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The morphology of epidermoid cysts indicate that ORS keratinocytes run through the differentiation program of epidermal keratinocytes [ 44] resulting in the formation of a perl of keratinized material.
These cysts are benign, round or oval in shape, are in contact with the skin surface via a pore, and are confined by a squamous epithelium which, through cornification, produces a perl of keratinized material [ 41].
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The alignment algorithm used was a perl implementation of the Smith-Waterman dynamic programming method of determining the optimal hybridization of a query sequence with a target sequence [ 39].
The metadata file of fully described TMA CDEs (tma_cde.htm) and a Perl implementation of the validator (validtma.pl) are attached as supplemental files with this article.
MIp data were calculated with a Perl implementation of the algorithm provided by the authors.
The source code for a PERL implementation of 'BowStrap' is available at [ http://www.bio.anl.gov/molecular_and_systems_biology/bowstrap/Bowstrap_download.html].
Availability: A perl implementation of the method, as well as the various perl and R scripts used for the analysis are available at http://bental.tau.ac.il/ConQuass/.tau.ac.il/ConQuass/
A perl implementation of the commonly used Viterbi algorithm was applied here to determine this optimal path through each minicircle sequence [ 46].
To visualise synteny blocks, we developed a set of scripts to align the conserved synteny blocks by miRNA family using a Perl implementation of the Needleman-Wunsch algorithm producing plots using PostScript.
The pipeline consists of a Perl core that integrates more than 20 individual software packages and databases, most of which are freely available from other research laboratories.
The life of a Perl interpreter divides broadly into a compile phase and a run phase.
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