QTLdb: entrichment tests

Release 58
(Dec 29, 2025)

Whole genome analysis for QTL/association enrichment

Running...

Version: Enrich S: beta v0.8

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Data:

Number of milk composition - protein traits:	36
Number of QTL / associations found:	26,336
Number of chromosomes where QTL / associations are found:	30

Chi-squared (χ²) test: are milk composition - protein traits over-represented on some chromosomes?

Chromosomes	Total χ²	df	p-values	FDR ^*	Size of χ²
Chromosome X	22085.55252	29	9e-41	9.310345e-41
Chromosome 1	274.84524	29	7.293997e-42	9.310345e-41
Chromosome 2	3075.75900	29	9e-41	9.310345e-41
Chromosome 3	1022.00940	29	1.929084e-196	5.787252e-195
Chromosome 4	19066.58280	29	9e-41	9.310345e-41
Chromosome 5	17.85600	29	0.947154	9.471540e-01
Chromosome 6	2129504.33736	29	9e-41	9.310345e-41
Chromosome 7	7507.42236	29	9e-41	9.310345e-41
Chromosome 8	14560.36056	29	9e-41	9.310345e-41
Chromosome 9	14904.46836	29	9e-41	9.310345e-41
Chromosome 10	7194.91284	29	9e-41	9.310345e-41
Chromosome 11	42009.68232	29	9e-41	9.310345e-41
Chromosome 12	18456.37344	29	9e-41	9.310345e-41
Chromosome 13	4039.84152	29	9e-41	9.310345e-41
Chromosome 14	330323.54508	29	9e-41	9.310345e-41
Chromosome 15	3886.86348	29	9e-41	9.310345e-41
Chromosome 16	3912.15456	29	9e-41	9.310345e-41
Chromosome 17	14075.74908	29	9e-41	9.310345e-41
Chromosome 18	16895.20968	29	9e-41	9.310345e-41
Chromosome 19	9561.55212	29	9e-41	9.310345e-41
Chromosome 20	90571.06872	29	9e-41	9.310345e-41
Chromosome 21	17964.49284	29	9e-41	9.310345e-41
Chromosome 22	15202.61640	29	9e-41	9.310345e-41
Chromosome 23	3736.83780	29	9e-41	9.310345e-41
Chromosome 24	17856.08820	29	9e-41	9.310345e-41
Chromosome 25	17372.32740	29	9e-41	9.310345e-41
Chromosome 26	13884.20136	29	9e-41	9.310345e-41
Chromosome 27	26433.87300	29	9e-41	9.310345e-41
Chromosome 28	23182.25112	29	9e-41	9.310345e-41
Chromosome 29	1893.26772	29	9e-41	9.310345e-41

Chi-squared (χ²) test: Which of the 36 milk composition - protein traits are over-represented in the QTLdb

Traits	Total χ²	df	p-values	FDR ^*	Size of χ²
Milk alpha-S1-casein content	65.67341	35	0.001282343	2.308217e-03
Milk alpha-S1-casein percentage	155.50114	35	3.972608e-17	8.412582e-17
Milk alpha-S2-casein percentage	227.48479	35	4.567731e-30	1.264910e-29
Milk alpha-casein content	40.24164	35	0.2493487	3.095363e-01
Milk alpha-casein percentage	42.24212	35	0.1865427	2.398406e-01
Milk alpha-casein to beta-casein ratio	4.5156	35	1	1.000000e+00
Milk alpha-lactalbumin content	8.5108	35	0.9999988	1.000000e+00
Milk alpha-lactalbumin percentage	183.97247	35	4.020678e-22	9.046525e-22
Milk beta-casein content	12.59747	35	0.9998217	1.000000e+00
Milk beta-casein percentage	477.32424	35	4.80955e-79	8.657190e-78
Milk beta-lactoglobulin percentage	2291.28961	35	9e-41	2.700000e-40
Milk beta-lactoglobulin protein content	2379.92805	35	9e-41	2.700000e-40
Milk casein content	60.33461	35	0.004928037	7.392055e-03
Milk casein index	154.83708	35	5.165235e-17	1.033047e-16
Milk casein percentage	828.19996	35	2.666013e-151	9.597647e-150
Milk casein yield	63.24244	35	0.002397204	3.922697e-03
Milk delta-9-desaturase content	288.38235	35	1.320540e-41	1.188486e-40
Milk glycosylated kappa-casein percentage	1993.75119	35	9e-41	2.700000e-40
Milk immunoglobulin G content	35.57777	35	0.4410291	5.292349e-01
Milk kappa-casein content	48.04582	35	0.06987737	9.316983e-02
Milk kappa-casein percentage	2830.5756	35	9e-41	2.700000e-40
Milk lactoferrin content	2131.87362	35	9e-41	2.700000e-40
Milk lactoperoxidase content	55.0346	35	0.01682444	2.422719e-02
Milk osteopontin content	4.5156	35	1	1.000000e+00
Milk phosphorylated alpha-S2-casein percentage	447.35788	35	5.330253e-73	6.396304e-72
Milk protein content	61.52974	35	0.003678649	5.757885e-03
Milk protein percentage	5464.01743	35	9e-41	2.700000e-40
Milk protein yield	2361.76685	35	9e-41	2.700000e-40
Milk protein yield persistency	50.06311	35	0.04750514	6.577635e-02
Milk protein-to-fat ratio	78.09867	35	3.947576e-05	7.479618e-05
Milk unglycosylated kappa-casein percentage	2098.83714	35	9e-41	2.700000e-40
Milk urea nitrogen content	200.38282	35	4.422125e-25	1.137118e-24
Milk urea nitrogen yield	196.92086	35	1.879177e-24	4.510025e-24
Milk whey protein content	64.67198	35	0.001663401	2.851545e-03
Milk whey protein percentage	22.23887	35	0.9536625	1.000000e+00
Milk whey protein yield	2.25778	35	1	1.000000e+00

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	=	2890472.102280
Number of traits:	36	df	=	1015
Number of QTLs:	26,336	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.