QTLdb: entrichment tests

Release 57
(Aug 26, 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 general reproduction parameters traits:	11
Number of QTL / associations found:	10,967
Number of chromosomes where QTL / associations are found:	31

Chi-squared (χ²) test: are general reproduction parameters traits over-represented on some chromosomes?

Chromosomes	Total χ²	df	p-values	FDR ^*	Size of χ²
Chromosome X	2826424.58736	30	9e-41	9.300000e-41
Chromosome 1	3631.99353	30	9e-41	9.300000e-41
Chromosome 2	3401.96450	30	9e-41	9.300000e-41
Chromosome 3	3505.59033	30	9e-41	9.300000e-41
Chromosome 4	3653.27842	30	9e-41	9.300000e-41
Chromosome 5	906.79897	30	2.264757e-171	7.020747e-170
Chromosome 6	2945.30951	30	9e-41	9.300000e-41
Chromosome 7	3631.99353	30	9e-41	9.300000e-41
Chromosome 8	3610.77090	30	9e-41	9.300000e-41
Chromosome 9	2738.53822	30	9e-41	9.300000e-41
Chromosome 10	3443.22825	30	9e-41	9.300000e-41
Chromosome 11	3568.51209	30	9e-41	9.300000e-41
Chromosome 12	3717.50610	30	9e-41	9.300000e-41
Chromosome 13	3547.47602	30	9e-41	9.300000e-41
Chromosome 14	54.26036	30	0.004299765	4.299765e-03
Chromosome 15	3381.42585	30	9e-41	9.300000e-41
Chromosome 16	3717.50610	30	9e-41	9.300000e-41
Chromosome 17	2665.21420	30	9e-41	9.300000e-41
Chromosome 18	3279.66562	30	9e-41	9.300000e-41
Chromosome 19	3320.18313	30	9e-41	9.300000e-41
Chromosome 20	3443.22825	30	9e-41	9.300000e-41
Chromosome 21	3589.61042	30	9e-41	9.300000e-41
Chromosome 22	3653.27842	30	9e-41	9.300000e-41
Chromosome 23	2574.95843	30	9e-41	9.300000e-41
Chromosome 24	3589.61042	30	9e-41	9.300000e-41
Chromosome 25	3505.59033	30	9e-41	9.300000e-41
Chromosome 26	3717.50610	30	9e-41	9.300000e-41
Chromosome 27	3782.29346	30	9e-41	9.300000e-41
Chromosome 28	3653.27842	30	9e-41	9.300000e-41
Chromosome 29	3631.99353	30	9e-41	9.300000e-41
Chromosome 31	3825.79593	30	9e-41	9.300000e-41

Chi-squared (χ²) test: Which of the 11 general reproduction parameters traits are over-represented in the QTLdb

Traits	Total χ²	df	p-values	FDR ^*	Size of χ²
Birth index	1183.21189	10	6.02092e-248	2.207671e-247
Calf mortality	1364.9818	10	3.603242e-287	1.981783e-286
Calf size	2649.16167	10	9e-41	9.000000e-41
Calving index	2546.49425	10	9e-41	9.000000e-41
Paired testes volume	912.91665	10	1.056515e-189	2.905416e-189
Paired testes weight	644.04455	10	6.371573e-132	1.401746e-131
Perinatal mortality	3654.36862	10	9e-41	9.000000e-41
Reproductive problems	464.00136	10	2.151051e-93	3.943593e-93
Retained placenta	6203.12511	10	9e-41	9.000000e-41
Scrotal circumference	306.21747	10	7.532336e-60	1.183653e-59
Testicular hypoplasia	1429.67051	10	3.890805e-301	4.279886e-300

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.:	31	χ²	=	2924112.946700
Number of traits:	11	df	=	300
Number of QTLs:	10,967	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.