University of Tokyo

About: University of Tokyo is a education organization based out in Tokyo, Japan. It is known for research contribution in the topics: Population & Gene. The organization has 134564 authors who have published 337567 publications receiving 10178620 citations. The organization is also known as: Todai & Universitas Tociensis.

Relation between microRNA expression and progression and prognosis of gastric cancer: a microRNA expression analysis

Abstract: Summary Background Analyses of microRNA expression profiles have shown that many microRNAs are expressed aberrantly and correlate with tumorigenesis, progression, and prognosis of various haematological and solid tumours. We aimed to assess the relation between microRNA expression and progression and prognosis of gastric cancer. Methods 353 gastric samples from two independent subsets of patients from Japan were analysed by microRNA microarray. MicroRNA expression patterns were compared between non-tumour mucosa and cancer samples, graded by diffuse and intestinal histological types and by progression-related factors (eg, depth of invasion, metastasis, and stage). Disease outcome was calculated by multivariable regression analysis to establish whether microRNAs are independent prognostic factors. Findings In 160 paired samples of non-tumour mucosa and cancer, 22 microRNAs were upregulated and 13 were downregulated in gastric cancer; 292 (83%) samples were distinguished correctly by this signature. The two histological subtypes of gastric cancer showed different microRNA signatures: eight microRNAs were upregulated in diffuse-type and four in intestinal-type cancer. In the progression-related signature, miR-125b, miR-199a, and miR-100 were the most important microRNAs involved. Low expression of let-7g (hazard ratio 2·6 [95% CI 1·3–4·9]) and miR-433 (2·1 [1·1–3·9]) and high expression of miR-214 (2·4 [1·2–4·5]) were associated with unfavourable outcome in overall survival independent of clinical covariates, including depth of invasion, lymph-node metastasis, and stage. Interpretation MicroRNAs are expressed differentially in gastric cancers, and histological subtypes are characterised by specific microRNA signatures. Unique microRNAs are associated with progression and prognosis of gastric cancer. Funding National Cancer Institute.

Genome sequence of an industrial microorganism Streptomyces avermitilis: Deducing the ability of producing secondary metabolites

Abstract: Streptomyces avermitilis is a soil bacterium that carries out not only a complex morphological differentiation but also the production of secondary metabolites, one of which, avermectin, is commercially important in human and veterinary medicine. The major interest in this genus Streptomyces is the diversity of its production of secondary metabolites as an industrial microorganism. A major factor in its prominence as a producer of the variety of secondary metabolites is its possession of several metabolic pathways for biosynthesis. Here we report sequence analysis of S. avermitilis, covering 99% of its genome. At least 8.7 million base pairs exist in the linear chromosome; this is the largest bacterial genome sequence, and it provides insights into the intrinsic diversity of the production of the secondary metabolites of Streptomyces. Twenty-five kinds of secondary metabolite gene clusters were found in the genome of S. avermitilis. Four of them are concerned with the biosyntheses of melanin pigments, in which two clusters encode tyrosinase and its cofactor, another two encode an ochronotic pigment derived from homogentiginic acid, and another polyketide-derived melanin. The gene clusters for carotenoid and siderophore biosyntheses are composed of seven and five genes, respectively. There are eight kinds of gene clusters for type-I polyketide compound biosyntheses, and two clusters are involved in the biosyntheses of type-II polyketide-derived compounds. Furthermore, a polyketide synthase that resembles phloroglucinol synthase was detected. Eight clusters are involved in the biosyntheses of peptide compounds that are synthesized by nonribosomal peptide synthetases. These secondary metabolite clusters are widely located in the genome but half of them are near both ends of the genome. The total length of these clusters occupies about 6.4% of the genome.

The Broadband Optical Properties of Galaxies with Redshifts 0.02 < z < 0.22

Abstract: Using photometry and spectroscopy of 183,487 galaxies from the Sloan Digital Sky Survey, we present bivariate distributions of pairs of seven galaxy properties: four optical colors, surface brightness, radial profile shape as measured by the Sersic index, and absolute magnitude. In addition, we present the dependence of local galaxy density (smoothed on 8 h � 1 Mpc scales) on all of these properties. Several classic, well-known relations among galaxy properties are evident at extremely high signal-to-noise ratio: the color- color relations of galaxies, the color-magnitude relations, the magnitude-surface brightness relation, and the dependence of density on color and absolute magnitude. We show that most of the i-band luminosity density in the universe is in the absolute magnitude and surface brightness ranges used: � 23:5 < M0:1i < � 17:0 mag and 17 < l0:1i < 24 mag in 1 arcsec 2 (the notation z b represents the b band shifted blueward by a factor ð1 þ zÞ). Some of the relationships between parameters, in particular the color-magnitude relations, show stronger correlations for exponential galaxies and concentrated galaxies taken separately than for all galaxies taken together. We provide a simple set of fits of the dependence of galaxy properties on luminosity for these two sets of galaxies and other quantitative details of our results. Subject headings: galaxies: fundamental parameters — galaxies: photometry — galaxies: statistics On-line material: ASCII parameter files, color figure, FITS files 1. MOTIVATION There are strong correlations among the measurable physical properties of galaxies. The classification of galaxies along the visual morphological sequence described by Hubble (1936) correlates well with the dominance of their central bulge, their surface brightnesses, and their colors. These properties also correlate with other properties, such as metallicity, emission-line strength, luminosity in visual bands, neutral gas content, and the winding angle of the spiral structure (for a review, see Roberts & Haynes 1994). The surface brightnesses of giant galaxies classified morpho- logically as elliptical are known to be strongly correlated with their sizes (Kormendy 1977; Kormendy & Djorgovski 1989). Galaxy colors (at least of morphologically elliptical galaxies) are known to be strongly correlated with galaxy luminosity (Baum 1959; Faber 1973; Visvanathan & Sandage 1977; Terlevich et al. 2001). The gravitational mass of a galaxy is closely related to the luminosity and other galaxy properties. These galaxy relations manifest them-