4,260 research outputs found
Ontology of core data mining entities
In this article, we present OntoDM-core, an ontology of core data mining
entities. OntoDM-core defines themost essential datamining entities in a three-layered
ontological structure comprising of a specification, an implementation and an application
layer. It provides a representational framework for the description of mining
structured data, and in addition provides taxonomies of datasets, data mining tasks,
generalizations, data mining algorithms and constraints, based on the type of data.
OntoDM-core is designed to support a wide range of applications/use cases, such as
semantic annotation of data mining algorithms, datasets and results; annotation of
QSAR studies in the context of drug discovery investigations; and disambiguation of
terms in text mining. The ontology has been thoroughly assessed following the practices
in ontology engineering, is fully interoperable with many domain resources and
is easy to extend
GI Systems for public health with an ontology based approach
Dissertation submitted in partial fulfillment of the requirements for the Degree of Master of Science in Geospatial Technologies.Health is an indispensable attribute of human life. In modern age,
utilizing technologies for health is one of the emergent concepts in
several applied fields. Computer science, (geographic) information
systems are some of the interdisciplinary fields which motivates this
thesis.
Inspiring idea of the study is originated from a rhetorical disease
DbHd: Database Hugging Disorder, defined by Hans Rosling at
World Bank Open Data speech in May 2010. The cure of this disease
can be offered as linked open data, which contains ontologies for
health science, diseases, genes, drugs, GEO species etc. LOD-Linked
Open Data provides the systematic application of information by
publishing and connecting structured data on the Web.
In the context of this study we aimed to reduce boundaries
between semantic web and geo web. For this reason a use case data is
studied from Valencia CSISP- Research Center of Public Health in
which the mortality rates for particular diseases are represented
spatio-temporally. Use case data is divided into three conceptual
domains (health, spatial, statistical), enhanced with semantic relations
and descriptions by following Linked Data Principles. Finally in order
to convey complex health-related information, we offer an
infrastructure integrating geo web and semantic web. Based on the
established outcome, user access methods are introduced and future
researches/studies are outlined
Searching Data: A Review of Observational Data Retrieval Practices in Selected Disciplines
A cross-disciplinary examination of the user behaviours involved in seeking
and evaluating data is surprisingly absent from the research data discussion.
This review explores the data retrieval literature to identify commonalities in
how users search for and evaluate observational research data. Two analytical
frameworks rooted in information retrieval and science technology studies are
used to identify key similarities in practices as a first step toward
developing a model describing data retrieval
Linked Data based Health Information Representation, Visualization and Retrieval System on the Semantic Web
Dissertation submitted in partial fulfillment of the requirements for the Degree of Master of Science in Geospatial Technologies.To better facilitate health information dissemination, using flexible ways to
represent, query and visualize health data becomes increasingly important.
Semantic Web technologies, which provide a common framework by
allowing data to be shared and reused between applications, can be applied
to the management of health data. Linked open data - a new semantic web
standard to publish and link heterogonous data- allows not only human,
but also machine to brows data in unlimited way.
Through a use case of world health organization HIV data of sub Saharan
Africa - which is severely affected by HIV epidemic, this thesis built a
linked data based health information representation, querying and
visualization system. All the data was represented with RDF, by
interlinking it with other related datasets, which are already on the cloud.
Over all, the system have more than 21,000 triples with a SPARQL
endpoint; where users can download and use the data and – a SPARQL
query interface where users can put different type of query and retrieve the
result. Additionally, It has also a visualization interface where users can
visualize the SPARQL result with a tool of their preference. For users who
are not familiar with SPARQL queries, they can use the linked data search
engine interface to search and browse the data.
From this system we can depict that current linked open data technologies
have a big potential to represent heterogonous health data in a flexible and
reusable manner and they can serve in intelligent queries, which can
support decision-making. However, in order to get the best from these
technologies, improvements are needed both at the level of triple stores
performance and domain-specific ontological vocabularies
Towards Automatic Generation of Shareable Synthetic Clinical Notes Using Neural Language Models
Large-scale clinical data is invaluable to driving many computational
scientific advances today. However, understandable concerns regarding patient
privacy hinder the open dissemination of such data and give rise to suboptimal
siloed research. De-identification methods attempt to address these concerns
but were shown to be susceptible to adversarial attacks. In this work, we focus
on the vast amounts of unstructured natural language data stored in clinical
notes and propose to automatically generate synthetic clinical notes that are
more amenable to sharing using generative models trained on real de-identified
records. To evaluate the merit of such notes, we measure both their privacy
preservation properties as well as utility in training clinical NLP models.
Experiments using neural language models yield notes whose utility is close to
that of the real ones in some clinical NLP tasks, yet leave ample room for
future improvements.Comment: Clinical NLP Workshop 201
Building Semantic Knowledge Graphs from (Semi-)Structured Data: A Review
Knowledge graphs have, for the past decade, been a hot topic both in public and private domains, typically used for large-scale integration and analysis of data using graph-based data models. One of the central concepts in this area is the Semantic Web, with the vision of providing a well-defined meaning to information and services on the Web through a set of standards. Particularly, linked data and ontologies have been quite essential for data sharing, discovery, integration, and reuse. In this paper, we provide a systematic literature review on knowledge graph creation from structured and semi-structured data sources using Semantic Web technologies. The review takes into account four prominent publication venues, namely, Extended Semantic Web Conference, International Semantic Web Conference, Journal of Web Semantics, and Semantic Web Journal. The review highlights the tools, methods, types of data sources, ontologies, and publication methods, together with the challenges, limitations, and lessons learned in the knowledge graph creation processes.publishedVersio
Overview of ImageCLEF 2018: Challenges, Datasets and Evaluation
This paper presents an overview of the ImageCLEF 2018 evaluation campaign, an event that was organized as part of the CLEF (Conference and Labs of the Evaluation Forum) Labs 2018. ImageCLEF is an ongoing initiative (it started in 2003) that promotes the evaluation of technologies for annotation, indexing and retrieval with the aim of providing information access to collections of images in various usage scenarios and domains. In 2018, the 16th edition of ImageCLEF ran three main tasks and a pilot task: (1) a caption prediction task that aims at predicting the caption of a figure from the biomedical literature based only on the figure image; (2) a tuberculosis task that aims at detecting the tuberculosis type, severity and drug resistance from CT (Computed Tomography) volumes of the lung; (3) a LifeLog task (videos, images and other sources) about daily activities understanding and moment retrieval, and (4) a pilot task on visual question answering where systems are tasked with answering medical questions. The strong participation, with over 100 research groups registering and 31 submitting results for the tasks, shows an increasing interest in this benchmarking campaign
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