QTLdb: entrichment tests

Release 56
(Apr 24, 2025)

Whole genome analysis for QTL/association enrichment

Running...

Version: Enrich S: beta v0.8

Search:	to limit the list of your trait choices:
	(optional) focus on chromosome with Mb windows across its length

Data:

Number of lifetime production traits:	3
Number of QTL / associations found:	2,311
Number of chromosomes where QTL / associations are found:	30

Chi-squared (χ²) test: are lifetime production traits over-represented on some chromosomes?

Chromosomes	Total χ²	df	p-values	FDR ^*	Size of χ²
Chromosome X	0.98664	29	0.998329325823115	9.998913e-01
Chromosome 1	3.92043	29	0.998329325823115	9.998913e-01
Chromosome 2	22.49421	29	0.7991645	9.989556e-01
Chromosome 3	8.80143	29	0.9998913	9.998913e-01
Chromosome 4	101.42628	29	5.777058e-10	1.444264e-09
Chromosome 5	68.58852	29	4.718263e-05	8.326346e-05
Chromosome 6	479.54310	29	4.543536e-83	1.363061e-81
Chromosome 7	190.64478	29	1.054745e-25	7.910588e-25
Chromosome 8	135.71790	29	9.70291e-16	3.234303e-15
Chromosome 9	42.49593	29	0.05064505	7.235007e-02
Chromosome 10	89.85207	29	3.836202e-08	8.220433e-08
Chromosome 11	126.67767	29	3.574625e-14	1.072387e-13
Chromosome 12	53.41068	29	0.003779332	5.668998e-03
Chromosome 13	22.49421	29	0.7991645	9.989556e-01
Chromosome 14	242.84556	29	1.236049e-35	1.236049e-34
Chromosome 15	78.97884	29	1.632695e-06	3.061303e-06
Chromosome 16	56.33409	29	0.00172534	2.724221e-03
Chromosome 17	20.66124	29	0.8711897	9.998913e-01
Chromosome 18	14872.11255	29	9e-41	1.350000e-39
Chromosome 19	82.52535	29	4.91629e-07	9.832580e-07
Chromosome 20	12.57123	29	0.9965561	9.998913e-01
Chromosome 21	0.15063	29	0.998329325823115	9.998913e-01
Chromosome 22	101.42628	29	5.777058e-10	1.444264e-09
Chromosome 23	62.41458	29	0.0003064071	5.106785e-04
Chromosome 24	149.86245	29	3.069331e-18	1.150999e-17
Chromosome 25	159.68157	29	5.263983e-20	2.631992e-19
Chromosome 26	35.12769	29	0.2003774	2.732419e-01
Chromosome 27	169.81224	29	7.534266e-22	4.520560e-21
Chromosome 28	154.73307	29	4.111844e-19	1.762219e-18
Chromosome 29	89.85207	29	3.836202e-08	8.220433e-08

Chi-squared (χ²) test: Which of the 3 lifetime production traits are over-represented in the QTLdb

Traits	Total χ²	df	p-values	FDR ^*	Size of χ²
Length of productive life	10.02474	2	0.006655112	6.655112e-03
Lifetime profit index	403.67107	2	2.207704e-88	6.623112e-88
Veterinary treatments	73.65194	2	1.015511e-16	1.523267e-16

Correlations found between some of these traits for your reference

No correlation data found on these traits

Overall Test

Data		Chi'Square Test			Fisher's Exact Test
Number of chrom.:	30	χ²	=	17636.143290
Number of traits:	3	df	=	58
Number of QTLs:	2,311	p-value	=	0

FOOT NOTE: * : FDR is short for "false discovery rate", representing the expected proportion of type I errors. A type I error is where you incorrectly reject the null hypothesis, i.e. you get a false positive. It's statistical definition is FDR = E(V/R | R > 0) P(R > 0), where V = Number of Type I errors (false positives); R = Number of rejected hypotheses. Benjamini–Hochberg procedure is a practical way to estimate FDR.