Kyoto University

About: Kyoto University is a education organization based out in Kyoto, Japan. It is known for research contribution in the topics: Catalysis & Population. The organization has 85837 authors who have published 217215 publications receiving 6526826 citations. The organization is also known as: Kyōto University & Kyōto daigaku.

KEGG: new perspectives on genomes, pathways, diseases and drugs

Abstract: KEGG (http://www.kegg.jp/ or http://www.genome.jp/kegg/) is an encyclopedia of genes and genomes. Assigning functional meanings to genes and genomes both at the molecular and higher levels is the primary objective of the KEGG database project. Molecular-level functions are stored in the KO (KEGG Orthology) database, where each KO is defined as a functional ortholog of genes and proteins. Higher-level functions are represented by networks of molecular interactions, reactions and relations in the forms of KEGG pathway maps, BRITE hierarchies and KEGG modules. In the past the KO database was developed for the purpose of defining nodes of molecular networks, but now the content has been expanded and the quality improved irrespective of whether or not the KOs appear in the three molecular network databases. The newly introduced addendum category of the GENES database is a collection of individual proteins whose functions are experimentally characterized and from which an increasing number of KOs are defined. Furthermore, the DISEASE and DRUG databases have been improved by systematic analysis of drug labels for better integration of diseases and drugs with the KEGG molecular networks. KEGG is moving towards becoming a comprehensive knowledge base for both functional interpretation and practical application of genomic information.

A haplotype map of the human genome

Abstract: Inherited genetic variation has a critical but as yet largely uncharacterized role in human disease. Here we report a public database of common variation in the human genome: more than one million single nucleotide polymorphisms (SNPs) for which accurate and complete genotypes have been obtained in 269 DNA samples from four populations, including ten 500-kilobase regions in which essentially all information about common DNA variation has been extracted. These data document the generality of recombination hotspots, a block-like structure of linkage disequilibrium and low haplotype diversity, leading to substantial correlations of SNPs with many of their neighbours. We show how the HapMap resource can guide the design and analysis of genetic association studies, shed light on structural variation and recombination, and identify loci that may have been subject to natural selection during human evolution.

CP Violation in the Renormalizable Theory of Weak Interaction

Abstract: In a framework of the renormalizable theory of weak interaction, problems of CP-violation are studied. It is concluded that no realistic models of CP-violation exist in the quartet scheme without introducing any other new fields. Some possible models of CP-violation are also discussed. When we apply the renormalizable theory of weak interaction1l to the hadron system, we have some limitations on the hadron model. It is well known that there exists, in the case of the triplet model, a difficulty of the strangeness chang­ ing neutral current and that the quartet model is free from this difficulty. Fur­ thermore, Maki and one of the present authors (T.M.) have shown2l that, in the latter case, the strong interaction must be chiral SU ( 4) X SU ( 4) invariant as precisely as the conservation of the third component of the iso-spin 13 • In addi­ tion to these arguments, for the theory to be realistic, CP-violating interactions should be incorporated in a gauge invariant way. This requirement will impose further limitations on the hadron model and the CP-violating interaction itself. The purpose of the present paper is to investigate this problem. In the following, it will be shown that in the case of the above-mentioned quartet model, we cannot make a CP-violating interaction without introducing any other new fields when we require the following conditions: a) The mass of the fourth member of the quartet, which we will call (, is sufficiently large, b) the model should be con­ sistent with our well-established knowledge of the semi-leptonic processes. After that some possible ways of bringing CP-violation into the theory will be discussed. We consider the quartet model with a charge assignment of Q, Q -1, Q -1 and Q for p, n, A. and (, respectively, and we take the same underlying gauge group SUweak (2) X SU(1) and the scalar doublet field cp as those of Weinberg's original model.1l Then, hadronic parts of the Lagrangian can be devided in the following way:

KEGG for linking genomes to life and the environment

Abstract: KEGG (http://www.genome.jp/kegg/) is a database of biological systems that integrates genomic, chemical and systemic functional information. KEGG provides a reference knowledge base for linking genomes to life through the process of PATHWAY mapping, which is to map, for example, a genomic or transcriptomic content of genes to KEGG reference pathways to infer systemic behaviors of the cell or the organism. In addition, KEGG provides a reference knowledge base for linking genomes to the environment, such as for the analysis of drug-target relationships, through the process of BRITE mapping. KEGG BRITE is an ontology database representing functional hierarchies of various biological objects, including molecules, cells, organisms, diseases and drugs, as well as relationships among them. KEGG PATHWAY is now supplemented with a new global map of metabolic pathways, which is essentially a combined map of about 120 existing pathway maps. In addition, smaller pathway modules are defined and stored in KEGG MODULE that also contains other functional units and complexes. The KEGG resource is being expanded to suit the needs for practical applications. KEGG DRUG contains all approved drugs in the US and Japan, and KEGG DISEASE is a new database linking disease genes, pathways, drugs and diagnostic markers.