Automated skin lesion screening--a new approach.

Automated melanoma diagnosis is a popular focus of research, with numerous papers describing techniques and results. In our study, we identified two possible problems with the current method of automated diagnosis, where systems are intended to reproduce histopathology results. We propose a new method of identifying problematic skin lesions, namely attempting to reproduce algorithmically the perceptions of dermatologists as to whether the lesion should be excised. In the best case, our initial model reproduced the decision of dermatologists in over 80% of cases. These results suggest that reproducing the decision to excise may be a valuable adjunct to current methodology.

How blurry is that border? An investigation into algorithmic reproduction of skin lesion border cut-off.

This paper describes an approach to algorithmically measuring the second of the ABCD criteria [Stolz W, Braun-Falco O, Bilek P, Landthaler M, Cognetta AB. Color atlas of dermatoscopy. Oxford: Blackwell Science Ltd, 1994], border cut-off. The method measures the lightness gradient of the lesion at the boundary. Gradients are assigned to "blurry" or "sharp cut-off" on the basis of a threshold obtained by comparing dermatologists' opinions with the algorithm. The algorithm appears to correlate quite well with dermatologists' opinions, although several concerns are apparent, especially the distribution of the image set. This algorithm presents a first step at measuring border cut-off and eventually, reproducing the ABCD criteria [Stolz W, Braun-Falco O, Bilek P, Landthaler M, Cognetta AB. Color atlas of dermatoscopy. Oxford: Blackwell Science Ltd, 1994].

Statistical mechanical simulation of polymeric DNA melting with MELTSIM.

MOTIVATION: MELTSIM is a windows-based statistical mechanical program for simulating melting curves of DNAs of known sequence and genomic dimensions under different conditions of ionic strength with great accuracy. The program is useful for mapping variations of base compositions of sequences, conducting studies of denaturation, establishing appropriate conditions for hybridization and renaturation, determinations of sequence complexity, and sequence divergence. RESULTS: Good agreement is achieved between experimental and calculated melting curves of plasmid, bacterial, yeast and human DNAs. Denaturation maps that accompany the calculated curves indicate non-coding regions have a significantly lower (G+C) composition than coding regions in all species examined. Curves of partially sequenced human DNA suggest the current database may be heavily biased with coding regions, and excluding large (A+T)-rich elements. AVAILABILITY: MELTSIM 1.0 is available at: //www.uml.edu/Dept/Chem/UMLBIC/Apps/MEL TSIM/MELTSIM-1.0-Win/meltsim. zip. Melting curve plots in this paper were made with GNUPLOT 3.5, available at: http://www.cs.dartmouth.edu/gnuplot_inf o.html Contact : blake@maine.maine.edu;

Statistical significance of symmetrical and repetitive segments in DNA.

Methods of computer analysis for the recurrence of symmetrical and repetitive elements in large numbers of DNA sequences are described, together with derivations of appropriate quantitative criteria for the evaluation of the statistical significance of these elements in DNAs of different base composition. Examples of some extraordinary variations in the occurrence of symmetrical and repetitive elements are provided, many of which are new. Special consideration is devoted to a determination of the statistical significance of a two-fold palindrome at the origin of replication. A computer search of 14 independently determined DNA sequences containing an origin of replication locus indicates each contains a large two-fold palindrome. The average length of this palindrome is 28 +/- 6 base pairs, of which 22 contribute to the palindromic symmetry. The probability of occurrence of such a palindrome is only 1/26000, while the probability of occurrence in all 14 different species is (1/26000).