BMC Research Notes

Table 1 Detailed output generated by postQTL for a population of 100 F₂ individuals (population #2)

From: postQTL: a QTL mapping R workflow to improve the accuracy of true positive loci identification

Chromosome no	Simulated QTL	postQTL						Note
		Mapping		Model search	Regression coefficients		Marker prediction
		Identified QTL	Markers	Model search	LASSO	MCP	Marker prediction
1	Q1 (1.0)^a	Q1	SL4.0ch01.2197362		− 0.12	0.00
			SL4.0ch01.2487844		0.34	0.00
			SL4.0ch01.2691495	SL4.0ch01.2691495	0.81	1.01	SL4.0ch01.2691495
							SL4.0ch01.40326692
2	None	Q2	SL4.0ch02.429499		− 0.10	− 0.10		False positive
			SL4.0ch02.13770617		0.14	0
			SL4.0ch02.14095766	SL4.0ch02.14095766	0.03	0.20
							SL4.0ch02.8249371
							SL4.0ch02.8542361
3	None	Q3	SL4.0ch03.3639459	none	0.00	0.00		False positive
							SL4.0ch03.11275781
							SL4.0ch03.14433259
4	None	Q4	SL4.0ch04.18671677	SL4.0ch04.18671677	− 0.37	0.00		False positive
			SL4.0ch04.17073658		0.68	0.34
							SL4.0ch04.41538629
							SL4.0ch04.43011116
5	Q5 (0.5)	Q5	SL4.0ch05.796224	SL4.0ch05.796224	0.16	0.20
			SL4.0ch05.2349396	SL4.0ch05.2349396	− 4.00	− 0.42
							SL4.0ch05.3014277
							SL4.0ch05.4441924
6	None	None	None	n/a			SL4.0ch06.39779625
							SL4.0ch06.40466450
7	Q7 (0.2)	Q7	SL4.0ch07.2934431	SL4.0ch07.2934431	− 0.20	− 0.20
			SL4.0ch07.1720405		− 0.10	0.00
							SL4.0ch07.4104019
							SL4.0ch07.7244193
8	None	None	None	n/a			SL4.0ch08.15907452
							SL4.0ch08.16388051
9	None	None	None	n/a			SL4.0ch09.10567972
							SL4.0ch09.12706265
10	None	None	None	n/a			SL4.0ch10.22453627
							SL4.0ch10.53911516
11	None	None	None	n/a			SL4.0ch11.36161726
							SL4.0ch11.45414687
12	Q12 (0.2)	Q12	SL4.0ch12.7161	SL4.0ch12.7161	0.37	0.33	SL4.0ch12.7161
			SL4.0ch12.3165252	SL4.0ch12.3165252	− 0.29	− 0.28
							SL4.0ch12.49390591

n/a: Not available
^aGenetic effect

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ISSN: 1756-0500

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