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 disease traits:	21
Number of QTL / associations found:	3,516
Number of chromosomes where QTL / associations are found:	30

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

Chromosomes	Total χ²	df	p-values	FDR ^*	Size of χ²
Chromosome X	1871.51580	29	9e-41	1.687500e-40
Chromosome 1	204.70338	29	2.414053e-28	3.621080e-28
Chromosome 2	229.64529	29	4.30354e-33	6.795063e-33
Chromosome 3	2320.47123	29	9e-41	1.687500e-40
Chromosome 4	197.50038	29	5.485164e-27	7.835949e-27
Chromosome 5	63.32970	29	0.0002338081	2.505087e-04
Chromosome 6	15784.08741	29	9e-41	1.687500e-40
Chromosome 7	174.42180	29	1.074037e-22	1.464596e-22
Chromosome 8	247.95771	29	1.267624e-36	2.112707e-36
Chromosome 9	526.36899	29	1.079563e-92	6.477378e-92
Chromosome 10	392.44905	29	2.513369e-65	8.377897e-65
Chromosome 11	122.99700	29	1.52394e-13	1.693267e-13
Chromosome 12	469.71204	29	4.691089e-81	2.010467e-80
Chromosome 13	247.95771	29	1.267624e-36	2.112707e-36
Chromosome 14	128.69493	29	1.607171e-14	1.928605e-14
Chromosome 15	47.02425	29	0.01851175	1.915009e-02
Chromosome 16	1198.94229	29	6.298962e-234	9.448443e-233
Chromosome 17	304.14888	29	1.228214e-47	3.349675e-47
Chromosome 18	163.42011	29	1.104679e-20	1.440886e-20
Chromosome 19	39.24774	29	0.09700887	9.700887e-02
Chromosome 20	1543.07706	29	3.536636e-307	1.060991e-305
Chromosome 21	122.99700	29	1.52394e-13	1.693267e-13
Chromosome 22	132.56523	29	3.436809e-15	4.296011e-15
Chromosome 23	2746.20507	29	9e-41	1.687500e-40
Chromosome 24	1013.27499	29	1.354513e-194	1.354513e-193
Chromosome 25	416.28027	29	3.708468e-70	1.390676e-69
Chromosome 26	627.96447	29	1.006980e-113	7.552350e-113
Chromosome 27	1589.98665	29	9e-41	1.687500e-40
Chromosome 28	334.39455	29	1.184653e-53	3.553959e-53
Chromosome 29	488.23929	29	7.480864e-85	3.740432e-84

Chi-squared (χ²) test: Which of the 21 disease traits are over-represented in the QTLdb

Traits	Total χ²	df	p-values	FDR ^*	Size of χ²
Bovine coronavirus susceptibility	128.02175	20	9.152033e-18	2.402409e-17
Bovine leukemia virus susceptibility	296.2088	20	4.802342e-51	3.361639e-50
Bovine respiratory disease susceptibility	274.3341	20	1.360917e-46	7.144814e-46
Bovine spongiform encephalopathy susceptibility	56.25839	20	2.657571e-05	5.073545e-05
Bovine tuberculosis susceptibility	249.92202	20	1.184426e-41	4.974589e-41
Bovine viral diarrhea virus susceptibility	193.33377	20	2.332319e-30	6.996957e-30
Cholesterol deficiency	37.63738	20	0.009803285	1.470493e-02
Cystic ovaries	52.17265	20	0.0001074425	1.880244e-04
Dwarfism	14.2208	20	0.8191267	8.191267e-01
Endometritis	28.96105	20	0.08852913	1.093595e-01
Epidermolysis bullosa	38.06668	20	0.008690926	1.403919e-02
Foot-and-mouth disease susceptibility	204.04062	20	1.783309e-32	6.241582e-32
General disease susceptibility	35.19778	20	0.01907586	2.670620e-02
Infectious bovine keratoconjunctivitis susceptibility	68.28424	20	3.462781e-07	7.271840e-07
Ketosis	967.90011	20	2.721064e-192	5.714234e-191
M. paratuberculosis susceptibility	583.67241	20	7.892084e-111	8.286688e-110
Marfan syndrome-like disease	31.85107	20	0.04491132	5.894611e-02
Metritis	22.34017	20	0.322341	3.562716e-01
Milk fever	14.31153	20	0.8143559	8.191267e-01
Percentage decrease in body weight up to day 150 after challenge	26.77922	20	0.1415905	1.651889e-01
Rabies antibody titer	81.71427	20	2.005018e-09	4.678375e-09

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	=	33749.580270
Number of traits:	21	df	=	580
Number of QTLs:	3,516	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.