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=2.813e^-6)
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

2045 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
2R	8141858	2R_8141858_SNP [dm3] 2R_12254353_SNP [dm6]	A	T	1.194e^-6	0.819	SPLICE_SITE_REGION CG13168 UTR_5_PRIME CG13168
3R	22280917	3R_22280917_SNP [dm3] 3R_26455195_SNP [dm6]	T	C	1.466e^-6	0.819	DOWNSTREAM Pdf & 2 others INTERGENIC
3L	10588484	3L_10588484_INS [dm3] 3L_10595384_INS [dm6]	T	TT	1.976e^-6	0.819	INTERGENIC
3L	12756205	3L_12756205_SNP [dm3] 3L_12763105_SNP [dm6]	G	A	2.289e^-6	0.819	SYNONYMOUS_CODING CG32113	TF binding site mE1_TFBS_cad mE1_TFBS_HSA mE1_TFBS_sens
2R	8141859	2R_8141859_SNP [dm3] 2R_12254354_SNP [dm6]	A	T	2.973e^-6	0.819	SPLICE_SITE_REGION CG13168 START_GAINED CG13168 UTR_5_PRIME CG13168
2L	15031843	2L_15031843_SNP [dm3] 2L_15031843_SNP [dm6]	T	A	3.412e^-6	0.819	UPSTREAM CG31832 INTRON GABA-B-R1
3R	6278986	3R_6278986_SNP [dm3] 3R_10453264_SNP [dm6]	T	G	4.280e^-6	0.819	INTERGENIC
2R	8143442	2R_8143442_SNP [dm3] 2R_12255937_SNP [dm6]	T	A	5.571e^-6	0.819	DOWNSTREAM CG13168 INTERGENIC
X	12730510	X_12730510_SNP [dm3] X_12836477_SNP [dm6]	C	A	5.611e^-6	0.819	INTRON Pde9
3L	12755893	3L_12755893_SNP [dm3] 3L_12762793_SNP [dm6]	A	C	6.066e^-6	0.819	SYNONYMOUS_CODING CG32113	TF binding site mE1_TFBS_HSA mE1_TFBS_sens
3R	14940692	3R_14940692_SNP [dm3] 3R_19114970_SNP [dm6]	T	A	6.353e^-6	0.819	INTRON CG6040
2L	885738	2L_885738_SNP [dm3] 2L_885738_SNP [dm6]	G	C	8.586e^-6	0.819	UPSTREAM CG15824 INTERGENIC
3L	10588645	3L_10588645_DEL [dm3] 3L_10595545_DEL [dm6]	GG	G	8.629e^-6	0.819	INTERGENIC
X	11021623	X_11021623_SNP [dm3] X_11127590_SNP [dm6]	G	T	9.110e^-6	0.819	SYNONYMOUS_CODING Gtp-bp DOWNSTREAM Rpt3	TF binding site BDTNP1_TFBS_Mad BDTNP1_TFBS_sna BDTNP1_TFBS_twi mE1_TFBS_cad mE1_TFBS_chinmo mE1_TFBS_HSA mE1_TFBS_sens
X	3529676	X_3529676_SNP [dm3] X_3635643_SNP [dm6]	A	C	1.094e^-5	0.819	INTRON AstA-R1
2R	8141880	2R_8141880_SNP [dm3] 2R_12254375_SNP [dm6]	A	C	1.109e^-5	0.819	INTRON CG13168
3L	749007	3L_749007_SNP [dm3] 3L_749007_SNP [dm6]	A	G	1.126e^-5	0.819	UPSTREAM emc INTRON hng3	TF binding site BDTNP1_TFBS_bcd BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_hb BDTNP1_TFBS_Med BDTNP1_TFBS_prd BDTNP1_TFBS_sna BDTNP1_TFBS_twi BDTNP1_TFBS_z mE1_TFBS_en mE1_TFBS_HSA mE1_TFBS_kn mE1_TFBS_sens mE1_TFBS_Trl mE1_TFBS_ttk mE1_TFBS_Ubx mE1_TFBS_zfh1
2R	14996840	2R_14996840_SNP [dm3] 2R_19109335_SNP [dm6]	G	A	1.183e^-5	0.819	INTRON 5-HT1A
2R	10889145	2R_10889145_SNP [dm3] 2R_15001640_SNP [dm6]	T	C	1.272e^-5	0.819	INTERGENIC	TF binding site BDTNP1_TFBS_twi mE1_TFBS_HSA mE1_TFBS_sbb
2R	16666807	2R_16666807_SNP [dm3] 2R_20779302_SNP [dm6]	A	T	1.291e^-5	0.819	SYNONYMOUS_CODING CG43711 DOWNSTREAM CR44666
2R	76537	2R_76537_SNP [dm3] 2R_4189032_SNP [dm6]	T	C	1.294e^-5	0.819	UPSTREAM CG40127 INTERGENIC
3R	22282264	3R_22282264_SNP [dm3] 3R_26456542_SNP [dm6]	A	C	1.345e^-5	0.819	UPSTREAM CG14237 & 1 other INTERGENIC
3R	9746531	3R_9746531_SNP [dm3] 3R_13920809_SNP [dm6]	C	T	1.378e^-5	0.819	INTERGENIC
2L	12296926	2L_12296926_SNP [dm3] 2L_12296926_SNP [dm6]	C	T	1.386e^-5	0.819	INTRON aret
2R	8141876	2R_8141876_SNP [dm3] 2R_12254371_SNP [dm6]	A	G	1.403e^-5	0.819	INTRON CG13168
3L	23430259	3L_23430259_SNP [dm3] 3L_23437159_SNP [dm6]	A	T	1.413e^-5	0.819	INTERGENIC
3L	12753034	3L_12753034_SNP [dm3] 3L_12759934_SNP [dm6]	T	G	1.413e^-5	0.819	INTRON CG32113
2L	4121650	2L_4121650_SNP [dm3] 2L_4121650_SNP [dm6]	A	G	1.566e^-5	0.819	UPSTREAM Sr-CI DOWNSTREAM Sr-CIII INTERGENIC
3L	12756169	3L_12756169_SNP [dm3] 3L_12763069_SNP [dm6]	C	T	1.633e^-5	0.819	SYNONYMOUS_CODING CG32113	TF binding site mE1_TFBS_cad mE1_TFBS_HSA mE1_TFBS_sens
2L	9616759	2L_9616759_SNP [dm3] 2L_9616759_SNP [dm6]	A	C	1.662e^-5	0.819	UPSTREAM GlcAT-S DOWNSTREAM Trx-2 INTRON GlcAT-S	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_twi mE1_TFBS_HSA mE1_TFBS_Trl
3R	8047217	3R_8047217_DEL [dm3] 3R_12221495_DEL [dm6]	AGGTA	A	1.680e^-5	0.819	UPSTREAM CG10014 & 1 other INTERGENIC	TF binding site mE1_TFBS_chinmo
2L	9874062	2L_9874062_SNP [dm3] 2L_9874062_SNP [dm6]	C	T	1.691e^-5	0.819	INTRON nAChRalpha6
X	7438840	X_7438840_SNP [dm3] X_7544807_SNP [dm6]	T	C	1.710e^-5	0.819	INTRON CG32719	TF binding site mE1_TFBS_HSA mE1_TFBS_Trl
2R	10919711	2R_10919711_SNP [dm3] 2R_15032206_SNP [dm6]	C	T	1.730e^-5	0.819	INTRON hbs	TF binding site BDTNP1_TFBS_twi
X	7439033	X_7439033_SNP [dm3] X_7545000_SNP [dm6]	A	C	1.772e^-5	0.819	INTRON CG32719	TF binding site mE1_TFBS_Trl
3L	18242176	3L_18242176_SNP [dm3] 3L_18249076_SNP [dm6]	A	C	1.780e^-5	0.819	INTERGENIC	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_twi mE1_TFBS_HSA
3L	12752982	3L_12752982_SNP [dm3] 3L_12759882_SNP [dm6]	C	T	1.785e^-5	0.819	NON_SYNONYMOUS_CODING CG32113
3R	15839063	3R_15839063_SNP [dm3] 3R_20013341_SNP [dm6]	T	A	1.793e^-5	0.819	UPSTREAM CG4836 INTRON CG17190
3R	4444479	3R_4444479_SNP [dm3] 3R_8618757_SNP [dm6]	T	A	1.868e^-5	0.819	INTRON 5-HT2B
3L	5860181	3L_5860181_SNP [dm3] 3L_5867081_SNP [dm6]	C	A	1.892e^-5	0.819	INTERGENIC
2R	9120685	2R_9120685_SNP [dm3] 2R_13233180_SNP [dm6]	T	C	1.965e^-5	0.819	INTRON CG4670	TF binding site mE1_TFBS_cad
3L	12755788	3L_12755788_SNP [dm3] 3L_12762688_SNP [dm6]	C	T	2.034e^-5	0.819	SYNONYMOUS_CODING CG32113	TF binding site mE1_TFBS_HSA
2R	16666693	2R_16666693_SNP [dm3] 2R_20779188_SNP [dm6]	A	G	2.075e^-5	0.819	SYNONYMOUS_CODING CG43711
2L	9616849	2L_9616849_SNP [dm3] 2L_9616849_SNP [dm6]	G	A	2.115e^-5	0.819	UTR_5_PRIME GlcAT-S DOWNSTREAM Trx-2 INTRON GlcAT-S	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_twi mE1_TFBS_disco mE1_TFBS_HSA mE1_TFBS_Trl
X	3530568	X_3530568_SNP [dm3] X_3636535_SNP [dm6]	T	A	2.189e^-5	0.819	INTRON AstA-R1	transposable element FlyBase
X	5442715	X_5442715_SNP [dm3] X_5548682_SNP [dm6]	A	G	2.219e^-5	0.819	INTRON Vsx2	TF binding site BDTNP1_TFBS_dl
2R	7055577	2R_7055577_SNP [dm3] 2R_11168072_SNP [dm6]	A	T	2.417e^-5	0.819	INTRON shn & 1 other
2L	12552325	2L_12552325_SNP [dm3] 2L_12552325_SNP [dm6]	A	T	2.425e^-5	0.819	INTERGENIC
3L	748989	3L_748989_SNP [dm3] 3L_748989_SNP [dm6]	A	G	2.464e^-5	0.819	UPSTREAM emc INTRON hng3	TF binding site BDTNP1_TFBS_bcd BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_hb BDTNP1_TFBS_Med BDTNP1_TFBS_prd BDTNP1_TFBS_sna BDTNP1_TFBS_twi BDTNP1_TFBS_z mE1_TFBS_en mE1_TFBS_HSA mE1_TFBS_kn mE1_TFBS_sens mE1_TFBS_Trl mE1_TFBS_ttk mE1_TFBS_Ubx mE1_TFBS_zfh1
2R	11247764	2R_11247764_SNP [dm3] 2R_15360259_SNP [dm6]	G	C	2.476e^-5	0.819	INTRON unc-5
3L	18352929	3L_18352929_SNP [dm3] 3L_18359829_SNP [dm6]	A	G	2.520e^-5	0.819	INTERGENIC	TF binding site mE1_TFBS_cad
2L	22208901	2L_22208901_SNP [dm3] 2L_22208901_SNP [dm6]	C	A	2.607e^-5	0.819	INTRON Ir40a	transposable element FlyBase
2R	8139295	2R_8139295_SNP [dm3] 2R_12251790_SNP [dm6]	G	T	2.631e^-5	0.819	INTERGENIC
3L	887366	3L_887366_SNP [dm3] 3L_887366_SNP [dm6]	T	G	2.709e^-5	0.819	UPSTREAM CG32479 INTRON CG32479
3R	12438806	3R_12438806_SNP [dm3] 3R_16613084_SNP [dm6]	A	T	2.723e^-5	0.819	SYNONYMOUS_CODING CG12783 DOWNSTREAM CG10340
3L	9617491	3L_9617491_SNP [dm3] 3L_9624391_SNP [dm6]	T	A	2.752e^-5	0.819	DOWNSTREAM LanB2 INTRON CG3335
X	5388686	X_5388686_SNP [dm3] X_5494653_SNP [dm6]	C	A	2.753e^-5	0.819	SYNONYMOUS_CODING frma DOWNSTREAM SPR
X	14759189	X_14759189_SNP [dm3] X_14865156_SNP [dm6]	A	G	2.760e^-5	0.819	SYNONYMOUS_CODING CG9518 INTRON Flo2	TF binding site BDTNP1_TFBS_twi mE1_TFBS_HSA mE1_TFBS_sens
2R	16665509	2R_16665509_SNP [dm3] 2R_20778004_SNP [dm6]	A	C	2.761e^-5	0.819	UPSTREAM CG43710 DOWNSTREAM CG43711 INTERGENIC
3R	22284611	3R_22284611_SNP [dm3] 3R_26458889_SNP [dm6]	C	A	2.817e^-5	0.819	INTRON CG14238
2R	8143747	2R_8143747_SNP [dm3] 2R_12256242_SNP [dm6]	T	A	2.881e^-5	0.819	DOWNSTREAM CG13168 INTERGENIC
X	20941182	X_20941182_SNP [dm3] X_21070155_SNP [dm6]	A	T	2.898e^-5	0.819	INTRON bves	TF binding site BDTNP1_TFBS_twi
3R	20774714	3R_20774714_SNP [dm3] 3R_24948992_SNP [dm6]	G	C	2.905e^-5	0.819	INTRON CG13646
3L	887357	3L_887357_SNP [dm3] 3L_887357_SNP [dm6]	G	A	2.906e^-5	0.819	UPSTREAM CG32479 INTRON CG32479
3L	887358	3L_887358_SNP [dm3] 3L_887358_SNP [dm6]	G	A	2.988e^-5	0.819	UPSTREAM CG32479 INTRON CG32479
2R	8140770	2R_8140770_SNP [dm3] 2R_12253265_SNP [dm6]	C	T	2.998e^-5	0.819	UPSTREAM CG13168 INTERGENIC	TF binding site BDTNP1_TFBS_dl mE1_TFBS_HSA mE1_TFBS_Trl
2L	6151000	2L_6151000_SNP [dm3] 2L_6151000_SNP [dm6]	T	C	2.999e^-5	0.819	UPSTREAM Muc26B INTERGENIC
2R	16667689	2R_16667689_SNP [dm3] 2R_20780184_SNP [dm6]	G	T	3.000e^-5	0.819	UPSTREAM CG43711 DOWNSTREAM CR44666 INTERGENIC
3L	6523672	3L_6523672_DEL [dm3] 3L_6530572_DEL [dm6]	TGAAG	T	3.028e^-5	0.819	UPSTREAM CG32396 INTRON sfl
2L	9439202	2L_9439202_SNP [dm3] 2L_9439202_SNP [dm6]	T	C	3.079e^-5	0.819	DOWNSTREAM CG33723 INTRON numb
X	3530291	X_3530291_SNP [dm3] X_3636258_SNP [dm6]	A	G	3.121e^-5	0.819	INTRON AstA-R1
3L	12752556	3L_12752556_SNP [dm3] 3L_12759456_SNP [dm6]	A	G	3.176e^-5	0.819	SYNONYMOUS_CODING CG32113
X	3530224	X_3530224_SNP [dm3] X_3636191_SNP [dm6]	G	A	3.265e^-5	0.819	INTRON AstA-R1
3L	10904778	3L_10904778_SNP [dm3] 3L_10911678_SNP [dm6]	C	T	3.277e^-5	0.819	INTERGENIC
3L	12754861	3L_12754861_SNP [dm3] 3L_12761761_SNP [dm6]	C	T	3.437e^-5	0.819	SYNONYMOUS_CODING CG32113	TF binding site mE1_TFBS_HSA mE1_TFBS_inv
3L	7718150	3L_7718150_SNP [dm3] 3L_7725050_SNP [dm6]	G	A	3.445e^-5	0.819	SYNONYMOUS_CODING CG7457 INTRON CG32373	TF binding site mE1_TFBS_cad mE1_TFBS_HSA mE1_TFBS_sens
X	5442720	X_5442720_SNP [dm3] X_5548687_SNP [dm6]	A	G	3.561e^-5	0.819	INTRON Vsx2	TF binding site BDTNP1_TFBS_dl
X	3530299	X_3530299_SNP [dm3] X_3636266_SNP [dm6]	T	A	3.616e^-5	0.819	INTRON AstA-R1
2R	7053182	2R_7053182_SNP [dm3] 2R_11165677_SNP [dm6]	C	G	3.619e^-5	0.819	INTRON shn & 1 other
X	7444982	X_7444982_DEL [dm3] X_7550949_DEL [dm6]	AA	A	3.645e^-5	0.819	INTERGENIC
3R	6284752	3R_6284752_SNP [dm3] 3R_10459030_SNP [dm6]	A	G	3.670e^-5	0.819	INTERGENIC
2L	12552183	2L_12552183_SNP [dm3] 2L_12552183_SNP [dm6]	G	A	3.691e^-5	0.819	INTERGENIC
2L	12552184	2L_12552184_SNP [dm3] 2L_12552184_SNP [dm6]	A	G	3.691e^-5	0.819	INTERGENIC
3L	10456079	3L_10456079_SNP [dm3] 3L_10462979_SNP [dm6]	A	G	3.819e^-5	0.819	SYNONYMOUS_CODING Gem3 UPSTREAM CG32061	TF binding site mE1_TFBS_bab1 mE1_TFBS_cad
3L	1685015	3L_1685015_SNP [dm3] 3L_1685015_SNP [dm6]	C	T	3.886e^-5	0.819	INTRON CG7991
2L	3279070	2L_3279070_SNP [dm3] 2L_3279070_SNP [dm6]	T	C	3.936e^-5	0.819	INTRON CG3332
3R	13158337	3R_13158337_SNP [dm3] 3R_17332615_SNP [dm6]	G	A	4.007e^-5	0.819	SYNONYMOUS_CODING beat-IIa
X	7439140	X_7439140_SNP [dm3] X_7545107_SNP [dm6]	C	T	4.085e^-5	0.819	INTRON CG32719
X	3530084	X_3530084_SNP [dm3] X_3636051_SNP [dm6]	A	G	4.104e^-5	0.819	INTRON AstA-R1
X	16148529	X_16148529_SNP [dm3] X_16254496_SNP [dm6]	C	T	4.104e^-5	0.819	UPSTREAM snRNA:U2:14B & 1 other INTERGENIC	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_twi mE1_TFBS_HSA
X	7439090	X_7439090_SNP [dm3] X_7545057_SNP [dm6]	T	A	4.177e^-5	0.819	INTRON CG32719
2R	8140268	2R_8140268_SNP [dm3] 2R_12252763_SNP [dm6]	G	A	4.186e^-5	0.819	INTERGENIC	TF binding site BDTNP1_TFBS_dl mE1_TFBS_HSA mE1_TFBS_Trl
3L	749107	3L_749107_SNP [dm3] 3L_749107_SNP [dm6]	A	G	4.222e^-5	0.819	UPSTREAM emc INTRON hng3	TF binding site BDTNP1_TFBS_bcd BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_hb BDTNP1_TFBS_Med BDTNP1_TFBS_prd BDTNP1_TFBS_sna BDTNP1_TFBS_twi BDTNP1_TFBS_z mE1_TFBS_en mE1_TFBS_HSA mE1_TFBS_kn mE1_TFBS_sens mE1_TFBS_Trl mE1_TFBS_ttk mE1_TFBS_Ubx mE1_TFBS_zfh1
3L	12755797	3L_12755797_SNP [dm3] 3L_12762697_SNP [dm6]	C	T	4.223e^-5	0.819	SYNONYMOUS_CODING CG32113	TF binding site mE1_TFBS_HSA
2L	9873958	2L_9873958_SNP [dm3] 2L_9873958_SNP [dm6]	A	G	4.227e^-5	0.819	INTRON nAChRalpha6
3L	12755980	3L_12755980_SNP [dm3] 3L_12762880_SNP [dm6]	C	T	4.411e^-5	0.819	SYNONYMOUS_CODING CG32113	TF binding site mE1_TFBS_cad mE1_TFBS_HSA mE1_TFBS_sens
2R	16613806	2R_16613806_SNP [dm3] 2R_20726301_SNP [dm6]	A	G	4.453e^-5	0.819	INTRON dpr
3L	895902	3L_895902_SNP [dm3] 3L_895902_SNP [dm6]	T	G	4.501e^-5	0.819	UPSTREAM CG34056 DOWNSTREAM CG32479 INTERGENIC
2L	959705	2L_959705_SNP [dm3] 2L_959705_SNP [dm6]	A	T	4.606e^-5	0.819	INTERGENIC	TF binding site mE1_TFBS_chinmo
X	3530451	X_3530451_SNP [dm3] X_3636418_SNP [dm6]	G	A	4.690e^-5	0.819	INTRON AstA-R1

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By genomic position
Variant impact
Gene name

0.5μg/mL survivorship phenotype phenotype

Phenotype distribution and association to known covariates

QQplot

Manhattan plot

GWAS results