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 meat/fat color traits:	2
Number of QTL / associations found:	240
Number of chromosomes where QTL / associations are found:	28

Chi-squared (χ²) test: are meat/fat color traits over-represented on some chromosomes?

Chromosomes	Total χ²	df	p-values	FDR ^*	Size of χ²
Chromosome 1	0.57620	27	0.998329325823115	0.9999996
Chromosome 2	25.37620	27	0.553388	0.9999996
Chromosome 3	0.04286	27	0.998329325823115	0.9999996
Chromosome 4	2.74286	27	0.998329325823115	0.9999996
Chromosome 5	2.97620	27	0.998329325823115	0.9999996
Chromosome 6	0.04286	27	0.998329325823115	0.9999996
Chromosome 7	20.74286	27	0.7981825	0.9999996
Chromosome 9	0.57620	27	0.998329325823115	0.9999996
Chromosome 10	4.87620	27	0.9999992	0.9999996
Chromosome 11	2.97620	27	0.998329325823115	0.9999996
Chromosome 12	0.57620	27	0.998329325823115	0.9999996
Chromosome 13	0.04286	27	0.998329325823115	0.9999996
Chromosome 14	6.87620	27	0.9999685	0.9999996
Chromosome 15	4.57620	27	0.9999996	0.9999996
Chromosome 16	1.54286	27	0.998329325823115	0.9999996
Chromosome 17	2.97620	27	0.998329325823115	0.9999996
Chromosome 18	9.64286	27	0.999139	0.9999996
Chromosome 19	10.07620	27	0.9987187	0.9999996
Chromosome 20	2.97620	27	0.998329325823115	0.9999996
Chromosome 21	1.54286	27	0.998329325823115	0.9999996
Chromosome 22	13.37620	27	0.9866336	0.9999996
Chromosome 23	1.54286	27	0.998329325823115	0.9999996
Chromosome 24	0.07620	27	0.998329325823115	0.9999996
Chromosome 25	4.87620	27	0.9999992	0.9999996
Chromosome 26	12.87620	27	0.9900139	0.9999996
Chromosome 27	1.37620	27	0.998329325823115	0.9999996
Chromosome 28	13.37620	27	0.9866336	0.9999996
Chromosome 29	12.87620	27	0.9900139	0.9999996

Chi-squared (χ²) test: Which of the 2 meat/fat color traits are over-represented in the QTLdb

Traits	Total χ²	df	p-values	FDR ^*	Size of χ²
Fat color	72.00246	1	2.149293e-17	4.298586e-17
Meat color	16.61594	1	4.576477e-05	4.576477e-05

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.:	28	χ²	=	162.133540
Number of traits:	2	df	=	27
Number of QTLs:	240	p-value	=	3.105738e-21

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.