Figure 1.

Genes with tissue-specific binding by LIN-35, EFL-1 and DPL-1 exhibit unique properties. (a) Single-gene examples of the typical binding profile for each tissue-specific dataset. The key for each factor and tissue is to the left of the tracks. One track is shown for each factor in sets corresponding to each tissue, with a control (input) sample for each tissue (black). Red, germline-specific promoter; blue, endogenous promoter; orange, intestine-specific promoter. (b) Graph showing the fraction of binding sites for each tissue-specific dataset not readily assignable to at least one nearby coding gene. (c) The fraction of candidate gene targets with germline-intrinsic or oogenesis-enriched expression based on [21] (about 0.105 of genes in the genome, marked by black line). Bars marked with an asterisk have significant over-representation (P < 1.8 × e-15 or lower; hypergeometric probability test). (d) The chromosomal distribution of candidate gene targets for each tissue-specific dataset. Statistically significant deviations from the expected value of 1 (marked with a black line) are indicated by an asterisk (P < 1.0e-05, Pearson's chi-square). (e) Gene Ontology analysis of candidate target genes in each tissue, with Gene Ontology category 'molecular process', and the extent of enrichment indicated by the bar. Up to ten categories, all with more than two-fold enrichment and a P-value < 0.05, are shown. Redundant categories were removed manually for each tissue. Full analysis available in Additional file 5.

Kudron et al. Genome Biology 2013 14:R5   doi:10.1186/gb-2013-14-1-r5
Download authors' original image