Research
Whole genome sequencing of a single Bos taurus animal for single nucleotide polymorphism discovery
- † Equal contributors
1 Institute of Human Genetics, Helmholtz Zentrum München, German Research Center for Environmental Health, Ingolstädter Landstr., 85764 Neuherberg, Germany
2 Lehrstuhl für Tierzucht, Technische Universität München, Hochfeldweg, 85354 Freising-Weihenstephan, Germany
3 Institute of Human Genetics, Klinikum rechts der Isar, Technische Universität München, Trogerstr., 81675 München, Germany
Genome Biology 2009, 10:R82 doi:10.1186/gb-2009-10-8-r82
Published: 6 August 2009Additional files
Additional data file 1:
Number of homo- and heterozygous SNPs depending on different read depth.
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Additional data file 2:
Empirical cumulative distribution of read depth of the SNPs selected for MALDI-TOF genotyping in comparison to the entire SNP set.
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Additional data file 3:
Testing of Hardy-Weinberg equilibrium was performed with Pearson's goodness-of-fit chi-square test with one degree of freedom.
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Additional data file 4:
Calls by MAQ were checked by MALDI-TOF spectroscopy and capillary sequencing.
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Additional data file 5:
Part of the false-positive calls are obviously located in regions with higher than average read depth, suggesting duplications. Read depth in approximately unique regions was calculated for non-overlapping windows of 500 bp by the MAQ software. SNP calls are indicated by grey vertical lines. The identifier of the SNP is indicated in the figure legend.
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