GenoGraphics for OpenWindows{trademark}

Abstract

GenoGraphics is a generic utility for constructing and querying one.dimensional linear plots. The outgrowth of a request from Dr. Cassandra Smith for a tool to facilitate her genome mapping research. OenoGraphics development has benefitted fw a continued ct_llaborationwith. bcr. Written in StmMicrosystems's OpenWindmvs'_ environment and tl'_eBTOL" toolkit developed at Argonne National Labt_ato_,, OenoOraphics prtwides an interactive, intuitive, graphical interface. Its features include • viewing multiple maps simultaneously, • zooming, and • querying by mouse clicking, By expediting plot generation, Gent_raphics gives the scientist more time to analyze data and a novel means for deducing conclusions.

Status of the transcription factors database (TFD)

“…This change would permit improved searches on the sites.trnunit field, and allow easier generation of maps of previously reported, experimentally determined, binding sites for a given promoter or transcription unit. In this regard, there now exist tools developed in the Prolog environment, which permit the display and analysis of patterns of computationally determined binding sites on a given genome sequence, based on the previously described PC-Genographics interface (3,4).…”

Artificial intelligence in molecular biology: a review and assessment

“…The most active users of Prolog are principally the knowledge-based systems development community (e.g. Clark et al 1990;Hagstrom et al 1992) but Prolog is also the language of choice for genetic grammar and linguistics research (Searls 1993) where the close relationship between definite clause grammars and Prolog is a clear advantage.…”

“…. The Argonne laboratories have also put considerable effort into using logic programming techniques in developing integrated knowledge bases to support research in human (Hagstrom et al 1992) and E. coli genetics (Baehr et al 1992). A number of studies have looked at the combination of logic programming with frame and object-based data representations.…”

Artificial intellugence and knowledge based systems in molecular biology

“…. The Argonne laboratories have put considerable effort into using logic programming techniques in developing integrated knowledge bases to support research in human (Hagstrom et al, 1992) and bacterial genetics (Baehr et al, 1992). A number of studies have also looked at the combination of logic programming with frame and object-based data representations.…”