Visualization of results from genomic evaluations

Chromosomal PTA of lifetime net merit for the bull O-Bee Manfred Justice-ET (7HO6417). Color version available in the online PDF.

A web report showing the top 10 active AI and foreign bulls with semen distributed in the United States that are in or above the 80th percentile based on lifetime net merit (NM$) that includes sparklines showing chromosomal PTA. DPR=daughter pregnancy rate; PL=productive life. Color version available in the online PDF.

Phenotypic trend for stillbirths (SB) in primiparous heifers (dotted line), cows (broken line), and all animals (solid line) for calvings between 1980 and 2005.

Chromosomal PTA of lifetime net merit for the cow Badger-Bluff Flo Fanny-TW (HOUSA000051854015). Color version available in the online PDF.

Chromosomal PTA of lifetime net merit for the bull Badger-Bluff Fanny Freddie (001HO08784). Color version available in the online PDF.

Chromosomal PTA of lifetime net merit for the bull Co-Op O-Style Oman Just-ET (001HO09167). Color version available in the online PDF.

Chromosomal PTA of lifetime net merit for a hypothetical animal whose genotype consists of the best chromosomes in the current US Holstein population. The sum of the individual chromosome effects is $3,148.

Sparklines showing the chromosomal PTA of lifetime net merit for the 30 animals in the US Holstein population with the best individual chromosomes. The best chromosome is indicated in black, and chromosome number increases across a row; the top left animal has the best chromosome 1; the animal in the bottom right has the best X chromosome.

Three-generation pedigree for the bull Co-Op O-Style Oman Just-ET (001HO09167); all of the animals in the pedigree have been genotyped.

Colormaps showing coefficients of relationship (off-diagonals) and inbreeding (diagonals) for the bull Co-Op O-Style Oman Just-ET (001HO09167), his parents, and grandparents. Relationships were calculated assuming that all grandparents were unrelated (Expected), using the US pedigree file (Pedigree), and using single nucleotide polymorphism data (Genomic). Differences between the pedigree and genomic values also were visualized (Genomic – Pedigree). Color version available in the online PDF.

Genomic coefficients of relationship and inbreeding for a group of 204 genotyped Holstein cows and bulls. There is a block of largely unrelated cows in the upper left corner of the matrix. Several blocks representing full- and half-sib families, including the bull Badger-Bluff Fanny Freddie (001HO08784) and many of his ancestors, can be seen in the lower right portion of the matrix. Color version available in the online PDF.

The distribution of SNP effects for sire calving ease (Sire_Calv_Ease) in Holstein cattle from the August 2009 genomic evaluation. Marker effects are expressed in additive genetic standard deviations, and the marker on BTA 18 associated with dystocia and conformation (Cole et al., 2009) can clearly be seen. Color version available in the online PDF.