Hiroyuki Toh
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Biology
Hiroyuki Toh's Degrees
- PhD Biophysics Kyoto University
Why Is Hiroyuki Toh Influential?
(Suggest an Edit or Addition)Hiroyuki Toh's Published Works
Number of citations in a given year to any of this author's works
Total number of citations to an author for the works they published in a given year. This highlights publication of the most important work(s) by the author
Published Works
- MAFFT version 5: improvement in accuracy of multiple sequence alignment (2005) (4494)
- Recent developments in the MAFFT multiple sequence alignment program (2008) (3269)
- Multiple alignment of DNA sequences with MAFFT. (2009) (1214)
- Parallelization of the MAFFT multiple sequence alignment program (2010) (729)
- Cloning by functional expression of platelet-activating factor receptor from guinea-pig lung (1991) (566)
- Improved accuracy of multiple ncRNA alignment by incorporating structural information into a MAFFT-based framework (2008) (548)
- Sequence homology between retroviral reverse transcriptase and putative polymerases of hepatitis B virus and cauliflower mosaic virus (1983) (401)
- Identification of a new cryptochrome class. Structure, function, and evolution. (2003) (305)
- Expansion of the zinc metallo‐hydrolase family of the β‐lactamase fold (2001) (278)
- Cloning and Crystal Structure of Hematopoietic Prostaglandin D Synthase (1997) (260)
- Inference of a genetic network by a combined approach of cluster analysis and graphical Gaussian modeling (2002) (247)
- Plastin3 is a novel marker for circulating tumor cells undergoing the epithelial-mesenchymal transition and is associated with colorectal cancer prognosis. (2013) (213)
- Molecular analysis of zebrafish photolyase/cryptochrome family: two types of cryptochromes present in zebrafish (2000) (198)
- Retroviral protease-like sequence in the yeast transposon Ty 1 (1985) (195)
- Human brain prostaglandin D synthase has been evolutionarily differentiated from lipophilic-ligand carrier proteins. (1991) (187)
- Molecular cloning and characterization of human caspase-activated DNase. (1998) (179)
- Improvement in the accuracy of multiple sequence alignment program MAFFT. (2005) (176)
- Archaeal-type rhodopsins in Chlamydomonas: model structure and intracellular localization. (2003) (165)
- A novel representation of protein sequences for prediction of subcellular location using support vector machines (2005) (158)
- Molecular Evolution of the Photolyase–Blue-Light Photoreceptor Family (1997) (155)
- Molecular evolution of receptors for eicosanoids (1995) (152)
- The inference of protein-protein interactions by co-evolutionary analysis is improved by excluding the information about the phylogenetic relationships (2005) (142)
- A heterodimeric DNA polymerase: evidence that members of Euryarchaeota possess a distinct DNA polymerase. (1998) (138)
- Loss of FBXW7, a cell cycle regulating gene, in colorectal cancer: Clinical significance (2010) (137)
- Notch-Hes1 pathway is required for the development of IL-17-producing γδ T cells. (2011) (130)
- Close structural resemblance between putative polymerase of a Drosophila transposable genetic element 17.6 and pol gene product of Moloney murine leukaemia virus. (1985) (127)
- Binding of biliverdin, bilirubin, and thyroid hormones to lipocalin-type prostaglandin D synthase. (1999) (121)
- Bacterial cryptochrome and photolyase: characterization of two photolyase-like genes of Synechocystis sp. PCC6803. (2000) (120)
- PartTree: an algorithm to build an approximate tree from a large number of unaligned sequences (2007) (120)
- Functional Interactions of a Homolog of Proliferating Cell Nuclear Antigen with DNA Polymerases inArchaea (1999) (113)
- Organization and nucleotide sequence of the DNA polymerase gene from the archaeon Pyrococcus furiosus. (1993) (109)
- Leukotriene A4 hydrolase is a zinc-containing aminopeptidase. (1990) (100)
- Identification of cryptochrome DASH from vertebrates (2004) (99)
- β-carotene hydroxylase gene from the cyanobacterium Synechocystis sp. PCC6803 (1998) (98)
- Nucleotide sequence of the Syrian hamster intracisternal A-particle gene: close evolutionary relationship of type A particle gene to types B and D oncovirus genes (1985) (98)
- Expansion of the zinc metallo-hydrolase family of the beta-lactamase fold. (2001) (97)
- Evolution of influenza virus genes. (1985) (92)
- Molecular Evolution of the Myeloperoxidase Family (2000) (89)
- [Structural bioinformatics]. (2009) (89)
- Protective role of the leukotriene B4 receptor BLT2 in murine inflammatory colitis. (2010) (87)
- Flavin adenine dinucleotide as a chromophore of the Xenopus (6-4)photolyase. (1997) (87)
- Structural organization of the gene for prostaglandin D synthase in the rat brain. (1992) (81)
- Biochemical Analysis of Replication Factor C from the Hyperthermophilic Archaeon Pyrococcus furiosus (2001) (75)
- Structural and Functional Significance of Cysteine Residues of Glutathione-independent Prostaglandin D Synthase (1995) (73)
- A recombination repair gene of Schizosaccharomyces pombe, rhp57, is a functional homolog of the Saccharomyces cerevisiae RAD57 gene and is phylogenetically related to the human XRCC3 gene. (2000) (70)
- MOLECULAR EVOLUTION OF THE Ca2+‐BINDING PHOTOPROTEINS OF THE HYDROZOA (1995) (67)
- Statistical estimation of cluster boundaries in gene expression profile data (2001) (64)
- Molecular evolution of phosphoenolpyruvate carboxylase for C4 photosynthesis in maize: comparison of its cDNA sequence with a newly isolated cDNA encoding an isozyme involved in the anaplerotic function. (1992) (62)
- DROP: an SVM domain linker predictor trained with optimal features selected by random forest (2011) (62)
- Interaction between intrinsically disordered proteins frequently occurs in a human protein-protein interaction network. (2009) (61)
- CLONING, EXPRESSION and SEQUENCE ANALYSIS OF cDNA FOR THE LUCIFERASES FROM THE JAPANESE FIREFLIES, Pyrocoelia tniyako AND Hotaria parvula (1995) (60)
- Molecular cloning and expression of human arachidonate 12-lipoxygenase. (1990) (57)
- Molecular evolution of biotin-dependent carboxylases. (1993) (56)
- Human long-chain acyl-CoA synthetase: structure and chromosomal location. (1992) (53)
- A study of archaeal enzymes involved in polar lipid synthesis linking amino acid sequence information, genomic contexts and lipid composition. (2005) (51)
- Loop‐length‐dependent SVM prediction of domain linkers for high‐throughput structural proteomics (2009) (51)
- Glutathione-independent prostaglandin D synthase as a lead molecule for designing new functional proteins. (1996) (48)
- Sequence similarity between putative gene products of geminiviral DNAs (1984) (46)
- Partial correlation coefficient between distance matrices as a new indicator of protein-protein interactions (2006) (46)
- Identification of rDNA-specific non-LTR retrotransposons in Cnidaria. (2006) (44)
- A comparative study of conservation and variation scores (2010) (44)
- Molecular Evolution of the Domain Structures of Protein Disulfide Isomerases (1998) (44)
- Molecular Characterization of a Novel Type of Prostamide/Prostaglandin F Synthase, Belonging to the Thioredoxin-like Superfamily* (2008) (43)
- ASH structure alignment package: Sensitivity and selectivity in domain classification (2007) (43)
- Mutational analysis of the functional motifs of RuvB, an AAA+ class helicase and motor protein for Holliday junction branch migration (2000) (42)
- Copy number loss of FBXW7 is related to gene expression and poor prognosis in esophageal squamous cell carcinoma. (2012) (40)
- The rs6983267 SNP Is Associated with MYC Transcription Efficiency, Which Promotes Progression and Worsens Prognosis of Colorectal Cancer (2013) (39)
- Analysis of membrane stereochemistry with homology modeling of sn-glycerol-1-phosphate dehydrogenase. (2002) (38)
- Prediction of interfaces for oligomerizations of G‐protein coupled receptors (2004) (37)
- Homology modeling of human leptin/leptin receptor complex. (2000) (37)
- Retroviral gag and DNA endonuclease coding sequences in IgE-binding factor gene (1985) (35)
- Sequence analysis of firefly luciferase family reveals a conservative sequence motif. (1991) (34)
- Molecular cloning and expression of the gene for serine hydroxymethyltransferase from an obligate methylotroph Hyphomicrobium methylovorum GM2. (1993) (33)
- VCIP135 deubiquitinase and its binding protein, WAC, in p97ATPase‐mediated membrane fusion (2011) (33)
- Molecular evolution and zinc ion binding motif of leukotriene A4 hydrolase. (1990) (32)
- Hjc resolvase is a distantly related member of the type II restriction endonuclease family. (2000) (32)
- Mutational Analysis of the Pyrococcus furiosusHolliday Junction Resolvase Hjc Revealed Functionally Important Residues for Dimer Formation, Junction DNA Binding, and Cleavage Activities* (2000) (30)
- High-level expression of the photorepair gene in Drosophila ovary and its evolutionary implications. (1994) (29)
- Domain Analysis of an Archaeal RadA Protein for the Strand Exchange Activity* (2000) (28)
- ASIAN: a web server for inferring a regulatory network framework from gene expression profiles (2005) (28)
- Three novel repetitive units of reelin. (2001) (27)
- System for Automatically Inferring a Genetic Netwerk from Expression Profiles (2002) (27)
- Detecting local structural similarity in proteins by maximizing number of equivalent residues (2004) (27)
- Prostaglandin endoperoxide synthase contains an EGF‐like domain (1989) (25)
- Cloning and sequence analysis of the gene for phosphoenolpyruvate carboxylase from an extreme thermophile, Thermus sp. (1995) (25)
- Molecular evolution of cyclooxygenase and lipoxygenase. (1992) (24)
- Membrane Interactive α-Helices in GPCRs as a Novel Drug Target (2006) (23)
- GASH: An improved algorithm for maximizing the number of equivalent residues between two protein structures (2005) (23)
- Putative mechanism of natural transformation as deduced from genome data. (1999) (22)
- Deduction of a gene regulatory relationship framework from gene expression data by the application of graphical Gaussian modeling (2003) (22)
- GRIP: A server for predicting interfaces for GPCR oligomerization (2009) (22)
- Cloning and expression of the gene for hydroxypyruvate reductase (D-glycerate dehydrogenase from an obligate methylotroph Hyphomicrobium methylovorum GM2. (1994) (21)
- Computational prediction and experimental characterization of a "size switch type repacking" during the evolution of dengue envelope protein domain III (ED3). (2014) (20)
- Sequence similarity between EGF receptor and α1-acid glycoprotein (1985) (20)
- FANCD2 mRNA Overexpression is a Bona Fide Indicator of Lymph Node Metastasis in Human Colorectal Cancer (2010) (20)
- Relative von Neumann Entropy for Evaluating amino acid conservation (2010) (18)
- Evolution of interferon genes. (1985) (15)
- Prediction of Protein-Protein Interactions from Phylogenetic Trees Using Partial Correlation Coefficient (2003) (15)
- Beta-carotene hydroxylase gene from the cyanobacterium Synechocystis sp. PCC6803. (1998) (15)
- Introduction of a distance cut-off into structural alignment by the double dynamic programming algorithm (1997) (15)
- A method for comparing circular genomes from gene locations: application to mitochondrial genomes (1998) (14)
- ASIAN: a website for network inference (2004) (14)
- Is the AIDS virus recombinant? (1985) (13)
- Molecular evolution of enzymes involved in the arachidonic acid cascade (1992) (13)
- Two novel genes expressed in Xenopus germ line: Characteristic features of putative protein structures, their gene expression profiles and their possible roles in gametogenesis and embryogenesis (2002) (13)
- Escherichia coli DNA polymerase II is homologous to α-like DNA polymerases (1991) (13)
- Increased Risk for CRC in Diabetic Patients with the Nonrisk Allele of SNPs at 8q24 (2012) (13)
- Gtr1p differentially associates with Gtr2p and Ego1p. (2009) (12)
- A local structural alignment method that accommodates with circular permutation (2001) (12)
- GRIPDB - G protein coupled Receptor Interaction Partners DataBase (2011) (12)
- SeSAW: balancing sequence and structural information in protein functional mapping (2010) (11)
- Recruitment of thioredoxin-like domains into prostaglandin synthases. (2008) (11)
- N-terminal halves of gramicidin S synthetase 1, and tyrocidine synthetase 1 as novel members of firefly luciferase family. (1990) (11)
- Overexpression of SUGT1 in human colorectal cancer and its clinicopathological significance. (2010) (11)
- Functional annotation by sequence‐weighted structure alignments: Statistical analysis and case studies from the Protein 3000 structural genomics project in Japan (2008) (11)
- Evolutionary Analysis of Functional Divergence among Chemokine Receptors, Decoy Receptors, and Viral Receptors (2012) (10)
- Computational and experimental analyses of furcatin hydrolase for substrate specificity studies of disaccharide-specific glycosidases. (2008) (9)
- GGIP: Structure and sequence‐based GPCR–GPCR interaction pair predictor (2016) (9)
- Genomics and computational science for virus research (2013) (9)
- ASIAN: Automatic System for Inferring a Network from Gene Expression Profiles (2001) (9)
- Positive Selection in the ComC-ComD System of Streptococcal Species (2006) (8)
- Molecular Phylogenetic Analysis of Class A GPCR (2001) (8)
- A graphical chain model for inferring regulatory system networks from gene expression profiles (2006) (8)
- Membrane interactive alpha-helices in GPCRs as a novel drug target. (2006) (8)
- Escherichia coli DNA polymerase II is homologous to alpha-like DNA polymerases. (1991) (7)
- Cloning and Crystal Structure of Hematopoietic Prostaglandin D Synthase (1999) (7)
- Functional region prediction with a set of appropriate homologous sequences-an index for sequence selection by integrating structure and sequence information with spatial statistics (2012) (6)
- Human genes for prostaglandin endoperoxide synthase-2, thromboxane synthase and prostacyclin synthase. (1995) (6)
- Role of Mg2+ in the ribozyme system (1987) (6)
- ASIAN: A Web Site for Network Inference (2003) (6)
- Molecular Evolution of Phosphoenolpyruvate Carboxylase for C4 Photosynthesis in Maize (1992) (4)
- Loop Length Dependent SVM Prediction of Domain Linkers (2008) (4)
- MicroRNA-Ago2 Complex in Mature Human Red Blood Cells. (2009) (4)
- Two-Layered Genetic Network Drawings with Minimum Edge Crossings (2001) (3)
- Cloning and characterization of human cyclooxygenase gene and primary structure of the enzyme. (1991) (3)
- Identification of New Members of the GS ADP-Forming Family from the De Novo Purine Biosynthesis Pathway (1999) (3)
- Visualization of Genetic Networks: Edge Crossing Minimization of a Graph Drawing with Vertex Pairs (2000) (3)
- T7 and E.coli share homology for replication‐related gene products (1986) (3)
- Clinical Studies Plastin 3 Is a Novel Marker for Circulating Tumor Cells Undergoing the Epithelial – Mesenchymal Transition and Is Associated with Colorectal Cancer Prognosis (2013) (3)
- How does a topological inversion change the evolutionary constraints on membrane proteins? (2004) (3)
- Analysis of Asymmetry of Membrane Proteins by Evolutionary Trace (2002) (2)
- Adenylosuccinate synthetase genes: molecular cloning and phylogenetic analysis of a highly conserved archaeal gene. (1998) (2)
- Protein Sequence-Structure Alignment Using 3 D-HMM (2004) (2)
- A Procedure for Estimating Cluster Boundaries in Gene Expression Profile Data (2000) (2)
- Functional expression of single-chain antibody to leukotriene C(4). (2010) (2)
- Update of the GRIP web service (2020) (2)
- Implementing LOD Surfer as a Search System for the Annotation of Multiple Protein Sequence Alignment (2018) (2)
- Sequence similarity between EGF receptor and alpha 1-acid glycoprotein. (1985) (2)
- Phylogenetic Footprinting (2019) (2)
- Prediction of Interfaces for GPCR Oligomer (2003) (1)
- 1.10 – Molecular Evolution of Proteins Involved in the Arachidonic Acid Cascade (1999) (1)
- [Molecular evolution of protein function]. (2001) (1)
- S08I2 Functional Annotation Sequence-weighted Structure Alignments(Bioinformatics in the Era of Structural Proteomics) (2007) (1)
- A Web Server for GPCR-GPCR Interaction Pair Prediction (2022) (1)
- Homology between IgE-binding factor and retrovirus genes (1986) (1)
- Prediction of Structures and Functions of Proteins by Database Searching (1999) (1)
- Inference of Genetic Networks from Expression Profile by Graphical Gaussian Modeling (2000) (0)
- 1P472 Domain linker prediction using a Support Vector Machine(SVM)(23. Bioinformatics, genomics and proteomics (I),Poster Session,Abstract,Meeting Program of EABS &BSJ 2006) (2006) (0)
- System for automatically inferring a genetic network from gene expression profiles (2001) (0)
- S08I5 Computational Analysis of Protein-Protein Interaction(Bioinformatics in the Era of Structural Proteomics) (2007) (0)
- Molecular Characterization of Prostamide/Prostaglandin F Synthase: A Novel Enzyme Belonging to the Thioredoxin Superfamily (2008) (0)
- Homology Search and Prediction of Biological Function of Protein from Amino Acid Sequences (1993) (0)
- Cyclooxygenases (prostaglandin H synthases): structure and evolutionary aspects (2015) (0)
- S3c2-3 Prediction of protein-protein interaction with co-evolutionary information(S3-c2: "Structural Bioinformatics: Molecular structures as the basis of understanding protein network systems",Symposia,Abstract,Meeting Program of EABS & BSJ 2006) (2006) (0)
- Reverse Transcriptase-containing DNA Viruses and Plasmids Lack Integrase (1985) (0)
- Assignment of Direct Binding in Gene Regulatory Systems from Expression Profiles (2002) (0)
- Correspondence between a Genetic Network Inferred from Expression Profiles by Strategic Gene Disruptions and the Known Regulatory Relationships (2001) (0)
- 3P280 Prediction of interafaces for oligomerizations of G-protein coupled receptors (2004) (0)
- Design of a fold recognition method by utilizing the alignments based on structural comparison. (1999) (0)
- 1P481 Real-time Structure Based Queries at the Protein Data Bank japan(23. Bioinformatics, genomics and proteomics (I),Poster Session,Abstract,Meeting Program of EABS & BSJ 2006) (2006) (0)
- [Extraction of information about protein interaction using evolutionary trace]. (2002) (0)
- Prediction of Cancer-Associated Hotspot Mutations that Affect GPCR Oligomerization (2017) (0)
- 2P-236 An SVM-Domain Linker Prediction Trained with Optimized Features Selected by Random Forest(Bioinformatics:Structural genomics,The 47th Annual Meeting of the Biophysical Society of Japan) (2009) (0)
- [Homology search and molecular evolution: detection of genes encoding reverse transcriptase from several viruses and transposons]. (1986) (0)
- / 1-Carotene Hydroxylase Gene from PCC 6803 theCyanobacterium Synechocystis sp . (2018) (0)
- Modification of ASIAN: Deduction of a Framework of Gene Regulatory Systems from Expression Profile Data (2002) (0)
- Structural Equation Modeling for Systems Biology (2015) (0)
- 2P432 A novel statistical prediction method for multiple protein-protein interaction interfaces(48. Bioinformatics, genomics and proteomics (II),Poster Session,Abstract,Meeting Program of EABS & BSJ 2006) (2006) (0)
- 2P059 Comparison of Different Profiles for the Analysis of Interface of Protein-Protein Interaction(Proteins-structure and structure-function relationship,Poster Presentations) (2007) (0)
- Identification of the molecule which was expressed at mitotic to meiotic phase conversion in Xenopus laevis (1998) (0)
- [Interface prediction for class A GPCR oligomers]. (2005) (0)
- [Molecular structure and evolution of cyclooxygenase and lipoxygenase]. (1992) (0)
- Inference of a Genetic Network with Use of a Hierarchical Clustering from a Large Amount of Gene Expression Data. (2002) (0)
- Prediction of Protein-Protein Interactions by Using Co-Evolutionary Information (2007) (0)
- Molecular evolutionary studies on prostaglandin D synthase (1996) (0)
- 2P073 Quantitative analysis of conservation of amino acid residues critical for protein-protein interaction(30. Protein function (II),Poster Session,Abstract,Meeting Program of EABS & BSJ 2006) (2006) (0)
- Application of quantum chemistry to biology: Some new currents. (1988) (0)
- Profile comparison revealed deviation from structural constraint at the positively selected sites (2016) (0)
- Inference of Protein-Protein Interactions by Using Co-evolutionary Information (2007) (0)
- ASIAN web interface, through which expression profiles can be uploaded for hierarchical clustering w (2011) (0)
- Development of HocDB (Homology-Based Clustering DataBase), a Sequence Classification System for Database Searching (2003) (0)
- External Referees (2005) (0)
- Prediction of GPCR-GPCR interaction with sequence and structure information by Autoencoder (2019) (0)
- 1P244 Loop length dependent SVM prediction of domain linkers(Bioinformatics-structural, functional, and comparative genomics,Oral Presentations) (2007) (0)
- 3D-keynote for structurally and functionally similar pbHTH modules. (1999) (0)
- 2TP4-01 An SVM-Domain Linker Prediction Trained with Optimized Features Selected by Random Forest(The 47th Annual Meeting of the Biophysical Society of Japan) (2009) (0)
- Circumstances surrounding Japan's bioinformatics human resources : Findings from a survey on human resources (2014) (0)
- 1SA1-03 Prediction of protein-protein interaction with co-evolutionary information(1SA1 Co-evolutionary analyses as the methods to investigate protein-protein interaction,The 47th Annual Meeting of the Biophysical Society of Japan) (2009) (0)
- 2P-235 A method for coarse level description of sequence and structure for the analysis of protein function(Bioinformatics:Structural genomics,The 47th Annual Meeting of the Biophysical Society of Japan) (2009) (0)
- Computational analysis of ligand recognition mechanisms by prostaglandin E2 (subtype 2) and D2 receptors (2011) (0)
- 3TP1-01 Web services to investigate GPCR oligomerization(The 47th Annual Meeting of the Biophysical Society of Japan) (2009) (0)
- [Interface re-engineering as an evolutionary mechanism of protein function]. (2002) (0)
- Constraint of Base Pairing on HDV Genome Evolution (2021) (0)
- Two Types of Arachidonate 12-Lipoxygenase Demonstrated by Enzymological Immunological and Molecular Biological Studies (1991) (0)
- 2P-298 Improvement of SVM prediction of domain linker regions(The 46th Annual Meeting of the Biophysical Society of Japan) (2008) (0)
- Evolutionary analysis of non-coding regions of domesticated LTR retroelements (2015) (0)
- P-360 DISTIRIBUTION AND EVOLUTION OF DISACCHARIDE-SPECIFIC GLYCOSIDASES (DIGLYCOSIDASES) IN PLANTS (2006) (0)
- Crystal structure of Dengue 4 Envelope protein domain III (ED3) (2014) (0)
- 1E1612 A method to select homologous sequences appropriate for functional region prediction by spatial statistics with structure information(Genome biology, Bioinformatics,The 49th Annual Meeting of the Biophysical Society of Japan) (2011) (0)
- Comparison of Prediction Methods for Protein-Protein Interactions Using CoEvolutionary Information (2005) (0)
- Archaeal-type opsin in Chlamydomonas (2001) (0)
- Protective role of the leukotriene B4 receptor BLT2 in murine inflammatory colitis (2010) (0)
- Crystal Structure Analysis of Synechocystis sp. PCC6803 cryptochrome (2003) (0)
- [Molecular evolution of enzymes involved in arachidonate cascade]. (1991) (0)
- Arachidonate 12-Lipoxygenases: Enzymology and Molecular Biology (1993) (0)
- Expression of a single-chain antibody that neutralizes the effect of cysteinyl leukotrienes (2011) (0)
- Corrigendum: A Web Server for GPCR-GPCR Interaction Pair Prediction (2022) (0)
- Improvement in the Prediction of Disease-Gene Relationship by the Recommend Algorithm and its Application (2017) (0)
- Molecular phylogenetic analysis of pulmonary surfactant protein-C and the relatives (2004) (0)
- [Sequence comparison analysis; application to protein engineering]. (1992) (0)
- 2P270 GGIP : GPCR-GPCR Interaction Pair Predictor(22A. Bioinformatics:Structural genomics,Poster) (2014) (0)
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What Schools Are Affiliated With Hiroyuki Toh?
Hiroyuki Toh is affiliated with the following schools: