QTLdb: entrichment tests

Release 56
(Apr 24, 2025)

Whole genome analysis for QTL/association enrichment

Running...

Version: Enrich S: beta v0.8

Data:

Number of production-other traits:	23
Number of QTL / associations found:	161
Number of chromosomes where QTL / associations are found:	24

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

Chromosomes	Total χ²	df	p-values	FDR ^*	Size of χ²
Chromosome Z	1.72017	23	0.998329325823115	9.983293e-01
Chromosome 1	4270.29178	23	9e-41	2.160000e-39
Chromosome 2	63.14880	23	1.322785e-05	2.442065e-05
Chromosome 3	235.72033	23	3.372446e-37	4.046935e-36
Chromosome 4	37.14891	23	0.03136470	4.181960e-02
Chromosome 5	47.14885	23	0.002146623	3.030527e-03
Chromosome 6	1.72017	23	0.998329325823115	9.983293e-01
Chromosome 7	25.14889	23	0.3426545	4.111854e-01
Chromosome 8	135.72024	23	5.7125e-18	3.427500e-17
Chromosome 9	25.14889	23	0.3426545	4.111854e-01
Chromosome 10	76.00603	23	1.390037e-07	2.780074e-07
Chromosome 11	47.14885	23	0.002146623	3.030527e-03
Chromosome 12	1.72017	23	0.998329325823115	9.983293e-01
Chromosome 13	76.00603	23	1.390037e-07	2.780074e-07
Chromosome 14	47.14885	23	0.002146623	3.030527e-03
Chromosome 15	1.72017	23	0.998329325823115	9.983293e-01
Chromosome 16	111.72020	23	1.252091e-13	4.292883e-13
Chromosome 17	47.14885	23	0.002146623	3.030527e-03
Chromosome 18	76.00603	23	1.390037e-07	2.780074e-07
Chromosome 19	111.72020	23	1.252091e-13	4.292883e-13
Chromosome 20	76.00603	23	1.390037e-07	2.780074e-07
Chromosome 24	111.72020	23	1.252091e-13	4.292883e-13
Chromosome 26	76.00603	23	1.390037e-07	2.780074e-07
Chromosome 27	135.72024	23	5.7125e-18	3.427500e-17

Chi-squared (χ²) test: Which of the 23 production-other traits are over-represented in the QTLdb

Traits	Total χ²	df	p-values	FDR ^*	Size of χ²
Bone index	2.83331	22	0.9999997	9.999997e-01
Bone mineral content	28.0963	22	0.1725117	4.098730e-01
Bone mineral density	16.92668	22	0.7673956	9.999997e-01
Carcass ash content, dry matter basis	29.46793	22	0.13198	3.794425e-01
Carcass protein content	2.83331	22	0.9999997	9.999997e-01
Carcass protein content, dry matter basis	16.05126	22	0.8133336	9.999997e-01
Carcass water content	11.38459	22	0.9688206	9.999997e-01
Femur bending strength	65.75482	22	3.025885e-06	1.739884e-05
Femur bone mineral content	6.95447	22	0.9990318	9.999997e-01
Femur bone mineral density	70.72213	22	5.089214e-07	3.901731e-06
Femur torsional strength	88.8846	22	5.302217e-10	1.219510e-08
Humerus bone mineral content	27.53027	22	0.1917750	4.098730e-01
Humerus bone mineral density	24.83331	22	0.3051124	4.678390e-01
Humerus breaking strength	5.66664	22	0.999819	9.999997e-01
Tibia bone mineral content	41.12331	22	0.007967006	3.054019e-02
Tibia bone mineral density	19.6716	22	0.6035735	8.676369e-01
Tibia breaking strength	38.7699	22	0.01499288	4.926232e-02
Tibia dry matter content	25.83331	22	0.2589076	4.253482e-01
Tibia modulus of elasticity	25.83331	22	0.2589076	4.253482e-01
Tibia strain	25.83331	22	0.2589076	4.253482e-01
Tibia strength	44.32947	22	0.003224964	1.483483e-02
Tibia stress	27.41112	22	0.1960262	4.098730e-01
Transport loss	79.49998	22	1.957745e-08	2.251407e-07

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.:	24	χ²	=	5838.714910
Number of traits:	23	df	=	506
Number of QTLs:	161	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.

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