Tsukasa Fukunaga
Tsukasa Fukunaga
Assistant Professor, Waseda Institute for Advanced Study, Waseda University
Verified email at - Homepage
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Cited by
MiFish, a set of universal PCR primers for metabarcoding environmental DNA from fishes: detection of more than 230 subtropical marine species
M Miya, Y Sato, T Fukunaga, T Sado, JY Poulsen, K Sato, T Minamoto, ...
Royal Society open science 2 (7), 150088, 2015
MitoFish and MitoAnnotator: a mitochondrial genome database of fish with an accurate and automatic annotation pipeline
W Iwasaki, T Fukunaga, R Isagozawa, K Yamada, Y Maeda, TP Satoh, ...
Molecular biology and evolution 30 (11), 2531-2540, 2013
Evolutionary origin of the Scombridae (tunas and mackerels): members of a Paleogene adaptive radiation with 14 other pelagic fish families
M Miya, M Friedman, TP Satoh, H Takeshima, T Sado, W Iwasaki, ...
PloS one 8 (9), e73535, 2013
MitoFish and MiFish pipeline: a mitochondrial genome database of fish with an analysis pipeline for environmental DNA metabarcoding
Y Sato, M Miya, T Fukunaga, T Sado, W Iwasaki
Molecular biology and evolution 35 (6), 1553-1555, 2018
CapR: revealing structural specificities of RNA-binding protein target recognition using CLIP-seq data
T Fukunaga, H Ozaki, G Terai, K Asai, W Iwasaki, H Kiryu
Genome biology 15, 1-15, 2014
LncRRIsearch: a web server for lncRNA-RNA interaction prediction integrated with tissue-specific expression and subcellular localization data
T Fukunaga, J Iwakiri, Y Ono, M Hamada
Frontiers in genetics 10, 462, 2019
RIblast: an ultrafast RNA–RNA interaction prediction system based on a seed-and-extension approach
T Fukunaga, M Hamada
Bioinformatics 33 (17), 2666-2674, 2017
Identification and analysis of ribosome-associated lncRNAs using ribosome profiling data
C Zeng, T Fukunaga, M Hamada
BMC genomics 19 (1), 1-14, 2018
GroupTracker: Video tracking system for multiple animals under severe occlusion
T Fukunaga, S Kubota, S Oda, W Iwasaki
Computational biology and chemistry 57, 39-45, 2015
Representation learning applications in biological sequence analysis
H Iuchi, T Matsutani, K Yamada, N Iwano, S Sumi, S Hosoda, S Zhao, ...
Computational and Structural Biotechnology Journal 19, 3198-3208, 2021
Revealing the microbial assemblage structure in the human gut microbiome using latent Dirichlet allocation
S Hosoda, S Nishijima, T Fukunaga, M Hattori, M Hamada
Microbiome 8 (1), 1-12, 2020
Rtools: a web server for various secondary structural analyses on single RNA sequences
M Hamada, Y Ono, H Kiryu, K Sato, Y Kato, T Fukunaga, R Mori, K Asai
Nucleic acids research 44 (W1), W302-W307, 2016
Targeting the TR4 nuclear receptor-mediated lncTASR/AXL signaling with tretinoin increases the sunitinib sensitivity to better suppress the RCC progression
H Shi, Y Sun, M He, X Yang, M Hamada, T Fukunaga, X Zhang, C Chang
Oncogene 39 (3), 530-545, 2020
Solar-panel and parasol strategies shape the proteorhodopsin distribution pattern in marine Flavobacteriia
Y Kumagai, S Yoshizawa, Y Nakajima, M Watanabe, T Fukunaga, ...
The ISME Journal 12 (5), 1329-1343, 2018
Discovering novel mutation signatures by latent Dirichlet allocation with variational Bayes inference
T Matsutani, Y Ueno, T Fukunaga, M Hamada
Bioinformatics 35 (22), 4543-4552, 2019
Novel metric for hyperbolic phylogenetic tree embeddings
H Matsumoto, T Mimori, T Fukunaga
Biology Methods and Protocols 6 (1), bpab006, 2021
Logicome Profiler: Exhaustive detection of statistically significant logic relationships from comparative omics data
T Fukunaga, W Iwasaki
Plos one 15 (5), e0232106, 2020
Mirage: estimation of ancestral gene-copy numbers by considering different evolutionary patterns among gene families
T Fukunaga, W Iwasaki
Bioinformatics Advances 1 (1), vbab014, 2021
Inactivity periods and postural change speed can explain atypical postural change patterns of Caenorhabditis elegans mutants
T Fukunaga, W Iwasaki
BMC bioinformatics 18 (1), 1-9, 2017
Umibato: estimation of time-varying microbial interaction using continuous-time regression hidden Markov model
S Hosoda, T Fukunaga, M Hamada
Bioinformatics 37 (Supplement_1), i16-i24, 2021
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