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© Oxford University Press

PERFILS: a program for the quantitative treatment of footprinting data

Xavier Salas 1 and José Portugal 2

Departamento de Biologia Molecular y Celular, Centro de lnvestigación y Desarrollo-CS1C J. Girona-Salgado 18-26, 08034 Barcelona, Spain

2To whom correspondence should be addressed

PERFILS, a computer program written in Borland TurboPascal, performs quantitative analysis of footprinting experiments using any IBM PC or compatible microcomputer. The program uses the height of the bands obtained from densitometric scanning of footprinting autoradiographs to calculate a differential cleavage plot. Such a plot displays, on a logarithmic scale, the difference of susceptibility of a DNA fragment to DNase I, or any other cleaving agent, in the presence of any ligand versus the sequence. PERFILS calculates the fractional cleavage values for control and ligand, giving a table of values for each internucleotidic bond and rendering the differential cleavage plot in only a few seconds.

Received on November 1, 1992; accepted on February 9, 1993

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