DGRPool

GWAS results were computed on dm3 genome.

If you want to make an independent analysis with DGRP2 or PLINK2, you can find here prepared input files for this phenotype: DGRP2 results PLINK2 results

Full results

Phenotype distribution and association to known covariates

Shapiro-Wilk test of normality (p-value=1.383e^-16)
Null Hypothesis is rejected (p<=0.05).
Interpretation: NOT NORMAL distribution of this phenotype

We tested for association of this phenotype with 6 known covariates Huang et al., 2014 using both ANOVA and Kruskal-Wallis association tests.

ANOVA test
No significant result.

Kruskal-Wallis test
No significant result.

PNG PDF

QQplot

PNG PDF

Manhattan plot

GWAS results

15523 significant hits at p-value < 0.001. The 1000 top results are displayed in the table below.

We performed a gene enrichment calculation (Fisher's exact test) of all GWAS-associated genes at p < 0.001. Genesets were taken from two database: the Gene Ontology (GO) and the FlyBase phenotypes. GO enrichment FlyBase phenotype enrichment

Variant impact HIGH MODERATE LOW MODIFIER

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Chromosome	Position	ID	Reference	Variant	p-value	FDR_BH	Transcript annotation	Binding site annotation
X	1722404	X_1722404_SNP [dm3] X_1828371_SNP [dm6]	A	G	5.642e^-67	3.497e^-61	INTRON CG42666
X	1728266	X_1728266_SNP [dm3] X_1834233_SNP [dm6]	A	G	5.642e^-67	3.497e^-61	INTRON CG42666
X	1728320	X_1728320_SNP [dm3] X_1834287_SNP [dm6]	T	A	5.642e^-67	3.497e^-61	INTRON CG42666
X	4871346	X_4871346_SNP [dm3] X_4977313_SNP [dm6]	A	G	5.982e^-66	1.715e^-60	INTRON CR44833
X	4871289	X_4871289_SNP [dm3] X_4977256_SNP [dm6]	T	A	6.052e^-66	1.715e^-60	INTRON CR44833
3L	12461604	3L_12461604_SNP [dm3] 3L_12468504_SNP [dm6]	T	C	6.455e^-66	1.715e^-60	UPSTREAM eyg DOWNSTREAM CG32102 INTERGENIC	silencer mE1_HDAC_PRE TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_z mE1_TFBS_HSA
X	11545389	X_11545389_SNP [dm3] X_11651356_SNP [dm6]	G	A	6.455e^-66	1.715e^-60	INTRON Ptp10D
2L	16016654	2L_16016654_SNP [dm3] 2L_16016654_SNP [dm6]	G	A	6.436e^-65	1.197e^-59	INTRON beat-Ic
2L	16016728	2L_16016728_SNP [dm3] 2L_16016728_SNP [dm6]	G	C	6.436e^-65	1.197e^-59	INTRON beat-Ic
2L	16016903	2L_16016903_SNP [dm3] 2L_16016903_SNP [dm6]	C	T	6.436e^-65	1.197e^-59	INTRON beat-Ic
2L	8746577	2L_8746577_SNP [dm3] 2L_8746577_SNP [dm6]	C	T	6.678e^-64	1.129e^-58	INTERGENIC
2L	11149377	2L_11149377_SNP [dm3] 2L_11149377_SNP [dm6]	C	G	7.284e^-64	1.129e^-58	UPSTREAM Gyc32E INTERGENIC	TF binding site BDTNP1_TFBS_prd mE1_TFBS_HSA
2L	16014950	2L_16014950_SNP [dm3] 2L_16014950_SNP [dm6]	A	T	7.235e^-63	1.035e^-57	INTRON beat-Ic
X	14511796	X_14511796_DEL [dm3] X_14617763_DEL [dm6]	GG	G	8.012e^-49	1.064e^-43	INTRON NetA
2L	3371541	2L_3371541_SNP [dm3] 2L_3371541_SNP [dm6]	G	C	4.785e^-34	5.932e^-29	UPSTREAM CG34394 INTRON CG34394
2R	17562158	2R_17562158_SNP [dm3] 2R_21674653_SNP [dm6]	G	A	5.032e^-25	5.849e^-20	UPSTREAM CG30263 INTERGENIC
2R	17120357	2R_17120357_SNP [dm3] 2R_21232852_SNP [dm6]	G	A	4.711e^-23	5.154e^-18	INTRON ASPP
3L	18024259	3L_18024259_SNP [dm3] 3L_18031159_SNP [dm6]	A	T	9.921e^-23	1.021e^-17	INTRON Eip75B
2R	17120384	2R_17120384_SNP [dm3] 2R_21232879_SNP [dm6]	C	T	1.043e^-22	1.021e^-17	INTRON ASPP
2L	19787140	2L_19787140_SNP [dm3] 2L_19787140_SNP [dm6]	T	C	1.308e^-21	1.216e^-16	INTRON CdGAPr
2L	1555939	2L_1555939_SNP [dm3] 2L_1555939_SNP [dm6]	T	C	6.539e^-20	5.287e^-15	INTRON haf	TF binding site mE1_TFBS_HSA mE1_TFBS_sbb
2L	1555942	2L_1555942_SNP [dm3] 2L_1555942_SNP [dm6]	C	T	6.539e^-20	5.287e^-15	INTRON haf	TF binding site mE1_TFBS_HSA mE1_TFBS_sbb
2L	1555943	2L_1555943_SNP [dm3] 2L_1555943_SNP [dm6]	T	G	6.539e^-20	5.287e^-15	INTRON haf	TF binding site mE1_TFBS_HSA mE1_TFBS_sbb
2L	1555933	2L_1555933_SNP [dm3] 2L_1555933_SNP [dm6]	T	A	1.304e^-19	9.325e^-15	INTRON haf	TF binding site mE1_TFBS_HSA mE1_TFBS_sbb
2L	1555502	2L_1555502_SNP [dm3] 2L_1555502_SNP [dm6]	G	T	1.304e^-19	9.325e^-15	UTR_5_PRIME haf INTRON haf	TF binding site mE1_TFBS_HSA mE1_TFBS_sens
2L	1555613	2L_1555613_SNP [dm3] 2L_1555613_SNP [dm6]	G	A	1.304e^-19	9.325e^-15	UTR_5_PRIME haf INTRON haf	TF binding site mE1_TFBS_HSA
2L	1555462	2L_1555462_SNP [dm3] 2L_1555462_SNP [dm6]	T	C	1.391e^-19	9.581e^-15	UTR_5_PRIME haf INTRON haf	TF binding site mE1_TFBS_HSA mE1_TFBS_sens
2R	16265190	2R_16265190_DEL [dm3] 2R_20377685_DEL [dm6]	CATTCGGCCACATTTT...	C	3.875e^-18	2.559e^-13	INTERGENIC
X	1722332	X_1722332_SNP [dm3] X_1828299_SNP [dm6]	C	T	3.990e^-18	2.559e^-13	INTRON CG42666
3L	10882381	3L_10882381_DEL [dm3] 3L_10889281_DEL [dm6]	TAAATGCATTTAATTAATAC...	T	2.007e^-17	1.244e^-12	UPSTREAM Cpr67Fa1 INTERGENIC
3L	11455727	3L_11455727_SNP [dm3] 3L_11462627_SNP [dm6]	T	G	3.563e^-17	2.068e^-12	DOWNSTREAM CG6140 INTERGENIC	TF binding site BDTNP1_TFBS_Med mE1_TFBS_HSA
3L	22418175	3L_22418175_SNP [dm3] 3L_22425075_SNP [dm6]	C	T	4.114e^-17	2.068e^-12	INTERGENIC	TF binding site mE1_TFBS_chinmo
3L	22419222	3L_22419222_SNP [dm3] 3L_22426122_SNP [dm6]	C	T	4.114e^-17	2.068e^-12	INTERGENIC	TF binding site BDTNP1_TFBS_twi
3L	22420865	3L_22420865_SNP [dm3] 3L_22427765_SNP [dm6]	T	C	4.114e^-17	2.068e^-12	INTERGENIC
3L	22422471	3L_22422471_SNP [dm3] 3L_22429371_SNP [dm6]	A	G	4.114e^-17	2.068e^-12	INTERGENIC
3L	22423669	3L_22423669_SNP [dm3] 3L_22430569_SNP [dm6]	C	T	4.114e^-17	2.068e^-12	INTERGENIC	TF binding site BDTNP1_TFBS_twi mE1_TFBS_HSA mE1_TFBS_sens
3L	22433923	3L_22433923_SNP [dm3] 3L_22440823_SNP [dm6]	G	A	4.114e^-17	2.068e^-12	INTERGENIC
3R	22406205	3R_22406205_SNP [dm3] 3R_26580483_SNP [dm6]	G	C	4.421e^-17	2.127e^-12	NON_SYNONYMOUS_CODING scrib	TF binding site BDTNP1_TFBS_sna mE1_TFBS_cad mE1_TFBS_chinmo mE1_TFBS_HSA
2R	19320591	2R_19320591_SNP [dm3] 2R_23433068_SNP [dm6]	G	T	4.690e^-17	2.127e^-12	INTRON CG9815
2R	19320716	2R_19320716_SNP [dm3] 2R_23433193_SNP [dm6]	C	A	4.690e^-17	2.127e^-12	INTRON CG9815
3L	6620819	3L_6620819_SNP [dm3] 3L_6627719_SNP [dm6]	A	G	4.690e^-17	2.127e^-12	INTRON GluRIA
3L	10451316	3L_10451316_SNP [dm3] 3L_10458216_SNP [dm6]	C	A	7.645e^-17	3.231e^-12	DOWNSTREAM Gem3 INTERGENIC
3L	10451584	3L_10451584_SNP [dm3] 3L_10458484_SNP [dm6]	C	T	7.645e^-17	3.231e^-12	DOWNSTREAM Gem3 INTERGENIC
3L	22426728	3L_22426728_SNP [dm3] 3L_22433628_SNP [dm6]	G	C	7.645e^-17	3.231e^-12	INTERGENIC	TF binding site mE1_TFBS_cnc mE1_TFBS_HSA
2L	15976595	2L_15976595_SNP [dm3] 2L_15976595_SNP [dm6]	A	C	1.209e^-16	4.995e^-12	INTERGENIC
3R	9284908	3R_9284908_SNP [dm3] 3R_13459186_SNP [dm6]	T	C	1.617e^-16	6.537e^-12	INTRON CR17025 & 1 other
3L	6620647	3L_6620647_INS [dm3] 3L_6627547_INS [dm6]	C	CCTTTATTGATT...	1.685e^-16	6.666e^-12	INTRON GluRIA
2L	2799474	2L_2799474_SNP [dm3] 2L_2799474_SNP [dm6]	C	A	1.825e^-16	7.070e^-12	INTRON Syt1	TF binding site BDTNP1_TFBS_dl mE1_TFBS_HSA
2R	9359874	2R_9359874_SNP [dm3] 2R_13472369_SNP [dm6]	C	A	2.323e^-16	8.817e^-12	INTRON arr	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_twi mE1_TFBS_HSA
2R	17174527	2R_17174527_SNP [dm3] 2R_21287022_SNP [dm6]	A	C	2.700e^-16	1.004e^-11	SPLICE_SITE_REGION CG10505 INTRON CG10505	TF binding site mE1_TFBS_chinmo
2L	9375393	2L_9375393_SNP [dm3] 2L_9375393_SNP [dm6]	C	A	2.838e^-16	1.035e^-11	INTRON Shawl
2R	17169920	2R_17169920_SNP [dm3] 2R_21282415_SNP [dm6]	T	A	4.851e^-16	1.555e^-11	UTR_5_PRIME MFS16 UPSTREAM CG34203 & 1 other INTRON MFS16	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_sna BDTNP1_TFBS_twi mE1_TFBS_disco mE1_TFBS_HSA
2R	17170591	2R_17170591_SNP [dm3] 2R_21283086_SNP [dm6]	C	T	4.851e^-16	1.555e^-11	NON_SYNONYMOUS_CODING MFS16	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_prd BDTNP1_TFBS_sna BDTNP1_TFBS_twi mE1_TFBS_cad mE1_TFBS_HSA
2R	17171121	2R_17171121_SNP [dm3] 2R_21283616_SNP [dm6]	C	T	4.851e^-16	1.555e^-11	SYNONYMOUS_CODING MFS16	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_sna BDTNP1_TFBS_twi mE1_TFBS_cad mE1_TFBS_sens
2R	17171193	2R_17171193_SNP [dm3] 2R_21283688_SNP [dm6]	G	C	4.851e^-16	1.555e^-11	SYNONYMOUS_CODING MFS16	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_sna BDTNP1_TFBS_twi mE1_TFBS_cad mE1_TFBS_sens
2R	17171310	2R_17171310_SNP [dm3] 2R_21283805_SNP [dm6]	C	T	4.851e^-16	1.555e^-11	SYNONYMOUS_CODING MFS16	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_twi mE1_TFBS_cad mE1_TFBS_sens
2R	17171812	2R_17171812_DEL [dm3] 2R_21284307_DEL [dm6]	TT	T	4.851e^-16	1.555e^-11	DOWNSTREAM CG10505 INTRON MFS16	TF binding site mE1_TFBS_cad
2R	17171864	2R_17171864_INS [dm3] 2R_21284359_INS [dm6]	A	AC	4.851e^-16	1.555e^-11	DOWNSTREAM CG10505 INTRON MFS16	TF binding site mE1_TFBS_cad
2R	17655697	2R_17655697_SNP [dm3] 2R_21768192_SNP [dm6]	C	A	7.770e^-16	2.449e^-11	NON_SYNONYMOUS_CODING CG30395
X	14555006	X_14555006_SNP [dm3] X_14660973_SNP [dm6]	T	G	7.959e^-16	2.452e^-11	INTERGENIC
2R	18371807	2R_18371807_SNP [dm3] 2R_22484302_SNP [dm6]	A	G	8.043e^-16	2.452e^-11	SYNONYMOUS_CODING CG4554	TF binding site mE1_TFBS_HSA mE1_TFBS_sens
3R	16768491	3R_16768491_SNP [dm3] 3R_20942769_SNP [dm6]	A	C	8.253e^-16	2.475e^-11	INTRON CG31191
3L	13941731	3L_13941731_SNP [dm3] 3L_13948631_SNP [dm6]	C	A	8.815e^-16	2.602e^-11	INTRON CG32137
3L	5669961	3L_5669961_SNP [dm3] 3L_5676861_SNP [dm6]	G	A	9.493e^-16	2.758e^-11	SYNONYMOUS_CODING sif	TF binding site mE1_TFBS_inv
2L	7202945	2L_7202945_SNP [dm3] 2L_7202945_SNP [dm6]	T	C	1.046e^-15	2.994e^-11	INTRON CG4502
2R	20094900	2R_20094900_SNP [dm3] 2R_24207377_SNP [dm6]	T	G	1.384e^-15	3.901e^-11	UPSTREAM CG11406 INTRON CG11406
X	16612657	X_16612657_INS [dm3] X_16718624_INS [dm6]	T	TG	1.616e^-15	4.486e^-11	INTRON CG34325
3L	12461601	3L_12461601_SNP [dm3] 3L_12468501_SNP [dm6]	G	A	1.828e^-15	4.964e^-11	UPSTREAM eyg DOWNSTREAM CG32102 INTERGENIC	silencer mE1_HDAC_PRE TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_z mE1_TFBS_HSA
2R	10573862	2R_10573862_SNP [dm3] 2R_14686357_SNP [dm6]	G	T	1.842e^-15	4.964e^-11	INTRON mspo
2R	15955505	2R_15955505_SNP [dm3] 2R_20068000_SNP [dm6]	G	T	1.985e^-15	5.199e^-11	INTERGENIC	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_prd BDTNP1_TFBS_slp1 BDTNP1_TFBS_twi mE1_TFBS_HSA
X	12777145	X_12777145_SNP [dm3] X_12883112_SNP [dm6]	G	A	1.985e^-15	5.199e^-11	INTRON Pde9
X	12675958	X_12675958_SNP [dm3] X_12781925_SNP [dm6]	A	T	2.934e^-15	7.576e^-11	INTRON CG32647
2L	14181131	2L_14181131_DEL [dm3] 2L_14181131_DEL [dm6]	CAAA	G	5.151e^-15	1.312e^-10	UPSTREAM CG43333 INTERGENIC	TF binding site mE1_TFBS_Trl
3R	21264295	3R_21264295_SNP [dm3] 3R_25438573_SNP [dm6]	A	T	5.566e^-15	1.399e^-10	INTRON Fur1
X	12777143	X_12777143_SNP [dm3] X_12883110_SNP [dm6]	A	G	5.807e^-15	1.440e^-10	INTRON Pde9
3R	21248390	3R_21248390_SNP [dm3] 3R_25422668_SNP [dm6]	C	T	6.067e^-15	1.484e^-10	INTRON Fur1
2L	20526605	2L_20526605_SNP [dm3] 2L_20526605_SNP [dm6]	T	C	6.822e^-15	1.647e^-10	INTERGENIC
3L	1793613	3L_1793613_DEL [dm3] 3L_1793613_DEL [dm6]	TT	T	7.675e^-15	1.830e^-10	INTRON alpha-Spec & 1 other	TF binding site mE1_TFBS_cad mE1_TFBS_HSA
3L	17707431	3L_17707431_INS [dm3] 3L_17714331_INS [dm6]	C	CCG	9.602e^-15	2.232e^-10	INTRON Ccn	TF binding site BDTNP1_TFBS_twi
3L	17707434	3L_17707434_SNP [dm3] 3L_17714334_SNP [dm6]	C	A	9.602e^-15	2.232e^-10	INTRON Ccn	TF binding site BDTNP1_TFBS_twi
3R	16911756	3R_16911756_SNP [dm3] 3R_21086034_SNP [dm6]	T	A	1.085e^-14	2.491e^-10	INTRON RhoGAP93B	TF binding site mE1_TFBS_cad mE1_TFBS_chinmo mE1_TFBS_HSA mE1_TFBS_inv
3R	23007870	3R_23007870_SNP [dm3] 3R_27182148_SNP [dm6]	G	T	1.138e^-14	2.580e^-10	INTRON Ser
X	12777079	X_12777079_SNP [dm3] X_12883046_SNP [dm6]	C	T	1.566e^-14	3.508e^-10	INTRON Pde9
3L	22286200	3L_22286200_SNP [dm3] 3L_22293100_SNP [dm6]	A	G	2.150e^-14	4.760e^-10	UTR_3_PRIME Ten-m DOWNSTREAM Aats-ile & 1 other	TF binding site mE1_TFBS_HSA mE1_TFBS_kn
X	4871494	X_4871494_SNP [dm3] X_4977461_SNP [dm6]	A	G	2.632e^-14	5.690e^-10	INTRON CR44833
X	4872017	X_4872017_SNP [dm3] X_4977984_SNP [dm6]	A	T	2.632e^-14	5.690e^-10	INTRON CR44833
2L	11149268	2L_11149268_SNP [dm3] 2L_11149268_SNP [dm6]	A	G	4.471e^-14	9.557e^-10	UPSTREAM Gyc32E INTERGENIC	TF binding site BDTNP1_TFBS_prd mE1_TFBS_HSA
2R	17171840	2R_17171840_SNP [dm3] 2R_21284335_SNP [dm6]	G	A	1.016e^-13	2.146e^-9	DOWNSTREAM CG10505 INTRON MFS16	TF binding site mE1_TFBS_cad
2L	16374817	2L_16374817_SNP [dm3] 2L_16374817_SNP [dm6]	A	G	1.359e^-13	2.216e^-9	INTERGENIC
2R	12624923	2R_12624923_SNP [dm3] 2R_16737418_SNP [dm6]	C	A	1.359e^-13	2.216e^-9	NON_SYNONYMOUS_CODING CG43104 UPSTREAM CR44464	TF binding site mE1_TFBS_HSA
2R	12625207	2R_12625207_SNP [dm3] 2R_16737702_SNP [dm6]	A	G	1.359e^-13	2.216e^-9	UPSTREAM CR44464 INTRON CG43104	TF binding site mE1_TFBS_cad mE1_TFBS_HSA
2R	13864812	2R_13864812_SNP [dm3] 2R_17977307_SNP [dm6]	G	A	1.359e^-13	2.216e^-9	INTRON dpr13
3L	10032335	3L_10032335_SNP [dm3] 3L_10039235_SNP [dm6]	G	A	1.359e^-13	2.216e^-9	INTRON dpr6
3L	11948913	3L_11948913_SNP [dm3] 3L_11955813_SNP [dm6]	T	C	1.359e^-13	2.216e^-9	SYNONYMOUS_CODING CG7248 DOWNSTREAM CG11570
3L	13479863	3L_13479863_SNP [dm3] 3L_13486763_SNP [dm6]	T	C	1.359e^-13	2.216e^-9	UPSTREAM Tgi & 1 other INTERGENIC	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_z mE1_TFBS_bab1 mE1_TFBS_HSA mE1_TFBS_Ubx
3L	13484368	3L_13484368_SNP [dm3] 3L_13491268_SNP [dm6]	G	C	1.359e^-13	2.216e^-9	INTRON Tgi
3L	17627055	3L_17627055_SNP [dm3] 3L_17633955_SNP [dm6]	G	T	1.359e^-13	2.216e^-9	UPSTREAM CR44567 INTRON CG7497
3L	5946442	3L_5946442_SNP [dm3] 3L_5953342_SNP [dm6]	C	G	1.359e^-13	2.216e^-9	INTERGENIC	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_twi mE1_TFBS_cad
3L	9535907	3L_9535907_SNP [dm3] 3L_9542807_SNP [dm6]	G	T	1.359e^-13	2.216e^-9	NON_SYNONYMOUS_CODING Ir67a
3L	9670906	3L_9670906_SNP [dm3] 3L_9677806_SNP [dm6]	T	C	1.359e^-13	2.216e^-9	INTRON fry	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_twi mE1_TFBS_sens mE1_TFBS_Trl

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By genomic position
Variant impact
Gene name

Microbiota_OTU048 phenotype

Phenotype distribution and association to known covariates

QQplot

Manhattan plot

GWAS results