T
Tsukasa Fukunaga
Researcher at University of Tokyo
Publications - 38
Citations - 2039
Tsukasa Fukunaga is an academic researcher from University of Tokyo. The author has contributed to research in topics: RNA & Computer science. The author has an hindex of 10, co-authored 31 publications receiving 1370 citations. Previous affiliations of Tsukasa Fukunaga include Japan Society for the Promotion of Science & Waseda University.
Papers
More filters
Journal ArticleDOI
MiFish, a set of universal PCR primers for metabarcoding environmental DNA from fishes: detection of more than 230 subtropical marine species.
Masaki Miya,Yukuto Sato,Tsukasa Fukunaga,Tetsuya Sado,J. Y. Poulsen,Keiichi Sato,Toshifumi Minamoto,Satoshi Yamamoto,Hiroki Yamanaka,Hitoshi Araki,Michio Kondoh,Wataru Iwasaki +11 more
TL;DR: The metabarcoding approach presented here is non-invasive, more efficient, more cost-effective and more sensitive than the traditional survey methods and has the potential to serve as an alternative tool for biodiversity monitoring that revolutionizes natural resource management and ecological studies of fish communities on larger spatial and temporal scales.
Journal ArticleDOI
MitoFish and MitoAnnotator: A Mitochondrial Genome Database of Fish with an Accurate and Automatic Annotation Pipeline
Wataru Iwasaki,Tsukasa Fukunaga,Ryota Isagozawa,Koichiro Yamada,Yasunobu Maeda,Takashi P. Satoh,Tetsuya Sado,Kohji Mabuchi,Hirohiko Takeshima,Masaki Miya,Mutsumi Nishida +10 more
TL;DR: MitoFish contains re-annotations of previously sequenced fish mitogenomes, enabling researchers to refer to them when they find annotations that are likely to be erroneous or while conducting comparative mitogenomic analyses.
Journal ArticleDOI
Evolutionary origin of the Scombridae (tunas and mackerels): members of a paleogene adaptive radiation with 14 other pelagic fish families.
Masaki Miya,Matt Friedman,Takashi P. Satoh,Hirohiko Takeshima,Tetsuya Sado,Wataru Iwasaki,Yusuke Yamanoue,Masanori Nakatani,Kohji Mabuchi,Jun G. Inoue,Jan Y. Poulsen,Tsukasa Fukunaga,Yukuto Sato,Mutsumi Nishida +13 more
TL;DR: A clade of open-ocean fishes containing Scombridae is named “Pelagia” in reference to the common habitat preference that links the 15 families, suggesting that they represent a previously undetected adaptive radiation in the pelagic realm.
Journal ArticleDOI
MitoFish and MiFish Pipeline: A Mitochondrial Genome Database of Fish with an Analysis Pipeline for Environmental DNA Metabarcoding.
TL;DR: Recent functional updates of MitoFish and implementation of MiFish pipeline for metabarcoding analysis of fish mitochondrial environmental DNA, which is a fast-emerging and powerful technology in fish studies are described.
Journal ArticleDOI
CapR: revealing structural specificities of RNA-binding protein target recognition using CLIP-seq data
Tsukasa Fukunaga,Haruka Ozaki,Goro Terai,Kiyoshi Asai,Kiyoshi Asai,Wataru Iwasaki,Hisanori Kiryu +6 more
TL;DR: Using CapR, an efficient algorithm that calculates the probability that each RNA base position is located within each secondary structural context, it is demonstrated that several RBPs bind to their target RNA molecules under specific structural contexts.