QTLdb: entrichment tests

Release 58
(Dec 29, 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 milk production & yield traits:	6
Number of QTL / associations found:	9,657
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	1502.31522	29	1.750501e-298	5.251503e-297
Chromosome 1	805.63674	29	7.559241e-151	2.061611e-150
Chromosome 2	550.78488	29	9.913154e-98	1.858716e-97
Chromosome 3	334.18842	29	1.302446e-53	2.170743e-53
Chromosome 4	1090.69170	29	5.646468e-211	3.387881e-210
Chromosome 5	3336.69354	29	9e-41	1.173913e-40
Chromosome 6	1780.85388	29	9e-41	1.173913e-40
Chromosome 7	1.90140	29	0.998329325823115	9.983293e-01
Chromosome 8	563.67588	29	2.148323e-100	4.296646e-100
Chromosome 9	644.15304	29	4.329717e-117	1.082429e-116
Chromosome 10	42.76626	29	0.04784214	5.315793e-02
Chromosome 11	0.06726	29	0.998329325823115	9.983293e-01
Chromosome 12	1398.34500	29	2.512566e-276	2.512566e-275
Chromosome 13	435.75786	29	4.040744e-74	7.130725e-74
Chromosome 14	138317.25648	29	9e-41	1.173913e-40
Chromosome 15	37.57710	29	0.1320314	1.414622e-01
Chromosome 16	157.42050	29	1.348697e-19	1.556189e-19
Chromosome 17	876.89862	29	7.941056e-166	2.647019e-165
Chromosome 18	630.36738	29	3.188258e-114	7.357518e-114
Chromosome 19	157.42050	29	1.348697e-19	1.556189e-19
Chromosome 20	20553.77466	29	9e-41	1.173913e-40
Chromosome 21	926.08404	29	3.456487e-176	1.296183e-175
Chromosome 22	1220.59290	29	1.594599e-238	1.195949e-237
Chromosome 23	175.01604	29	8.349505e-23	1.043688e-22
Chromosome 24	1632.00018	29	9e-41	1.173913e-40
Chromosome 25	1037.25648	29	1.15117e-199	4.933586e-199
Chromosome 26	589.90512	29	7.983458e-106	1.710741e-105
Chromosome 27	1418.84082	29	1.083165e-280	1.624747e-279
Chromosome 28	1037.25648	29	1.15117e-199	4.933586e-199
Chromosome 29	852.80916	29	9.287726e-161	2.786318e-160

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	73.58318	5	1.837321e-14	1.837321e-14
Lactation length	163.22447	5	2.033344e-33	3.050016e-33
Lactation persistency	349.49021	5	2.253508e-73	6.760524e-73
Milk profitability index	85.96926	5	4.714234e-17	5.657081e-17
Milk yield	353.88916	5	2.545314e-74	1.527188e-73
Milking speed	2496.27558	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	=	182108.307540
Number of traits:	6	df	=	145
Number of QTLs:	9,657	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.