| ViPTree: the viral proteomic tree server Y Nishimura, T Yoshida, M Kuronishi, H Uehara, H Ogata, S Goto Bioinformatics 33 (15), 2379-2380, 2017 | 939 | 2017 |
| Linking virus genomes with host taxonomy T Mihara, Y Nishimura, Y Shimizu, H Nishiyama, G Yoshikawa, H Uehara, ... Viruses 8 (3), 66, 2016 | 470 | 2016 |
| 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 | 168 | 2012 |
| 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 | 128* | 2017 |
| The OceanDNA MAG catalog contains over 50,000 prokaryotic genomes originated from various marine environments Y Nishimura, S Yoshizawa Scientific Data 9, 305, 2022 | 107 | 2022 |
| 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), 5, 2014 | 69 | 2014 |
| 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 | 65 | 2016 |
| 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 | 60 | 2019 |
| 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 | 58 | 2018 |
| DiGAlign: Versatile and Interactive Visualization of Sequence Alignment for Comparative Genomics Y Nishimura, K Yamada, Y Okazaki, H Ogata Microbes and environments 39 (1), ME23061, 2024 | 53 | 2024 |
| Double-stranded RNA sequencing reveals distinct riboviruses associated with thermoacidophilic bacteria from hot springs in Japan S Urayama, A Fukudome, M Hirai, T Okumura, Y Nishimura, Y Takaki, ... Nature Microbiology 9 (2), 514-523, 2024 | 34 | 2024 |
| 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 | 32 | 2019 |
| 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 | 31 | 2020 |
| 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 | 30 | 2019 |
| 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), 16752, 2020 | 25 | 2020 |
| Distribution and survival strategies of endemic and cosmopolitan diazotrophs in the Arctic Ocean T Shiozaki#, Y Nishimura#, S Yoshizawa, H Takami, K Hamasaki, ... The ISME Journal 17 (8), 1340-1350, 2023 | 19 | 2023 |
| 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, ... Msystems 8 (1), e00931-22, 2023 | 17 | 2023 |
| Consensus statement from the first RdRp Summit: advancing RNA virus discovery at scale across communities J Charon, I Olendraite, M Forgia, LC Chong, LS Hillary, S Roux, ... Frontiers in Virology 4, 1371958, 2024 | 16 | 2024 |
| Light-driven proton pumps as a potential regulator for carbon fixation in marine diatoms S Yoshizawa, T Azuma, K Kojima, K Inomura, M Hasegawa, Y Nishimura, ... Microbes and Environments 38 (2), ME23015, 2023 | 14 | 2023 |
| 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 | 14 | 2014 |
Hiroyuki OgataBioinformatics Center, Institute for Chemical Research, Kyoto UniversityVerified email at kuicr.kyoto-u.ac.jp
