QTLdb: entrichment tests

Release 59
(Apr 20, 2026)

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 milk production & yield traits:	6
Number of QTL / associations found:	9,791
Number of chromosomes where QTL / associations are found:	30

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

Chromosomes	Total χ²	df	p-values	FDR ^*	Size of χ²
Chromosome X	1383.91098	29	2.976327e-273	2.976327e-272
Chromosome 1	821.33142	29	3.830491e-154	1.044679e-153
Chromosome 2	571.84518	29	4.387435e-102	8.226441e-102
Chromosome 3	341.87070	29	3.792975e-55	6.321625e-55
Chromosome 4	1115.85906	29	2.631816e-216	1.579090e-215
Chromosome 5	3585.66030	29	9e-41	1.173913e-40
Chromosome 6	1878.23352	29	9e-41	1.173913e-40
Chromosome 7	1.07118	29	0.998329325823115	9.983293e-01
Chromosome 8	578.34828	29	1.977601e-103	3.955202e-103
Chromosome 9	659.25360	29	3.110563e-120	7.776408e-120
Chromosome 10	50.41446	29	0.008146114	9.051238e-03
Chromosome 11	0.35052	29	0.998329325823115	9.983293e-01
Chromosome 12	1414.34052	29	9.847441e-280	1.477116e-278
Chromosome 13	455.27202	29	4.21354e-78	7.435659e-78
Chromosome 14	140514.30336	29	9e-41	1.173913e-40
Chromosome 15	43.00686	29	0.04546224	4.870954e-02
Chromosome 16	170.72580	29	5.125023e-22	6.150028e-22
Chromosome 17	900.88614	29	7.06181e-171	2.353937e-170
Chromosome 18	652.30926	29	8.687472e-119	2.004801e-118
Chromosome 19	156.84690	29	1.711533e-19	1.974846e-19
Chromosome 20	20447.88726	29	9e-41	1.173913e-40
Chromosome 21	942.04230	29	1.490366e-179	5.588872e-179
Chromosome 22	1227.20868	29	6.276141e-240	4.707106e-239
Chromosome 23	185.19294	29	1.093828e-24	1.367285e-24
Chromosome 24	1658.62776	29	9e-41	1.173913e-40
Chromosome 25	1053.35022	29	4.534414e-203	1.943320e-202
Chromosome 26	611.41542	29	2.757679e-110	5.909312e-110
Chromosome 27	1414.34052	29	9.847441e-280	1.477116e-278
Chromosome 28	1053.35022	29	4.534414e-203	1.943320e-202
Chromosome 29	844.81176	29	4.460831e-159	1.338249e-158

Chi-squared (χ²) test: Which of the 6 milk production & yield traits are over-represented in the QTLdb

Traits	Total χ²	df	p-values	FDR ^*	Size of χ²
Dry period length	73.48321	5	1.927664e-14	1.927664e-14
Lactation length	162.3806	5	3.076943e-33	4.615415e-33
Lactation persistency	348.41086	5	3.847986e-73	1.154396e-72
Milk profitability index	86.6542	5	3.386333e-17	4.063600e-17
Milk yield	352.95276	5	4.049131e-74	2.429479e-73
Milking speed	2527.55599	5	9e-41	1.800000e-40

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	=	184734.067140
Number of traits:	6	df	=	145
Number of QTLs:	9,791	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.