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=6.741e^-1)
Null hypothesis is not rejected (p>0.05).
Interpretation: 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

Covariate	p-value	Significance
In_2L_t	0.000217
In_2R_NS	0.010250

Kruskal-Wallis test

Covariate	χ²	p-value	Significance
In_2L_t	7.0884	0.0289

PNG PDF

QQplot

PNG PDF

Manhattan plot

GWAS results

3084 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
2L	13702977	2L_13702977_SNP [dm3] 2L_13702977_SNP [dm6]	T	C	1.287e^-7	0.147	INTRON CG31814
2R	19047952	2R_19047952_SNP [dm3] 2R_23160429_SNP [dm6]	A	G	4.573e^-7	0.147	SYNONYMOUS_CODING CG9899
3R	27132533	3R_27132533_SNP [dm3] 3R_31306811_SNP [dm6]	C	T	5.733e^-7	0.147	INTERGENIC
2L	4827156	2L_4827156_SNP [dm3] 2L_4827156_SNP [dm6]	C	T	5.889e^-7	0.147	INTRON CG15628	TF binding site BDTNP1_TFBS_dl mE1_TFBS_cad mE1_TFBS_HSA mE1_TFBS_sens
3R	12662148	3R_12662148_SNP [dm3] 3R_16836426_SNP [dm6]	T	G	7.180e^-7	0.147	INTRON iab-8
3L	13974548	3L_13974548_SNP [dm3] 3L_13981448_SNP [dm6]	G	A	7.919e^-7	0.147	UTR_3_PRIME CG17364 INTRON CG17364
2L	4829444	2L_4829444_SNP [dm3] 2L_4829444_SNP [dm6]	A	C	8.361e^-7	0.147	UTR_3_PRIME CG2976 DOWNSTREAM CG15628 & 1 other	TF binding site BDTNP1_TFBS_dl
2L	985159	2L_985159_SNP [dm3] 2L_985159_SNP [dm6]	G	A	9.093e^-7	0.147	INTERGENIC
3L	9355374	3L_9355374_SNP [dm3] 3L_9362274_SNP [dm6]	A	G	9.152e^-7	0.147	NON_SYNONYMOUS_CODING CG34456 DOWNSTREAM Klp67A & 1 other
2L	4830032	2L_4830032_SNP [dm3] 2L_4830032_SNP [dm6]	C	T	9.666e^-7	0.147	SPLICE_SITE_REGION CG2976 DOWNSTREAM Ir25a INTRON CG2976 EXON mir-4912	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_Med mE1_TFBS_HSA mE1_TFBS_sens
2L	4831046	2L_4831046_SNP [dm3] 2L_4831046_SNP [dm6]	C	G	1.140e^-6	0.147	SYNONYMOUS_CODING Ir25a UPSTREAM CG2976	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_Med mE1_TFBS_cad mE1_TFBS_HSA
2L	20535175	2L_20535175_SNP [dm3] 2L_20535175_SNP [dm6]	C	G	1.182e^-6	0.147	INTERGENIC
2L	3563440	2L_3563440_SNP [dm3] 2L_3563440_SNP [dm6]	C	T	1.439e^-6	0.147	DOWNSTREAM CR44309 EXON CR44747	TF binding site mE1_TFBS_HSA mE1_TFBS_sens
2L	976080	2L_976080_SNP [dm3] 2L_976080_SNP [dm6]	C	A	1.511e^-6	0.147	INTERGENIC
2L	992660	2L_992660_SNP [dm3] 2L_992660_SNP [dm6]	G	T	1.511e^-6	0.147	INTERGENIC
2L	993871	2L_993871_DEL [dm3] 2L_993871_DEL [dm6]	CGCTACA	T	1.511e^-6	0.147	INTERGENIC
2L	993879	2L_993879_SNP [dm3] 2L_993879_SNP [dm6]	G	T	1.511e^-6	0.147	INTERGENIC
2L	6832743	2L_6832743_SNP [dm3] 2L_6832743_SNP [dm6]	C	T	1.655e^-6	0.147	INTRON sens-2	TF binding site BDTNP1_TFBS_dl mE1_TFBS_cad
2L	706978	2L_706978_SNP [dm3] 2L_706978_SNP [dm6]	T	C	1.680e^-6	0.147	SYNONYMOUS_CODING ds	TF binding site mE1_TFBS_HSA
2L	996469	2L_996469_SNP [dm3] 2L_996469_SNP [dm6]	C	T	1.717e^-6	0.147	INTERGENIC	TF binding site mE1_TFBS_chinmo
2L	1006671	2L_1006671_SNP [dm3] 2L_1006671_SNP [dm6]	C	T	1.785e^-6	0.147	INTERGENIC	TF binding site mE1_TFBS_bab1 mE1_TFBS_cad mE1_TFBS_HSA mE1_TFBS_ttk
2L	1006758	2L_1006758_SNP [dm3] 2L_1006758_SNP [dm6]	A	C	1.785e^-6	0.147	INTERGENIC	TF binding site mE1_TFBS_bab1 mE1_TFBS_cad mE1_TFBS_HSA mE1_TFBS_ttk
2L	7049216	2L_7049216_SNP [dm3] 2L_7049216_SNP [dm6]	G	C	1.945e^-6	0.147	UPSTREAM milt INTRON milt	TF binding site BDTNP1_TFBS_bcd BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_gt BDTNP1_TFBS_hb BDTNP1_TFBS_Med BDTNP1_TFBS_prd BDTNP1_TFBS_shn BDTNP1_TFBS_twi BDTNP1_TFBS_z mE1_TFBS_cad mE1_TFBS_disco mE1_TFBS_HSA mE1_TFBS_jumu mE1_TFBS_sens mE1_TFBS_Trl
2L	7049229	2L_7049229_SNP [dm3] 2L_7049229_SNP [dm6]	C	T	1.945e^-6	0.147	UPSTREAM milt INTRON milt	TF binding site BDTNP1_TFBS_bcd BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_gt BDTNP1_TFBS_hb BDTNP1_TFBS_Med BDTNP1_TFBS_prd BDTNP1_TFBS_shn BDTNP1_TFBS_twi BDTNP1_TFBS_z mE1_TFBS_cad mE1_TFBS_disco mE1_TFBS_HSA mE1_TFBS_jumu mE1_TFBS_sens mE1_TFBS_Trl
2L	4724194	2L_4724194_SNP [dm3] 2L_4724194_SNP [dm6]	A	G	2.019e^-6	0.147	INTERGENIC
2L	4712309	2L_4712309_SNP [dm3] 2L_4712309_SNP [dm6]	C	T	2.150e^-6	0.151	SYNONYMOUS_CODING CG34351
2L	3294675	2L_3294675_SNP [dm3] 2L_3294675_SNP [dm6]	A	G	2.424e^-6	0.162	UTR_5_PRIME CG9664 DOWNSTREAM CG9663
2L	976624	2L_976624_SNP [dm3] 2L_976624_SNP [dm6]	G	T	2.492e^-6	0.162	INTERGENIC
2L	12566647	2L_12566647_SNP [dm3] 2L_12566647_SNP [dm6]	A	G	2.753e^-6	0.164	INTERGENIC	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_twi mE1_TFBS_HSA
2L	4831614	2L_4831614_SNP [dm3] 2L_4831614_SNP [dm6]	G	A	2.810e^-6	0.164	SYNONYMOUS_CODING Ir25a UPSTREAM CG2976	TF binding site mE1_TFBS_cad mE1_TFBS_HSA mE1_TFBS_sens
3R	23124694	3R_23124694_SNP [dm3] 3R_27298972_SNP [dm6]	C	T	2.816e^-6	0.164	INTRON CG3339
3R	23167732	3R_23167732_SNP [dm3] 3R_27342010_SNP [dm6]	C	A	2.951e^-6	0.164	INTRON CG42534
3R	23168134	3R_23168134_SNP [dm3] 3R_27342412_SNP [dm6]	T	C	2.968e^-6	0.164	INTRON CG42534
2L	3481218	2L_3481218_SNP [dm3] 2L_3481218_SNP [dm6]	C	T	3.178e^-6	0.17	SYNONYMOUS_CODING CG15414	TF binding site mE1_TFBS_cad mE1_TFBS_chinmo mE1_TFBS_HSA
2L	4830538	2L_4830538_SNP [dm3] 2L_4830538_SNP [dm6]	C	T	3.406e^-6	0.176	NON_SYNONYMOUS_CODING CG2976 UPSTREAM mir-4912 DOWNSTREAM Ir25a	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_Med mE1_TFBS_h mE1_TFBS_HSA
2R	7913418	2R_7913418_SNP [dm3] 2R_12025913_SNP [dm6]	T	A	3.675e^-6	0.176	SYNONYMOUS_CODING Mppe UPSTREAM CG8964	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_twi mE1_TFBS_cad mE1_TFBS_HSA
3L	9357894	3L_9357894_SNP [dm3] 3L_9364794_SNP [dm6]	C	A	3.716e^-6	0.176	SYNONYMOUS_CODING CG4447 INTRON Klp67A	TF binding site mE1_TFBS_cad mE1_TFBS_sens
2L	2827498	2L_2827498_SNP [dm3] 2L_2827498_SNP [dm6]	A	T	3.807e^-6	0.176	INTRON Duox
2L	821864	2L_821864_SNP [dm3] 2L_821864_SNP [dm6]	C	A	3.816e^-6	0.176	UTR_5_PRIME CG3662 DOWNSTREAM Clp INTRON CG3662	TF binding site BDTNP1_TFBS_dl mE1_TFBS_sens
3L	9355503	3L_9355503_SNP [dm3] 3L_9362403_SNP [dm6]	G	T	3.875e^-6	0.176	NON_SYNONYMOUS_CODING CG34456 DOWNSTREAM Klp67A & 1 other
3R	27132378	3R_27132378_SNP [dm3] 3R_31306656_SNP [dm6]	C	T	4.487e^-6	0.186	INTERGENIC	TF binding site mE1_TFBS_cad
2L	987256	2L_987256_SNP [dm3] 2L_987256_SNP [dm6]	T	A	4.497e^-6	0.186	DOWNSTREAM CR44801 INTERGENIC
2R	16857695	2R_16857695_SNP [dm3] 2R_20970190_SNP [dm6]	A	C	4.553e^-6	0.186	INTERGENIC	TF binding site BDTNP1_TFBS_dl
2L	994688	2L_994688_SNP [dm3] 2L_994688_SNP [dm6]	G	T	4.634e^-6	0.186	INTERGENIC
2L	2077187	2L_2077187_SNP [dm3] 2L_2077187_SNP [dm6]	C	T	4.700e^-6	0.186	INTRON dpr3
2L	1848969	2L_1848969_SNP [dm3] 2L_1848969_SNP [dm6]	T	G	4.802e^-6	0.186	INTRON wry
2L	15376573	2L_15376573_DEL [dm3] 2L_15376573_DEL [dm6]	TG	T	5.065e^-6	0.186	INTERGENIC
3R	23177373	3R_23177373_SNP [dm3] 3R_27351651_SNP [dm6]	T	A	5.079e^-6	0.186	INTRON CG42534
3R	21003330	3R_21003330_SNP [dm3] 3R_25177608_SNP [dm6]	G	C	5.100e^-6	0.186	INTRON lobo	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_twi mE1_TFBS_cad
2L	2412049	2L_2412049_SNP [dm3] 2L_2412049_SNP [dm6]	A	G	5.151e^-6	0.186	INTRON CG18641	TF binding site mE1_TFBS_cad mE1_TFBS_chinmo mE1_TFBS_HSA
2L	3427559	2L_3427559_DEL [dm3] 2L_3427559_DEL [dm6]	ACCGATGCGAT...	A	5.219e^-6	0.186	UPSTREAM pgant2 INTERGENIC	TF binding site mE1_TFBS_Trl
2L	4835291	2L_4835291_SNP [dm3] 2L_4835291_SNP [dm6]	G	A	5.346e^-6	0.187	UTR_5_PRIME Ir25a UPSTREAM Ir25a DOWNSTREAM tank
3L	9355434	3L_9355434_SNP [dm3] 3L_9362334_SNP [dm6]	G	C	5.706e^-6	0.195	NON_SYNONYMOUS_CODING CG34456 DOWNSTREAM Klp67A & 1 other
2L	3294903	2L_3294903_SNP [dm3] 2L_3294903_SNP [dm6]	T	C	5.795e^-6	0.195	UPSTREAM CG9664 DOWNSTREAM CG9663 INTERGENIC
2R	1841378	2R_1841378_SNP [dm3] 2R_5953873_SNP [dm6]	T	C	5.925e^-6	0.196	INTERGENIC	TF binding site BDTNP1_TFBS_dl
2L	4830920	2L_4830920_SNP [dm3] 2L_4830920_SNP [dm6]	G	C	6.233e^-6	0.203	UTR_3_PRIME Ir25a UPSTREAM mir-4912 & 1 other	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_Med mE1_TFBS_cad mE1_TFBS_h mE1_TFBS_HSA
3R	23004895	3R_23004895_SNP [dm3] 3R_27179173_SNP [dm6]	A	G	6.803e^-6	0.21	INTRON Ser
3R	23903630	3R_23903630_SNP [dm3] 3R_28077908_SNP [dm6]	A	C	7.045e^-6	0.21	INTRON CG34362
2L	958456	2L_958456_SNP [dm3] 2L_958456_SNP [dm6]	A	G	7.081e^-6	0.21	DOWNSTREAM CG4341 INTERGENIC	TF binding site mE1_TFBS_chinmo
2L	3625006	2L_3625006_SNP [dm3] 2L_3625006_SNP [dm6]	C	T	7.104e^-6	0.21	INTRON for	TF binding site BDTNP1_TFBS_da mE1_TFBS_GATAe mE1_TFBS_HSA
3R	18295966	3R_18295966_SNP [dm3] 3R_22470244_SNP [dm6]	G	A	7.122e^-6	0.21	UTR_5_PRIME Nrx-1	TF binding site mE1_TFBS_cad mE1_TFBS_chinmo mE1_TFBS_Trl
2L	2873038	2L_2873038_DEL [dm3] 2L_2873038_DEL [dm6]	ATGGTTATAT	A	7.159e^-6	0.21	INTRON CG31694	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_prd BDTNP1_TFBS_twi
2L	1992664	2L_1992664_DEL [dm3] 2L_1992664_DEL [dm6]	AA	A	7.327e^-6	0.212	UPSTREAM Obp22a INTERGENIC
X	11718588	X_11718588_SNP [dm3] X_11824555_SNP [dm6]	T	A	7.531e^-6	0.214	INTRON rudhira
2L	2746233	2L_2746233_SNP [dm3] 2L_2746233_SNP [dm6]	A	G	7.677e^-6	0.215	SYNONYMOUS_CODING Cwc25 DOWNSTREAM Pgk	TF binding site mE1_TFBS_HSA mE1_TFBS_sens
3R	27119780	3R_27119780_SNP [dm3] 3R_31294058_SNP [dm6]	G	C	7.956e^-6	0.22	INTERGENIC
2L	4861953	2L_4861953_DEL [dm3] 2L_4861953_DEL [dm6]	GG	G	8.197e^-6	0.223	INTRON pog
2L	4835148	2L_4835148_SNP [dm3] 2L_4835148_SNP [dm6]	A	T	8.573e^-6	0.225	UTR_5_PRIME Ir25a UPSTREAM Ir25a DOWNSTREAM tank INTRON Ir25a
2L	4835158	2L_4835158_SNP [dm3] 2L_4835158_SNP [dm6]	T	C	8.573e^-6	0.225	UTR_5_PRIME Ir25a UPSTREAM Ir25a DOWNSTREAM tank INTRON Ir25a
3L	10478277	3L_10478277_SNP [dm3] 3L_10485177_SNP [dm6]	G	A	8.632e^-6	0.225	INTRON A2bp1
2L	12554476	2L_12554476_SNP [dm3] 2L_12554476_SNP [dm6]	T	C	8.892e^-6	0.227	INTERGENIC
3R	4119976	3R_4119976_SNP [dm3] 3R_8294254_SNP [dm6]	C	T	8.970e^-6	0.227	SYNONYMOUS_CODING CG9626 DOWNSTREAM CG31463	TF binding site mE1_TFBS_chinmo
2L	3572554	2L_3572554_SNP [dm3] 2L_3572554_SNP [dm6]	C	T	9.159e^-6	0.228	INTERGENIC	TF binding site mE1_TFBS_HSA mE1_TFBS_sens mE1_TFBS_Trl
2L	4834150	2L_4834150_SNP [dm3] 2L_4834150_SNP [dm6]	C	T	9.672e^-6	0.234	SYNONYMOUS_CODING Ir25a
2L	15376566	2L_15376566_SNP [dm3] 2L_15376566_SNP [dm6]	A	T	9.789e^-6	0.234	INTERGENIC
2L	2098204	2L_2098204_SNP [dm3] 2L_2098204_SNP [dm6]	G	T	1.009e^-5	0.234	INTRON dpr3
2L	2098744	2L_2098744_SNP [dm3] 2L_2098744_SNP [dm6]	C	T	1.009e^-5	0.234	INTRON dpr3
2L	2628627	2L_2628627_SNP [dm3] 2L_2628627_SNP [dm6]	A	G	1.017e^-5	0.234	UPSTREAM CR45705 INTERGENIC
2L	2628645	2L_2628645_SNP [dm3] 2L_2628645_SNP [dm6]	C	G	1.017e^-5	0.234	UPSTREAM CR45705 INTERGENIC
2L	4831004	2L_4831004_SNP [dm3] 2L_4831004_SNP [dm6]	A	G	1.047e^-5	0.238	SYNONYMOUS_CODING Ir25a UPSTREAM mir-4912 & 1 other	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_Med mE1_TFBS_cad mE1_TFBS_HSA
3R	27119783	3R_27119783_SNP [dm3] 3R_31294061_SNP [dm6]	T	C	1.061e^-5	0.238	INTERGENIC
2L	3482882	2L_3482882_SNP [dm3] 2L_3482882_SNP [dm6]	G	A	1.070e^-5	0.238	INTRON CG15414
3L	7826559	3L_7826559_SNP [dm3] 3L_7833459_SNP [dm6]	T	A	1.118e^-5	0.241	UPSTREAM Pdp1 INTRON Pdp1
2L	2735485	2L_2735485_SNP [dm3] 2L_2735485_SNP [dm6]	C	A	1.126e^-5	0.241	UPSTREAM CG31689 INTRON CG31689
2L	3015610	2L_3015610_SNP [dm3] 2L_3015610_SNP [dm6]	C	G	1.136e^-5	0.241	UTR_3_PRIME CG17265 DOWNSTREAM CG17224	TF binding site BDTNP1_TFBS_twi
2L	15376594	2L_15376594_DEL [dm3] 2L_15376594_DEL [dm6]	ACCTTTATTC	A	1.139e^-5	0.241	INTERGENIC
3L	2145586	3L_2145586_SNP [dm3] 3L_2145586_SNP [dm6]	G	C	1.162e^-5	0.241	INTRON zormin	TF binding site BDTNP1_TFBS_dl mE1_TFBS_HSA
2L	996425	2L_996425_SNP [dm3] 2L_996425_SNP [dm6]	G	T	1.179e^-5	0.241	INTERGENIC	TF binding site mE1_TFBS_chinmo
3R	18001694	3R_18001694_SNP [dm3] 3R_22175972_SNP [dm6]	G	T	1.185e^-5	0.241	INTRON SKIP
2L	851442	2L_851442_SNP [dm3] 2L_851442_SNP [dm6]	C	T	1.190e^-5	0.241	UTR_3_PRIME CG4291 UPSTREAM drongo DOWNSTREAM CR44060	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_Med mE1_TFBS_cad mE1_TFBS_h
3R	18001701	3R_18001701_SNP [dm3] 3R_22175979_SNP [dm6]	C	T	1.208e^-5	0.242	INTRON SKIP
2R	19004888	2R_19004888_SNP [dm3] 2R_23117365_SNP [dm6]	T	G	1.239e^-5	0.244	INTERGENIC
3R	20444019	3R_20444019_SNP [dm3] 3R_24618297_SNP [dm6]	G	T	1.244e^-5	0.244	SYNONYMOUS_CODING mld	TF binding site mE1_TFBS_cad mE1_TFBS_chinmo mE1_TFBS_HSA mE1_TFBS_sens
2L	833363	2L_833363_SNP [dm3] 2L_833363_SNP [dm6]	C	T	1.266e^-5	0.245	DOWNSTREAM drongo & 1 other INTERGENIC
2L	7059241	2L_7059241_SNP [dm3] 2L_7059241_SNP [dm6]	C	G	1.383e^-5	0.261	NON_SYNONYMOUS_CODING Mnn1 UTR_3_PRIME CG31907 DOWNSTREAM CG31907 INTRON Mnn1	TF binding site mE1_TFBS_cad
2L	13718084	2L_13718084_SNP [dm3] 2L_13718084_SNP [dm6]	G	A	1.387e^-5	0.261	UPSTREAM CG31814 INTERGENIC
3R	27137723	3R_27137723_SNP [dm3] 3R_31312001_SNP [dm6]	T	C	1.397e^-5	0.261	INTRON CG34347
2L	2827343	2L_2827343_SNP [dm3] 2L_2827343_SNP [dm6]	G	A	1.403e^-5	0.261	INTRON Duox
2L	9973443	2L_9973443_SNP [dm3] 2L_9973443_SNP [dm6]	T	A	1.446e^-5	0.266	INTERGENIC	TF binding site mE1_TFBS_Kr
X	2345062	X_2345062_SNP [dm3] X_2451029_SNP [dm6]	G	A	1.467e^-5	0.267	SYNONYMOUS_CODING boi DOWNSTREAM z	TF binding site mE1_TFBS_cad mE1_TFBS_HSA mE1_TFBS_sens

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By genomic position
Variant impact
Gene name

mn_Aggressi_Isol_ADJ phenotype

Phenotype distribution and association to known covariates

QQplot

Manhattan plot

GWAS results