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 colostrum production traits:	7
Number of QTL / associations found:	64
Number of chromosomes where QTL / associations are found:	15

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

Chromosomes	Total χ²	df	p-values	FDR ^*	Size of χ²
Chromosome 1	0.88228	14	0.9999996	9.999996e-01
Chromosome 2	8.42919	14	0.8657903	9.999996e-01
Chromosome 3	8.42919	14	0.8657903	9.999996e-01
Chromosome 4	2.63228	14	0.999566	9.999996e-01
Chromosome 5	17.50728	14	0.2301509	9.999996e-01
Chromosome 6	0.88228	14	0.9999996	9.999996e-01
Chromosome 10	4.92919	14	0.986774	9.999996e-01
Chromosome 11	8.42919	14	0.8657903	9.999996e-01
Chromosome 13	8.42919	14	0.8657903	9.999996e-01
Chromosome 15	0.88228	14	0.9999996	9.999996e-01
Chromosome 17	0.11669	14	0.998329325823115	9.999996e-01
Chromosome 18	8.42919	14	0.8657903	9.999996e-01
Chromosome 20	12.25728	14	0.5856496	9.999996e-01
Chromosome 21	266.00728	14	1.389921e-48	2.084881e-47
Chromosome 22	17.50728	14	0.2301509	9.999996e-01

Chi-squared (χ²) test: Which of the 7 colostrum production traits are over-represented in the QTLdb

Traits	Total χ²	df	p-values	FDR ^*	Size of χ²
Colostrum albumin concentration	34.32697	6	5.81669e-06	6.786138e-06
Colostrum immunoglobulin A concentration	35.40001	6	3.604783e-06	6.308370e-06
Colostrum immunoglobulin G concentration	44.00001	6	7.392057e-08	2.587220e-07
Colostrum immunoglobulin G1 concentration	50.33336	6	4.030425e-09	2.821298e-08
Colostrum immunoglobulin G2 concentration	42.95238	6	1.192020e-07	2.781380e-07
Colostrum immunoglobulin M concentration	34.48889	6	5.412112e-06	6.786138e-06
Colostrum quantity	21.95241	6	0.001235153	1.235153e-03

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.:	15	χ²	=	365.750070
Number of traits:	7	df	=	84
Number of QTLs:	64	p-value	=	8.15951e-37

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.