Supplemental Data for:

 

Jiang, M., Ryu, J., Kiraly, M., Duke, K., Reinke V., and Kim, S. K. Genome-wide analysis of developmental and sex-regulated gene expression profiles in C. elegans. PNAS 98, 218-223, 2001.

Departments of Developmental Biology and Genetics, Stanford University Medical Center, Stanford CA 94305

 

Abstract

We have constructed DNA microarrays containing 17,871 genes, representing about 94% of the 18,967 genes currently annotated in the C. elegans genome. These DNA microarrays can be used as a tool to define a nearly complete molecular profile of gene expression levels associated with different developmental stages, growth conditions, or different worm strains. Here, we used these full genome DNA microarrays to show the relative levels of gene expression for nearly every gene during development, from eggs through adulthood. These expression data can help reveal when a gene may act during development. We also compared gene expression in males to that of hermaphrodites, and found a total of 2171 sex-regulated genes (P<.05). The sex-regulated genes provide a global view of the differences between the sexes at a molecular level, and identify many novel genes likely to be involved in sex-specific differentiation and behavior.

 

 

 F43D2.1 Cyclin

1. egg; 2. L1 stage; 3. L2 stage; 4. L3 stage;

5. L4 stage; 6. Adult; 7. male versus hermaphrodite.

 

Look up the expression pattern of one gene.

 

To look up the expression of many genes or to cluster groups of genes, go to the Stanford Stanford Microarray Database. Click on 'public search' to browse the raw data. Then select C. elegans for the organism to find only the C. elegans data. There are 20 entries from the developmental time course, 4 entries from the male/hermaphrodite comparison, and 7 entries that contain the average expression ratios from each of the experiments.

Download the gene expression data from the paper. This is a tab-delimited text file containing the data for the average levels of expression from the paper. To use this data, open the link, save the file as a text file on your computer, and then open the text file as tab-delimited in Excel.

Data for the self-organizing map (Figure 1). Here are 25 tables that describe the specific genes contained in each of the nodes in the self-organizing map.

Table showing putative transcription factor genes that are differentially expressed in males versus hermaphrodites.

Table showing putative neuronal genes that are differentially expressed in males versus hermaphrodites.

 

Experimental Procedures