Analysis on the Graph Techniques for Data-mining and Visualization of Heterogeneous Biodiversity Data Sets (original) (raw)
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2021
Aim: Addressing global environmental challenges requires access to biodiversity data across wide spatial, temporal and biological scales. Recent decades have witnessed an exponential increase of biodiversity information aggregated by biodiversity databases (hereafter ‘databases’). However, heterogeneous coverage, protocols, and standards of databases hampered the data integration among databases. To stimulate the next stage of data integration, here we present a synthesis of major databases, and investigate i) how the coverages of databases vary across taxonomy, space, and record type; ii) the degree of integration among databases; iii) how integration of databases can increase biodiversity knowledge; iv) the barriers to databases integration.Location: GlobalTime period: ContemporaryMajor taxa studied: Plants and VertebratesMethods: We reviewed the scope of twelve well-established databases and assessed the status of their integration. We synthesized information from these databases...
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Aslib Proceedings, 2010
Globally, biodiversity resources are inevitable digital and stored in wide variety of formats by researchers or stakeholders. In the Malaysian perspective, although awareness of digitizing the biodiversity data has long been stressed, the semantic interoperability of the biodiversity collections is still an issue to be looked into. This is essentially because when data is shared, the copyright crisis occurs hence creating a setback among researchers wanting to promote or share their findings through online presentations. Hence, this has become a hindrance for researchers in this country to share their valuable information and knowledge in this area with their peers locally or even internationally. To solve this, we present an approach to integrate data through wrapping of various datasets stored in relational databases located on networked platforms. The approach, which uses tools such as XML, PHP, ASP and HTML to integrate databases in heterogeneous environment, does not only solve copyright problems by suggesting distributed warehouses and required fields for sharing but also give the data owner the benefit of having their database under their own jurisdiction. The approach presented in this paper is important for scientists as findings in science are useful should be shared among the scientists for a better living.
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The Natural History Collections of Adam Mickiewicz University (AMUNATCOLL) in Poznań contain over 2.2 million specimens. Until recently, access to the collections was limited to specialists and was challenging because of the analogue data files. Therefore, this paper presents a new approach to data sharing called the Scientific, Educational, Public, and Practical Use (SEPP) Model. Since the stakeholder group is broad, the SEPP Model assumes the following key points: full open access to the digitized collections, the structure of metadata in accordance with certain standards, and a versatile tool set for data mining or statistical and spatial analysis. The SEPP Model was implemented in the AMUNATCOLL IT system, which consists of a web portal equipped with a wide set of explorative functionalities tailored to different user groups: scientists, students, officials, and nature enthusiasts. An integral part of the system is a mobile application designed for field surveys, enabling users ...
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WIREs Data Mining and Knowledge Discovery, 2020
The unprecedented size of the human population, along with its associated economic activities, have an ever increasing impact on global environments. Across the world, countries are concerned about the growing resource consumption and the capacity of ecosystems to provide them. To effectively conserve biodiversity, it is essential to make indicators and knowledge openly available to decision-makers in ways that they can effectively use them. The development and deployment of mechanisms to produce these indicators depend on having access to trustworthy data from field surveys and automated sensors, biological collections, molecular data, and historic academic literature. The transformation of this raw data into synthesized information that is fit for use requires going through many refinement steps. The methodologies and techniques used to manage and analyze this data comprise an area often called biodiversity informatics (or e-Biodiversity). Biodiversity data follows a life cycle consisting of planning, collection, certification, description, preservation, discovery, integration, and analysis. Researchers, whether producers or consumers of biodiversity data, will likely perform activities related to at least one of these steps. This article explores each stage of the life cycle of biodiversity data, discussing its methodologies, tools, and challenges.
A Survey of e-Biodiversity: Concepts, Practices, and Challenges
ArXiv, 2018
The unprecedented size of the human population, along with its associated economic activities, have an ever increasing impact on global environments. Across the world, countries are concerned about the growing resource consumption and the capacity of ecosystems to provide them. To effectively conserve biodiversity, it is essential to make indicators and knowledge openly available to decision-makers in ways that they can effectively use them. The development and deployment of mechanisms to produce these indicators depend on having access to trustworthy data from field surveys and automated sensors, biological collections, molecular data, and historic academic literature. The transformation of this raw data into synthesized information that is fit for use requires going through many refinement steps. The methodologies and techniques used to manage and analyze this data comprise an area often called biodiversity informatics (or e-Biodiversity). Biodiversity data follows a life cycle co...
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International Journal on Digital Libraries, 2006
Biodiversity Information Systems (BISs) involve all kinds of heterogeneous data, which include ecological and geographical features. However, available information systems offer very limited support for managing these kinds of data in an integrated fashion. Furthermore, such systems do not fully support image content (e.g., photos of landscapes or living organisms) management, a requirement of many BIS end-users. In order to meet their needs, these users—e.g., biologists, environmental experts—often have to alternate between separate biodiversity and image information systems to combine information extracted from them. This hampers the addition of new data sources, as well as cooperation among scientists. The approach provided in this paper to meet these issues is based on taking advantage of advances in digital library innovations to integrate networked collections of heterogeneous data. It focuses on creating the basis for a next-generation BIS, combining new techniques of content-based image retrieval and database query processing mechanisms. This paper shows the use of this component-based architecture to support the creation of two tailored BIS systems dealing with fish specimen identification using search techniques. Experimental results suggest that this new approach improves the effectiveness of the fish identification process, when compared to the traditional key-based method.
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Journal of Physics: Conference Series, 2019
The aim of the study was to design a framework for developing bioinformatics resource information systems using the Model-View-Controller (MVC) design pattern. Research contributions generate a framework as an approach model for the development of Biodiversity Information Systems which aims to improve computational capabilities and management of biodiversity data resources for the use of public information clusters. This product combines component capabilities (View Controller Model (MCV), Object Relational Mapping (ORM) and ICBN Nomenclature Taxonomy) with reusable resources. The results of the study have produced a special prototype in the form of a Framework in the Development of Bioinformatics resource information systems that can be accessed online in the site: http://borneodiversity.org/index.