OBDI System for Fuzzy Web Data Table Integration Using an Ontological and Terminological Resource

When finding new product innovations or filling new patents, inventors have necessary to retrieve all the relevant pre-existing know-how or to exploit and enforce patents in the technological area. Since the OTR is at the important and heart of Semantic Ontology system, this team works on the ontology construction and evolution. Author present system architecture relies on an Ontological and the Terminological Resource (OTR) which is made up of two parts: on the one end, a generic set of concepts dedicated to data integration task, on the other hand, a specific set of concepts and terminology, to a given domain of application. The important objective of the semantic annotation method here is to identify which relations of OTR are represented in data table that simple concepts are called in the given simple target concepts. In order to annotate a column by a simple target concept, a score is computed for each of the simple target concept of the OTR, on a generic OTR expressed in OWL. Here the system allows XML data tables that have been taken from Web documents, to be annotated with fuzzy RDF descriptions and to be flexibly Ontology search engine. Ontology search engine allows for retrieve not only to exact answers compared with selection criteria but also semantically close answers and compare the this selection criteria expressed as fuzzy sets representing preferences with fuzzy annotations of data. DOI: 10.17762/ijritcc2321-8169.15072

Data reliability assessment in a data warehouse opened on the Web

International audienceThis paper presents an ontology-driven workflow that feeds and queries a data warehouse opened on the Web. Data are extracted from data tables in Web documents. As web documents are very heterogeneous in nature, a key issue in this workflow is the ability to assess the reliability of retrieved data. We first recall the main steps of our method to annotate and query Web data tables driven by a domain ontology. Then we propose an original method to assess Web data table reliability from a set of criteria by the means of evidence theory. Finally, we show how we extend the workflow to integrate the reliability assessment step

SemTab 2019: Resources to Benchmark Tabular Data to Knowledge Graph Matching Systems

Tabular data to Knowledge Graph matching is the process of assigning semantic tags from knowledge graphs (e.g., Wikidata or DBpedia) to the elements of a table. This task is a challenging problem for various reasons, including the lack of metadata (e.g., table and column names), the noisiness, heterogeneity, incompleteness and ambiguity in the data. The results of this task provide significant insights about potentially highly valuable tabular data, as recent works have shown, enabling a new family of data analytics and data science applications. Despite significant amount of work on various flavors of this problem, there is a lack of a common framework to conduct a systematic evaluation of state-of-the-art systems. The creation of the Semantic Web Challenge on Tabular Data to Knowledge Graph Matching (SemTab) aims at filling this gap. In this paper, we report about the datasets, infrastructure and lessons learned from the first edition of the SemTab challenge

Automatic message annotation and semantic interface for context aware mobile computing

This thesis was submitted for the degree of Docter of Philosophy and awarded by Brunel University.In this thesis, the concept of mobile messaging awareness has been investigated by designing and implementing a framework which is able to annotate the short text messages with context ontology for semantic reasoning inference and classification purposes. The annotated metadata of text message keywords are identified and annotated with concepts, entities and knowledge that drawn from ontology without the need of learning process and the proposed framework supports semantic reasoning based messages awareness for categorization purposes. The first stage of the research is developing the framework of facilitating mobile communication with short text annotated messages (SAMS), which facilitates annotating short text message with part of speech tags augmented with an internal and external metadata. In the SAMS framework the annotation process is carried out automatically at the time of composing a message. The obtained metadata is collected from the device’s file system and the message header information which is then accumulated with the message’s tagged keywords to form an XML file, simultaneously. The significance of annotation process is to assist the proposed framework during the search and retrieval processes to identify the tagged keywords and The Semantic Web Technologies are utilised to improve the reasoning mechanism. Later, the proposed framework is further improved “Contextual Ontology based Short Text Messages reasoning (SOIM)”. SOIM further enhances the search capabilities of SAMS by adopting short text message annotation and semantic reasoning capabilities with domain ontology as Domain ontology is modeled into set of ontological knowledge modules that capture features of contextual entities and features of particular event or situation. Fundamentally, the framework SOIM relies on the hierarchical semantic distance to compute an approximated match degree of new set of relevant keywords to their corresponding abstract class in the domain ontology. Adopting contextual ontology leverages the framework performance to enhance the text comprehension and message categorization. Fuzzy Sets and Rough Sets theory have been integrated with SOIM to improve the inference capabilities and system efficiency. Since SOIM is based on the degree of similarity to choose the matched pattern to the message, the issue of choosing the best-retrieved pattern has arisen during the stage of decision-making. Fuzzy reasoning classifier based rules that adopt the Fuzzy Set theory for decision making have been applied on top of SOIM framework in order to increase the accuracy of the classification process with clearer decision. The issue of uncertainty in the system has been addressed by utilising the Rough Sets theory, in which the irrelevant and indecisive properties which affect the framework efficiency negatively have been ignored during the matching process.The Ministry of Higher Education and Scientific Research (IRAQ

An Extended Semantic Interoperability Model for Distributed Electronic Health Record Based on Fuzzy Ontology Semantics

Semantic interoperability of distributed electronic health record (EHR) systems is a crucial problem for querying EHR and machine learning projects. The main contribution of this paper is to propose and implement a fuzzy ontology-based semantic interoperability framework for distributed EHR systems. First, a separate standard ontology is created for each input source. Second, a unified ontology is created that merges the previously created ontologies. However, this crisp ontology is not able to answer vague or uncertain queries. We thirdly extend the integrated crisp ontology into a fuzzy ontology by using a standard methodology and fuzzy logic to handle this limitation. The used dataset includes identified data of 100 patients. The resulting fuzzy ontology includes 27 class, 58 properties, 43 fuzzy data types, 451 instances, 8376 axioms, 5232 logical axioms, 1216 declarative axioms, 113 annotation axioms, and 3204 data property assertions. The resulting ontology is tested using real data from the MIMIC-III intensive care unit dataset and real archetypes from openEHR. This fuzzy ontology-based system helps physicians accurately query any required data about patients from distributed locations using near-natural language queries. Domain specialists validated the accuracy and correctness of the obtained resultsThis work was supported by the National Research Foundation of Korea (NRF) grant funded by the Korean government (MSIT) (NRF-2021R1A2B5B02002599)S

Engineering polymer informatics: Towards the computer-aided design of polymers

The computer-aided design of polymers is one of the holy grails of modern chemical informatics and of significant interest for a number of communities in polymer science. The paper outlines a vision for the in silico design of polymers and presents an information model for polymers based on modern semantic web technologies, thus laying the foundations for achieving the vision

MorphDB : prioritizing genes for specialized metabolism pathways and gene ontology categories in plants

Recent times have seen an enormous growth of "omics" data, of which high-throughput gene expression data are arguably the most important from a functional perspective. Despite huge improvements in computational techniques for the functional classification of gene sequences, common similarity-based methods often fall short of providing full and reliable functional information. Recently, the combination of comparative genomics with approaches in functional genomics has received considerable interest for gene function analysis, leveraging both gene expression based guilt-by-association methods and annotation efforts in closely related model organisms. Besides the identification of missing genes in pathways, these methods also typically enable the discovery of biological regulators (i.e., transcription factors or signaling genes). A previously built guilt-by-association method is MORPH, which was proven to be an efficient algorithm that performs particularly well in identifying and prioritizing missing genes in plant metabolic pathways. Here, we present MorphDB, a resource where MORPH-based candidate genes for large-scale functional annotations (Gene Ontology, MapMan bins) are integrated across multiple plant species. Besides a gene centric query utility, we present a comparative network approach that enables researchers to efficiently browse MORPH predictions across functional gene sets and species, facilitating efficient gene discovery and candidate gene prioritization. MorphDB is available at http://bioinformatics.psb.ugent.be/webtools/morphdb/morphDB/index/. We also provide a toolkit, named "MORPH bulk" (https://github.com/arzwa/morph-bulk), for running MORPH in bulk mode on novel data sets, enabling researchers to apply MORPH to their own species of interest