Root genomics towards digital in situ hybridization 英文参考文献.docVIP

Minireview Root genomics: towards digital in situ hybridization Ben Scheres, Henk van den Toorn and Renze Heidstra Address: Department of Molecular Cell Biology, Utrecht University, Padualaan 3, 3584 CH Utrecht, The Netherlands. Correspondence: Ben Scheres. E-mail: b.scheres@bio.uu.nl Published: 27 May 2004 Genome Biology 2004, 5:227 The electronic version of this article is the complete one and can be found online at /2004/5/6/227 ? 2004 BioMed Central Ltd Abstract Separation of cell types and developmental stages in the Arabidopsis root and subsequent expression profiling have yielded a valuable dataset that can be used to select candidate genes for detailed study and to start probing the complexities of gene regulation in plant development. Tracking developmental changes in gene Birnbaum et al. [5] have conducted a global gene-expression analysis of a more complex mix of cell types at three devel- opmental stages in the small weed Arabidopsis, and have generated a digital reconstruction of gene expression in the root - a ‘digital in situ hybridization’. expression The availability of genome-wide expression analysis tools allows one to investigate the details of transcriptional regula- tion during development. Clustering methods can be used to group genes whose expression varies in a similar way in response to developmental changes. Such clustering methods can reveal two major trends. First, they can reveal groups of genes that are co-regulated, and therefore suggest which genes function together during a given developmental process. Second, clustering methods can reveal which condi- tions resemble each other, pointing out similarities - or dis- similarities - in developmental states that might not be obvious otherwise. Two major developmental parameters for analysis by gene-expression profiling are progression in time (‘developmental stage’) and tissue, region or ce