Data from: Estimation of pool construction and technical error

<p>Animals were incorporated into pools in different proportions to estimate error and evaluate factors influencing error.  Animals were incorporated into 2 types of pools, sub-pools and super pools.  Within phenotype, liver abscess or normal, 16 animals were combined into 4 sub-pools, 4 animals per sub-pool in parts of 1:2:3:4.  Sub-pools were constructed based on crushed frozen liver tissue mass.  Within phenotype, 4 sub-pools were incorporated into 2 super pools in parts of 1:2:3:4 for super pool 1 and 3:4:1:2 for super pool 2.  Super pools were made based on DNA quantity.  Errors in DNA quantification would create error in forming super pools from sub-pools and variation in cell content or DNA content of liver tissue would result in error in combining sub-pools from animals.</p>
<p>Animal contributions to sub-pools for livers with abscess
sub-pool 1A was 1:2:3:4 parts of 15A, 36A, 35A, and  23A.
sub-pool 2A was 1:2:3:4 parts of 42A, 37A, 12A, and  22A.
sub-pool 3A was 1:2:3:4 parts of 17A, 1A,  49A, and 48A .
sub-pool 4A was 1:2:3:4 parts of 3A,  20A, 16A, and 13A.
Each part was 0.1 g of pulverized frozen liver tissue.
Animal contributions to livers without abscess
sub-pool 1N was 1:2:3:4 parts of 46N, 23N, 17N, and 12N.
sub-pool 2N was 1:2:3:4 parts of 1N, 31N, 6N, and 48N.
sub-pool 3N was 1:2:3:4 parts of  36N, 43N, 32N, and 13N.
sub-pool 4N was 1:2:3:4 parts of  34N, 19N, 41N, and 50N.
Sub-pool contributions to super pools for livers with abscess
super pool 1A was:1:2:3:4 parts sub-pool 1A, sub-pool 2A, sub-pool 3A, and sub-pool 4A.
super pool 2A was 3:4:1:2 parts sub-pool 1A, sub-pool 2A, sub-pool 3A, and sub-pool 4A.
Sub-pool contributions to super pools for livers with without abscess
super pool 1N was:1:2:3:4 parts sub-pool 1N, sub-pool 2N, sub-pool 3N, and sub-pool 4N.
super pool 2N was 3:4:1:2 parts sub-pool 1N, sub-pool 2N, sub-pool 3N, and sub-pool 4N.</p>
<p>Funded by the USDA Agricultural Research Service, Developing a Systems Biology Approach to Enhance Efficiency and Sustainability of Beef and Lamb Production/ 3040-31000-100-000-D </p><div><br>Resources in this dataset:</div><br><ul><li><p>Resource Title: xy data for individual animals.</p> <p>File Name: xyIndividuals.csv.gz</p><p>Resource Description: X (red) and Y (green) intensity data for 32 animals.  There are 64 columns, an X and Y column for each animal</p></li><br><li><p>Resource Title: Genotypes, Number of copies of B allele for BovineHD 770K.</p> <p>File Name: g.csv.gz</p><p>Resource Description: Values are 0, 1 and 2 for 32 animals and 777,962 SNP, DNA was extracted from pulverized frozen liver tissue</p></li><br><li><p>Resource Title: x and y data for pools.</p> <p>File Name: xyPools.csv.gz</p><p>Resource Description: X (red) and Y (green) intensity for 12 pools.  There are 2 columns per pool, first is X followed by Y.  First 8 columns are super pools and second 16 are sub-pools.
Examples
superPool.1A.X is superPool 1 for abscess livers and X intensity
sub-pool.1A.Y is sub-pools 1 for abscess livers and Y intensity
</p></li></ul><p></p>

Tags: ars, breeding-value-prediction, data-gov, dna-pooling, genome-selection, liver-abscess, np101
Organization: Department of Agriculture