformatics Analysis

Antonino Fiannaca, La Rosa, Laura Paglia, Antonio Messina, Alfonso Urso
unpublished
Our integrated database is structured as a NoSQL graph database, based on the OrientDB platform.  ...  This way we exploit the advantages of that technology in terms of scalability and efficiency with regards to traditional SQL database.  ...  [1] that graph databases both allow for efficient queries and give advantages in scalability with respect to any relational database.  ... 
fatcat:n5ygpjma7fhfpipmsolcoppfii

ERMer: a serverless platform for navigating, analyzing, and visualizing Escherichia coli regulatory landscape through graph database

Zhitao Mao, Ruoyu Wang, Haoran Li, Yixin Huang, Qiang Zhang, Xiaoping Liao, Hongwu Ma
2022 Nucleic Acids Research  
Furthermore, a Q&A module is included to showcase the power of graph databases in answering complex biological questions through simple queries.  ...  The backend graph model can be easily extended as new data become available. In addition, the framework implemented in ERMer can be easily migrated to other applications or organisms.  ...  The two modules, graphdb builder, and graphdb loader, enable ERMer to automatically acquire, process, and import them into the graph database.  ... 
doi:10.1093/nar/gkac288 pmid:35489073 fatcat:34axbrde45fzjeqvh2cbidcz6y

An alternative database approach for management of SNOMED CT and improved patient data queries

W. Scott Campbell, Jay Pedersen, James C. McClay, Praveen Rao, Dhundy Bastola, James R. Campbell
2015 Journal of Biomedical Informatics  
The hypothesis of this research was that a graph database (graph DB) architecture using SNOMED CT as the basis for the data model and subsequently modeling patient data upon the semantic core of SNOMED  ...  Queries, including concept negation and disjunction, were then run against the graph database and an enterprise Oracle relational database (RDBMS) of the same patient data sets.  ...  The graphDB returned the results in a single query against the patient database. Fig. 4 . 4 Hierarchical view of Infective pneumonia and queries by defining attributes.  ... 
doi:10.1016/j.jbi.2015.08.016 pmid:26305513 fatcat:x5ilog2bbrdslnr7kihujzoioa
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