Software for quantitation and visualization of expression array data.
Software is described that facilitates the analysis of phosphoimages from large array hybridizations. The Macintosh PowerPC-compatible application and its manual are available at no charge from http:¿people.bu.edu/strehlow. The software is compatible with both custom formats and array filters from three commercial manufacturers. It allows the rapid quantitation of every spot on images of hybridizations to large arrays. The user drags grids of squares over the spots on the image to define the coordinates of each spot, then aligns and edits the position of the grid. The software then corrects the positions as necessary and quantitates up to 27,000 spots per image. It stores the numerical values for each signal in a format called the fingerprint file. Fingerprint files can be directly averaged or compared, allowing the user to find mean values or differences in data from independent hybridization experiments. Data can be recalled from the fingerprint file and can be output in a variety of spreadsheet formats with several options for background correction. Finally, the software offers an output format that allows the convenient visualization of data points using animated, three-dimensional graphs.
Strehlow
D
D
Department of Medicine, Boston University Medical Center, MA 02118, USA. strehlow@bu.edu
D001483:Base Sequence; D003196:Computer Graphics; D016172:DNA Fingerprinting; D018076:DNA, Complementary / Q000737:chemistry; D015870:Gene Expression; D007091:Image Processing, Computer-Assisted; D009693:Nucleic Acid Hybridization; D012984:Software
D018076:DNA, Complementary