Quantitative comparison of taxa and taxon concepts in the diatom genus Fragilariopsis: a case study on using slide scanning, multiexpert image annotation, and image analysis in taxonomy.

Semiautomated methods for microscopic image acquisition, image analysis, and taxonomic identification have repeatedly received attention in diatom analysis. Less well studied is the question whether and how such methods might prove useful for clarifying the delimitation of species that are difficult to separate for human taxonomists. To try to answer this question, three very similar Fragilariopsis species endemic to the Southern Ocean were targeted in this study: F.

Culture of human neurospheres in 3D scaffolds for developmental neurotoxicity testing.

Human neural progenitor cells cultured as neurospheres are a promising tool for developmental neurotoxicity testing in vitro. In order to obtain a human cell-based tissue culture system as close to the organ as possible, it is desirable to improve the spatial organization of the "Neurosphere Assay" and use 3D scaffolds to better mimic the in vivo three dimensional cell microenvironment. For this reason we have established the conditions for short-term culture (up to 6 days) in matrigel or in IKVAV-3 peptide-functionalized hydrogels, and for long-term culture (>25 days) in IKVAV-3 peptide-functionalized hydrogels showing that these conditions support human neural progenitor cells' migration, differentiation to neurons and formation of neuronal networks.

PROCESS FLOW FOR CLASSIFICATION AND CLUSTERING OF FRUIT FLY GENE EXPRESSION PATTERNS.

The rapidly growing collection of fruit fly embryo images makes automated Image Segmentation and classification an indispensable requirement for a large-scale analysis of in situ hybridization (ISH) - gene expression patterns (GEP). We present here such an automated process flow for Segmenting, Classification, and Clustering large-scale sets of Drosophila melanogaster GEP that is capable of dealing with most of the complications implicated in the images.

FeatureScan: revealing property-dependent similarity of nucleotide sequences.

FeatureScan is a software package aiming to reveal novel types of DNA sequence similarity by comparing physico-chemical properties. Thirty-eight different parameters of DNA double strands such as charge, melting enthalpy, conformational parameters and the like are provided. As input FeatureScan requires two sequences, a pattern sequence and a target sequence, search conditions are set by selecting a specific DNA parameter and a threshold value.

Signal-theoretical DNA similarity measure revealing unexpected similarities of E. coli promoters.

We present an implementation of the signal theory based approach for detection of novel types of DNA similarity which are based on physical properties of DNA. Systematic study of the sensitivity of the new similarity measure revealed qualitative differences to letter-based similarity. A variety of physical parameters of DNA double strands, which in a straightforward way reflect different kinds of information hidden behind the primary structure of DNA, showed a wide range of recognition power of the signal similarity measure.

Analysis of disturbed images.

Motivation: Images in cellular and molecular biology (from microscopy, blots, biochips, etc.) are often disturbed, so that the detection and analysis of the respective relevant geometrical objects may be difficult or error-prone. The disturbances are either caused by the detector, usually a CCD camera, or by the experimental setup.

Applying signal theory to the analysis of biomolecules.

Motivation: The accumulation of sequence-related and other biological data for basic research and application purposes invites disaster. It appears very likely that neither traditional thinking nor current technologies (including their foreseeable evolutionary developments) will be able to cope with this ever intensifying situation.

Results: We present the detailed theoretical background for applying signal theory, as known from speech recognition and image analysis, to the analysis of biomolecules.

Sequence and analysis of chromosome 3 of the plant Arabidopsis thaliana.

Arabidopsis thaliana is an important model system for plant biologists. In 1996 an international collaboration (the Arabidopsis Genome Initiative) was formed to sequence the whole genome of Arabidopsis and in 1999 the sequence of the first two chromosomes was reported. The sequence of the last three chromosomes and an analysis of the whole genome are reported in this issue.

The DNA sequence of human chromosome 21.

Chromosome 21 is the smallest human autosome. An extra copy of chromosome 21 causes Down syndrome, the most frequent genetic cause of significant mental retardation, which affects up to 1 in 700 live births. Several anonymous loci for monogenic disorders and predispositions for common complex disorders have also been mapped to this chromosome, and loss of heterozygosity has been observed in regions associated with solid tumours.

[Anal tuberculosis. Report of a case].

We report a 70 years old man presenting with malaise, anal pain and progressive defecation difficulty, with a decrease in stool caliber. The patient had no contact or past history of tuberculosis. On physical examination, there was an ulcerated anal lesion with purulent discharge, that produced an anal stenosis.

Effects of emotion-related surface similarity in analogical problem solving.

In analogical problem solving, a source problem with a known solution is used to solve a target problem. The present study deals with one possible condition influencing the search for possible source problems (i.e.

Image analysis techniques for automatic evaluation of two-dimensional electrophoresis.

Techniques for automatic analysis of two-dimensional electrophoresis gels by computer-aided image analysis are described. Original gels or photographic films are scanned using a laser scanner and the files are transferred to a microcomputer. The program package first performs a compression and preevaluation of the files.