Technical note: Efficient parentage assignment and pedigree reconstruction with dense single nucleotide polymorphism data

Hayes, B. J. (2011) Technical note: Efficient parentage assignment and pedigree reconstruction with dense single nucleotide polymorphism data. Journal of Dairy Science, 94 4: 2114-2117. doi:10.3168/jds.2010-3896


Author Hayes, B. J.
Title Technical note: Efficient parentage assignment and pedigree reconstruction with dense single nucleotide polymorphism data
Journal name Journal of Dairy Science   Check publisher's open access policy
ISSN 0022-0302
1525-3198
Publication date 2011-04
Year available 2011
Sub-type Letter to editor, brief commentary or brief communication
DOI 10.3168/jds.2010-3896
Open Access Status Not yet assessed
Volume 94
Issue 4
Start page 2114
End page 2117
Total pages 4
Place of publication New York, NY, United States
Publisher Elsevier
Language eng
Abstract Large numbers of dairy cattle are now routinely genotyped for dense single nucleotide polymorphism (SNP) arrays for the purpose of predicting genomic estimated breeding values. Such SNP arrays contain very good information for parentage assignment and pedigree reconstruction. The main challenge in using this information for parentage assignment and pedigree reconstruction is development of computationally efficient strategies that enable a candidate animal to be assigned its sire and dam with the large volume of data. Here we describe an efficient algorithm for parentage assignment with SNP data and demonstrate very accurate assignment with 50,000-SNP and 3,000-SNP panels. The computer code implementing the algorithm is given in the Appendix.
Keyword Efficient
Parentage
Single nucleotide polymorphism
Q-Index Code CX
Q-Index Status Provisional Code
Institutional Status Non-UQ

Document type: Journal Article
Sub-type: Letter to editor, brief commentary or brief communication
Collection: School of Agriculture and Food Sciences
 
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