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=1.731e^-2)
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

1738 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
3R	5306725	3R_5306725_SNP [dm3] 3R_9481003_SNP [dm6]	C	T	2.145e^-7	0.391	INTRON CG16779
3R	24676976	3R_24676976_SNP [dm3] 3R_28851254_SNP [dm6]	G	A	1.737e^-6	0.964	INTRON spg
3L	8876119	3L_8876119_SNP [dm3] 3L_8883019_SNP [dm6]	A	C	2.957e^-6	0.964	INTRON dally
3R	23744455	3R_23744455_SNP [dm3] 3R_27918733_SNP [dm6]	G	T	3.007e^-6	0.964	NON_SYNONYMOUS_CODING CG33213 DOWNSTREAM mRpS22	TF binding site BDTNP1_TFBS_hb mE1_TFBS_cad mE1_TFBS_chinmo mE1_TFBS_HSA mE1_TFBS_inv mE1_TFBS_sens
3L	6609595	3L_6609595_SNP [dm3] 3L_6616495_SNP [dm6]	C	T	3.579e^-6	0.964	SYNONYMOUS_CODING CG8398	TF binding site mE1_TFBS_cad
3L	20155651	3L_20155651_SNP [dm3] 3L_20162551_SNP [dm6]	A	G	4.384e^-6	0.964	SYNONYMOUS_CODING CG42674 INTRON CG42674	TF binding site BDTNP1_TFBS_dl mE1_TFBS_cad mE1_TFBS_chinmo mE1_TFBS_HSA
X	2868198	X_2868198_SNP [dm3] X_2974165_SNP [dm6]	T	C	4.543e^-6	0.964	UPSTREAM rst INTRON kirre	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_twi mE1_TFBS_HSA
2R	18240614	2R_18240614_SNP [dm3] 2R_22353109_SNP [dm6]	C	T	5.675e^-6	0.964	INTRON Liprin-gamma
X	20537097	X_20537097_SNP [dm3] X_20666070_SNP [dm6]	A	G	5.941e^-6	0.964	INTRON CG1835	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_twi
X	14572368	X_14572368_SNP [dm3] X_14678335_SNP [dm6]	C	T	6.880e^-6	0.964	INTERGENIC	TF binding site BDTNP1_TFBS_sna BDTNP1_TFBS_twi mE1_TFBS_cad mE1_TFBS_HSA
3R	6750442	3R_6750442_SNP [dm3] 3R_10924720_SNP [dm6]	A	G	7.701e^-6	0.964	INTERGENIC
3R	6778319	3R_6778319_SNP [dm3] 3R_10952597_SNP [dm6]	A	T	8.418e^-6	0.964	DOWNSTREAM Tengl4 INTERGENIC
2R	7583308	2R_7583308_SNP [dm3] 2R_11695803_SNP [dm6]	A	G	9.298e^-6	0.964	UTR_3_PRIME CG13197 DOWNSTREAM CG13197
3R	24676998	3R_24676998_SNP [dm3] 3R_28851276_SNP [dm6]	T	C	9.310e^-6	0.964	INTRON spg
3L	15176751	3L_15176751_SNP [dm3] 3L_15183651_SNP [dm6]	T	C	1.101e^-5	0.964	INTERGENIC
X	2868236	X_2868236_SNP [dm3] X_2974203_SNP [dm6]	T	G	1.492e^-5	0.964	UPSTREAM rst INTRON kirre	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_twi mE1_TFBS_HSA
3L	10993283	3L_10993283_SNP [dm3] 3L_11000183_SNP [dm6]	G	A	1.546e^-5	0.964	INTRON klu	TF binding site mE1_TFBS_chinmo
3L	8081122	3L_8081122_SNP [dm3] 3L_8088022_SNP [dm6]	T	C	1.672e^-5	0.964	SYNONYMOUS_CODING CG7565 INTRON Ect4
2R	18843695	2R_18843695_INS [dm3] 2R_22956172_INS [dm6]	C	CC	1.811e^-5	0.964	INTERGENIC	TF binding site mE1_TFBS_cad mE1_TFBS_chinmo mE1_TFBS_HSA
3L	874095	3L_874095_SNP [dm3] 3L_874095_SNP [dm6]	C	G	1.844e^-5	0.964	SYNONYMOUS_CODING CG32479	TF binding site mE1_TFBS_cad mE1_TFBS_chinmo mE1_TFBS_HSA mE1_TFBS_sens
X	2868096	X_2868096_SNP [dm3] X_2974063_SNP [dm6]	T	C	1.903e^-5	0.964	UPSTREAM rst INTRON kirre	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_twi mE1_TFBS_HSA
2L	11310910	2L_11310910_SNP [dm3] 2L_11310910_SNP [dm6]	C	T	1.919e^-5	0.964	INTERGENIC
2L	22140552	2L_22140552_SNP [dm3] 2L_22140552_SNP [dm6]	C	T	1.992e^-5	0.964	INTRON CG42748	TF binding site BDTNP1_TFBS_dl mE1_TFBS_HSA mE1_TFBS_kn mE1_TFBS_zfh1
X	8216908	X_8216908_SNP [dm3] X_8322875_SNP [dm6]	G	A	1.996e^-5	0.964	INTRON nAChRalpha3
X	20878009	X_20878009_SNP [dm3] X_21006982_SNP [dm6]	A	G	2.079e^-5	0.964	INTERGENIC
3L	10082859	3L_10082859_SNP [dm3] 3L_10089759_SNP [dm6]	T	C	2.094e^-5	0.964	UPSTREAM CG14160 DOWNSTREAM CG32053 INTRON dpr6
3R	10592984	3R_10592984_SNP [dm3] 3R_14767262_SNP [dm6]	A	T	2.096e^-5	0.964	INTRON jvl
2L	14305464	2L_14305464_SNP [dm3] 2L_14305464_SNP [dm6]	T	C	2.117e^-5	0.964	INTRON wb	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_twi
3L	5904102	3L_5904102_SNP [dm3] 3L_5911002_SNP [dm6]	C	T	2.132e^-5	0.964	INTRON CG13288
3L	3075326	3L_3075326_SNP [dm3] 3L_3075326_SNP [dm6]	C	A	2.162e^-5	0.964	INTRON CG11486	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_slp1 mE1_TFBS_cad mE1_TFBS_HSA
3L	3075563	3L_3075563_SNP [dm3] 3L_3075563_SNP [dm6]	C	G	2.162e^-5	0.964	INTRON CG11486	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_slp1 mE1_TFBS_cad mE1_TFBS_HSA mE1_TFBS_sens
3R	26039032	3R_26039032_SNP [dm3] 3R_30213310_SNP [dm6]	T	A	2.222e^-5	0.964	DOWNSTREAM CecB & 2 others INTERGENIC
2L	13106651	2L_13106651_SNP [dm3] 2L_13106651_SNP [dm6]	T	A	2.223e^-5	0.964	UPSTREAM CG5142 INTERGENIC
3R	10617558	3R_10617558_SNP [dm3] 3R_14791836_SNP [dm6]	G	T	2.305e^-5	0.964	UTR_3_PRIME jvl INTRON jvl
X	2868155	X_2868155_SNP [dm3] X_2974122_SNP [dm6]	A	T	2.331e^-5	0.964	UPSTREAM rst INTRON kirre	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_twi mE1_TFBS_HSA
3L	6811212	3L_6811212_SNP [dm3] 3L_6818112_SNP [dm6]	T	G	2.360e^-5	0.964	INTERGENIC	regulatory region REDfly_CRMs
X	2868156	X_2868156_SNP [dm3] X_2974123_SNP [dm6]	T	A	2.476e^-5	0.964	UPSTREAM rst INTRON kirre	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_twi mE1_TFBS_HSA
2L	4590527	2L_4590527_SNP [dm3] 2L_4590527_SNP [dm6]	C	T	2.495e^-5	0.964	INTRON dp
2L	4590549	2L_4590549_SNP [dm3] 2L_4590549_SNP [dm6]	G	C	2.495e^-5	0.964	INTRON dp
2L	10468950	2L_10468950_SNP [dm3] 2L_10468950_SNP [dm6]	A	G	2.506e^-5	0.964	INTRON RluA-1
3L	6089662	3L_6089662_SNP [dm3] 3L_6096562_SNP [dm6]	A	C	2.545e^-5	0.964	DOWNSTREAM loj INTERGENIC
X	20874152	X_20874152_INS [dm3] X_21003125_INS [dm6]	T	TT	2.638e^-5	0.964	INTERGENIC	TF binding site BDTNP1_TFBS_dl mE1_TFBS_HSA
X	2868054	X_2868054_SNP [dm3] X_2974021_SNP [dm6]	G	T	2.642e^-5	0.964	UPSTREAM rst INTRON kirre	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_twi mE1_TFBS_HSA
X	4294432	X_4294432_SNP [dm3] X_4400399_SNP [dm6]	A	G	2.739e^-5	0.964	INTRON CR32773
3R	26039034	3R_26039034_SNP [dm3] 3R_30213312_SNP [dm6]	A	T	2.752e^-5	0.964	DOWNSTREAM CecB & 2 others INTERGENIC
2R	17706749	2R_17706749_SNP [dm3] 2R_21819244_SNP [dm6]	A	T	2.762e^-5	0.964	INTERGENIC
2L	5110646	2L_5110646_SNP [dm3] 2L_5110646_SNP [dm6]	A	T	2.992e^-5	0.964	NON_SYNONYMOUS_CODING Msp300 INTRON Msp300	TF binding site mE1_TFBS_cad mE1_TFBS_chinmo
3R	16795267	3R_16795267_SNP [dm3] 3R_20969545_SNP [dm6]	A	T	3.019e^-5	0.964	INTRON Atpalpha
2R	14192441	2R_14192441_SNP [dm3] 2R_18304936_SNP [dm6]	C	A	3.081e^-5	0.964	UPSTREAM CG14505 INTRON sbb	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_hb BDTNP1_TFBS_Med BDTNP1_TFBS_twi mE1_TFBS_cad mE1_TFBS_HSA mE1_TFBS_Kr
2R	17705459	2R_17705459_SNP [dm3] 2R_21817954_SNP [dm6]	C	T	3.101e^-5	0.964	INTERGENIC
2L	5110774	2L_5110774_SNP [dm3] 2L_5110774_SNP [dm6]	C	T	3.163e^-5	0.964	SYNONYMOUS_CODING Msp300 INTRON Msp300	TF binding site mE1_TFBS_cad mE1_TFBS_chinmo
X	2868142	X_2868142_SNP [dm3] X_2974109_SNP [dm6]	T	C	3.169e^-5	0.964	UPSTREAM rst INTRON kirre	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_twi mE1_TFBS_HSA
3L	1456087	3L_1456087_SNP [dm3] 3L_1456087_SNP [dm6]	A	G	3.193e^-5	0.964	INTRON Ptp61F	regulatory region REDfly_CRMs TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_gt BDTNP1_TFBS_Med BDTNP1_TFBS_prd BDTNP1_TFBS_sna BDTNP1_TFBS_twi mE1_TFBS_D mE1_TFBS_HSA mE1_TFBS_sens
3L	5185716	3L_5185716_DEL [dm3] 3L_5192616_DEL [dm6]	GTG	G	3.242e^-5	0.964	INTRON shep
3R	24677074	3R_24677074_SNP [dm3] 3R_28851352_SNP [dm6]	A	T	3.335e^-5	0.964	INTRON spg
3R	26039059	3R_26039059_SNP [dm3] 3R_30213337_SNP [dm6]	G	C	3.393e^-5	0.964	UTR_3_PRIME CecB DOWNSTREAM CecA2 & 1 other
3R	6749459	3R_6749459_SNP [dm3] 3R_10923737_SNP [dm6]	G	A	3.478e^-5	0.964	INTERGENIC
3R	14742088	3R_14742088_SNP [dm3] 3R_18916366_SNP [dm6]	C	G	3.506e^-5	0.964	INTRON Xrp1	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_twi mE1_TFBS_cnc
X	6902390	X_6902390_DEL [dm3] X_7008357_DEL [dm6]	CATCCCCCGCC...	C	3.516e^-5	0.964	DOWNSTREAM cm INTRON Inx7	TF binding site BDTNP1_TFBS_dl
3R	10700487	3R_10700487_DEL [dm3] 3R_14874765_DEL [dm6]	AA	A	3.524e^-5	0.964	INTRON btsz
3R	25165431	3R_25165431_SNP [dm3] 3R_29339709_SNP [dm6]	G	C	3.661e^-5	0.964	INTERGENIC
2L	14305453	2L_14305453_SNP [dm3] 2L_14305453_SNP [dm6]	C	T	3.689e^-5	0.964	INTRON wb	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_twi
X	5456832	X_5456832_SNP [dm3] X_5562799_SNP [dm6]	C	G	3.701e^-5	0.964	INTERGENIC	TF binding site mE1_TFBS_inv
X	5456834	X_5456834_DEL [dm3] X_5562801_DEL [dm6]	AA	A	3.701e^-5	0.964	INTERGENIC	TF binding site mE1_TFBS_inv
3L	15384707	3L_15384707_SNP [dm3] 3L_15391607_SNP [dm6]	A	T	3.741e^-5	0.964	INTERGENIC
3R	27885994	3R_27885994_SNP [dm3] 3R_32060272_SNP [dm6]	A	C	3.778e^-5	0.964	INTRON Map205
2R	11773496	2R_11773496_SNP [dm3] 2R_15885991_SNP [dm6]	A	G	3.782e^-5	0.964	INTRON sli	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_gt BDTNP1_TFBS_Med BDTNP1_TFBS_twi mE1_TFBS_sens
X	6902406	X_6902406_SNP [dm3] X_7008373_SNP [dm6]	T	A	3.785e^-5	0.964	DOWNSTREAM cm INTRON Inx7	TF binding site BDTNP1_TFBS_dl
3R	4298300	3R_4298300_SNP [dm3] 3R_8472578_SNP [dm6]	G	T	3.868e^-5	0.964	INTRON CG45263	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_prd mE1_TFBS_chinmo mE1_TFBS_HSA
X	5456827	X_5456827_SNP [dm3] X_5562794_SNP [dm6]	C	G	3.898e^-5	0.964	INTERGENIC	TF binding site mE1_TFBS_inv
3L	2993811	3L_2993811_SNP [dm3] 3L_2993811_SNP [dm6]	C	G	3.960e^-5	0.964	INTERGENIC
2L	12268935	2L_12268935_SNP [dm3] 2L_12268935_SNP [dm6]	A	T	4.011e^-5	0.964	INTRON aret
2L	4521176	2L_4521176_SNP [dm3] 2L_4521176_SNP [dm6]	A	G	4.066e^-5	0.964	SYNONYMOUS_CODING dp INTRON dp	TF binding site mE1_TFBS_cad mE1_TFBS_chinmo
X	15118226	X_15118226_SNP [dm3] X_15224193_SNP [dm6]	T	C	4.163e^-5	0.964	UPSTREAM CG43076 INTERGENIC
3L	6090003	3L_6090003_SNP [dm3] 3L_6096903_SNP [dm6]	C	G	4.172e^-5	0.964	UPSTREAM Ets65A DOWNSTREAM loj INTERGENIC	TF binding site mE1_TFBS_cad
3R	14524144	3R_14524144_SNP [dm3] 3R_18698422_SNP [dm6]	G	A	4.206e^-5	0.964	INTERGENIC
2R	14956750	2R_14956750_DEL [dm3] 2R_19069245_DEL [dm6]	TATGTAGGCAGT...	C	4.262e^-5	0.964	INTRON 5-HT1A
2L	5109707	2L_5109707_SNP [dm3] 2L_5109707_SNP [dm6]	C	T	4.335e^-5	0.964	SYNONYMOUS_CODING Msp300 INTRON Msp300	TF binding site mE1_TFBS_cad mE1_TFBS_chinmo
X	2868184	X_2868184_SNP [dm3] X_2974151_SNP [dm6]	G	A	4.399e^-5	0.964	UPSTREAM rst INTRON kirre	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_twi mE1_TFBS_HSA
3L	9294257	3L_9294257_DEL [dm3] 3L_9301157_DEL [dm6]	TT	A	4.647e^-5	0.964	INTERGENIC
X	13983866	X_13983866_SNP [dm3] X_14089833_SNP [dm6]	G	T	4.739e^-5	0.964	INTERGENIC
X	3379455	X_3379455_DEL [dm3] X_3485422_DEL [dm6]	TG	A	4.769e^-5	0.964	UPSTREAM CG10803 & 1 other DOWNSTREAM CG10802 INTRON CR44999	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_twi BDTNP1_TFBS_z mE1_TFBS_D mE1_TFBS_disco mE1_TFBS_h mE1_TFBS_HSA mE1_TFBS_jumu mE1_TFBS_Ubx
3R	20830604	3R_20830604_SNP [dm3] 3R_25004882_SNP [dm6]	T	C	4.808e^-5	0.964	INTRON tnc
3R	9589460	3R_9589460_SNP [dm3] 3R_13763738_SNP [dm6]	C	G	4.877e^-5	0.964	UTR_3_PRIME CG34383	TF binding site mE1_TFBS_HSA mE1_TFBS_inv
3L	10367292	3L_10367292_SNP [dm3] 3L_10374192_SNP [dm6]	C	T	5.018e^-5	0.964	INTERGENIC
3L	11309872	3L_11309872_SNP [dm3] 3L_11316772_SNP [dm6]	C	T	5.035e^-5	0.964	DOWNSTREAM CR44361 INTERGENIC	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_twi mE1_TFBS_HSA
3L	10912843	3L_10912843_SNP [dm3] 3L_10919743_SNP [dm6]	G	T	5.101e^-5	0.964	INTERGENIC
2L	5109859	2L_5109859_SNP [dm3] 2L_5109859_SNP [dm6]	A	G	5.127e^-5	0.964	SYNONYMOUS_CODING Msp300 INTRON Msp300	TF binding site mE1_TFBS_cad mE1_TFBS_chinmo mE1_TFBS_HSA
3R	16794912	3R_16794912_SNP [dm3] 3R_20969190_SNP [dm6]	C	T	5.155e^-5	0.964	INTRON Atpalpha
2L	1917256	2L_1917256_SNP [dm3] 2L_1917256_SNP [dm6]	G	A	5.202e^-5	0.964	INTRON CG7337
3R	26039023	3R_26039023_SNP [dm3] 3R_30213301_SNP [dm6]	C	T	5.255e^-5	0.964	DOWNSTREAM CecB & 2 others INTERGENIC
3L	7687182	3L_7687182_INS [dm3] 3L_7694082_INS [dm6]	A	AAAA	5.301e^-5	0.964	INTRON CG32373 & 2 others
X	2868170	X_2868170_SNP [dm3] X_2974137_SNP [dm6]	T	A	5.390e^-5	0.964	UPSTREAM rst INTRON kirre	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_twi mE1_TFBS_HSA
3L	23848482	3L_23848482_SNP [dm3] 3L_23855382_SNP [dm6]	G	T	5.449e^-5	0.964	INTRON CG40470
2L	4055630	2L_4055630_SNP [dm3] 2L_4055630_SNP [dm6]	C	T	5.479e^-5	0.964	INTRON ed	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_hb BDTNP1_TFBS_Med BDTNP1_TFBS_twi mE1_TFBS_cad mE1_TFBS_disco mE1_TFBS_HSA
3L	6543979	3L_6543979_SNP [dm3] 3L_6550879_SNP [dm6]	G	C	5.482e^-5	0.964	UTR_5_PRIME CG18769 DOWNSTREAM sfl INTRON CG18769	TF binding site mE1_TFBS_bab1 mE1_TFBS_HSA mE1_TFBS_Trl
2R	964624	2R_964624_SNP [dm3] 2R_5077119_SNP [dm6]	T	A	5.487e^-5	0.964	INTERGENIC	transposable element FlyBase
3L	7227533	3L_7227533_SNP [dm3] 3L_7234433_SNP [dm6]	G	A	5.494e^-5	0.964	UPSTREAM CG14826 INTERGENIC
X	9700758	X_9700758_SNP [dm3] X_9806725_SNP [dm6]	G	T	5.514e^-5	0.964	INTRON CG32698
3L	6089961	3L_6089961_SNP [dm3] 3L_6096861_SNP [dm6]	A	G	5.594e^-5	0.964	UPSTREAM Ets65A DOWNSTREAM loj INTERGENIC	TF binding site mE1_TFBS_cad

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By genomic position
Variant impact
Gene name

mn_Aggression_Social phenotype

Phenotype distribution and association to known covariates

QQplot

Manhattan plot

GWAS results