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Kentaro Tomii
National Institute of Advanced Industrial Science and Technology
84Publications
20H-index
1,332Citations
Publications 86
Newest
#1Tatsuya Furuichi (Gidai: Gifu University)H-Index: 1
#2Manami Tsukamoto (Iwate University)H-Index: 1
Last.Kentaro Tomii (AIST: National Institute of Advanced Industrial Science and Technology)H-Index: 20
view all 12 authors...
Cysteine-rich transmembrane bone morphogenetic protein regulator 1 (CRIM1) is a type I transmembrane protein involved in the organogenesis of many tissues via its interactions with growth factors including BMP, TGF-β, and VEGF. In this study, we used whole-exome sequencing and linkage analysis to identify a novel Crim1 mutant allele generated by ENU mutagenesis in mice. This allele is a missense mutation that causes a cysteine-to-serine substitution at position 140, and is referred to as Crim1C1...
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#1Kentaro TomiiH-Index: 20
#2Herbert J. SantosH-Index: 5
Last.Tomoyoshi NozakiH-Index: 39
view all 3 authors...
Tetraspanins are membrane proteins involved in intra- and/or intercellular signaling, and membrane protein complex formation. In some organisms, their role is associated with virulence and pathogenesis. Here, we investigate known and potential tetraspanins in the human intestinal protozoan parasite Entamoeba histolytica. We conducted sequence similarity searches against the proteome data of E. histolytica and newly identified nine uncharacterized proteins as potential tetraspanins in E. histolyt...
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#1Herbert J. Santos (UTokyo: University of Tokyo)H-Index: 5
#2Kenichiro Imai (AIST: National Institute of Advanced Industrial Science and Technology)H-Index: 18
Last.Tomoyoshi Nozaki (UTokyo: University of Tokyo)H-Index: 39
view all 9 authors...
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#1Keiichirou Nemoto (Ehime University)H-Index: 7
#2Makiko Kagawa (Ehime University)H-Index: 1
Last.Tatsuya Sawasaki (Ehime University)H-Index: 33
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Abscisic acid (ABA) is the main phytohormone involved in abiotic stress response and its adaptation, and is a candidate agrichemical. Consequently, several agonists of ABA have been developed using the yeast two-hybrid system. Here, we describe a novel cell-free-based drug screening approach for the development and validation of ABA receptor agonists. Biochemical validation of this approach between 14 ABA receptors (PYR/PYL/RCARs) and 7 type 2C-A protein phosphatases (PP2CAs) revealed the same i...
4 CitationsSource
#1Tsukasa Nakamura (AIST: National Institute of Advanced Industrial Science and Technology)H-Index: 3
#2Kazunori D. Yamada (AIST: National Institute of Advanced Industrial Science and Technology)H-Index: 10
Last.Kazutaka Katoh (AIST: National Institute of Advanced Industrial Science and Technology)H-Index: 27
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66 CitationsSource
#1Hiroyuki Fukuda (UTokyo: University of Tokyo)H-Index: 24
#2Kentaro Tomii (AIST: National Institute of Advanced Industrial Science and Technology)H-Index: 20
Protein contact prediction is a crucially important step for protein structure prediction. To predict a contact, approaches of two types are used: evolutionary coupling analysis (ECA) and supervised learning. ECA uses a large multiple sequence alignment (MSA) of homologue sequences and extract correlation information between residues. Supervised learning uses ECA analysis results as input features and can produce higher accuracy. As described herein, we present a new approach to contact predicti...
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#1Kumiko Nakada-Tsukui (NIH: National Institutes of Health)H-Index: 15
#2Tsuyoshi Sekizuka (NIH: National Institutes of Health)H-Index: 21
Last.Tomoyoshi Nozaki (UTokyo: University of Tokyo)H-Index: 39
view all 8 authors...
The disease state of amebiasis, caused by Entamoeba histolytica, varies from asymptomatic to severe manifestations that include dysentery and extraintestinal abscesses. The virulence factors of the pathogen, and host defense mechanisms, contribute to the outcomes of infection; however, the underlying genetic factors, which affect clinical outcomes, remain to be fully elucidated. To identify these genetic factors in E. histolytica, we used Illumina next-generation sequencing to conduct a comparat...
2 CitationsSource
#1Tsukasa Nakamura (AIST: National Institute of Advanced Industrial Science and Technology)H-Index: 1
#2Toshiyuki Oda (AIST: National Institute of Advanced Industrial Science and Technology)H-Index: 3
Last.Kentaro TomiiH-Index: 20
view all 4 authors...
Proteins often exist as their multimeric forms when they function as so-called biological assemblies consisting of the specific number and arrangement of protein subunits. Consequently, elucidating biological assemblies is necessary to improve understanding of protein function. Template-Based Modeling (TBM), based on known protein structures, has been used widely for protein structure prediction. Actually, TBM has become an increasingly useful approach in recent years because of the increased am...
2 CitationsSource
#1Toshiyuki Oda (AIST: National Institute of Advanced Industrial Science and Technology)H-Index: 3
#2Kyungtaek Lim (AIST: National Institute of Advanced Industrial Science and Technology)H-Index: 1
Last.Kentaro Tomii (AIST: National Institute of Advanced Industrial Science and Technology)H-Index: 20
view all 3 authors...
PSI-BLAST, an extremely popular tool for sequence similarity search, features the utilization of Position-Specific Scoring Matrix (PSSM) constructed from a multiple sequence alignment (MSA). PSSM allows the detection of more distant homologs than a general amino acid substitution matrix does. An accurate estimation of the weights for sequences in an MSA is crucially important for PSSM construction. PSI-BLAST divides a given MSA into multiple blocks, for which sequence weights are calculated. Whe...
2 CitationsSource
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