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=5.361e^-9)
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

1878 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	15116732	2R_15116732_SNP [dm3] 2R_19229227_SNP [dm6]	G	A	1.263e^-7	0.152	DOWNSTREAM CG7137 INTRON cora	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_z mE1_TFBS_D mE1_TFBS_HSA mE1_TFBS_sens mE1_TFBS_Trl
2R	15116706	2R_15116706_SNP [dm3] 2R_19229201_SNP [dm6]	G	A	1.621e^-7	0.152	DOWNSTREAM CG7137 INTRON cora	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_Med mE1_TFBS_D mE1_TFBS_HSA mE1_TFBS_Trl
2L	11772626	2L_11772626_SNP [dm3] 2L_11772626_SNP [dm6]	G	C	4.702e^-7	0.294	INTERGENIC
2L	17681134	2L_17681134_DEL [dm3] 2L_17681134_DEL [dm6]	TA	G	1.032e^-6	0.464	INTRON CadN
X	15273585	X_15273585_SNP [dm3] X_15379552_SNP [dm6]	G	T	1.237e^-6	0.464	UPSTREAM acj6 DOWNSTREAM CG9164 INTERGENIC	TF binding site BDTNP1_TFBS_dl mE1_TFBS_chinmo mE1_TFBS_HSA
3L	12878436	3L_12878436_SNP [dm3] 3L_12885336_SNP [dm6]	A	T	2.228e^-6	0.584	SYNONYMOUS_CODING CG14120	TF binding site mE1_TFBS_HSA mE1_TFBS_inv
2R	6792245	2R_6792245_SNP [dm3] 2R_10904740_SNP [dm6]	C	T	2.610e^-6	0.584	SYNONYMOUS_CODING CG12943 UTR_3_PRIME CG12943
X	15273574	X_15273574_SNP [dm3] X_15379541_SNP [dm6]	A	G	2.704e^-6	0.584	UPSTREAM acj6 DOWNSTREAM CG9164 INTERGENIC	TF binding site BDTNP1_TFBS_dl mE1_TFBS_chinmo mE1_TFBS_HSA
2R	8078685	2R_8078685_SNP [dm3] 2R_12191180_SNP [dm6]	G	A	3.445e^-6	0.584	NON_SYNONYMOUS_CODING Cyp6t3 UPSTREAM Cyp6g2
2R	14880380	2R_14880380_SNP [dm3] 2R_18992875_SNP [dm6]	A	G	3.743e^-6	0.584	INTRON tn
2R	6792151	2R_6792151_SNP [dm3] 2R_10904646_SNP [dm6]	A	C	3.945e^-6	0.584	INTRON CG12943
2L	17443442	2L_17443442_SNP [dm3] 2L_17443442_SNP [dm6]	C	A	4.245e^-6	0.584	INTRON dl
X	3791539	X_3791539_SNP [dm3] X_3897506_SNP [dm6]	G	T	4.328e^-6	0.584	INTRON CG42541
3R	9031928	3R_9031928_SNP [dm3] 3R_13206206_SNP [dm6]	C	T	4.362e^-6	0.584	INTERGENIC
3R	9031423	3R_9031423_SNP [dm3] 3R_13205701_SNP [dm6]	G	T	5.308e^-6	0.584	INTERGENIC
2R	8091687	2R_8091687_SNP [dm3] 2R_12204182_SNP [dm6]	A	G	5.965e^-6	0.584	INTERGENIC
2L	1548815	2L_1548815_SNP [dm3] 2L_1548815_SNP [dm6]	C	T	6.232e^-6	0.584	INTERGENIC
2R	10072916	2R_10072916_SNP [dm3] 2R_14185411_SNP [dm6]	C	G	6.349e^-6	0.584	UTR_5_PRIME CG30069	TF binding site BDTNP1_TFBS_dl mE1_TFBS_HSA
3R	8988335	3R_8988335_SNP [dm3] 3R_13162613_SNP [dm6]	C	G	6.631e^-6	0.584	NON_SYNONYMOUS_CODING timeout
3R	23260140	3R_23260140_SNP [dm3] 3R_27434418_SNP [dm6]	A	T	6.915e^-6	0.584	INTRON side	TF binding site BDTNP1_TFBS_twi
2R	8089676	2R_8089676_SNP [dm3] 2R_12202171_SNP [dm6]	A	T	7.315e^-6	0.584	INTERGENIC	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl mE1_TFBS_HSA
2R	10073791	2R_10073791_SNP [dm3] 2R_14186286_SNP [dm6]	G	T	7.524e^-6	0.584	SYNONYMOUS_CODING CG30069	TF binding site mE1_TFBS_HSA mE1_TFBS_sens mE1_TFBS_Trl
2R	17623680	2R_17623680_SNP [dm3] 2R_21736175_SNP [dm6]	C	G	7.679e^-6	0.584	INTERGENIC
2L	18869715	2L_18869715_SNP [dm3] 2L_18869715_SNP [dm6]	A	T	7.700e^-6	0.584	INTRON tup	TF binding site BDTNP1_TFBS_dl mE1_TFBS_HSA
2L	19278285	2L_19278285_SNP [dm3] 2L_19278285_SNP [dm6]	A	G	8.277e^-6	0.584	INTERGENIC
2R	18036861	2R_18036861_SNP [dm3] 2R_22149356_SNP [dm6]	G	A	8.394e^-6	0.584	INTRON a
2R	8078974	2R_8078974_SNP [dm3] 2R_12191469_SNP [dm6]	G	C	9.315e^-6	0.584	NON_SYNONYMOUS_CODING Cyp6t3 DOWNSTREAM CG8858
2R	10083055	2R_10083055_SNP [dm3] 2R_14195550_SNP [dm6]	G	T	9.702e^-6	0.584	SYNONYMOUS_CODING CG30069	TF binding site BDTNP1_TFBS_twi
2L	11770824	2L_11770824_SNP [dm3] 2L_11770824_SNP [dm6]	T	C	9.943e^-6	0.584	INTERGENIC
2L	13960752	2L_13960752_SNP [dm3] 2L_13960752_SNP [dm6]	A	G	9.976e^-6	0.584	INTRON NimA
2L	15039331	2L_15039331_SNP [dm3] 2L_15039331_SNP [dm6]	A	G	1.022e^-5	0.584	UPSTREAM Su_H_ & 1 other INTERGENIC	regulatory region REDfly_CRMs TF binding site BDTNP1_TFBS_bcd BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_hb BDTNP1_TFBS_Med BDTNP1_TFBS_slp1 BDTNP1_TFBS_twi BDTNP1_TFBS_z mE1_TFBS_bab1 mE1_TFBS_cad mE1_TFBS_cnc mE1_TFBS_D mE1_TFBS_h mE1_TFBS_HSA mE1_TFBS_run mE1_TFBS_Trl mE1_TFBS_Ubx
X	15273591	X_15273591_SNP [dm3] X_15379558_SNP [dm6]	G	A	1.024e^-5	0.584	UPSTREAM acj6 DOWNSTREAM CG9164 INTERGENIC	TF binding site BDTNP1_TFBS_dl mE1_TFBS_chinmo mE1_TFBS_HSA
2L	19204125	2L_19204125_SNP [dm3] 2L_19204125_SNP [dm6]	A	G	1.028e^-5	0.584	INTRON drl	regulatory region REDfly_CRMs TF binding site mE1_TFBS_cad mE1_TFBS_Kr
3L	6989385	3L_6989385_SNP [dm3] 3L_6996285_SNP [dm6]	T	A	1.115e^-5	0.607	INTERGENIC	TF binding site mE1_TFBS_inv mE1_TFBS_zfh1
2L	20762272	2L_20762272_DEL [dm3] 2L_20762272_DEL [dm6]	CC	C	1.191e^-5	0.607	DOWNSTREAM dia INTRON dia	TF binding site BDTNP1_TFBS_dl mE1_TFBS_HSA
3R	8988291	3R_8988291_INS [dm3] 3R_13162569_INS [dm6]	G	TGGA	1.192e^-5	0.607
3R	18990840	3R_18990840_SNP [dm3] 3R_23165118_SNP [dm6]	A	G	1.208e^-5	0.607	INTERGENIC
2R	8098232	2R_8098232_SNP [dm3] 2R_12210727_SNP [dm6]	G	A	1.229e^-5	0.607	SYNONYMOUS_CODING Sr-CII	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_twi mE1_TFBS_HSA
X	15273469	X_15273469_SNP [dm3] X_15379436_SNP [dm6]	G	A	1.285e^-5	0.618	UPSTREAM acj6 DOWNSTREAM CG9164 INTERGENIC	TF binding site BDTNP1_TFBS_dl mE1_TFBS_chinmo mE1_TFBS_HSA
2R	13132036	2R_13132036_SNP [dm3] 2R_17244531_SNP [dm6]	T	A	1.408e^-5	0.639	INTRON mbl	TF binding site mE1_TFBS_HSA mE1_TFBS_inv
2R	8078684	2R_8078684_SNP [dm3] 2R_12191179_SNP [dm6]	A	G	1.427e^-5	0.639	NON_SYNONYMOUS_CODING Cyp6t3 UPSTREAM Cyp6g2
2L	13960721	2L_13960721_SNP [dm3] 2L_13960721_SNP [dm6]	A	C	1.461e^-5	0.639	INTRON NimA
3L	18111122	3L_18111122_SNP [dm3] 3L_18118022_SNP [dm6]	C	A	1.465e^-5	0.639	UTR_3_PRIME CG32195 INTRON CG7341
2L	19207259	2L_19207259_SNP [dm3] 2L_19207259_SNP [dm6]	C	T	1.521e^-5	0.648	SYNONYMOUS_CODING drl
2R	14880371	2R_14880371_SNP [dm3] 2R_18992866_SNP [dm6]	A	G	1.575e^-5	0.656	INTRON tn
2L	11967868	2L_11967868_SNP [dm3] 2L_11967868_SNP [dm6]	T	C	1.681e^-5	0.667	INTRON CR43314	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_prd mE1_TFBS_cad
X	11844826	X_11844826_SNP [dm3] X_11950793_SNP [dm6]	G	C	1.713e^-5	0.667	INTRON cac
2R	19268153	2R_19268153_SNP [dm3] 2R_23380630_SNP [dm6]	G	A	1.731e^-5	0.667	UPSTREAM yellow-d2 DOWNSTREAM yellow-d INTRON CG13551
2R	8101879	2R_8101879_SNP [dm3] 2R_12214374_SNP [dm6]	G	A	1.772e^-5	0.667	UTR_3_PRIME CG13171
2L	8828579	2L_8828579_SNP [dm3] 2L_8828579_SNP [dm6]	C	A	1.786e^-5	0.667	NON_SYNONYMOUS_CODING SoxN UTR_3_PRIME SoxN	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_sna mE1_TFBS_cad mE1_TFBS_chinmo
3R	9031918	3R_9031918_SNP [dm3] 3R_13206196_SNP [dm6]	C	A	1.833e^-5	0.667	INTERGENIC
2R	11594127	2R_11594127_SNP [dm3] 2R_15706622_SNP [dm6]	C	T	1.876e^-5	0.667	INTERGENIC
3L	5636654	3L_5636654_SNP [dm3] 3L_5643554_SNP [dm6]	A	T	1.884e^-5	0.667	UPSTREAM Blimp-1 INTRON Blimp-1
2L	19207364	2L_19207364_SNP [dm3] 2L_19207364_SNP [dm6]	T	C	1.948e^-5	0.676	SYNONYMOUS_CODING drl
3R	9147234	3R_9147234_SNP [dm3] 3R_13321512_SNP [dm6]	A	G	2.018e^-5	0.678	INTERGENIC
2L	19207490	2L_19207490_SNP [dm3] 2L_19207490_SNP [dm6]	C	T	2.088e^-5	0.678	SYNONYMOUS_CODING drl
3L	10586812	3L_10586812_SNP [dm3] 3L_10593712_SNP [dm6]	C	T	2.097e^-5	0.678	UTR_3_PRIME A2bp1 DOWNSTREAM A2bp1
2L	15641504	2L_15641504_SNP [dm3] 2L_15641504_SNP [dm6]	T	A	2.098e^-5	0.678	INTERGENIC
2L	6280767	2L_6280767_SNP [dm3] 2L_6280767_SNP [dm6]	A	T	2.271e^-5	0.716	INTRON Ddr
2R	15920651	2R_15920651_SNP [dm3] 2R_20033146_SNP [dm6]	T	C	2.314e^-5	0.716	INTERGENIC	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_prd BDTNP1_TFBS_twi mE1_TFBS_cad mE1_TFBS_HSA
2R	9369700	2R_9369700_SNP [dm3] 2R_13482195_SNP [dm6]	C	G	2.328e^-5	0.716	INTRON arr	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_twi
3L	12770439	3L_12770439_SNP [dm3] 3L_12777339_SNP [dm6]	A	G	2.406e^-5	0.728	SYNONYMOUS_CODING CG32106	TF binding site mE1_TFBS_HSA mE1_TFBS_sens
3R	8988821	3R_8988821_SNP [dm3] 3R_13163099_SNP [dm6]	G	A	2.460e^-5	0.732	SYNONYMOUS_CODING timeout
3R	9114055	3R_9114055_SNP [dm3] 3R_13288333_SNP [dm6]	A	T	2.524e^-5	0.74	INTRON CG15887	TF binding site mE1_TFBS_inv
2R	8091181	2R_8091181_SNP [dm3] 2R_12203676_SNP [dm6]	A	C	2.586e^-5	0.744	INTERGENIC
2R	17138747	2R_17138747_SNP [dm3] 2R_21251242_SNP [dm6]	A	T	2.658e^-5	0.744	UPSTREAM ASPP INTERGENIC	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_gt BDTNP1_TFBS_hb BDTNP1_TFBS_Med BDTNP1_TFBS_prd BDTNP1_TFBS_sna BDTNP1_TFBS_twi mE1_TFBS_bab1 mE1_TFBS_cad mE1_TFBS_D mE1_TFBS_disco mE1_TFBS_HSA mE1_TFBS_Stat92E mE1_TFBS_Trl
3L	14367854	3L_14367854_SNP [dm3] 3L_14374754_SNP [dm6]	T	C	2.702e^-5	0.744	INTERGENIC
2L	17438872	2L_17438872_SNP [dm3] 2L_17438872_SNP [dm6]	G	T	2.729e^-5	0.744	UTR_3_PRIME dl INTRON dl
2L	12689629	2L_12689629_SNP [dm3] 2L_12689629_SNP [dm6]	A	G	2.847e^-5	0.744	DOWNSTREAM CG5525 INTERGENIC	TF binding site mE1_TFBS_inv
2L	13568509	2L_13568509_SNP [dm3] 2L_13568509_SNP [dm6]	G	A	2.855e^-5	0.744	INTRON kuz
3R	9043065	3R_9043065_SNP [dm3] 3R_13217343_SNP [dm6]	A	G	2.892e^-5	0.744	INTERGENIC
2L	15038960	2L_15038960_SNP [dm3] 2L_15038960_SNP [dm6]	T	A	2.919e^-5	0.744	UPSTREAM Su_H_ & 1 other INTERGENIC	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_slp1 BDTNP1_TFBS_twi BDTNP1_TFBS_z mE1_TFBS_bab1 mE1_TFBS_cad mE1_TFBS_cnc mE1_TFBS_D mE1_TFBS_h mE1_TFBS_HSA mE1_TFBS_run mE1_TFBS_Ubx
2L	11770846	2L_11770846_SNP [dm3] 2L_11770846_SNP [dm6]	G	A	2.928e^-5	0.744	INTERGENIC
2R	8101905	2R_8101905_SNP [dm3] 2R_12214400_SNP [dm6]	T	G	2.971e^-5	0.744	DOWNSTREAM CG13171 INTERGENIC
2R	8100594	2R_8100594_SNP [dm3] 2R_12213089_SNP [dm6]	G	A	2.974e^-5	0.744	UPSTREAM Sr-CII & 1 other INTERGENIC	TF binding site BDTNP1_TFBS_da
2L	13713591	2L_13713591_SNP [dm3] 2L_13713591_SNP [dm6]	G	T	3.072e^-5	0.758	INTRON CG31814
2L	17438958	2L_17438958_SNP [dm3] 2L_17438958_SNP [dm6]	G	C	3.172e^-5	0.764	UTR_3_PRIME dl INTRON dl
2L	10285857	2L_10285857_SNP [dm3] 2L_10285857_SNP [dm6]	A	T	3.194e^-5	0.764	SYNONYMOUS_CODING CG5604	TF binding site mE1_TFBS_cad mE1_TFBS_sens
3R	8986186	3R_8986186_SNP [dm3] 3R_13160464_SNP [dm6]	T	A	3.255e^-5	0.764	INTRON timeout
2L	9750542	2L_9750542_SNP [dm3] 2L_9750542_SNP [dm6]	C	G	3.325e^-5	0.764	UPSTREAM Cyp4e3 INTERGENIC
2L	1548748	2L_1548748_SNP [dm3] 2L_1548748_SNP [dm6]	G	A	3.327e^-5	0.764	INTERGENIC
2L	15046905	2L_15046905_SNP [dm3] 2L_15046905_SNP [dm6]	A	G	3.362e^-5	0.764	SYNONYMOUS_CODING ck	TF binding site mE1_TFBS_cad
3R	25060267	3R_25060267_SNP [dm3] 3R_29234545_SNP [dm6]	C	T	3.379e^-5	0.764	UTR_3_PRIME CG15817 DOWNSTREAM CG11951
2L	9672035	2L_9672035_SNP [dm3] 2L_9672035_SNP [dm6]	T	G	3.492e^-5	0.771	UPSTREAM CR44150 INTERGENIC
2L	17681130	2L_17681130_SNP [dm3] 2L_17681130_SNP [dm6]	T	A	3.562e^-5	0.771	INTRON CadN
2L	16994753	2L_16994753_SNP [dm3] 2L_16994753_SNP [dm6]	G	C	3.621e^-5	0.771	DOWNSTREAM beat-IIIb INTERGENIC
2L	17834211	2L_17834211_SNP [dm3] 2L_17834211_SNP [dm6]	A	T	3.648e^-5	0.771	INTRON CadN2	TF binding site mE1_TFBS_HSA
3R	9078765	3R_9078765_SNP [dm3] 3R_13253043_SNP [dm6]	C	T	3.675e^-5	0.771	INTRON Ace
3L	9758353	3L_9758353_SNP [dm3] 3L_9765253_SNP [dm6]	C	T	3.704e^-5	0.771	INTRON CG8177
2R	8090560	2R_8090560_SNP [dm3] 2R_12203055_SNP [dm6]	A	T	3.739e^-5	0.771	INTERGENIC
3R	9076306	3R_9076306_SNP [dm3] 3R_13250584_SNP [dm6]	T	A	3.754e^-5	0.771	INTRON Ace
2L	4472569	2L_4472569_SNP [dm3] 2L_4472569_SNP [dm6]	C	T	3.792e^-5	0.771	INTRON ine
2R	7367820	2R_7367820_SNP [dm3] 2R_11480315_SNP [dm6]	T	C	3.825e^-5	0.771	INTRON inv
2R	10083496	2R_10083496_SNP [dm3] 2R_14195991_SNP [dm6]	A	G	3.887e^-5	0.772	SYNONYMOUS_CODING CG30069	TF binding site BDTNP1_TFBS_twi
X	14096033	X_14096033_SNP [dm3] X_14202000_SNP [dm6]	C	A	3.912e^-5	0.772	SYNONYMOUS_CODING l_1_G0007	TF binding site mE1_TFBS_cad mE1_TFBS_chinmo mE1_TFBS_HSA
2L	13873390	2L_13873390_SNP [dm3] 2L_13873390_SNP [dm6]	C	T	4.000e^-5	0.775	INTRON CenG1A
2L	13568373	2L_13568373_SNP [dm3] 2L_13568373_SNP [dm6]	C	T	4.010e^-5	0.775	INTRON kuz
3R	9163496	3R_9163496_SNP [dm3] 3R_13337774_SNP [dm6]	G	C	4.056e^-5	0.776	UPSTREAM PK2-R1 INTERGENIC
2R	8101919	2R_8101919_SNP [dm3] 2R_12214414_SNP [dm6]	T	C	4.095e^-5	0.776	DOWNSTREAM CG13171 INTERGENIC
3L	13332818	3L_13332818_SNP [dm3] 3L_13339718_SNP [dm6]	A	G	4.177e^-5	0.783	INTERGENIC

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By genomic position
Variant impact
Gene name

mn_Surv_Azinpho_2_0 phenotype

Phenotype distribution and association to known covariates

QQplot

Manhattan plot

GWAS results