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978-1-4939-8561-6_8.pdf | 2.95 MB | Adobe PDF | 見る/開く |
タイトル: | SiBIC: A Tool for Generating a Network of Biclusters Captured by Maximal Frequent Itemset Mining |
著者: | Takahashi, Kei-ichiro duVerle, David A. Yotsukura, Sohiya Takigawa, Ichigaku https://orcid.org/0000-0001-5633-995X (unconfirmed) Mamitsuka, Hiroshi https://orcid.org/0000-0002-6607-5617 (unconfirmed) |
著者名の別形: | 馬見塚, 拓 |
キーワード: | Gene expression Biclustering Frequent itemset mining Gene set network Gene enrichment analysis |
発行日: | 21-Jul-2018 |
出版者: | Springer New York |
誌名: | Methods in Molecular Biology |
巻: | 1807 |
開始ページ: | 95 |
終了ページ: | 111 |
抄録: | Biclustering extracts coexpressed genes under certain experimental conditions, providing more precise insight into the genetic behaviors than one-dimensional clustering. For understanding the biological features of genes in a single bicluster, visualizations such as heatmaps or parallel coordinate plots and tools for enrichment analysis are widely used. However, simultaneously handling many biclusters still remains a challenge. Thus, we developed a web service named SiBIC, which, using maximal frequent itemset mining, exhaustively discovers significant biclusters, which turn into networks of overlapping biclusters, where nodes are gene sets and edges show their overlaps in the detected biclusters. SiBIC provides a graphical user interface for manipulating a gene set network, where users can find target gene sets based on the enriched network. This chapter provides a user guide/instruction of SiBIC with background of having developed this software. SiBIC is available at http://utrecht.kuicr.kyoto-u.ac.jp:8080/sibic/faces/index.jsp. |
著作権等: | This is a post-peer-review, pre-copyedit version of an article published in Methods in Molecular Biology. The final authenticated version is available online at: http://dx.doi.org/10.1007/978-1-4939-8561-6_8. The full-text file will be made open to the public on 21 July 2019 in accordance with publisher's 'Terms and Conditions for Self-Archiving' |
URI: | http://hdl.handle.net/2433/236183 |
DOI(出版社版): | 10.1007/978-1-4939-8561-6_8 |
PubMed ID: | 30030806 |
出現コレクション: | 学術雑誌掲載論文等 |
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