QTLdb: entrichment tests

Release 56
(Apr 24, 2025)

Whole genome analysis for QTL/association enrichment

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Version: Enrich S: beta v0.8

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Data:

Number of anatomy traits:	45
Number of QTL / associations found:	5,340
Number of chromosomes where QTL / associations are found:	30

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

Chromosomes	Total χ²	df	p-values	FDR ^*	Size of χ²
Chromosome X	7135.28100	29	9e-41	9.642857e-41
Chromosome 1	1003.39875	29	1.656045e-192	4.968135e-191
Chromosome 2	880.02810	29	1.742441e-166	2.613662e-165
Chromosome 3	2281.60125	29	9e-41	9.642857e-41
Chromosome 4	365.05620	29	8.447058e-60	8.447058e-59
Chromosome 5	1577.78100	29	9e-41	9.642857e-41
Chromosome 6	1726121.37645	29	9e-41	9.642857e-41
Chromosome 7	158.00580	29	1.057439e-19	1.093902e-19
Chromosome 8	2630.22480	29	9e-41	9.642857e-41
Chromosome 9	3762.80910	29	9e-41	9.642857e-41
Chromosome 10	3171.23595	29	9e-41	9.642857e-41
Chromosome 11	3058.98885	29	9e-41	9.642857e-41
Chromosome 12	4404.94380	29	9e-41	9.642857e-41
Chromosome 13	3460.70205	29	9e-41	9.642857e-41
Chromosome 14	64728.20205	29	9e-41	9.642857e-41
Chromosome 15	4675.95495	29	9e-41	9.642857e-41
Chromosome 16	4744.97190	29	9e-41	9.642857e-41
Chromosome 17	4607.44380	29	9e-41	9.642857e-41
Chromosome 18	4206.99420	29	9e-41	9.642857e-41
Chromosome 19	3171.23595	29	9e-41	9.642857e-41
Chromosome 20	25.28100	29	0.6635875	6.635875e-01
Chromosome 21	5612.61240	29	9e-41	9.642857e-41
Chromosome 22	4077.55620	29	9e-41	9.642857e-41
Chromosome 23	5995.61820	29	9e-41	9.642857e-41
Chromosome 24	5918.00580	29	9e-41	9.642857e-41
Chromosome 25	6073.73595	29	9e-41	9.642857e-41
Chromosome 26	4142.02230	29	9e-41	9.642857e-41
Chromosome 27	6799.55040	29	9e-41	9.642857e-41
Chromosome 28	5612.61240	29	9e-41	9.642857e-41
Chromosome 29	4206.99420	29	9e-41	9.642857e-41

Chi-squared (χ²) test: Which of the 45 anatomy traits are over-represented in the QTLdb

Traits	Total χ²	df	p-values	FDR ^*	Size of χ²
Biceps brachii weight	6.27838	44	1	1.000000e+00
Bone percentage	113.34917	44	4.941022e-08	1.111730e-07
Bone weight	308.30436	44	2.260758e-41	1.695568e-40
Carcass depth	129.40399	44	2.438716e-10	6.439007e-10
Carcass hind leg circumference	793.03905	44	4.704769e-138	1.058573e-136
Carcass length	230.04122	44	5.031259e-27	2.058242e-26
Carcass weight	293.85962	44	1.139136e-38	6.407640e-38
Foreshank weight	831.15789	44	6.640474e-146	2.988213e-144
Gastrointestinal tract percentage	43.87394	44	0.4769902	5.503733e-01
Gastrointestinal tract weight	60.8915	44	0.04645568	6.968352e-02
Head weight	70.85678	44	0.006290076	9.760463e-03
Heart percentage	380.42856	44	3.955863e-55	3.560277e-54
Heart weight	265.07589	44	2.368662e-33	1.184331e-32
Hindquarter percentage	73.83696	44	0.003217362	5.362270e-03
Hindquarter weight	107.97958	44	2.68571e-07	5.755093e-07
Hindshank weight	20.42105	44	0.9990902	1.000000e+00
Kidney weight	306.98139	44	4.00501e-41	2.574649e-40
Lean meat yield	726.69676	44	1.923203e-124	2.884804e-123
Liver percentage	84.00839	44	0.0002643747	4.957026e-04
Liver weight	26.64566	44	0.9820238	1.000000e+00
Longissimus muscle area	156.58504	44	1.551482e-14	4.986906e-14
Longissimus muscle area/muscle fiber area	43.87394	44	0.4769902	5.503733e-01
Longissimus muscle lean area	43.87394	44	0.4769902	5.503733e-01
Longissimus muscle length	203.4599	44	2.324792e-22	8.717970e-22
Longissimus muscle weight	82.52999	44	0.0003872855	6.971139e-04
Longissimus muscle width	57.29619	44	0.08613043	1.250280e-01
Lung percentage	30.03859	44	0.9463151	1.000000e+00
Lung weight	95.40994	44	1.159310e-05	2.371316e-05
Meat percentage	180.38647	44	1.964092e-18	6.798780e-18
Meat weight	52.36141	44	0.1812825	2.549285e-01
Meat-to-bone ratio	71.48819	44	0.005471184	8.792974e-03
Muscle fiber area	43.87394	44	0.4769902	5.503733e-01
Muscle fiber diameter	136.30434	44	2.252883e-11	6.336233e-11
Pelvic area	137.11733	44	1.695719e-11	5.087157e-11
Pelvic width	380.42856	44	3.955863e-55	3.560277e-54
Quadriceps weight	31.65075	44	0.918011	1.000000e+00
Rib thickness	76.12387	44	0.001885158	3.262773e-03
Semispinalis lean area	43.87394	44	0.4769902	5.503733e-01
Semitendinosus muscle weight	43.87394	44	0.4769902	5.503733e-01
Silverside weight	90.20199	44	5.023731e-05	9.829039e-05
Sirloin weight	258.57679	44	3.642395e-32	1.639078e-31
Spleen percentage	123.18604	44	1.987241e-09	4.706623e-09
Spleen weight	34.32814	44	0.8521041	9.586171e-01
Tenderloin weight	129.24389	44	2.575603e-10	6.439007e-10
Trapezius muscle lean area	43.87394	44	0.4769902	5.503733e-01

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	=	1894610.224800
Number of traits:	45	df	=	1276
Number of QTLs:	5,340	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.