SPEX2: automated concise extraction of spatial gene expression patterns from Fly embryo ISH images.

ABSTRACT:

Motivation

Microarray profiling of mRNA abundance is often ill suited for temporal-spatial analysis of gene expressions in multicellular organisms such as Drosophila. Recent progress in image-based genome-scale profiling of whole-body mRNA patterns via in situ hybridization (ISH) calls for development of accurate and automatic image analysis systems to facilitate efficient mining of complex temporal-spatial mRNA patterns, which will be essential for functional genomics and network inference in higher organisms.

Results

We present SPEX(2), an automatic system for embryonic ISH image processing, which can extract, transform, compare, classify and cluster spatial gene expression patterns in Drosophila embryos. Our pipeline for gene expression pattern extraction outputs the prec

SUBMITTER: Puniyani K 

PROVIDER: S-EPMC2881357 | biostudies-literature | 2010 Jun

REPOSITORIES: biostudies-literature