Heterologous probe binding of Caenorhabditis briggsae. A) Quantile-normalized C. briggsae probe intensity (relative to C. elegans N2) as a function of probe similarity (nucleotide matches out of 25 from all probes of the 49 candidate genes with one putative ortholog). B) Accumulation of false (<22), true (25), and semi-true (>23, >24) positive probe matches at threshold ratios below 1.3 from previous panel (Figure 6A). Note that no threshold ratio is available to distinguish a greater number of semi-true positive (>23 nt) than false (<22) matches. C) and D) As in A) and B), but for alternative normalized and centered probe signal intensities proposed here. Red lines in B and D represent the ratio of mismatch probes (<25 nt) to perfect match probes (= 25 nt).
Darby et al. BMC Bioinformatics 2011 12:183 doi:10.1186/1471-2105-12-183