The contribution of 700,000 ORF sequence tags to the definition of the human transcriptome.

Open reading frame expressed sequences tags (ORESTES) differ from conventional ESTs by providing sequence data from the central protein coding portion of transcripts. We generated a total of 696,745 ORESTES sequences from 24 human tissues and used a subset of the data that correspond to a set of 15,095 full-length mRNAs as a means of assessing the efficiency of the strategy and its potential contribution to the definition of the human transcriptome. We estimate that ORESTES sampled over 80% of all highly and moderately expressed, and between 40% and 50% of rarely expressed, human genes. In our most thoroughly sequenced tissue, the breast, the 130,000 ORESTES generated are derived from transcripts from an estimated 70% of all genes expressed in that tissue, with an equally efficient representation of both highly and poorly expressed genes. In this respect, we find that the capacity of the ORESTES strategy both for gene discovery and shotgun transcript sequence generation significantly exceeds that of conventional ESTs. The distribution of ORESTES is such that many human transcripts are now represented by a scaffold of partial sequences distributed along the length of each gene product. The experimental joining of the scaffold components, by reverse transcription-PCR, represents a direct route to transcript finishing that may represent a useful alternative to full-length cDNA cloning.

Collagen fibril diameters in arteries of mice. A comparison of manual and computer-aided morphometric analyses.

Arteries of mice were studied by a silver impregnation technique, by the Picrosirius-polarization method and by transmission electron microscopy. The histochemical results obtained coincided with the electron-microscopic observations in showing the presence of two distinct collagen populations, segregated into different compartments of each artery. The fibrous component of the tunica media was comprised of reticulin fibers, which displayed a distinct argyrophilia when studied by means of the silver impregnation technique, and showed up as thin, weakly birefringent, greenish fibers when examined with the aid of the Picrosirius-polarization method. In addition, the electron-microscopic studies disclosed the presence of thin collagen fibrils in the tunica media, contrasting with the thicker fibrils that could be localized ultrastructurally to the tunica adventitia where nonargyrophil, coarse collagen fibers had been characterized by the histochemical methods used. In this respect, collagen distribution in arteries of mice is very similar to the pattern that was consistently observed in the other species studied, which argues in favor of the existence of a uniform structural pattern of collagen distribution that is a general phenomenon in vertebrate arteries. Experimental results comparing the traditional method and the computer-aided measurement of collagen fibril diameters showed that the system provides results equivalent to those produced by manual execution. In addition, the advantage in speed of the computer-aided method should prove useful in complicated studies where numerous structures are involved.