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=5.528e^-7)
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

2335 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	17098670	2R_17098670_SNP [dm3] 2R_21211165_SNP [dm6]	A	G	8.475e^-7	0.702	UTR_5_PRIME CG44245 DOWNSTREAM Glycogenin INTRON CG44245
3R	26038957	3R_26038957_SNP [dm3] 3R_30213235_SNP [dm6]	T	A	8.478e^-7	0.702	DOWNSTREAM CecB & 2 others INTERGENIC
3R	26038965	3R_26038965_SNP [dm3] 3R_30213243_SNP [dm6]	T	A	1.686e^-6	0.702	DOWNSTREAM CecB & 2 others INTERGENIC
3R	26039000	3R_26039000_SNP [dm3] 3R_30213278_SNP [dm6]	A	G	1.830e^-6	0.702	DOWNSTREAM CecB & 2 others INTERGENIC
3R	14795572	3R_14795572_SNP [dm3] 3R_18969850_SNP [dm6]	C	T	2.356e^-6	0.702	SYNONYMOUS_CODING CG42613 UTR_3_PRIME CG43732
3R	26038971	3R_26038971_SNP [dm3] 3R_30213249_SNP [dm6]	G	C	2.410e^-6	0.702	DOWNSTREAM CecB & 2 others INTERGENIC
2R	17098498	2R_17098498_SNP [dm3] 2R_21210993_SNP [dm6]	G	A	2.704e^-6	0.702	UTR_5_PRIME CG44245 DOWNSTREAM Glycogenin INTRON CG44245
X	4719972	X_4719972_SNP [dm3] X_4825939_SNP [dm6]	T	C	3.105e^-6	0.702	UPSTREAM CG12682 INTERGENIC	TF binding site BDTNP1_TFBS_twi
3R	27153377	3R_27153377_SNP [dm3] 3R_31327655_SNP [dm6]	C	G	4.756e^-6	0.702	INTRON CG34347	TF binding site mE1_TFBS_cad
2R	6372638	2R_6372638_SNP [dm3] 2R_10485133_SNP [dm6]	T	G	5.148e^-6	0.702	UTR_5_PRIME pre-lola-G INTRON lola & 1 other	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_hb BDTNP1_TFBS_Med BDTNP1_TFBS_slp1 BDTNP1_TFBS_sna BDTNP1_TFBS_twi mE1_TFBS_cad
3R	25152618	3R_25152618_DEL [dm3] 3R_29326896_DEL [dm6]	GG	G	5.701e^-6	0.702	INTERGENIC
X	17300532	X_17300532_DEL [dm3] X_17406499_DEL [dm6]	AGTAG	A	6.326e^-6	0.702	INTERGENIC
3L	21733898	3L_21733898_SNP [dm3] 3L_21740798_SNP [dm6]	A	T	6.926e^-6	0.702	UPSTREAM CG14566 & 1 other INTERGENIC
2R	17098468	2R_17098468_SNP [dm3] 2R_21210963_SNP [dm6]	T	C	7.088e^-6	0.702	UTR_5_PRIME CG44245 DOWNSTREAM Glycogenin INTRON CG44245
3R	26037044	3R_26037044_SNP [dm3] 3R_30211322_SNP [dm6]	A	G	7.558e^-6	0.702	UPSTREAM Cec-Psi1 & 1 other DOWNSTREAM Anp & 1 other INTERGENIC
2L	6140063	2L_6140063_SNP [dm3] 2L_6140063_SNP [dm6]	G	A	7.882e^-6	0.702	NON_SYNONYMOUS_CODING CG13991 UPSTREAM CR44824	TF binding site BDTNP1_TFBS_sna BDTNP1_TFBS_twi mE1_TFBS_cad mE1_TFBS_chinmo mE1_TFBS_HSA
3R	21072726	3R_21072726_SNP [dm3] 3R_25247004_SNP [dm6]	C	A	8.319e^-6	0.702	UPSTREAM Nup37 INTRON RpS27	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_Med mE1_TFBS_Ubx
2R	9924871	2R_9924871_SNP [dm3] 2R_14037366_SNP [dm6]	G	A	8.409e^-6	0.702	INTRON mam	TF binding site mE1_TFBS_HSA
2R	17098497	2R_17098497_SNP [dm3] 2R_21210992_SNP [dm6]	A	G	8.515e^-6	0.702	UTR_5_PRIME CG44245 DOWNSTREAM Glycogenin INTRON CG44245
3L	13749183	3L_13749183_SNP [dm3] 3L_13756083_SNP [dm6]	T	C	9.114e^-6	0.702	INTRON bru-3
3R	27150894	3R_27150894_SNP [dm3] 3R_31325172_SNP [dm6]	A	G	9.425e^-6	0.702	INTRON CG34347
X	14441817	X_14441817_SNP [dm3] X_14547784_SNP [dm6]	A	G	1.020e^-5	0.702	INTERGENIC
2R	16667923	2R_16667923_SNP [dm3] 2R_20780418_SNP [dm6]	T	A	1.039e^-5	0.702	UPSTREAM CG43711 EXON CR44666	TF binding site mE1_TFBS_HSA mE1_TFBS_sens
2R	17088175	2R_17088175_SNP [dm3] 2R_21200670_SNP [dm6]	C	T	1.083e^-5	0.702	INTRON Glycogenin & 1 other	TF binding site BDTNP1_TFBS_dl mE1_TFBS_Trl
2R	20438301	2R_20438301_SNP [dm3] 2R_24550778_SNP [dm6]	A	G	1.110e^-5	0.702	INTRON CG4622 & 1 other
3R	22466645	3R_22466645_SNP [dm3] 3R_26640923_SNP [dm6]	G	A	1.195e^-5	0.702	UTR_3_PRIME TwdlD
3R	25157868	3R_25157868_SNP [dm3] 3R_29332146_SNP [dm6]	G	C	1.207e^-5	0.702	INTERGENIC
2L	2264650	2L_2264650_SNP [dm3] 2L_2264650_SNP [dm6]	A	T	1.241e^-5	0.702	SYNONYMOUS_CODING CG34049 DOWNSTREAM CG4270
3R	27111741	3R_27111741_SNP [dm3] 3R_31286019_SNP [dm6]	T	G	1.261e^-5	0.702	INTERGENIC
2R	16954085	2R_16954085_SNP [dm3] 2R_21066580_SNP [dm6]	T	G	1.269e^-5	0.702	SYNONYMOUS_CODING Cht4	TF binding site mE1_TFBS_cad
3R	23873483	3R_23873483_SNP [dm3] 3R_28047761_SNP [dm6]	C	G	1.292e^-5	0.702	INTRON CG34362
2R	54442	2R_54442_SNP [dm3] 2R_4166937_SNP [dm6]	G	T	1.318e^-5	0.702	INTERGENIC
3R	22369323	3R_22369323_SNP [dm3] 3R_26543601_SNP [dm6]	T	C	1.328e^-5	0.702	INTRON scrib	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl mE1_TFBS_HSA mE1_TFBS_inv
2R	17098444	2R_17098444_SNP [dm3] 2R_21210939_SNP [dm6]	A	T	1.377e^-5	0.702	UTR_5_PRIME CG44245 DOWNSTREAM Glycogenin INTRON CG44245
3L	22557224	3L_22557224_SNP [dm3] 3L_22564124_SNP [dm6]	C	A	1.459e^-5	0.702	INTERGENIC
2R	17098683	2R_17098683_SNP [dm3] 2R_21211178_SNP [dm6]	G	A	1.463e^-5	0.702	UTR_5_PRIME CG44245 DOWNSTREAM Glycogenin INTRON CG44245
3L	7535717	3L_7535717_SNP [dm3] 3L_7542617_SNP [dm6]	C	T	1.514e^-5	0.702	UPSTREAM CG32376 INTERGENIC	TF binding site mE1_TFBS_HSA
3L	3786596	3L_3786596_SNP [dm3] 3L_3786596_SNP [dm6]	A	T	1.525e^-5	0.702	INTRON CG32264	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_Med mE1_TFBS_cad mE1_TFBS_D mE1_TFBS_hkb mE1_TFBS_HSA mE1_TFBS_Trl mE1_TFBS_Ubx mE1_TFBS_zfh1
3L	7535710	3L_7535710_SNP [dm3] 3L_7542610_SNP [dm6]	T	A	1.611e^-5	0.702	UPSTREAM CG32376 INTERGENIC	TF binding site mE1_TFBS_HSA
3R	19845243	3R_19845243_SNP [dm3] 3R_24019521_SNP [dm6]	T	A	1.648e^-5	0.702	INTRON KrT95D
3L	7535288	3L_7535288_SNP [dm3] 3L_7542188_SNP [dm6]	A	C	1.671e^-5	0.702	SYNONYMOUS_CODING CG32376	TF binding site BDTNP1_TFBS_twi mE1_TFBS_HSA
2R	28163	2R_28163_SNP [dm3] 2R_4140658_SNP [dm6]	A	G	1.807e^-5	0.702	INTERGENIC
3R	21053184	3R_21053184_SNP [dm3] 3R_25227462_SNP [dm6]	A	C	1.818e^-5	0.702	INTRON Cad96Cb
3R	21053311	3R_21053311_SNP [dm3] 3R_25227589_SNP [dm6]	G	A	1.818e^-5	0.702	INTRON Cad96Cb
3L	10694944	3L_10694944_SNP [dm3] 3L_10701844_SNP [dm6]	A	G	1.829e^-5	0.702	INTERGENIC
2R	16921434	2R_16921434_SNP [dm3] 2R_21033929_SNP [dm6]	T	A	1.969e^-5	0.702	INTERGENIC	TF binding site BDTNP1_TFBS_twi
3R	20815247	3R_20815247_SNP [dm3] 3R_24989525_SNP [dm6]	A	G	1.979e^-5	0.702	INTRON tnc
3R	23873454	3R_23873454_DEL [dm3] 3R_28047732_DEL [dm6]	GG	G	1.993e^-5	0.702	INTRON CG34362
2R	16665509	2R_16665509_SNP [dm3] 2R_20778004_SNP [dm6]	A	C	2.025e^-5	0.702	UPSTREAM CG43710 DOWNSTREAM CG43711 INTERGENIC
3L	3766907	3L_3766907_SNP [dm3] 3L_3766907_SNP [dm6]	G	T	2.028e^-5	0.702	INTRON CG32264	TF binding site mE1_TFBS_bab1
3R	26566949	3R_26566949_SNP [dm3] 3R_30741227_SNP [dm6]	T	C	2.035e^-5	0.702	INTERGENIC
3L	13789012	3L_13789012_SNP [dm3] 3L_13795912_SNP [dm6]	C	T	2.150e^-5	0.702	INTRON bru-3
3L	13789013	3L_13789013_SNP [dm3] 3L_13795913_SNP [dm6]	C	T	2.150e^-5	0.702	INTRON bru-3
2L	9336243	2L_9336243_SNP [dm3] 2L_9336243_SNP [dm6]	A	C	2.179e^-5	0.702	INTRON Eaat1
3R	6254419	3R_6254419_SNP [dm3] 3R_10428697_SNP [dm6]	C	T	2.204e^-5	0.702	INTERGENIC
3R	26034983	3R_26034983_SNP [dm3] 3R_30209261_SNP [dm6]	C	T	2.253e^-5	0.702	UPSTREAM RpS7 & 1 other INTERGENIC	TF binding site BDTNP1_TFBS_dl mE1_TFBS_h mE1_TFBS_HSA mE1_TFBS_Ubx
3R	22466347	3R_22466347_SNP [dm3] 3R_26640625_SNP [dm6]	G	C	2.352e^-5	0.702	SYNONYMOUS_CODING TwdlD
3L	13677744	3L_13677744_SNP [dm3] 3L_13684644_SNP [dm6]	C	T	2.410e^-5	0.702	INTRON bru-3
3L	12722081	3L_12722081_SNP [dm3] 3L_12728981_SNP [dm6]	T	C	2.444e^-5	0.702	INTERGENIC
3R	21053470	3R_21053470_SNP [dm3] 3R_25227748_SNP [dm6]	G	T	2.479e^-5	0.702	INTRON Cad96Cb
3R	22466765	3R_22466765_SNP [dm3] 3R_26641043_SNP [dm6]	T	A	2.552e^-5	0.702	UTR_3_PRIME TwdlD
3L	10783106	3L_10783106_INS [dm3] 3L_10790006_INS [dm6]	A	ACAAATTCAATTAAAAAAA...	2.627e^-5	0.702	DOWNSTREAM CR44545 INTERGENIC
2L	12340510	2L_12340510_SNP [dm3] 2L_12340510_SNP [dm6]	G	A	2.631e^-5	0.702	INTERGENIC
3R	20933054	3R_20933054_SNP [dm3] 3R_25107332_SNP [dm6]	A	G	2.664e^-5	0.702	SYNONYMOUS_CODING CG34027
3R	26034967	3R_26034967_SNP [dm3] 3R_30209245_SNP [dm6]	T	A	2.672e^-5	0.702	UPSTREAM RpS7 & 1 other INTERGENIC	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_Med mE1_TFBS_h mE1_TFBS_HSA mE1_TFBS_Ubx
2R	16955921	2R_16955921_SNP [dm3] 2R_21068416_SNP [dm6]	G	A	2.714e^-5	0.702	SYNONYMOUS_CODING Cht9 EXON CR44703	TF binding site mE1_TFBS_cad
3R	11435527	3R_11435527_SNP [dm3] 3R_15609805_SNP [dm6]	A	T	2.745e^-5	0.702	INTERGENIC
3R	26930915	3R_26930915_SNP [dm3] 3R_31105193_SNP [dm6]	T	C	2.765e^-5	0.702	INTERGENIC
3R	26566963	3R_26566963_SNP [dm3] 3R_30741241_SNP [dm6]	G	T	2.785e^-5	0.702	INTERGENIC
2R	3928064	2R_3928064_SNP [dm3] 2R_8040559_SNP [dm6]	C	G	2.793e^-5	0.702	UPSTREAM Optix INTRON Optix	TF binding site mE1_TFBS_chinmo mE1_TFBS_HSA
3L	3766905	3L_3766905_SNP [dm3] 3L_3766905_SNP [dm6]	T	C	2.852e^-5	0.702	INTRON CG32264	TF binding site mE1_TFBS_bab1
3L	8382983	3L_8382983_SNP [dm3] 3L_8389883_SNP [dm6]	A	G	2.912e^-5	0.702	SYNONYMOUS_CODING ImpE1	TF binding site BDTNP1_TFBS_sna mE1_TFBS_cad mE1_TFBS_chinmo mE1_TFBS_HSA
2L	12340502	2L_12340502_SNP [dm3] 2L_12340502_SNP [dm6]	G	A	3.090e^-5	0.702	INTERGENIC
2R	17563952	2R_17563952_SNP [dm3] 2R_21676447_SNP [dm6]	G	A	3.100e^-5	0.702	UTR_5_PRIME CG30263	TF binding site mE1_TFBS_cad mE1_TFBS_chinmo
2L	2672761	2L_2672761_SNP [dm3] 2L_2672761_SNP [dm6]	A	G	3.128e^-5	0.702	DOWNSTREAM Gr23a INTERGENIC
3R	24991977	3R_24991977_SNP [dm3] 3R_29166255_SNP [dm6]	C	A	3.209e^-5	0.702	SYNONYMOUS_CODING CG11898	TF binding site mE1_TFBS_chinmo
2R	4496307	2R_4496307_SNP [dm3] 2R_8608802_SNP [dm6]	T	A	3.209e^-5	0.702	INTRON rgr
2L	3642631	2L_3642631_SNP [dm3] 2L_3642631_SNP [dm6]	A	G	3.331e^-5	0.702	INTRON for	TF binding site mE1_TFBS_HSA mE1_TFBS_inv
2L	2835447	2L_2835447_SNP [dm3] 2L_2835447_SNP [dm6]	C	T	3.368e^-5	0.702	SYNONYMOUS_CODING CG3119 DOWNSTREAM CG3119
2L	15031948	2L_15031948_SNP [dm3] 2L_15031948_SNP [dm6]	T	A	3.370e^-5	0.702	UPSTREAM CG31832 INTRON GABA-B-R1
2R	17568542	2R_17568542_SNP [dm3] 2R_21681037_SNP [dm6]	A	C	3.426e^-5	0.702	NON_SYNONYMOUS_CODING CG30263	TF binding site mE1_TFBS_chinmo
3L	7535965	3L_7535965_SNP [dm3] 3L_7542865_SNP [dm6]	C	T	3.464e^-5	0.702	UPSTREAM CG32376 INTERGENIC
3L	12641483	3L_12641483_SNP [dm3] 3L_12648383_SNP [dm6]	G	C	3.485e^-5	0.702	DOWNSTREAM CR43431 & 1 other INTERGENIC	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_hb BDTNP1_TFBS_Med BDTNP1_TFBS_prd mE1_TFBS_HSA
3L	7535318	3L_7535318_SNP [dm3] 3L_7542218_SNP [dm6]	C	T	3.512e^-5	0.702	SYNONYMOUS_CODING CG32376	TF binding site BDTNP1_TFBS_twi mE1_TFBS_HSA
2R	7005107	2R_7005107_SNP [dm3] 2R_11117602_SNP [dm6]	C	T	3.529e^-5	0.702	UTR_3_PRIME Cyp12d1-p
3L	7535975	3L_7535975_SNP [dm3] 3L_7542875_SNP [dm6]	C	G	3.549e^-5	0.702	UPSTREAM CG32376 INTERGENIC
3L	7535981	3L_7535981_SNP [dm3] 3L_7542881_SNP [dm6]	A	C	3.549e^-5	0.702	UPSTREAM CG32376 INTERGENIC
3L	13970552	3L_13970552_SNP [dm3] 3L_13977452_SNP [dm6]	T	C	3.551e^-5	0.702	SYNONYMOUS_CODING Hsc70-1 DOWNSTREAM CG17364	TF binding site mE1_TFBS_chinmo mE1_TFBS_sens
X	19971052	X_19971052_SNP [dm3] X_20077019_SNP [dm6]	C	T	3.616e^-5	0.702	INTERGENIC
3L	7535848	3L_7535848_SNP [dm3] 3L_7542748_SNP [dm6]	A	G	3.624e^-5	0.702	UPSTREAM CG32376 INTERGENIC
3R	22485271	3R_22485271_SNP [dm3] 3R_26659549_SNP [dm6]	G	A	3.627e^-5	0.702	INTRON beat-VII
3R	26038902	3R_26038902_SNP [dm3] 3R_30213180_SNP [dm6]	G	A	3.630e^-5	0.702	DOWNSTREAM CecB & 2 others INTERGENIC
2R	9924958	2R_9924958_SNP [dm3] 2R_14037453_SNP [dm6]	G	T	3.659e^-5	0.702	INTRON mam	TF binding site mE1_TFBS_HSA
2R	20819	2R_20819_SNP [dm3] 2R_4133314_SNP [dm6]	A	G	3.705e^-5	0.702	UTR_3_PRIME CG17683 DOWNSTREAM CG17683
3R	7710536	3R_7710536_SNP [dm3] 3R_11884814_SNP [dm6]	G	T	3.726e^-5	0.702	SYNONYMOUS_CODING mthl5 INTRON CG31368
2R	18117876	2R_18117876_SNP [dm3] 2R_22230371_SNP [dm6]	A	C	3.740e^-5	0.702	INTERGENIC	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_twi
3L	3599198	3L_3599198_SNP [dm3] 3L_3599198_SNP [dm6]	T	A	3.747e^-5	0.702	INTRON Eip63E
2R	16667377	2R_16667377_SNP [dm3] 2R_20779872_SNP [dm6]	A	T	3.763e^-5	0.702	UPSTREAM CG43711 DOWNSTREAM CR44666 INTERGENIC
2R	17564883	2R_17564883_SNP [dm3] 2R_21677378_SNP [dm6]	C	T	3.833e^-5	0.702	INTRON CG30263	TF binding site mE1_TFBS_cad mE1_TFBS_chinmo mE1_TFBS_HSA
3L	3361782	3L_3361782_SNP [dm3] 3L_3361782_SNP [dm6]	A	G	4.024e^-5	0.702	SYNONYMOUS_CODING kst	TF binding site mE1_TFBS_cad

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By genomic position
Variant impact
Gene name

2μg/mL survivorship phenotype phenotype

Phenotype distribution and association to known covariates

QQplot

Manhattan plot

GWAS results