BMC Genomics

Table 3 Model comparisons between the proposed and existing methods to classify inbreeding into new and old classes using pedigree and genomic (ROH segments) information

From: Grid search approach to discriminate between old and recent inbreeding using phenotypic, pedigree and genomic information

Trait^a	Inbreeding^b		Criterion^c
Trait^a	Inbreeding^b		Adj.R2	RMSE	AIC	BIC
*Using Pedigree information*
BW	Existing	Kalinowski	0.1561	4.1822	4294.78	4433.10
		P_5L	0.1553	4.1841	4295.45	4433.78
	Proposed	P_10P	0.1580	4.1776	4293.12	4431.44
WW	Existing	Kalinowski	0.5418	22.6225	6741.76	6884.40
		P_5L	0.5402	22.6625	6744.36	6887.00
	Proposed	P_10P	0.5436	22.5781	6738.87	6881.51
YW	Existing	Kalinowski	0.8448	31.3207	6744.06	6884.56
		P_5L	0.8441	31.3937	6747.26	6887.76
	Proposed	P_10P	0.8449	31.3088	6743.54	6884.04
ADG	Existing	Kalinowski	0.8427	0.1366	− 726.03	− 590.06
		P_5L	0.8437	0.1361	− 730.21	− 594.24
	Proposed	P_11P	0.8441	0.1359	− 732.16	− 596.19
*Using Genomic information*
BW	Existing	ROH_Mclust	0.15583	4.1829	4295.01	4433.34
		ROH_5L	0.15566	4.1833	4295.16	4433.48
	Proposed	ROH_9P	0.15588	4.1828	4294.97	4433.29
WW	Existing	ROH_Mclust	0.53964	22.6759	6745.23	6887.87
		ROH_5L	0.53946	22.6802	6745.52	6888.15
	Proposed	ROH_13P	0.53962	22.6762	6745.25	6887.89
YW	Existing	ROH_Mclust	0.84299	31.5019	6751.99	6892.49
		ROH_5L	0.84304	31.4976	6751.80	6892.30
	Proposed	ROH_7P	0.84299	31.5025	6752.01	6892.52
ADG	Existing	ROH_Mclust	0.84202	0.1369	−723.05	− 587.08
		ROH_5L	0.84205	0.1368	−723.15	−587.18
	Proposed	ROH_7P	0.84211	0.1368	−723.43	−587.46

^aBW birth weight (kg), WW weaning weight (kg), YW yearling weight (kg), ADG average daily gain (kg/d)
^bKalinowski classification of inbreeding based on Kalinowski et al. (2000), P_5L classification of inbreeding based on 5 generations according to literature, P_10P and P_11P classification of inbreeding based on 10 and 11 generations, respectively, as determined by the proposed method, ROH_Mclust classification of inbreeding based on model-based clustering method, ROH_5L classification of inbreeding based on 5 Mb according to literature, ROH_7P ROH_9P, and ROH_13P classification of inbreeding based on 7, 9, and 13 Mb, respectively, as determined by the proposed method
^cAdj.R2 Adjusted R-squared, RMSE Root Mean Squared Error, AIC Akaike’s Information Criteria, BIC Bayesian information criteria

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ISSN: 1471-2164

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