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=5.404e^-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

2074 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
3L	16233307	3L_16233307_SNP [dm3] 3L_16240207_SNP [dm6]	G	A	1.595e^-6	0.789	DOWNSTREAM l_3_72Dr INTERGENIC
2R	12011205	2R_12011205_SNP [dm3] 2R_16123700_SNP [dm6]	A	G	3.733e^-6	0.789	DOWNSTREAM Jhe INTRON CG30095	TF binding site BDTNP1_TFBS_twi
3L	16233309	3L_16233309_SNP [dm3] 3L_16240209_SNP [dm6]	T	C	3.878e^-6	0.789	DOWNSTREAM l_3_72Dr INTERGENIC
3L	22644157	3L_22644157_SNP [dm3] 3L_22651057_SNP [dm6]	G	T	3.882e^-6	0.789	DOWNSTREAM CG33772 INTERGENIC	TF binding site BDTNP1_TFBS_twi mE1_TFBS_inv
3L	15190883	3L_15190883_SNP [dm3] 3L_15197783_SNP [dm6]	C	T	5.225e^-6	0.789	INTERGENIC
2R	13790467	2R_13790467_SNP [dm3] 2R_17902962_SNP [dm6]	G	T	5.427e^-6	0.789	INTRON Elk
3L	16233286	3L_16233286_SNP [dm3] 3L_16240186_SNP [dm6]	G	C	5.434e^-6	0.789	DOWNSTREAM l_3_72Dr INTERGENIC
2L	10746323	2L_10746323_SNP [dm3] 2L_10746323_SNP [dm6]	G	A	5.601e^-6	0.789	INTRON CG17124
2L	11482297	2L_11482297_SNP [dm3] 2L_11482297_SNP [dm6]	G	C	6.054e^-6	0.789	INTERGENIC	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl mE1_TFBS_HSA
3R	12356400	3R_12356400_SNP [dm3] 3R_16530678_SNP [dm6]	T	C	6.878e^-6	0.789	INTRON CG42342	TF binding site BDTNP1_TFBS_dl
X	14922949	X_14922949_SNP [dm3] X_15028916_SNP [dm6]	G	A	7.722e^-6	0.789	INTRON hiw & 1 other	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_twi mE1_TFBS_HSA mE1_TFBS_Trl
2L	16519447	2L_16519447_SNP [dm3] 2L_16519447_SNP [dm6]	G	T	8.107e^-6	0.789	INTRON CG5953
2R	9779415	2R_9779415_SNP [dm3] 2R_13891910_SNP [dm6]	C	T	9.031e^-6	0.789	SYNONYMOUS_CODING shot INTRON shot
3L	5233848	3L_5233848_DEL [dm3] 3L_5240748_DEL [dm6]	CC	C	9.107e^-6	0.789	INTRON shep
2L	6771645	2L_6771645_SNP [dm3] 2L_6771645_SNP [dm6]	T	A	9.314e^-6	0.789	UPSTREAM CG11321 INTRON CG11321
3L	5342506	3L_5342506_SNP [dm3] 3L_5349406_SNP [dm6]	T	G	9.515e^-6	0.789	INTRON lama
2R	8738056	2R_8738056_SNP [dm3] 2R_12850551_SNP [dm6]	G	A	9.690e^-6	0.789	INTRON CG17574
2L	17794999	2L_17794999_SNP [dm3] 2L_17794999_SNP [dm6]	T	C	1.060e^-5	0.789	INTRON CadN2
2R	15265853	2R_15265853_SNP [dm3] 2R_19378348_SNP [dm6]	C	T	1.065e^-5	0.789	SYNONYMOUS_CODING CG10062	TF binding site mE1_TFBS_cad mE1_TFBS_HSA mE1_TFBS_sens
3R	25963705	3R_25963705_SNP [dm3] 3R_30137983_SNP [dm6]	G	A	1.127e^-5	0.789	INTRON AdoR	TF binding site mE1_TFBS_cad
2L	11189341	2L_11189341_SNP [dm3] 2L_11189341_SNP [dm6]	G	T	1.187e^-5	0.789	INTRON Ca-beta	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_Med mE1_TFBS_HSA
X	14922942	X_14922942_SNP [dm3] X_15028909_SNP [dm6]	T	A	1.222e^-5	0.789	INTRON hiw & 1 other	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_twi mE1_TFBS_HSA mE1_TFBS_Trl
2L	11493145	2L_11493145_SNP [dm3] 2L_11493145_SNP [dm6]	A	G	1.227e^-5	0.789	INTERGENIC
3L	4979843	3L_4979843_SNP [dm3] 3L_4979843_SNP [dm6]	G	A	1.261e^-5	0.789	UPSTREAM CR45685 DOWNSTREAM CG17030 INTRON Con	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_twi mE1_TFBS_HSA
2L	20807069	2L_20807069_DEL [dm3] 2L_20807069_DEL [dm6]	GGCGTGA	T	1.280e^-5	0.789	INTRON CG9328
3L	4979731	3L_4979731_SNP [dm3] 3L_4979731_SNP [dm6]	T	C	1.313e^-5	0.789	DOWNSTREAM CG17030 INTRON Con	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_twi mE1_TFBS_HSA
2L	11481827	2L_11481827_SNP [dm3] 2L_11481827_SNP [dm6]	T	A	1.374e^-5	0.789	INTERGENIC
2L	6771685	2L_6771685_SNP [dm3] 2L_6771685_SNP [dm6]	C	T	1.414e^-5	0.789	UPSTREAM CG11321 INTRON CG11321
2R	15055689	2R_15055689_SNP [dm3] 2R_19168184_SNP [dm6]	C	T	1.507e^-5	0.789	INTRON CG10737
X	14922882	X_14922882_SNP [dm3] X_15028849_SNP [dm6]	G	C	1.544e^-5	0.789	INTRON hiw & 1 other	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_twi mE1_TFBS_HSA mE1_TFBS_Trl
2R	7476281	2R_7476281_SNP [dm3] 2R_11588776_SNP [dm6]	C	T	1.692e^-5	0.789	SYNONYMOUS_CODING tou UPSTREAM snoRNA:Psi28S-1936	TF binding site mE1_TFBS_cad
3L	11934310	3L_11934310_SNP [dm3] 3L_11941210_SNP [dm6]	A	C	1.848e^-5	0.789	UPSTREAM Rpt4R INTERGENIC
2R	9315360	2R_9315360_SNP [dm3] 2R_13427855_SNP [dm6]	C	T	1.864e^-5	0.789	INTRON CG42321	TF binding site BDTNP1_TFBS_twi mE1_TFBS_inv
3L	12555431	3L_12555431_SNP [dm3] 3L_12562331_SNP [dm6]	C	T	1.872e^-5	0.789	INTRON sowah
2R	7476957	2R_7476957_SNP [dm3] 2R_11589452_SNP [dm6]	C	A	1.880e^-5	0.789	NON_SYNONYMOUS_CODING tou	TF binding site mE1_TFBS_cad mE1_TFBS_sens
2L	1283044	2L_1283044_SNP [dm3] 2L_1283044_SNP [dm6]	C	T	1.914e^-5	0.789	INTRON robo3
2L	562017	2L_562017_SNP [dm3] 2L_562017_SNP [dm6]	G	A	1.972e^-5	0.789	NON_SYNONYMOUS_CODING CG11835	TF binding site mE1_TFBS_chinmo
2L	6771716	2L_6771716_SNP [dm3] 2L_6771716_SNP [dm6]	G	C	2.006e^-5	0.789	UPSTREAM CG11321 INTRON CG11321
2L	11493019	2L_11493019_SNP [dm3] 2L_11493019_SNP [dm6]	G	T	2.064e^-5	0.789	INTERGENIC
3L	1373565	3L_1373565_SNP [dm3] 3L_1373565_SNP [dm6]	T	C	2.104e^-5	0.789	INTRON Ptp61F & 1 other
2L	11571145	2L_11571145_SNP [dm3] 2L_11571145_SNP [dm6]	T	C	2.111e^-5	0.789	INTERGENIC	TF binding site mE1_TFBS_HSA
3R	27100304	3R_27100304_SNP [dm3] 3R_31274582_SNP [dm6]	G	A	2.121e^-5	0.789	INTERGENIC	TF binding site BDTNP1_TFBS_twi mE1_TFBS_HSA
2R	4491725	2R_4491725_SNP [dm3] 2R_8604220_SNP [dm6]	C	T	2.152e^-5	0.789	INTRON rgr	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_twi mE1_TFBS_cad mE1_TFBS_HSA
2L	10616019	2L_10616019_SNP [dm3] 2L_10616019_SNP [dm6]	T	G	2.185e^-5	0.789	INTRON Trim9	TF binding site BDTNP1_TFBS_twi
2R	9315413	2R_9315413_SNP [dm3] 2R_13427908_SNP [dm6]	C	A	2.190e^-5	0.789	INTRON CG42321	TF binding site BDTNP1_TFBS_twi mE1_TFBS_inv
3R	14903426	3R_14903426_SNP [dm3] 3R_19077704_SNP [dm6]	A	T	2.284e^-5	0.789	INTRON cdi
2R	11780415	2R_11780415_SNP [dm3] 2R_15892910_SNP [dm6]	T	C	2.300e^-5	0.789	INTRON sli	regulatory region REDfly_CRMs TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_twi mE1_TFBS_cad mE1_TFBS_HSA mE1_TFBS_sens
2L	6771681	2L_6771681_SNP [dm3] 2L_6771681_SNP [dm6]	T	C	2.440e^-5	0.789	UPSTREAM CG11321 INTRON CG11321
3L	22644488	3L_22644488_SNP [dm3] 3L_22651388_SNP [dm6]	C	T	2.467e^-5	0.789	DOWNSTREAM CG33772 INTERGENIC	TF binding site mE1_TFBS_inv
2R	7065103	2R_7065103_SNP [dm3] 2R_11177598_SNP [dm6]	G	T	2.469e^-5	0.789	INTRON shn
X	12668803	X_12668803_SNP [dm3] X_12774770_SNP [dm6]	T	C	2.492e^-5	0.789	UTR_3_PRIME CG32647 DOWNSTREAM CG32647
3L	1391263	3L_1391263_SNP [dm3] 3L_1391263_SNP [dm6]	C	A	2.528e^-5	0.789	INTRON Ptp61F	TF binding site BDTNP1_TFBS_prd mE1_TFBS_cad mE1_TFBS_chinmo mE1_TFBS_HSA
2R	5099303	2R_5099303_SNP [dm3] 2R_9211798_SNP [dm6]	A	G	2.533e^-5	0.789	INTERGENIC
2L	18771226	2L_18771226_SNP [dm3] 2L_18771226_SNP [dm6]	T	G	2.541e^-5	0.789	INTRON ham
X	14922938	X_14922938_SNP [dm3] X_15028905_SNP [dm6]	T	A	2.551e^-5	0.789	INTRON hiw & 1 other	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_twi mE1_TFBS_HSA mE1_TFBS_Trl
2L	6771897	2L_6771897_SNP [dm3] 2L_6771897_SNP [dm6]	G	A	2.556e^-5	0.789	UPSTREAM CG11321 INTRON CG11321
X	6788786	X_6788786_SNP [dm3] X_6894753_SNP [dm6]	A	C	2.575e^-5	0.789	INTERGENIC
2R	17657062	2R_17657062_SNP [dm3] 2R_21769557_SNP [dm6]	G	T	2.576e^-5	0.789	INTRON CG30395	TF binding site mE1_TFBS_HSA mE1_TFBS_inv
3L	11938119	3L_11938119_SNP [dm3] 3L_11945019_SNP [dm6]	A	C	2.710e^-5	0.789	UPSTREAM CG5883 INTERGENIC
2R	4466479	2R_4466479_SNP [dm3] 2R_8578974_SNP [dm6]	G	A	2.745e^-5	0.789	UPSTREAM CG42326 INTRON CG42326
2L	6771815	2L_6771815_SNP [dm3] 2L_6771815_SNP [dm6]	A	C	2.768e^-5	0.789	UPSTREAM CG11321 INTRON CG11321
3L	1369565	3L_1369565_SNP [dm3] 3L_1369565_SNP [dm6]	A	G	2.776e^-5	0.789	INTRON Ptp61F	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl
2L	15104877	2L_15104877_SNP [dm3] 2L_15104877_SNP [dm6]	C	T	2.836e^-5	0.789	INTERGENIC
2L	11483025	2L_11483025_SNP [dm3] 2L_11483025_SNP [dm6]	A	T	2.873e^-5	0.789	INTERGENIC	TF binding site mE1_TFBS_HSA
3L	15888030	3L_15888030_SNP [dm3] 3L_15894930_SNP [dm6]	C	A	2.876e^-5	0.789	INTRON pHCl
X	6408307	X_6408307_SNP [dm3] X_6514274_SNP [dm6]	C	T	2.921e^-5	0.789	INTRON CG42340
3L	17035721	3L_17035721_SNP [dm3] 3L_17042621_SNP [dm6]	C	A	3.016e^-5	0.789	UPSTREAM Papst2 & 1 other INTERGENIC	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_Med mE1_TFBS_GATAe mE1_TFBS_HSA mE1_TFBS_jumu mE1_TFBS_Ubx
3R	8422316	3R_8422316_SNP [dm3] 3R_12596594_SNP [dm6]	C	A	3.027e^-5	0.789	UPSTREAM Octbeta2R INTERGENIC
2L	7452801	2L_7452801_SNP [dm3] 2L_7452801_SNP [dm6]	A	C	3.064e^-5	0.789	SYNONYMOUS_CODING Gr28a	TF binding site mE1_TFBS_HSA
3L	16233172	3L_16233172_SNP [dm3] 3L_16240072_SNP [dm6]	G	A	3.125e^-5	0.789	DOWNSTREAM l_3_72Dr INTERGENIC
3L	460519	3L_460519_DEL [dm3] 3L_460519_DEL [dm6]	AGATCAGGTCGGGGA...	A	3.171e^-5	0.789	INTRON klar
2L	8936807	2L_8936807_SNP [dm3] 2L_8936807_SNP [dm6]	T	C	3.190e^-5	0.789	UPSTREAM Tsp29Fb DOWNSTREAM Tsp29Fa INTERGENIC	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_slp1 BDTNP1_TFBS_sna BDTNP1_TFBS_twi mE1_TFBS_HSA
X	8501381	X_8501381_SNP [dm3] X_8607348_SNP [dm6]	G	T	3.197e^-5	0.789	INTERGENIC
3L	17035763	3L_17035763_SNP [dm3] 3L_17042663_SNP [dm6]	C	T	3.205e^-5	0.789	UPSTREAM Papst2 & 1 other INTERGENIC	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_Med mE1_TFBS_GATAe mE1_TFBS_HSA mE1_TFBS_jumu mE1_TFBS_Ubx
3L	17345690	3L_17345690_SNP [dm3] 3L_17352590_SNP [dm6]	C	T	3.222e^-5	0.789	UPSTREAM CG7692 INTRON CG7692	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_twi
2L	11435981	2L_11435981_SNP [dm3] 2L_11435981_SNP [dm6]	T	G	3.381e^-5	0.789	INTRON salm	TF binding site BDTNP1_TFBS_twi
2L	11481704	2L_11481704_SNP [dm3] 2L_11481704_SNP [dm6]	A	G	3.398e^-5	0.789	INTERGENIC
3R	5042724	3R_5042724_SNP [dm3] 3R_9217002_SNP [dm6]	A	G	3.485e^-5	0.789	INTRON pum	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl mE1_TFBS_HSA mE1_TFBS_Trl
3L	1007912	3L_1007912_SNP [dm3] 3L_1007912_SNP [dm6]	G	A	3.566e^-5	0.789	UPSTREAM trio INTRON trio	TF binding site mE1_TFBS_inv
3L	4979724	3L_4979724_SNP [dm3] 3L_4979724_SNP [dm6]	A	C	3.628e^-5	0.789	DOWNSTREAM CG17030 INTRON Con	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_twi mE1_TFBS_HSA
2R	19005633	2R_19005633_SNP [dm3] 2R_23118110_SNP [dm6]	G	A	3.692e^-5	0.789	INTERGENIC
2L	11481689	2L_11481689_SNP [dm3] 2L_11481689_SNP [dm6]	A	G	3.754e^-5	0.789	INTERGENIC
2R	17172105	2R_17172105_SNP [dm3] 2R_21284600_SNP [dm6]	C	T	3.833e^-5	0.789	SPLICE_SITE_REGION MFS16 DOWNSTREAM CG10505 INTRON MFS16
2L	11481708	2L_11481708_SNP [dm3] 2L_11481708_SNP [dm6]	G	A	3.962e^-5	0.789	INTERGENIC
2L	9489738	2L_9489738_INS [dm3] 2L_9489738_INS [dm6]	C	AT	3.965e^-5	0.789	INTERGENIC
2L	11482617	2L_11482617_SNP [dm3] 2L_11482617_SNP [dm6]	G	A	4.021e^-5	0.789	INTERGENIC	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl mE1_TFBS_HSA
2L	6771880	2L_6771880_SNP [dm3] 2L_6771880_SNP [dm6]	A	C	4.054e^-5	0.789	UPSTREAM CG11321 INTRON CG11321
3R	12356444	3R_12356444_SNP [dm3] 3R_16530722_SNP [dm6]	T	C	4.062e^-5	0.789	INTRON CG42342	TF binding site BDTNP1_TFBS_dl mE1_TFBS_sens
2L	11483003	2L_11483003_SNP [dm3] 2L_11483003_SNP [dm6]	A	G	4.084e^-5	0.789	INTERGENIC	TF binding site mE1_TFBS_HSA
3L	982483	3L_982483_SNP [dm3] 3L_982483_SNP [dm6]	C	T	4.159e^-5	0.789	UTR_3_PRIME Glut1 INTRON Glut1
3L	22643737	3L_22643737_SNP [dm3] 3L_22650637_SNP [dm6]	A	G	4.162e^-5	0.789	DOWNSTREAM CG33771 INTERGENIC	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_twi mE1_TFBS_HSA
3L	4979740	3L_4979740_SNP [dm3] 3L_4979740_SNP [dm6]	C	A	4.170e^-5	0.789	DOWNSTREAM CG17030 INTRON Con	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_twi mE1_TFBS_HSA
2L	13703238	2L_13703238_SNP [dm3] 2L_13703238_SNP [dm6]	C	T	4.203e^-5	0.789	INTRON CG31814
2L	11493044	2L_11493044_DEL [dm3] 2L_11493044_DEL [dm6]	TATATTATATATTTTAAGTG...	T	4.246e^-5	0.789	INTERGENIC
2L	10616053	2L_10616053_SNP [dm3] 2L_10616053_SNP [dm6]	A	T	4.252e^-5	0.789	INTRON Trim9	TF binding site BDTNP1_TFBS_twi
2L	6771886	2L_6771886_SNP [dm3] 2L_6771886_SNP [dm6]	C	G	4.272e^-5	0.789	UPSTREAM CG11321 INTRON CG11321
3L	22641129	3L_22641129_SNP [dm3] 3L_22648029_SNP [dm6]	T	C	4.275e^-5	0.789	UPSTREAM CG33770 DOWNSTREAM CG33768 INTRON CG33769	insulator Insulator_Class_I.mE01 TF binding site mE1_TFBS_HSA mE1_TFBS_sens
3L	22650946	3L_22650946_SNP [dm3] 3L_22657846_SNP [dm6]	G	T	4.275e^-5	0.789	INTERGENIC	TF binding site mE1_TFBS_D mE1_TFBS_disco mE1_TFBS_HSA
3R	22824760	3R_22824760_SNP [dm3] 3R_26999038_SNP [dm6]	G	T	4.275e^-5	0.789	UPSTREAM CG31077 INTRON RYa-R
3L	22641033	3L_22641033_SNP [dm3] 3L_22647933_SNP [dm6]	G	C	4.371e^-5	0.789	NON_SYNONYMOUS_CODING CG33769 UPSTREAM CG33770 DOWNSTREAM CG33767 & 1 other	TF binding site mE1_TFBS_HSA mE1_TFBS_sens

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By genomic position
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hr_ERStress_Survival phenotype

Phenotype distribution and association to known covariates

QQplot

Manhattan plot

GWAS results