LANE TRACKING SOFTWARE FOR 4-COLOR FLUORESCENCE-BASED ELECTROPHORETICGEL IMAGES

Citation
Ml. Cooper et al., LANE TRACKING SOFTWARE FOR 4-COLOR FLUORESCENCE-BASED ELECTROPHORETICGEL IMAGES, PCR methods and applications, 6(11), 1996, pp. 1110-1117
Citations number
11
Categorie Soggetti
Biothechnology & Applied Migrobiology",Biology
ISSN journal
10549803
Volume
6
Issue
11
Year of publication
1996
Pages
1110 - 1117
Database
ISI
SICI code
1054-9803(1996)6:11<1110:LTSF4F>2.0.ZU;2-5
Abstract
Software to track sample lanes automatically in four-color, fluorescen ce-based, electrophoretic gel images has been developed for applicatio n in large-scale DNA sequencing projects. Lanes and lane boundaries ar e tracked by analyzing a first difference approximation to the gradien t of a vertically integrated and processed ''brightness'' profile. Ini tially lanes are located in a region of the gel image selected for goo d horizontal lane spacing and signal strength. The software uses model s of expected lane and interlane spacing and lateral lane behavior to maintain accurate tracking on imperfect gels. In areas where intensity -based tracking is difficult, interpixel column correlation is also us ed to locate and define lane features. Summary statistics and compress ed-in-time images are generated for user evaluation of tracking perfor mance. The software developed has been tested successfully on gel imag es with degradations including significant horizontal lane motion (cur ving) and image artifacts, and is now in full-scale use in our sequenc ing projects.