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Abstract: Microbiota analysis can provide valuable insights in various fields, including diet and nutrition, understanding health and disease, and in environmental contexts, such as understanding the role of microorganisms in different ecosystems. Based on the results, we can provide targeted therapies, personalized medicine, or detect environmental contaminants. In our research, we examined the gut microbiota of 16 animal taxa, including humans, as well as the microbiota of cattle and pig manure, where we focused on 16S rRNA V3-V4 hypervariable regions. Analyzing these regions is common in microbiome studies but can be challenging since the results are high-dimensional. Thus, we utilized machine learning techniques and demonstrated their applicability in processing microbial sequence data. Moreover, we showed that techniques commonly employed in natural language processing can be adapted for analyzing microbial text vectors. We obtained the latter through frequency analyses and utilized the proposed hierarchical clustering method over them. All steps in this study were gathered in a proposed microbial sequence data processing pipeline. The results demonstrate that we not only found similarities between samples but also sorted groups’ samples into semantically related clusters. We also tested our method against other known algorithms like the Kmeans and Spectral Clustering algorithms using clustering evaluation metrics. The results demonstrate the superiority of the proposed method over them. Moreover, the proposed microbial sequence data pipeline can be utilized for different types of microbiota, such as oral, gut, and skin, demonstrating its reusability and robustness.
Keywords: machine learning, NLP, hierarchical clustering, microbial data, microbiome, n-grame
Published in DKUM: 04.09.2024; Views: 38; Downloads: 9
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Abstract: Background: Due to the emerging global interest in Open Government Data, research papers on various topics in this area have increased. Objectives: This paper aims to categorise Open government data research. Methods/Approach: A literature review was conducted to provide a complete overview and classification of open government data research. Hierarchical clustering, a cluster analysis method, was used, and a hierarchy of clusters on selected data sets emerged. Results: The results of this study suggest that there are two distinct clusters of research, which either focus on government perspectives and policies on OGD, initiatives, and portals or focus on regional studies, adoption of OGD, platforms, and barriers to implementation. Further findings suggest that research gaps could be segmented into many thematic areas, focusing on success factors, best practices, the impact of open government data, barriers/challenges in implementing open government data, etc. Conclusions: The extension of the paper, which was first presented at the Entrenova conference, provides a comprehensive overview of research to date on the implementation of OGD and points out that this topic has already received research attention, which focuses on specific segments of the phenomenon and signifies in which direction new research should be made.
Keywords: open government data, open government data research, hierarchical clustering, OGD classification, OGD literature overview
Published in DKUM: 12.06.2024; Views: 134; Downloads: 12
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