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Yosuke Nishimura
Yosuke Nishimura
Adresse e-mail validée de jamstec.go.jp
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ViPTree: the viral proteomic tree server
Y Nishimura, T Yoshida, M Kuronishi, H Uehara, H Ogata, S Goto
Bioinformatics 33 (15), 2379-2380, 2017
2652017
Linking virus genomes with host taxonomy
T Mihara, Y Nishimura, Y Shimizu, H Nishiyama, G Yoshikawa, H Uehara, ...
Viruses 8 (3), 66, 2016
2392016
Drug target prediction using adverse event report systems: a pharmacogenomic approach
M Takarabe, M Kotera, Y Nishimura, S Goto, Y Yamanishi
Bioinformatics 28 (18), i611-i618, 2012
1442012
Environmental viral genomes shed new light on virus-host interactions in the ocean
Y Nishimura, H Watai, T Honda, T Mihara, K Omae, S Roux, ...
mSphere 2 (2), e00359-16, 2017
86*2017
BioHackathon series in 2011 and 2012: penetration of ontology and linked data in life science domains
T Katayama, MD Wilkinson, KF Aoki-Kinoshita, S Kawashima, ...
Journal of biomedical semantics 5, 1-13, 2014
662014
Locality and diel cycling of viral production revealed by a 24 h time course cross-omics analysis in a coastal region of Japan
T Yoshida, Y Nishimura, H Watai, N Haruki, D Morimoto, H Kaneko, ...
The ISME Journal 12 (5), 1287-1295, 2018
372018
Two asian jumbo phages, ϕRSL2 and ϕRSF1, infect Ralstonia solanacearum and show common features of ϕKZ-related phages
A Bhunchoth, R Blanc-Mathieu, T Mihara, Y Nishimura, A Askora, ...
Virology 494, 56-66, 2016
362016
Genome‐resolved viral and cellular metagenomes revealed potential key virus‐host interactions in a deep freshwater lake
Y Okazaki, Y Nishimura, T Yoshida, H Ogata, S Nakano
Environmental Microbiology 21 (12), 4740-4754, 2019
352019
Photochemical Characterization of a New Heliorhodopsin from the Gram-Negative Eubacterium Bellilinea caldifistulae (BcHeR) and Comparison with …
A Shibukawa, K Kojima, Y Nakajima, Y Nishimura, S Yoshizawa, Y Sudo
Biochemistry 58 (26), 2934-2943, 2019
202019
Cooccurrence of broad-and narrow-host-range viruses infecting the bloom-forming toxic cyanobacterium Microcystis aeruginosa
D Morimoto, K Tominaga, Y Nishimura, N Yoshida, S Kimura, Y Sako, ...
Applied and environmental microbiology 85 (18), e01170-19, 2019
162019
In silico Prediction of Virus-Host Interactions for Marine Bacteroidetes With the Use of Metagenome-Assembled Genomes
K Tominaga, D Morimoto, Y Nishimura, H Ogata, T Yoshida
Frontiers in Microbiology 11, 738, 2020
142020
PIERO ontology for analysis of biochemical transformations: effective implementation of reaction information in the IUBMB enzyme list
M Kotera, Y Nishimura, ZI Nakagawa, A Muto, Y Moriya, S Okamoto, ...
Journal of bioinformatics and computational biology 12 (06), 1442001, 2014
122014
A unique clade of light-driven proton-pumping rhodopsins evolved in the cyanobacterial lineage
M Hasegawa, T Hosaka, K Kojima, Y Nishimura, Y Nakajima, ...
Scientific reports 10 (1), 1-10, 2020
112020
The OceanDNA MAG catalog contains over 50,000 prokaryotic genomes originated from various marine environments
Y Nishimura, S Yoshizawa
Scientific Data 9, 305, 2022
82022
Genome-wide analysis of plant UGT family based on sequence and substrate information
Y Nishimura, T Tokimatsu, M Kotera, S Goto, M Kanehisa
Genome Informatics 2010: Genome Informatics Series Vol. 24, 127-138, 2010
4*2010
Proton-pumping rhodopsins in marine diatoms
S Yoshizawa, T Azuma, K Kojima, K Inomura, M Hasegawa, Y Nishimura, ...
bioRxiv, 2022.01. 18.476826, 2022
12022
Prevalence of viral frequency-dependent infection in coastal marine prokaryotes revealed using monthly time series virome analysis
K Tominaga, N Ogawa-Haruki, Y Nishimura, H Watai, K Yamamoto, ...
bioRxiv, 2021.09. 23.461490, 2021
12021
Distribution and survival strategies of diazotrophs in the Arctic Ocean revealed by global-scale metagenomic analysis
T Shiozaki, Y Nishimura, S Yoshizawa, H Takami, K Hamasaki, ...
bioRxiv, 2022.10. 28.514325, 2022
2022
BioHackathon series in 2013 and 2014: improvements of semantic interoperability in life science data and services
T Katayama, S Kawashima, G Micklem, S Kawano, JD Kim, S Kocbek, ...
F1000Research 8 (1677), 1677, 2019
2019
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