Supplement to Hager et al., 2008

Supplemental Material and Table

Files in this Data Supplement:

• Supplemental Table - "The table contains additional information about the significant maternal effect QTL. Listed are the maternal effect QTL name, the SNP marker name at the QTL location along with its F2 map position in Haldane's cM and its physical coordinate (bp) in mouse genome build 36 (www.ensemble.org). The apparent direct effects of the QTL are listed for all traits with significant effects. These are given as the additive (ao), dominance (do) and parent-of-origin (io) genotypic values, their standard errors (SE) and significance (p) value. These direct effects are used to illustrate the apparent pattern of imprinting at a locus caused by maternal effects and do not, therefore, reflect the functional origin of the effects (i.e. a significant i effect indicates a significant parent-of-origin-dependent effect caused by a maternal effect and not genomic imprinting). Under the heading ‘significance testing’ are listed the LPR of the locus (testing just the parent-of-origin effect, i) and the LPR significance threshold (for the parent-of-origin effect, i). Under the heading ‘maternal effect testing’ are listed the (io) obtained in an analysis of offspring born of heterozygous mothers (see Methods), their standard errors and p values. These are followed by the maternal effect value (am), the same parameter divided by the trait standard deviation, the standard errors and p values. The maternal dominance value with standard errors and p values follow. Next are listed the ratios used for characterization of the maternal effect pattern. These begin with the ao/io ratio, followed by do/io and io divided by the standard deviation of the trait. Next are the standard deviation of the trait, the R2 of the maternal effect locus in percent and the pattern of the locus in bold (abbreviations follow those given in Table 3). Finally, the genotypic values for the four ordered genotypes LL, SS, LL, SS along with their standard errors (SE) and sample sizes (n) are given."
• Marker Positions - "Listed are the 353 markers used in the study. The table includes the chromosome (Chr), SNP marker name (Marker), F2 map position in Haldane’s cM [Map Pos (cM)] and their physical position (genome coordinate) based on mouse genome build 36 (ensemble.org) [Phy Pos (bp)]."