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BMC Genetics

, 19:13 | Cite as

Correction to: High density marker panels, SNPs prioritizing and accuracy of genomic selection

  • Ling-Yun Chang
  • Sajjad Toghiani
  • Ashley Ling
  • Sammy E. Aggrey
  • Romdhane Rekaya
Open Access
Correction
  • 418 Downloads

Correction to: BMC Genetics (2018) 19:4 DOI: 10.1186/s12863-017-0595-2

The original version of this article [1], published on 5 January 2018, contained 3 formatting errors. In this Correction the affected parts of the article are shown. The original article has been updated.

Table 1 contained a formatting error. The correct version of Table 1 is shown below and the corrected entry is marked in bold:
Table 1

Descriptive statistics of simulation schemes

Historical Population (HP)

 Number of generation

315

 Mutation rate for markers

1.0*10− 4

 Mutation rate for QTL

1.0*10 −4

Founder Population (G0)

 Number of generation

3

 Number of male

1500

 Number of female

15,000

Selection Population (G3)

 Number of chromosomes

10

 Length per chromosome (cM)

100

 Number of markers per generation

200,000 / 400,000

 Marker distribution

Evenly spaced

 Number of QTL per generation

100

 QTL distribution

Randomly distributed

 QTL effect

Sampled from gamma with shape 0.4

 Heritability

0.4

 Genetic variance

0.4

 Residual variance

0.6

0
Table 5 contained a formatting error. The correct version of Table 5 is shown below and the corrected entry is marked in bold:
Table 5

Number of selected SNPs, number of tagged QTL, percentage of genetic variance explained, and accuracies of genomic and phenotype prediction under different π values, sampling distribution for the QTL effects and density of the marker panel using BayesC method. Standard errors of accuracies are listed between parentheses

 

(1-π) =0.90

(1-π) =0.95

(1-π) =0.98

(1-π) =0.99

 

Gamma

Predefined

Gamma

Predefined

Gamma

Predefined

Gamma

Predefined

200 K marker density

# SNP

20 K

20 K

10 K

10 K

4 K

4 K

2 K

2 K

Tagged QTL3

76

97

61

96

53

94

46

91

% GV4

88.84

97.66

86.56

97.53

86.30

95.74

85.76

93.32

Acc_P5

0.453

0.451

0.467

0.459

0.484

0.477

0.496

0.493

 

(0.019)

(0.009)

(0.019)

(0.009)

(0.018)

(0.008)

(0.018)

(0.008)

Acc_G6

0.769

0.751

0.791

0.766

0.821

0.794

0.842

0.821

 

(0.017)

(0.009)

(0.018)

(0.008)

(0.018)

(0.009)

(0.018)

(0.006)

400 K marker density

# SNP

40K

40K

20 K

20 K

8 K

8 K

4 K

4 K

Tagged QTL

85

99

68

98

53

97

48

95

% GV

92.05

98.97

91.59

98.37

90.98

96.95

90.16

95.81

Acc_P

0.444

0.441

0.456

0.447

0.472

0.459

0.485

0.472

 

(0.013)

(0.017)

(0.013)

(0.017)

(0.014)

(0.017)

(0.014)

(0.018)

Acc_G

0.754

0.740

0.773

0.749

0.802

0.769

0.824

0.791

 

(0.017)

(0.011)

(0.017)

(0.011)

(0.017)

(0.012)

(0.016)

(0.012)

1QTL effects sampled from a Gamma distribution, 2 QTL effects pre-defined to explain at least 0.5% of genetic variance (GV), 3 QTL with r2 > 0.7 with at least one selected SNP, 4 GV = Genetic Variance, 5 accuracy of phenotype prediction, 6 accuracy of genomic prediction

The first equation contained formatting errors. The correct version of this equation is shown below:
$$ {F}_{ST}=\frac{H_T-{H}_S}{H_T} $$

with H T  = 2 ∗ p ∗ q, \( {H}_S=\frac{H_{S1}\ast {n}_{S1}+{H}_{S2}\ast {n}_{S2}}{n_{S1}+{n}_{S2}} \), and H Si  = 2 ∗ p Si  ∗ q Si

Reference

  1. 1.
    Chang L-Y, et al. High density marker panels, SNPs prioritizing and accuracy of genomic selection. BMC Genet. 2018;19:4.  https://doi.org/10.1186/s12863-017-0595-2.CrossRefPubMedPubMedCentralGoogle Scholar

Copyright information

© The Author(s). 2018

Open AccessThis article is distributed under the terms of the Creative Commons Attribution 4.0 International License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution, and reproduction in any medium, provided you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated.

Authors and Affiliations

  • Ling-Yun Chang
    • 1
  • Sajjad Toghiani
    • 1
  • Ashley Ling
    • 1
  • Sammy E. Aggrey
    • 2
    • 3
  • Romdhane Rekaya
    • 1
    • 3
  1. 1.Department of Animal and Dairy ScienceUniversity of GeorgiaAthensUSA
  2. 2.Department of Poultry ScienceUniversity of GeorgiaAthensUSA
  3. 3.Institute of BioinformaticsUniversity of GeorgiaAthensUSA

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