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 mastitis traits:	3
Number of QTL / associations found:	2,633
Number of chromosomes where QTL / associations are found:	30

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

Chromosomes	Total χ²	df	p-values	FDR ^*	Size of χ²
Chromosome X	56.80704	29	0.001515203	5.050677e-03
Chromosome 1	15.41091	29	0.9815412	9.999998e-01
Chromosome 2	0.17049	29	0.998329325823115	9.999998e-01
Chromosome 3	5.98590	29	0.9999985	9.999998e-01
Chromosome 4	0.77664	29	0.998329325823115	9.999998e-01
Chromosome 5	60.96807	29	0.0004673594	2.336797e-03
Chromosome 6	3353.72613	29	9e-41	2.700000e-39
Chromosome 7	21.76410	29	0.8298249	9.999998e-01
Chromosome 8	14.74095	29	0.986931	9.999998e-01
Chromosome 9	2.62701	29	0.998329325823115	9.999998e-01
Chromosome 10	0.00186	29	0.998329325823115	9.999998e-01
Chromosome 11	0.26163	29	0.998329325823115	9.999998e-01
Chromosome 12	81.29013	29	7.48805e-07	4.492830e-06
Chromosome 13	5.11542	29	0.9999998	9.999998e-01
Chromosome 14	0.35736	29	0.998329325823115	9.999998e-01
Chromosome 15	0.05199	29	0.998329325823115	9.999998e-01
Chromosome 16	0.35736	29	0.998329325823115	9.999998e-01
Chromosome 17	0.05199	29	0.998329325823115	9.999998e-01
Chromosome 18	0.93615	29	0.998329325823115	9.999998e-01
Chromosome 19	9.60915	29	0.9997315	9.999998e-01
Chromosome 20	31.24380	29	0.3540224	8.169748e-01
Chromosome 21	51.36987	29	0.006403083	1.920925e-02
Chromosome 22	56.80704	29	0.001515203	5.050677e-03
Chromosome 23	13.35546	29	0.994184	9.999998e-01
Chromosome 24	134.66346	29	1.482349e-15	1.482349e-14
Chromosome 25	138.98856	29	2.593456e-16	3.890184e-15
Chromosome 26	37.75197	29	0.1279514	3.198785e-01
Chromosome 27	59.62815	29	0.0006869233	2.943957e-03
Chromosome 28	122.09832	29	2.167575e-13	1.625681e-12
Chromosome 29	46.20618	29	0.02238082	6.103860e-02

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

Traits	Total χ²	df	p-values	FDR ^*	Size of χ²
Clinical mastitis	330.17956	2	2.006409e-72	6.019227e-72
Somatic cell count	50.00004	2	1.388767e-11	1.388767e-11
Somatic cell score	101.78797	2	7.889022e-23	1.183353e-22

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	=	4323.123090
Number of traits:	3	df	=	58
Number of QTLs:	2,633	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.