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=1.513e^-3)
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

Covariate	p-value	Significance
wolba	0.05327
In_3R_Mo	0.09911

Kruskal-Wallis test

Covariate	χ²	p-value	Significance
wolba	3.8215	0.0506
In_3R_Mo	5.3048	0.0705

PNG PDF

QQplot

PNG PDF

Manhattan plot

GWAS results

1702 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

Show entries

Search:

Chromosome	Position	ID	Reference	Variant	p-value	FDR_BH	Transcript annotation	Binding site annotation
2R	3220508	2R_3220508_SNP [dm3] 2R_7333003_SNP [dm6]	C	G	2.580e^-7	0.484	INTRON CR45129 & 1 other
2L	2540083	2L_2540083_SNP [dm3] 2L_2540083_SNP [dm6]	G	A	6.181e^-7	0.557	INTERGENIC
3L	15274858	3L_15274858_SNP [dm3] 3L_15281758_SNP [dm6]	A	T	1.282e^-6	0.557	INTERGENIC
3L	5442679	3L_5442679_SNP [dm3] 3L_5449579_SNP [dm6]	T	C	1.563e^-6	0.557	INTERGENIC
3L	13636608	3L_13636608_SNP [dm3] 3L_13643508_SNP [dm6]	G	A	1.576e^-6	0.557	INTRON bru-3
2R	6345254	2R_6345254_SNP [dm3] 2R_10457749_SNP [dm6]	G	T	1.984e^-6	0.557	INTRON Galphao & 1 other
2R	11707830	2R_11707830_SNP [dm3] 2R_15820325_SNP [dm6]	T	C	2.212e^-6	0.557	SYNONYMOUS_CODING CG33465 INTRON tun
2L	19927216	2L_19927216_INS [dm3] 2L_19927216_INS [dm6]	C	CGGGC	2.401e^-6	0.557	INTRON sick
2L	7559987	2L_7559987_SNP [dm3] 2L_7559987_SNP [dm6]	T	C	2.672e^-6	0.557	INTRON RapGAP1
3L	7774810	3L_7774810_SNP [dm3] 3L_7781710_SNP [dm6]	C	T	3.035e^-6	0.569	INTRON CG32369	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_gt BDTNP1_TFBS_Med BDTNP1_TFBS_twi mE1_TFBS_HSA mE1_TFBS_Trl
3L	11547933	3L_11547933_SNP [dm3] 3L_11554833_SNP [dm6]	A	G	3.790e^-6	0.646	INTRON Mob2	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_Med BDTNP1_TFBS_prd BDTNP1_TFBS_sna BDTNP1_TFBS_twi mE1_TFBS_cnc mE1_TFBS_HSA mE1_TFBS_Trl
2L	7898315	2L_7898315_DEL [dm3] 2L_7898315_DEL [dm6]	AA	A	4.173e^-6	0.652	INTRON Snoo
3L	18580469	3L_18580469_SNP [dm3] 3L_18587369_SNP [dm6]	A	T	5.987e^-6	0.864	INTERGENIC
2L	1865537	2L_1865537_SNP [dm3] 2L_1865537_SNP [dm6]	C	T	6.782e^-6	0.909	SYNONYMOUS_CODING CG31663
3L	7704031	3L_7704031_SNP [dm3] 3L_7710931_SNP [dm6]	G	A	9.283e^-6	0.991	SYNONYMOUS_CODING Ank2 INTRON CG32373	TF binding site mE1_TFBS_chinmo
X	5242623	X_5242623_SNP [dm3] X_5348590_SNP [dm6]	G	C	9.601e^-6	0.991	INTRON SK
3R	25370718	3R_25370718_SNP [dm3] 3R_29544996_SNP [dm6]	T	C	1.004e^-5	0.991	INTERGENIC	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_gt BDTNP1_TFBS_Med BDTNP1_TFBS_prd BDTNP1_TFBS_twi mE1_TFBS_HSA mE1_TFBS_sens
3L	8244015	3L_8244015_SNP [dm3] 3L_8250915_SNP [dm6]	C	T	1.055e^-5	0.991	INTRON Dscam4
3L	13891971	3L_13891971_SNP [dm3] 3L_13898871_SNP [dm6]	C	A	1.098e^-5	0.991	INTRON dysc
X	18966091	X_18966091_SNP [dm3] X_19072058_SNP [dm6]	C	T	1.213e^-5	0.991	INTERGENIC	TF binding site BDTNP1_TFBS_twi mE1_TFBS_chinmo
X	3433338	X_3433338_SNP [dm3] X_3539305_SNP [dm6]	A	G	1.315e^-5	0.991	INTRON CG32791
2R	13354309	2R_13354309_SNP [dm3] 2R_17466804_SNP [dm6]	T	C	1.343e^-5	0.991	SYNONYMOUS_CODING Tes	TF binding site BDTNP1_TFBS_dl mE1_TFBS_chinmo mE1_TFBS_HSA
3L	10784214	3L_10784214_SNP [dm3] 3L_10791114_SNP [dm6]	T	G	1.422e^-5	0.991	INTERGENIC
3L	16457852	3L_16457852_SNP [dm3] 3L_16464752_SNP [dm6]	A	G	1.433e^-5	0.991	INTRON CG33158
3L	7120009	3L_7120009_SNP [dm3] 3L_7126909_SNP [dm6]	G	A	1.467e^-5	0.991	SYNONYMOUS_CODING BBS1	TF binding site mE1_TFBS_chinmo mE1_TFBS_HSA
3R	6497351	3R_6497351_SNP [dm3] 3R_10671629_SNP [dm6]	T	G	1.570e^-5	0.991	INTERGENIC
3L	11045668	3L_11045668_SNP [dm3] 3L_11052568_SNP [dm6]	A	C	1.574e^-5	0.991	INTERGENIC
3L	16457923	3L_16457923_SNP [dm3] 3L_16464823_SNP [dm6]	A	T	1.757e^-5	0.991	INTRON CG33158
2L	19892638	2L_19892638_SNP [dm3] 2L_19892638_SNP [dm6]	A	T	1.760e^-5	0.991	UPSTREAM CG10481 INTRON sick	TF binding site BDTNP1_TFBS_twi mE1_TFBS_HSA
2L	19892614	2L_19892614_SNP [dm3] 2L_19892614_SNP [dm6]	G	A	1.865e^-5	0.991	UPSTREAM CG10481 INTRON sick	TF binding site BDTNP1_TFBS_twi mE1_TFBS_HSA
3L	8022696	3L_8022696_SNP [dm3] 3L_8029596_SNP [dm6]	T	C	1.903e^-5	0.991	UPSTREAM tRNA:CR32370 INTRON nmo
3R	9584740	3R_9584740_SNP [dm3] 3R_13759018_SNP [dm6]	G	A	1.919e^-5	0.991	SYNONYMOUS_CODING CG34383 UTR_3_PRIME CG34383	TF binding site mE1_TFBS_cad mE1_TFBS_HSA mE1_TFBS_sens
2L	6622118	2L_6622118_DEL [dm3] 2L_6622118_DEL [dm6]	CT	C	1.960e^-5	0.991	UPSTREAM CG11320 & 1 other INTERGENIC	TF binding site mE1_TFBS_bab1
2L	19892641	2L_19892641_SNP [dm3] 2L_19892641_SNP [dm6]	G	A	1.962e^-5	0.991	UPSTREAM CG10481 INTRON sick	TF binding site BDTNP1_TFBS_twi mE1_TFBS_HSA
X	11662170	X_11662170_SNP [dm3] X_11768137_SNP [dm6]	C	T	2.171e^-5	0.991	SYNONYMOUS_CODING m	TF binding site mE1_TFBS_chinmo
2L	7875856	2L_7875856_INS [dm3] 2L_7875856_INS [dm6]	T	TT	2.177e^-5	0.991	INTRON spz3
3R	22815628	3R_22815628_SNP [dm3] 3R_26989906_SNP [dm6]	A	G	2.191e^-5	0.991	UPSTREAM CG31076 INTERGENIC
3L	16457924	3L_16457924_SNP [dm3] 3L_16464824_SNP [dm6]	T	A	2.251e^-5	0.991	INTRON CG33158
3L	3388747	3L_3388747_SNP [dm3] 3L_3388747_SNP [dm6]	G	A	2.294e^-5	0.991	INTERGENIC
2L	2883195	2L_2883195_SNP [dm3] 2L_2883195_SNP [dm6]	A	T	2.428e^-5	0.991	UPSTREAM NTPase INTRON NTPase	TF binding site BDTNP1_TFBS_dl mE1_TFBS_HSA
X	3433596	X_3433596_SNP [dm3] X_3539563_SNP [dm6]	T	C	2.491e^-5	0.991	INTRON CG32791
3L	3388777	3L_3388777_SNP [dm3] 3L_3388777_SNP [dm6]	G	A	2.522e^-5	0.991	INTERGENIC
3L	8023846	3L_8023846_SNP [dm3] 3L_8030746_SNP [dm6]	G	A	2.637e^-5	0.991	INTRON nmo
2L	794737	2L_794737_SNP [dm3] 2L_794737_SNP [dm6]	A	G	2.688e^-5	0.991	INTERGENIC
X	12223086	X_12223086_SNP [dm3] X_12329053_SNP [dm6]	C	G	2.740e^-5	0.991	SYNONYMOUS_CODING Ten-a	TF binding site mE1_TFBS_chinmo
2L	807571	2L_807571_DEL [dm3] 2L_807571_DEL [dm6]	TT	T	2.749e^-5	0.991	INTERGENIC	TF binding site mE1_TFBS_inv
3R	22416692	3R_22416692_SNP [dm3] 3R_26590970_SNP [dm6]	G	C	2.794e^-5	0.991	INTRON scrib
2L	18931786	2L_18931786_SNP [dm3] 2L_18931786_SNP [dm6]	G	C	2.815e^-5	0.991	INTRON ssp3
2R	4788415	2R_4788415_SNP [dm3] 2R_8900910_SNP [dm6]	G	A	2.816e^-5	0.991	NON_SYNONYMOUS_CODING MrgBP UPSTREAM ana2 & 1 other DOWNSTREAM CG13751	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_Med mE1_TFBS_HSA mE1_TFBS_sens
3L	3388748	3L_3388748_SNP [dm3] 3L_3388748_SNP [dm6]	G	C	2.862e^-5	0.991	INTERGENIC
3L	11047025	3L_11047025_SNP [dm3] 3L_11053925_SNP [dm6]	C	T	2.864e^-5	0.991	UPSTREAM CG7888 INTERGENIC
3R	26157271	3R_26157271_DEL [dm3] 3R_30331549_DEL [dm6]	TTGCACA	T	2.907e^-5	0.991	INTRON hdc
2L	19859390	2L_19859390_SNP [dm3] 2L_19859390_SNP [dm6]	G	T	2.938e^-5	0.991	INTRON sick
3L	8023775	3L_8023775_SNP [dm3] 3L_8030675_SNP [dm6]	T	A	3.072e^-5	0.991	INTRON nmo
2R	6823463	2R_6823463_SNP [dm3] 2R_10935958_SNP [dm6]	T	C	3.223e^-5	0.991	INTERGENIC	TF binding site mE1_TFBS_chinmo
2R	11707821	2R_11707821_SNP [dm3] 2R_15820316_SNP [dm6]	C	T	3.258e^-5	0.991	SYNONYMOUS_CODING CG33465 INTRON tun
3L	10784282	3L_10784282_SNP [dm3] 3L_10791182_SNP [dm6]	C	A	3.335e^-5	0.991	INTERGENIC
3R	24834544	3R_24834544_SNP [dm3] 3R_29008822_SNP [dm6]	A	G	3.362e^-5	0.991	INTRON wat EXON mir-4947
2L	17456757	2L_17456757_SNP [dm3] 2L_17456757_SNP [dm6]	A	G	3.416e^-5	0.991	UTR_3_PRIME CG18563 UPSTREAM CG6639 INTRON CG5050	TF binding site mE1_TFBS_cad
3R	5695062	3R_5695062_SNP [dm3] 3R_9869340_SNP [dm6]	C	A	3.572e^-5	0.991	INTERGENIC	TF binding site BDTNP1_TFBS_dl mE1_TFBS_bab1 mE1_TFBS_cnc mE1_TFBS_ttk
3L	7943815	3L_7943815_SNP [dm3] 3L_7950715_SNP [dm6]	A	G	3.669e^-5	0.991	SYNONYMOUS_CODING exex
X	3433324	X_3433324_DEL [dm3] X_3539291_DEL [dm6]	GGTATGG	G	3.691e^-5	0.991	INTRON CG32791
2R	1832630	2R_1832630_SNP [dm3] 2R_5945125_SNP [dm6]	C	A	3.714e^-5	0.991	INTERGENIC	transposable element FlyBase
2L	2111794	2L_2111794_SNP [dm3] 2L_2111794_SNP [dm6]	T	C	4.034e^-5	0.991	INTERGENIC
2R	12409607	2R_12409607_SNP [dm3] 2R_16522102_SNP [dm6]	G	C	4.218e^-5	0.991	INTRON Sema-2a	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_hb BDTNP1_TFBS_twi mE1_TFBS_HSA
2L	12014247	2L_12014247_SNP [dm3] 2L_12014247_SNP [dm6]	A	T	4.457e^-5	0.991	DOWNSTREAM CG6734 & 1 other INTERGENIC
2L	19895952	2L_19895952_SNP [dm3] 2L_19895952_SNP [dm6]	C	A	4.610e^-5	0.991	UPSTREAM sick INTRON sick	silencer mE1_HDAC_PRE
2L	18467947	2L_18467947_SNP [dm3] 2L_18467947_SNP [dm6]	G	T	4.653e^-5	0.991	INTRON let-7-C
2L	19892637	2L_19892637_SNP [dm3] 2L_19892637_SNP [dm6]	G	T	4.687e^-5	0.991	UPSTREAM CG10481 INTRON sick	TF binding site BDTNP1_TFBS_twi mE1_TFBS_HSA
2R	13256685	2R_13256685_SNP [dm3] 2R_17369180_SNP [dm6]	C	T	4.752e^-5	0.991	INTRON mbl
2R	6942960	2R_6942960_SNP [dm3] 2R_11055455_SNP [dm6]	C	G	4.775e^-5	0.991	INTRON luna
2R	11214298	2R_11214298_SNP [dm3] 2R_15326793_SNP [dm6]	T	G	4.831e^-5	0.991	UPSTREAM CG8157 DOWNSTREAM CG8160 INTERGENIC
2L	12014183	2L_12014183_SNP [dm3] 2L_12014183_SNP [dm6]	G	C	4.853e^-5	0.991	DOWNSTREAM CG6734 & 1 other INTERGENIC
3L	11552492	3L_11552492_SNP [dm3] 3L_11559392_SNP [dm6]	C	T	4.926e^-5	0.991	UPSTREAM Mob2 INTRON Mob2
3R	22814484	3R_22814484_SNP [dm3] 3R_26988762_SNP [dm6]	T	A	4.972e^-5	0.991	UPSTREAM CG31075 DOWNSTREAM CG31076 INTERGENIC
2L	18605756	2L_18605756_SNP [dm3] 2L_18605756_SNP [dm6]	G	T	5.042e^-5	0.991	UPSTREAM CG31789 & 1 other INTERGENIC	TF binding site BDTNP1_TFBS_dl
3R	26297598	3R_26297598_SNP [dm3] 3R_30471876_SNP [dm6]	G	A	5.076e^-5	0.991	INTRON PH4alphaEFB
2L	3350711	2L_3350711_SNP [dm3] 2L_3350711_SNP [dm6]	A	G	5.122e^-5	0.991	INTRON E23
3L	7768214	3L_7768214_SNP [dm3] 3L_7775114_SNP [dm6]	T	A	5.142e^-5	0.991	INTRON Clk	regulatory region REDfly_CRMs
3L	11015727	3L_11015727_SNP [dm3] 3L_11022627_SNP [dm6]	G	C	5.266e^-5	0.991	UPSTREAM Fad2 INTERGENIC	TF binding site mE1_TFBS_cad
2L	18581339	2L_18581339_SNP [dm3] 2L_18581339_SNP [dm6]	C	A	5.474e^-5	0.991	INTRON Pde11
3R	26051090	3R_26051090_SNP [dm3] 3R_30225368_SNP [dm6]	C	T	5.605e^-5	0.991	INTERGENIC
2L	18589851	2L_18589851_SNP [dm3] 2L_18589851_SNP [dm6]	G	T	5.608e^-5	0.991	INTRON Pde11	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_hb BDTNP1_TFBS_Med BDTNP1_TFBS_twi
3L	11552369	3L_11552369_SNP [dm3] 3L_11559269_SNP [dm6]	C	A	5.639e^-5	0.991	UPSTREAM Mob2 INTRON Mob2	TF binding site mE1_TFBS_cad
3R	14027591	3R_14027591_SNP [dm3] 3R_18201869_SNP [dm6]	C	T	5.680e^-5	0.991	INTRON CG7985
3L	11555691	3L_11555691_SNP [dm3] 3L_11562591_SNP [dm6]	A	C	5.688e^-5	0.991	UPSTREAM CG7394 & 1 other INTRON CG7394	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_Med BDTNP1_TFBS_slp1 BDTNP1_TFBS_twi mE1_TFBS_h mE1_TFBS_HSA mE1_TFBS_run mE1_TFBS_Ubx
3L	15274757	3L_15274757_SNP [dm3] 3L_15281657_SNP [dm6]	C	G	5.719e^-5	0.991	INTERGENIC
3L	11552495	3L_11552495_SNP [dm3] 3L_11559395_SNP [dm6]	A	T	5.743e^-5	0.991	UPSTREAM Mob2 INTRON Mob2
3R	14064730	3R_14064730_SNP [dm3] 3R_18239008_SNP [dm6]	C	G	5.849e^-5	0.991	UTR_3_PRIME repo DOWNSTREAM CG7156	TF binding site mE1_TFBS_cad
2L	17456733	2L_17456733_SNP [dm3] 2L_17456733_SNP [dm6]	T	A	5.873e^-5	0.991	UTR_3_PRIME CG18563 UPSTREAM CG6639 INTRON CG5050	TF binding site mE1_TFBS_cad
2R	10267522	2R_10267522_SNP [dm3] 2R_14380017_SNP [dm6]	T	C	5.881e^-5	0.991	INTRON Dh44-R1
3L	1726836	3L_1726836_SNP [dm3] 3L_1726836_SNP [dm6]	G	T	5.987e^-5	0.991	INTRON drpr
2R	2490068	2R_2490068_SNP [dm3] 2R_6602563_SNP [dm6]	T	C	6.099e^-5	0.991	INTRON jing	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_sna BDTNP1_TFBS_twi mE1_TFBS_sens
3R	26088349	3R_26088349_SNP [dm3] 3R_30262627_SNP [dm6]	A	T	6.147e^-5	0.991	INTERGENIC	TF binding site mE1_TFBS_Kr
2L	2025107	2L_2025107_SNP [dm3] 2L_2025107_SNP [dm6]	A	C	6.148e^-5	0.991	INTRON CG4238
2R	7274382	2R_7274382_SNP [dm3] 2R_11386877_SNP [dm6]	A	G	6.252e^-5	0.991	SYNONYMOUS_CODING sprt DOWNSTREAM CG30022	TF binding site mE1_TFBS_cad
2R	2397606	2R_2397606_SNP [dm3] 2R_6510101_SNP [dm6]	A	G	6.287e^-5	0.991	INTRON jing EXON CR45127
2R	20052855	2R_20052855_SNP [dm3] 2R_24165332_SNP [dm6]	T	C	6.412e^-5	0.991	INTRON CG3328
X	4908174	X_4908174_SNP [dm3] X_5014141_SNP [dm6]	T	A	6.445e^-5	0.991	INTRON CR44833
3L	18284180	3L_18284180_SNP [dm3] 3L_18291080_SNP [dm6]	C	T	6.532e^-5	0.991	INTERGENIC

Showing 1 to 100 of 1,000 entries

Previous1 2 3 4 5…10Next

By genomic position
Variant impact
Gene name

Deaths phenotype

Phenotype distribution and association to known covariates

QQplot

Manhattan plot

GWAS results