Table 6.
Candidate genes by principal component
| Diet, Sex, PCA Factor | Chr; Location (Mb) | LRS Score | Candidate Gene | Gene Expression Profile Showing cis Regulation | Gene Expression Profile of Correlation with the Factor | Correlation (r) |
|---|---|---|---|---|---|---|
| Adequate Fe, Males, PCA factor 1 | 4 (77.85) | 7.56 | Ptprda | UNC Agilent G4121A Liver LOWESS Stanford (Jan06) Both Sexes, IoP Affy MOE 430v2 Spleen (May09) RMA | Iop Affy MOE 430v2 Spleen (May09) RMA | −0.626 |
| Adequate Fe, Males, PCA factor 2 | 10 (117.58) | 11.94 | Mdmlb | IoP Affy MOE 430v2 Spleen (May09) RMA | UMCG Progenitor Cells ILM6v1.1 (Apr09) transformed | −0.613 |
| Adequate Fe, Females, PCA factor 3 | 7 (97.28) | 15.07 | Picalma | UNC Agilent G4121A Liver LOWESS Stanford (Jan06) Both Sexes, IoP Affy MOE 430v2 Spleen (May09) RMA | IoP Affy MOE 430v2 Spleen (May09) RMA | −0.66 |
| 18 (42.67) | 11.80 | Tcerglb | IoP Affy MOE 430v2 Spleen (May09) RMA | IoP Affy MOE 430v2 Spleen (May09) RMA | 0.694 | |
| Deficient Fe, Females, PCA factor 2 | 15 (9.04) | 13.46 | Skp2b | IoP Affy MOE 430v2 Spleen (May09) RMA | UMCG Stem Cells ILM6v1.1 (Apr09) original | −0.584 |
| 19 (34.56) | 12.22 | Liplb | IoP Affy MOE 430v2 Spleen (May09) RMA | UNC Agilent G4121A Liver LOWESS Stanford (Jan06) Females | 0.587 | |
| Deficient Fe, Females, PCA factor 3 | 2 (80.25) | 10.33 | Frzbb | IoP Affy MOE 430v2 Spleen (May09) RMA | UTK Spleen ILM6.1 (Jan10) VST | 0.642 |
Initial gene mapping for each iron-related principal component was performed using WebQTL (www.genenetwork.org). Suggestive or significant QTL were examined for the genes contained within or near the genomic area. Those genes that were self (or cis) regulated and whose expression was correlated with the PCA were considered candidates.
a
Significant cis regulation.
b
Suggestive cis regulation.