- 著者
- Yusuke Imoto Yasuaki Hiraoka
- 出版者
- The Institute of Electronics, Information and Communication Engineers
- 雑誌
- Nonlinear Theory and Its Applications, IEICE (ISSN:21854106)
- 巻号頁・発行日
- vol.14, no.2, pp.92-105, 2023 (Released:2023-04-01)
- 参考文献数
- 33
Mapper, a topological data analysis method for high-dimensional data, represents a topological structure as a simplicial complex or graph based on the nerve of clusters. We propose V-Mapper (velocity Mapper), an extension of Mapper, for high-dimensional data with velocity. V-Mapper simultaneously describes a topological structure and flow as a weighted directed graph (V-Mapper graph) by embedding velocity in the edges of the Mapper graph. We apply V-Mapper to single-cell gene expression data using a method for inferring the velocity of gene expression. Moreover, the application of the Hodge decomposition on graph enhances the interpretation of the flow within V-Mapper graph.
- 著者
- Yusuke Imoto Naoya Yamanaka Takeo Uramoto Masato Tanaka Masaki Fujikawa Naoto Mitsume
- 出版者
- The Japan Society for Industrial and Applied Mathematics
- 雑誌
- JSIAM Letters (ISSN:18830609)
- 巻号頁・発行日
- vol.12, pp.29-32, 2020 (Released:2020-06-01)
- 参考文献数
- 7
- 被引用文献数
- 4
Hyper-dual numbers (HDN) are numbers defined by using nilpotent elements that differ from each other. The introduction of an operator to extend the domain of functions to HDN space based on Taylor expansion allows higher-order derivatives to be obtained from the coefficients. This study inductively defines matrix representations of HDN and proposes a numerical method for higher-order derivatives, called HDN-M differentiation, based on the matrix representations of HDN. The proposed method is characterized so that higher-order derivatives can be computed with matrix operation rules without implementations of the operation rules of HDN.
- 著者
- Yusuke Imoto Shoko Yoshikawa Yuki Horiuchi Takumi Iida Taisei Oka Shuichi Matsuda Yoshihiko Tokuji Masahiko Mori Kiyoaki Kato
- 出版者
- Japanese Society of Breeding
- 雑誌
- Breeding Science (ISSN:13447610)
- 巻号頁・発行日
- pp.21051, (Released:2022-02-02)
- 被引用文献数
- 2
Adzuki bean is an important legume crop originating in temperate regions, with photoperiod in sensitivity being a key factor in its latitudinal adaptation. The Flowering Date1 (FD1) gene has a large effect on the photoperiodic response of flowering time, but the molecular basis for the effect of this locus is undetermined. The present study delimited the FD1 locus to a 17.1 kb sequence, containing a single gene, an E1 ortholog (VaE1). A comparison between Vigna angularis ‘Shumari’ (photoperiod insensitive) and ‘Acc2265’ (photoperiod sensitive) identified 29 insertions/deletions and 178 SNPs upstream of VaE1 in the FD1 locus. VaE1 expression in ‘Acc2265’ was greater under long-day than short-day conditions, whereas VaE1 expression in ‘Shumari’ was lower regardless of day length. These findings suggested that responsible gene of FD1 is a VaE1, which acts as a floral repressor by being upregulated in response to long-day conditions. The inability to upregulate VaE1 under long-day conditions was linked to its ability to flower under these conditions. These results provide greater understanding of the molecular control of a flowering date and clues enabling the breeding of adzuki bean at higher latitudes.