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=3.204e^-6)
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

2536 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	17735436	3R_17735436_SNP [dm3] 3R_21909714_SNP [dm6]	T	A	1.207e^-6	0.522	INTERGENIC
3L	9735257	3L_9735257_SNP [dm3] 3L_9742157_SNP [dm6]	C	T	1.281e^-6	0.522	INTRON CG42268 & 1 other	TF binding site mE1_TFBS_cad mE1_TFBS_HSA
3L	19367803	3L_19367803_SNP [dm3] 3L_19374703_SNP [dm6]	C	A	1.520e^-6	0.522	INTRON CG32206
3L	8820796	3L_8820796_SNP [dm3] 3L_8827696_SNP [dm6]	A	G	1.587e^-6	0.522	UTR_5_PRIME dally	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_tll BDTNP1_TFBS_twi mE1_TFBS_cad mE1_TFBS_D mE1_TFBS_disco mE1_TFBS_HSA mE1_TFBS_sens mE1_TFBS_Trl
2R	19646551	2R_19646551_SNP [dm3] 2R_23759028_SNP [dm6]	G	A	2.160e^-6	0.522	INTRON CG9850	TF binding site BDTNP1_TFBS_dl mE1_TFBS_bab1 mE1_TFBS_cad mE1_TFBS_HSA
2L	19425737	2L_19425737_SNP [dm3] 2L_19425737_SNP [dm6]	A	G	2.196e^-6	0.522	UPSTREAM CG13085 & 1 other INTRON Pax & 2 others	TF binding site BDTNP1_TFBS_dl mE1_TFBS_bab1 mE1_TFBS_cad mE1_TFBS_HSA mE1_TFBS_Trl mE1_TFBS_Ubx
3L	8820797	3L_8820797_SNP [dm3] 3L_8827697_SNP [dm6]	G	A	2.197e^-6	0.522	UTR_5_PRIME dally	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_tll BDTNP1_TFBS_twi mE1_TFBS_cad mE1_TFBS_D mE1_TFBS_disco mE1_TFBS_HSA mE1_TFBS_sens mE1_TFBS_Trl
3R	14899269	3R_14899269_SNP [dm3] 3R_19073547_SNP [dm6]	G	A	2.738e^-6	0.522	INTRON cdi	TF binding site mE1_TFBS_chinmo
2L	7900584	2L_7900584_SNP [dm3] 2L_7900584_SNP [dm6]	G	A	2.781e^-6	0.522	INTRON Snoo
2R	12811296	2R_12811296_SNP [dm3] 2R_16923791_SNP [dm6]	C	T	2.928e^-6	0.522	UPSTREAM Pkc53E INTERGENIC
2L	7900587	2L_7900587_DEL [dm3] 2L_7900587_DEL [dm6]	GG	G	3.063e^-6	0.522	INTRON Snoo
2L	7900235	2L_7900235_SNP [dm3] 2L_7900235_SNP [dm6]	C	G	3.399e^-6	0.531	INTRON Snoo
3R	21296904	3R_21296904_SNP [dm3] 3R_25471182_SNP [dm6]	T	C	4.094e^-6	0.555	INTRON Fur1	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_twi
2R	9204647	2R_9204647_SNP [dm3] 2R_13317142_SNP [dm6]	C	T	4.140e^-6	0.555	INTERGENIC
2L	7900933	2L_7900933_DEL [dm3] 2L_7900933_DEL [dm6]	GTATG	G	5.161e^-6	0.582	INTRON Snoo
2L	8451881	2L_8451881_DEL [dm3] 2L_8451881_DEL [dm6]	ATGCTGGAGTGGGAGGAACT...	A	5.462e^-6	0.582	SPLICE_SITE_ACCEPTOR fu12 SPLICE_SITE_REGION fu12 UTR_5_PRIME fu12 UPSTREAM fu12 INTRON fu12
3R	5407984	3R_5407984_SNP [dm3] 3R_9582262_SNP [dm6]	T	C	5.556e^-6	0.582	DOWNSTREAM CG33654 INTRON CG8301
2L	10871446	2L_10871446_SNP [dm3] 2L_10871446_SNP [dm6]	G	T	5.585e^-6	0.582	UPSTREAM CR45454 DOWNSTREAM CG12517 & 1 other INTERGENIC
3R	17735429	3R_17735429_SNP [dm3] 3R_21909707_SNP [dm6]	A	G	6.073e^-6	0.6	INTERGENIC
3R	17735418	3R_17735418_SNP [dm3] 3R_21909696_SNP [dm6]	T	C	6.773e^-6	0.63	INTERGENIC
3L	16582366	3L_16582366_SNP [dm3] 3L_16589266_SNP [dm6]	G	A	7.385e^-6	0.63	SYNONYMOUS_CODING l_3_73Ah DOWNSTREAM tra	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_twi mE1_TFBS_cad mE1_TFBS_sens
3L	21646506	3L_21646506_SNP [dm3] 3L_21653406_SNP [dm6]	C	T	7.589e^-6	0.63	INTRON CG43980	TF binding site mE1_TFBS_bab1 mE1_TFBS_zfh1
3L	8872899	3L_8872899_SNP [dm3] 3L_8879799_SNP [dm6]	A	T	8.215e^-6	0.63	INTRON dally
X	6207709	X_6207709_SNP [dm3] X_6313676_SNP [dm6]	A	C	8.576e^-6	0.63	INTRON CG15894	TF binding site mE1_TFBS_HSA mE1_TFBS_sbb
3R	12148435	3R_12148435_SNP [dm3] 3R_16322713_SNP [dm6]	G	C	1.023e^-5	0.63	UPSTREAM CG6901 DOWNSTREAM tRNA:V4:89BC & 1 other INTRON Sulf1
X	2308238	X_2308238_SNP [dm3] X_2414205_SNP [dm6]	G	A	1.048e^-5	0.63	INTERGENIC	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_Med mE1_TFBS_HSA
3R	27207706	3R_27207706_SNP [dm3] 3R_31381984_SNP [dm6]	G	A	1.056e^-5	0.63	UPSTREAM CG1607 INTERGENIC
3R	24293837	3R_24293837_SNP [dm3] 3R_28468115_SNP [dm6]	G	A	1.128e^-5	0.63	INTRON beat-VI
3R	20708151	3R_20708151_INS [dm3] 3R_24882429_INS [dm6]	T	TTATATTAT	1.172e^-5	0.63	DOWNSTREAM CG11089 INTRON CG31121	TF binding site mE1_TFBS_cad mE1_TFBS_chinmo
3R	17735414	3R_17735414_SNP [dm3] 3R_21909692_SNP [dm6]	A	G	1.183e^-5	0.63	INTERGENIC
2L	18807583	2L_18807583_SNP [dm3] 2L_18807583_SNP [dm6]	G	A	1.183e^-5	0.63	INTERGENIC	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_prd BDTNP1_TFBS_twi mE1_TFBS_HSA
X	11130834	X_11130834_SNP [dm3] X_11236801_SNP [dm6]	G	A	1.187e^-5	0.63	SYNONYMOUS_CODING CG44422
3R	6666930	3R_6666930_SNP [dm3] 3R_10841208_SNP [dm6]	T	C	1.211e^-5	0.63	INTRON Cad86C
3R	9319169	3R_9319169_SNP [dm3] 3R_13493447_SNP [dm6]	T	C	1.215e^-5	0.63	INTERGENIC
2L	13682402	2L_13682402_SNP [dm3] 2L_13682402_SNP [dm6]	T	C	1.218e^-5	0.63	INTRON CG31814
2R	16595342	2R_16595342_SNP [dm3] 2R_20707837_SNP [dm6]	C	A	1.231e^-5	0.63	INTRON dpr	TF binding site mE1_TFBS_HSA
2L	7900683	2L_7900683_DEL [dm3] 2L_7900683_DEL [dm6]	TT	T	1.246e^-5	0.63	INTRON Snoo
2L	6402589	2L_6402589_SNP [dm3] 2L_6402589_SNP [dm6]	G	A	1.276e^-5	0.63	INTRON CG42368	TF binding site mE1_TFBS_chinmo
3R	9824210	3R_9824210_SNP [dm3] 3R_13998488_SNP [dm6]	G	T	1.336e^-5	0.643	INTRON rdx	TF binding site BDTNP1_TFBS_da mE1_TFBS_HSA
3L	20047281	3L_20047281_SNP [dm3] 3L_20054181_SNP [dm6]	G	C	1.445e^-5	0.67	INTERGENIC
3L	815528	3L_815528_SNP [dm3] 3L_815528_SNP [dm6]	T	C	1.468e^-5	0.67	INTERGENIC	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_twi
3R	5129674	3R_5129674_SNP [dm3] 3R_9303952_SNP [dm6]	G	A	1.500e^-5	0.67	INTRON CG8861
2R	11592595	2R_11592595_SNP [dm3] 2R_15705090_SNP [dm6]	C	G	1.578e^-5	0.671	INTERGENIC
2R	19646843	2R_19646843_SNP [dm3] 2R_23759320_SNP [dm6]	C	A	1.603e^-5	0.671	INTRON CG9850	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_twi mE1_TFBS_bab1 mE1_TFBS_cad mE1_TFBS_HSA
3L	1785570	3L_1785570_SNP [dm3] 3L_1785570_SNP [dm6]	C	T	1.621e^-5	0.671	SYNONYMOUS_CODING alpha-Spec	TF binding site BDTNP1_TFBS_sna mE1_TFBS_cad mE1_TFBS_chinmo mE1_TFBS_HSA mE1_TFBS_sens
3R	22859884	3R_22859884_SNP [dm3] 3R_27034162_SNP [dm6]	T	G	1.703e^-5	0.671	INTRON RYa-R	TF binding site BDTNP1_TFBS_da mE1_TFBS_HSA
2L	7901213	2L_7901213_SNP [dm3] 2L_7901213_SNP [dm6]	T	C	1.853e^-5	0.671	INTRON Snoo
2L	7900660	2L_7900660_SNP [dm3] 2L_7900660_SNP [dm6]	T	A	1.867e^-5	0.671	INTRON Snoo
X	11519287	X_11519287_SNP [dm3] X_11625254_SNP [dm6]	C	T	1.876e^-5	0.671	INTRON Ptp10D	TF binding site BDTNP1_TFBS_gt
2R	8721270	2R_8721270_SNP [dm3] 2R_12833765_SNP [dm6]	T	G	1.922e^-5	0.671	INTERGENIC
3L	11403076	3L_11403076_DEL [dm3] 3L_11409976_DEL [dm6]	TT	T	1.965e^-5	0.671	INTERGENIC
2L	7900200	2L_7900200_SNP [dm3] 2L_7900200_SNP [dm6]	T	C	1.998e^-5	0.671	INTRON Snoo
3R	13637933	3R_13637933_SNP [dm3] 3R_17812211_SNP [dm6]	A	T	2.002e^-5	0.671	INTRON tinc	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_Med mE1_TFBS_D mE1_TFBS_HSA
3L	18314716	3L_18314716_SNP [dm3] 3L_18321616_SNP [dm6]	A	T	2.008e^-5	0.671	INTERGENIC
2L	18820036	2L_18820036_SNP [dm3] 2L_18820036_SNP [dm6]	G	A	2.069e^-5	0.671	INTRON CG17324
3R	17735410	3R_17735410_SNP [dm3] 3R_21909688_SNP [dm6]	G	T	2.076e^-5	0.671	INTERGENIC
X	17663702	X_17663702_SNP [dm3] X_17769669_SNP [dm6]	A	G	2.092e^-5	0.671	INTRON unc-4	TF binding site BDTNP1_TFBS_dl
2L	5212005	2L_5212005_SNP [dm3] 2L_5212005_SNP [dm6]	G	C	2.135e^-5	0.671	SYNONYMOUS_CODING Cyp28d1 DOWNSTREAM CG7742
2L	7900233	2L_7900233_SNP [dm3] 2L_7900233_SNP [dm6]	C	T	2.149e^-5	0.671	INTRON Snoo
2L	1184527	2L_1184527_SNP [dm3] 2L_1184527_SNP [dm6]	A	T	2.159e^-5	0.671	SYNONYMOUS_CODING Tgt UPSTREAM CG5126	TF binding site BDTNP1_TFBS_dl mE1_TFBS_cad mE1_TFBS_chinmo mE1_TFBS_HSA mE1_TFBS_sens
X	17663692	X_17663692_SNP [dm3] X_17769659_SNP [dm6]	A	T	2.195e^-5	0.671	INTRON unc-4	TF binding site BDTNP1_TFBS_dl
2L	7899252	2L_7899252_SNP [dm3] 2L_7899252_SNP [dm6]	T	A	2.231e^-5	0.671	INTRON Snoo	TF binding site mE1_TFBS_cad mE1_TFBS_chinmo mE1_TFBS_HSA
3L	8872928	3L_8872928_SNP [dm3] 3L_8879828_SNP [dm6]	C	A	2.254e^-5	0.671	INTRON dally
3L	19326589	3L_19326589_SNP [dm3] 3L_19333489_SNP [dm6]	C	T	2.304e^-5	0.672	INTRON pip
2L	7898762	2L_7898762_SNP [dm3] 2L_7898762_SNP [dm6]	G	C	2.351e^-5	0.672	INTRON Snoo	TF binding site mE1_TFBS_cad
3L	21906726	3L_21906726_SNP [dm3] 3L_21913626_SNP [dm6]	A	G	2.363e^-5	0.672	INTRON mub	TF binding site mE1_TFBS_inv
3L	11403049	3L_11403049_SNP [dm3] 3L_11409949_SNP [dm6]	A	T	2.434e^-5	0.674	INTERGENIC
3L	13468985	3L_13468985_SNP [dm3] 3L_13475885_SNP [dm6]	A	C	2.529e^-5	0.674	INTERGENIC
2R	11592583	2R_11592583_SNP [dm3] 2R_15705078_SNP [dm6]	C	T	2.551e^-5	0.674	INTERGENIC
2R	11592591	2R_11592591_SNP [dm3] 2R_15705086_SNP [dm6]	G	A	2.551e^-5	0.674	INTERGENIC
2L	15596922	2L_15596922_SNP [dm3] 2L_15596922_SNP [dm6]	C	A	2.553e^-5	0.674	INTERGENIC
2L	5118122	2L_5118122_SNP [dm3] 2L_5118122_SNP [dm6]	G	A	2.756e^-5	0.697	INTRON Msp300
X	8579641	X_8579641_DEL [dm3] X_8685608_DEL [dm6]	CGC	C	2.784e^-5	0.697	UPSTREAM CG11284 INTRON CG11284
3L	815385	3L_815385_SNP [dm3] 3L_815385_SNP [dm6]	G	C	2.866e^-5	0.697	DOWNSTREAM CR44537 INTERGENIC	TF binding site BDTNP1_TFBS_twi
3R	22918243	3R_22918243_SNP [dm3] 3R_27092521_SNP [dm6]	C	T	2.900e^-5	0.697	UPSTREAM CG14258 INTERGENIC
3L	21906766	3L_21906766_SNP [dm3] 3L_21913666_SNP [dm6]	A	T	2.911e^-5	0.697	INTRON mub	TF binding site mE1_TFBS_inv
2R	13766313	2R_13766313_SNP [dm3] 2R_17878808_SNP [dm6]	T	C	3.011e^-5	0.697	SYNONYMOUS_CODING CG30325 INTRON Elk
3L	19300290	3L_19300290_SNP [dm3] 3L_19307190_SNP [dm6]	T	C	3.026e^-5	0.697	DOWNSTREAM pip INTRON pip
2L	7899256	2L_7899256_SNP [dm3] 2L_7899256_SNP [dm6]	G	C	3.026e^-5	0.697	INTRON Snoo	TF binding site mE1_TFBS_cad mE1_TFBS_chinmo mE1_TFBS_HSA
2R	20176569	2R_20176569_SNP [dm3] 2R_24289046_SNP [dm6]	C	A	3.047e^-5	0.697	SYNONYMOUS_CODING nvy	TF binding site mE1_TFBS_cad mE1_TFBS_chinmo
3R	6651949	3R_6651949_SNP [dm3] 3R_10826227_SNP [dm6]	T	A	3.050e^-5	0.697	UPSTREAM Cad86C INTERGENIC	TF binding site BDTNP1_TFBS_dl mE1_TFBS_HSA
3L	19347926	3L_19347926_INS [dm3] 3L_19354826_INS [dm6]	C	TTCA	3.082e^-5	0.697	INTRON CG32206
2R	13653229	2R_13653229_SNP [dm3] 2R_17765724_SNP [dm6]	G	A	3.128e^-5	0.697	SYNONYMOUS_CODING OstDelta DOWNSTREAM mir-3643	TF binding site mE1_TFBS_cad mE1_TFBS_sens
3L	19397334	3L_19397334_SNP [dm3] 3L_19404234_SNP [dm6]	A	G	3.129e^-5	0.697	INTRON CG32206
3R	16545134	3R_16545134_SNP [dm3] 3R_20719412_SNP [dm6]	G	T	3.189e^-5	0.697	INTERGENIC
3R	13637910	3R_13637910_SNP [dm3] 3R_17812188_SNP [dm6]	T	C	3.324e^-5	0.697	INTRON tinc	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_Med mE1_TFBS_D mE1_TFBS_HSA
3L	16195788	3L_16195788_SNP [dm3] 3L_16202688_SNP [dm6]	T	G	3.438e^-5	0.697	DOWNSTREAM CG33690 INTERGENIC
3L	1278167	3L_1278167_SNP [dm3] 3L_1278167_SNP [dm6]	A	C	3.488e^-5	0.697	INTRON CG32333
3R	21299897	3R_21299897_SNP [dm3] 3R_25474175_SNP [dm6]	G	A	3.496e^-5	0.697	NON_SYNONYMOUS_CODING Vps33B
X	9665792	X_9665792_SNP [dm3] X_9771759_SNP [dm6]	T	C	3.504e^-5	0.697	INTERGENIC	TF binding site BDTNP1_TFBS_twi
3L	4119298	3L_4119298_SNP [dm3] 3L_4119298_SNP [dm6]	C	A	3.685e^-5	0.697	INTRON Chd64
3R	6286568	3R_6286568_SNP [dm3] 3R_10460846_SNP [dm6]	T	C	3.691e^-5	0.697	UPSTREAM CR44939 INTERGENIC	TF binding site BDTNP1_TFBS_twi mE1_TFBS_cad
3L	20042308	3L_20042308_SNP [dm3] 3L_20049208_SNP [dm6]	G	T	3.732e^-5	0.697	INTERGENIC
X	8966396	X_8966396_SNP [dm3] X_9072363_SNP [dm6]	G	A	3.797e^-5	0.697	UTR_3_PRIME CG44325 UPSTREAM CG10970 DOWNSTREAM CG44325 INTRON CG44325
2L	7900636	2L_7900636_SNP [dm3] 2L_7900636_SNP [dm6]	G	T	3.921e^-5	0.697	INTRON Snoo
3R	24488401	3R_24488401_INS [dm3] 3R_28662679_INS [dm6]	T	TT	4.026e^-5	0.697	INTERGENIC
3L	19300024	3L_19300024_SNP [dm3] 3L_19306924_SNP [dm6]	C	T	4.047e^-5	0.697	INTRON pip	TF binding site mE1_TFBS_sens
2L	5111974	2L_5111974_SNP [dm3] 2L_5111974_SNP [dm6]	C	T	4.067e^-5	0.697	INTRON Msp300
3L	1255986	3L_1255986_SNP [dm3] 3L_1255986_SNP [dm6]	T	A	4.081e^-5	0.697	UTR_3_PRIME CG9130 & 1 other UPSTREAM CG9134
3L	19300291	3L_19300291_SNP [dm3] 3L_19307191_SNP [dm6]	A	T	4.171e^-5	0.697	DOWNSTREAM pip INTRON pip

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By genomic position
Variant impact
Gene name

sd_MortalityInd phenotype

Phenotype distribution and association to known covariates

QQplot

Manhattan plot

GWAS results