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=2.335e^-9)
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

845 significant hits at p-value < 0.001.

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
3L	671971	3L_671971_SNP [dm3] 3L_671971_SNP [dm6]	C	T	2.356e^-6	1	INTERGENIC	TF binding site mE1_TFBS_cad mE1_TFBS_HSA mE1_TFBS_sbb
2R	8329688	2R_8329688_SNP [dm3] 2R_12442183_SNP [dm6]	C	T	4.012e^-6	1	UPSTREAM CG30334 INTRON Dyb	TF binding site mE1_TFBS_HSA mE1_TFBS_sens
2R	8374969	2R_8374969_SNP [dm3] 2R_12487464_SNP [dm6]	A	C	5.749e^-6	1	UTR_3_PRIME Dh44-R2 & 1 other UPSTREAM CG34234 DOWNSTREAM Dh44-R2 & 1 other
X	14759669	X_14759669_SNP [dm3] X_14865636_SNP [dm6]	C	G	1.006e^-5	1	SYNONYMOUS_CODING CG9518 INTRON Flo2	TF binding site BDTNP1_TFBS_twi mE1_TFBS_sens
2R	8372602	2R_8372602_SNP [dm3] 2R_12485097_SNP [dm6]	C	A	1.201e^-5	1	INTRON Dh44-R2
3L	9609799	3L_9609799_SNP [dm3] 3L_9616699_SNP [dm6]	G	A	1.299e^-5	1	INTRON LanB2	TF binding site BDTNP1_TFBS_z mE1_TFBS_HSA mE1_TFBS_inv mE1_TFBS_sens
3L	21280700	3L_21280700_SNP [dm3] 3L_21287600_SNP [dm6]	G	T	1.304e^-5	1	SYNONYMOUS_CODING pzg	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_twi mE1_TFBS_chinmo mE1_TFBS_HSA mE1_TFBS_sens
3L	9609761	3L_9609761_SNP [dm3] 3L_9616661_SNP [dm6]	A	T	1.304e^-5	1	INTRON LanB2	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_z mE1_TFBS_HSA mE1_TFBS_inv mE1_TFBS_sens
2R	8329798	2R_8329798_SNP [dm3] 2R_12442293_SNP [dm6]	C	T	1.312e^-5	1	UPSTREAM CG30334 INTRON Dyb	TF binding site mE1_TFBS_HSA mE1_TFBS_sens
2R	8372590	2R_8372590_SNP [dm3] 2R_12485085_SNP [dm6]	T	C	1.347e^-5	1	INTRON Dh44-R2
X	7443024	X_7443024_SNP [dm3] X_7548991_SNP [dm6]	G	T	1.944e^-5	1	UPSTREAM CG32719 INTERGENIC	TF binding site BDTNP1_TFBS_hb BDTNP1_TFBS_twi
2L	22426455	2L_22426455_SNP [dm3] 2L_22533723_SNP [dm6]	G	A	1.965e^-5	1	UTR_3_PRIME RpL5 DOWNSTREAM RpL5
2R	8329677	2R_8329677_SNP [dm3] 2R_12442172_SNP [dm6]	G	A	2.287e^-5	1	UPSTREAM CG30334 INTRON Dyb	TF binding site mE1_TFBS_HSA mE1_TFBS_sens
2R	8372579	2R_8372579_SNP [dm3] 2R_12485074_SNP [dm6]	T	C	2.289e^-5	1	INTRON Dh44-R2
X	8553578	X_8553578_SNP [dm3] X_8659545_SNP [dm6]	G	A	2.338e^-5	1	INTERGENIC	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_hb BDTNP1_TFBS_slp1 mE1_TFBS_HSA
3L	9609737	3L_9609737_SNP [dm3] 3L_9616637_SNP [dm6]	C	G	2.371e^-5	1	INTRON LanB2	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_z mE1_TFBS_HSA mE1_TFBS_inv mE1_TFBS_sens
3L	9609752	3L_9609752_SNP [dm3] 3L_9616652_SNP [dm6]	C	A	2.773e^-5	1	INTRON LanB2	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_z mE1_TFBS_HSA mE1_TFBS_inv mE1_TFBS_sens
3L	9758866	3L_9758866_DEL [dm3] 3L_9765766_DEL [dm6]	CT	C	3.681e^-5	1	UTR_5_PRIME CG8177 INTRON CG8177
3L	525773	3L_525773_SNP [dm3] 3L_525773_SNP [dm6]	G	C	3.791e^-5	1	INTRON klar
2L	22426453	2L_22426453_SNP [dm3] 2L_22533721_SNP [dm6]	G	A	3.815e^-5	1	UTR_3_PRIME RpL5 DOWNSTREAM RpL5
2L	22426492	2L_22426492_SNP [dm3] 2L_22533760_SNP [dm6]	G	C	3.815e^-5	1	UTR_3_PRIME RpL5 DOWNSTREAM RpL5
2R	8366266	2R_8366266_SNP [dm3] 2R_12478761_SNP [dm6]	A	G	4.103e^-5	1	INTRON Dh44-R2
2R	8329698	2R_8329698_SNP [dm3] 2R_12442193_SNP [dm6]	A	C	4.211e^-5	1	UPSTREAM CG30334 INTRON Dyb	TF binding site mE1_TFBS_HSA mE1_TFBS_sens
X	8466365	X_8466365_INS [dm3] X_8572332_INS [dm6]	G	GG	4.344e^-5	1	INTRON spirit	TF binding site mE1_TFBS_chinmo
2L	16908727	2L_16908727_SNP [dm3] 2L_16908727_SNP [dm6]	T	A	4.449e^-5	1	SYNONYMOUS_CODING ApepP INTRON tweek	TF binding site mE1_TFBS_cad mE1_TFBS_HSA
X	5325444	X_5325444_SNP [dm3] X_5431411_SNP [dm6]	C	G	4.679e^-5	1	SYNONYMOUS_CODING CG15784	TF binding site BDTNP1_TFBS_sna mE1_TFBS_chinmo mE1_TFBS_HSA
X	14759495	X_14759495_SNP [dm3] X_14865462_SNP [dm6]	A	G	4.967e^-5	1	SYNONYMOUS_CODING CG9518 INTRON Flo2	TF binding site BDTNP1_TFBS_twi mE1_TFBS_sens
2L	11423873	2L_11423873_SNP [dm3] 2L_11423873_SNP [dm6]	A	G	5.224e^-5	1	INTERGENIC
2L	17587740	2L_17587740_SNP [dm3] 2L_17587740_SNP [dm6]	C	T	5.239e^-5	1	DOWNSTREAM CR44411 INTERGENIC	TF binding site BDTNP1_TFBS_dl mE1_TFBS_HSA
2R	3679127	2R_3679127_SNP [dm3] 2R_7791622_SNP [dm6]	C	A	5.243e^-5	1	DOWNSTREAM Gapdh1 & 1 other INTERGENIC	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_twi mE1_TFBS_HSA
2R	19024174	2R_19024174_SNP [dm3] 2R_23136651_SNP [dm6]	G	A	6.106e^-5	1	INTERGENIC
2R	8372508	2R_8372508_SNP [dm3] 2R_12485003_SNP [dm6]	T	C	6.328e^-5	1	SYNONYMOUS_CODING Dh44-R2
3R	13964500	3R_13964500_SNP [dm3] 3R_18138778_SNP [dm6]	G	T	6.353e^-5	1	INTERGENIC
2L	9514468	2L_9514468_SNP [dm3] 2L_9514468_SNP [dm6]	A	G	6.478e^-5	1	INTRON CG33298
2R	8372296	2R_8372296_SNP [dm3] 2R_12484791_SNP [dm6]	C	A	6.793e^-5	1	SYNONYMOUS_CODING Dh44-R2
2L	22428072	2L_22428072_SNP [dm3] 2L_22535340_SNP [dm6]	A	G	7.085e^-5	1	DOWNSTREAM snoRNA:Psi28S-2996 INTRON RpL5
2R	8375003	2R_8375003_SNP [dm3] 2R_12487498_SNP [dm6]	A	G	7.257e^-5	1	UTR_3_PRIME Dh44-R2 & 1 other UPSTREAM CG34234 DOWNSTREAM Dh44-R2 & 1 other
2R	7692450	2R_7692450_SNP [dm3] 2R_11804945_SNP [dm6]	G	C	7.395e^-5	1	INTRON ths
2R	8373371	2R_8373371_SNP [dm3] 2R_12485866_SNP [dm6]	G	A	7.433e^-5	1	DOWNSTREAM CG34234 INTRON Dh44-R2	TF binding site BDTNP1_TFBS_dl mE1_TFBS_HSA
2L	12289734	2L_12289734_SNP [dm3] 2L_12289734_SNP [dm6]	A	T	7.565e^-5	1	INTRON aret	TF binding site BDTNP1_TFBS_twi
3R	24731620	3R_24731620_SNP [dm3] 3R_28905898_SNP [dm6]	A	G	7.729e^-5	1	NON_SYNONYMOUS_CODING Doa INTRON Doa	TF binding site mE1_TFBS_chinmo
X	16244036	X_16244036_SNP [dm3] X_16350003_SNP [dm6]	C	T	8.215e^-5	1	UPSTREAM sl INTERGENIC	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_hb BDTNP1_TFBS_twi mE1_TFBS_Ubx
X	19190787	X_19190787_SNP [dm3] X_19296754_SNP [dm6]	A	G	8.294e^-5	1	INTRON CG8034	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_twi BDTNP1_TFBS_z mE1_TFBS_HSA mE1_TFBS_sens
2R	16561897	2R_16561897_SNP [dm3] 2R_20674392_SNP [dm6]	T	C	8.402e^-5	1	DOWNSTREAM CG30152 INTERGENIC	TF binding site mE1_TFBS_chinmo
X	7989580	X_7989580_SNP [dm3] X_8095547_SNP [dm6]	A	T	8.485e^-5	1	UTR_3_PRIME CG2258 DOWNSTREAM CG2258
2R	11803520	2R_11803520_SNP [dm3] 2R_15916015_SNP [dm6]	C	T	8.642e^-5	1	INTRON sli EXON CR44373
2R	12668012	2R_12668012_DEL [dm3] 2R_16780507_DEL [dm6]	CG	C	9.082e^-5	1	UTR_5_PRIME resilin	TF binding site mE1_TFBS_cad mE1_TFBS_chinmo mE1_TFBS_inv
2L	22429762	2L_22429762_SNP [dm3] 2L_22537030_SNP [dm6]	A	T	9.207e^-5	1	UPSTREAM RpL5 & 1 other INTERGENIC	TF binding site mE1_TFBS_Ubx
2L	22429763	2L_22429763_SNP [dm3] 2L_22537031_SNP [dm6]	A	C	9.207e^-5	1	UPSTREAM RpL5 & 1 other INTERGENIC	TF binding site mE1_TFBS_Ubx
3L	21228075	3L_21228075_SNP [dm3] 3L_21234975_SNP [dm6]	G	A	9.250e^-5	1	INTRON Eip78C
2L	7289611	2L_7289611_SNP [dm3] 2L_7289611_SNP [dm6]	G	A	9.342e^-5	1	INTERGENIC	TF binding site BDTNP1_TFBS_bcd BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_gt BDTNP1_TFBS_Med BDTNP1_TFBS_sna BDTNP1_TFBS_twi mE1_TFBS_cad mE1_TFBS_eve mE1_TFBS_HSA
2L	12293898	2L_12293898_SNP [dm3] 2L_12293898_SNP [dm6]	C	G	9.437e^-5	1	INTRON aret
X	8084719	X_8084719_SNP [dm3] X_8190686_SNP [dm6]	A	C	9.622e^-5	1	INTRON sdt
2R	11340718	2R_11340718_SNP [dm3] 2R_15453213_SNP [dm6]	A	C	1.048e^-4	1	INTRON CG43729
2L	20718615	2L_20718615_SNP [dm3] 2L_20718615_SNP [dm6]	T	G	1.058e^-4	1	INTERGENIC
2R	4030434	2R_4030434_SNP [dm3] 2R_8142929_SNP [dm6]	A	C	1.061e^-4	1	UTR_5_PRIME Lpin UPSTREAM Lpin	TF binding site BDTNP1_TFBS_dl mE1_TFBS_HSA
3L	10959828	3L_10959828_SNP [dm3] 3L_10966728_SNP [dm6]	G	A	1.083e^-4	1	INTERGENIC	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_ftz BDTNP1_TFBS_Med BDTNP1_TFBS_prd BDTNP1_TFBS_shn BDTNP1_TFBS_sna BDTNP1_TFBS_twi mE1_TFBS_cad mE1_TFBS_eve mE1_TFBS_HSA mE1_TFBS_sens
2R	8372389	2R_8372389_SNP [dm3] 2R_12484884_SNP [dm6]	G	A	1.090e^-4	1	SYNONYMOUS_CODING Dh44-R2
X	18078006	X_18078006_INS [dm3] X_18183973_INS [dm6]	C	CT	1.104e^-4	1	INTRON Frq2
3R	13964446	3R_13964446_SNP [dm3] 3R_18138724_SNP [dm6]	A	G	1.120e^-4	1	INTERGENIC
3L	5052763	3L_5052763_SNP [dm3] 3L_5052763_SNP [dm6]	G	A	1.146e^-4	1	INTRON Con
X	18078005	X_18078005_SNP [dm3] X_18183972_SNP [dm6]	C	G	1.159e^-4	1	INTRON Frq2
3L	21228071	3L_21228071_SNP [dm3] 3L_21234971_SNP [dm6]	C	G	1.170e^-4	1	INTRON Eip78C
3R	5681601	3R_5681601_SNP [dm3] 3R_9855879_SNP [dm6]	A	T	1.176e^-4	1	INTRON Teh1
2L	7400346	2L_7400346_SNP [dm3] 2L_7400346_SNP [dm6]	G	A	1.188e^-4	1	UPSTREAM CG5171 DOWNSTREAM CR44079 INTERGENIC
2L	14433822	2L_14433822_SNP [dm3] 2L_14433822_SNP [dm6]	G	T	1.189e^-4	1	INTERGENIC	TF binding site BDTNP1_TFBS_bcd BDTNP1_TFBS_da BDTNP1_TFBS_hb BDTNP1_TFBS_twi mE1_TFBS_HSA
3L	18682629	3L_18682629_SNP [dm3] 3L_18689529_SNP [dm6]	A	T	1.192e^-4	1	INTERGENIC
2L	22430958	2L_22430958_SNP [dm3] 2L_22538226_SNP [dm6]	A	G	1.192e^-4	1	UTR_5_PRIME CG17490 UPSTREAM CG17490	TF binding site mE1_TFBS_Ubx
3L	11196824	3L_11196824_SNP [dm3] 3L_11203724_SNP [dm6]	A	C	1.202e^-4	1	INTRON Plod
2R	12358253	2R_12358253_SNP [dm3] 2R_16470748_SNP [dm6]	A	T	1.212e^-4	1	INTERGENIC	TF binding site BDTNP1_TFBS_da mE1_TFBS_HSA
3R	5474860	3R_5474860_SNP [dm3] 3R_9649138_SNP [dm6]	A	T	1.232e^-4	1	NON_SYNONYMOUS_CODING Dh44
3L	21276512	3L_21276512_SNP [dm3] 3L_21283412_SNP [dm6]	T	C	1.244e^-4	1	NON_SYNONYMOUS_CODING CG12974	TF binding site BDTNP1_TFBS_twi mE1_TFBS_HSA
3L	16874376	3L_16874376_SNP [dm3] 3L_16881276_SNP [dm6]	T	C	1.250e^-4	1	INTRON Lmpt
3R	5962131	3R_5962131_SNP [dm3] 3R_10136409_SNP [dm6]	C	T	1.258e^-4	1	INTRON tws
X	14759507	X_14759507_SNP [dm3] X_14865474_SNP [dm6]	C	A	1.269e^-4	1	SYNONYMOUS_CODING CG9518 INTRON Flo2	TF binding site BDTNP1_TFBS_twi mE1_TFBS_sens
2L	6525585	2L_6525585_SNP [dm3] 2L_6525585_SNP [dm6]	G	A	1.300e^-4	1	INTRON CG31637	TF binding site mE1_TFBS_sens
3L	502314	3L_502314_INS [dm3] 3L_502314_INS [dm6]	A	ACCA	1.305e^-4	1	DOWNSTREAM CG34268 INTRON klar
3R	12313085	3R_12313085_SNP [dm3] 3R_16487363_SNP [dm6]	C	A	1.322e^-4	1	INTRON Cad89D
2R	8371747	2R_8371747_DEL [dm3] 2R_12484242_DEL [dm6]	TTT	T	1.349e^-4	1	INTRON Dh44-R2
2R	17806825	2R_17806825_SNP [dm3] 2R_21919320_SNP [dm6]	T	C	1.351e^-4	1	INTRON Fili
3L	5135695	3L_5135695_INS [dm3] 3L_5142595_INS [dm6]	G	GG	1.357e^-4	1	UPSTREAM CG10672 INTRON CG4623
2R	8372392	2R_8372392_SNP [dm3] 2R_12484887_SNP [dm6]	T	C	1.411e^-4	1	SYNONYMOUS_CODING Dh44-R2
2R	18713411	2R_18713411_SNP [dm3] 2R_22825888_SNP [dm6]	T	C	1.436e^-4	1	SYNONYMOUS_CODING CG30274 INTRON CG42284	TF binding site mE1_TFBS_HSA
2R	8372991	2R_8372991_SNP [dm3] 2R_12485486_SNP [dm6]	A	C	1.443e^-4	1	SPLICE_SITE_REGION Dh44-R2 INTRON Dh44-R2	TF binding site BDTNP1_TFBS_dl mE1_TFBS_HSA
3R	24125239	3R_24125239_SNP [dm3] 3R_28299517_SNP [dm6]	T	C	1.470e^-4	1	INTERGENIC
3L	13093838	3L_13093838_SNP [dm3] 3L_13100738_SNP [dm6]	A	G	1.483e^-4	1	DOWNSTREAM CR44554 INTERGENIC	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_twi mE1_TFBS_HSA
2L	9827648	2L_9827648_SNP [dm3] 2L_9827648_SNP [dm6]	C	G	1.529e^-4	1	INTRON nAChRalpha6
3R	15513497	3R_15513497_SNP [dm3] 3R_19687775_SNP [dm6]	C	T	1.548e^-4	1	INTRON Naam
X	3928752	X_3928752_DEL [dm3] X_4034719_DEL [dm6]	CC	C	1.557e^-4	1	INTERGENIC
3L	5094713	3L_5094713_SNP [dm3] 3L_5094713_SNP [dm6]	G	A	1.561e^-4	1	INTERGENIC
3L	16872533	3L_16872533_SNP [dm3] 3L_16879433_SNP [dm6]	C	T	1.570e^-4	1	DOWNSTREAM CG32170 INTRON Lmpt
3R	24026981	3R_24026981_SNP [dm3] 3R_28201259_SNP [dm6]	G	A	1.595e^-4	1	INTRON CG34354
2L	6541770	2L_6541770_SNP [dm3] 2L_6541770_SNP [dm6]	T	G	1.597e^-4	1	INTRON eya	TF binding site mE1_TFBS_inv mE1_TFBS_Kr
3L	21283872	3L_21283872_SNP [dm3] 3L_21290772_SNP [dm6]	T	A	1.612e^-4	1	DOWNSTREAM pzg INTERGENIC	TF binding site mE1_TFBS_HSA mE1_TFBS_sens
3L	11361029	3L_11361029_SNP [dm3] 3L_11367929_SNP [dm6]	A	C	1.614e^-4	1	INTERGENIC
X	16244053	X_16244053_SNP [dm3] X_16350020_SNP [dm6]	G	A	1.622e^-4	1	UPSTREAM sl INTERGENIC	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_hb BDTNP1_TFBS_twi mE1_TFBS_Ubx
X	7431791	X_7431791_SNP [dm3] X_7537758_SNP [dm6]	G	A	1.625e^-4	1	UPSTREAM CG32720 INTRON CG32719	TF binding site mE1_TFBS_inv mE1_TFBS_Trl
2L	7069158	2L_7069158_SNP [dm3] 2L_7069158_SNP [dm6]	G	A	1.639e^-4	1	SYNONYMOUS_CODING CG11289 DOWNSTREAM Pvf2	TF binding site mE1_TFBS_sens
X	7432306	X_7432306_SNP [dm3] X_7538273_SNP [dm6]	C	T	1.657e^-4	1	INTRON CG32719	TF binding site mE1_TFBS_HSA mE1_TFBS_inv
3L	11196770	3L_11196770_SNP [dm3] 3L_11203670_SNP [dm6]	T	C	1.662e^-4	1	SPLICE_SITE_REGION Plod SYNONYMOUS_CODING Plod

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By genomic position
Variant impact
Gene name

se_Glucose phenotype

Phenotype distribution and association to known covariates

QQplot

Manhattan plot

GWAS results