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=3.154e^-1)
Null hypothesis is not rejected (p>0.05).
Interpretation: 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	0.03901

Kruskal-Wallis test

Covariate	χ²	p-value	Significance
wolba	5.315	0.0211

PNG PDF

QQplot

PNG PDF

Manhattan plot

GWAS results

1890 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
3L	2380727	3L_2380727_SNP [dm3] 3L_2380727_SNP [dm6]	G	A	3.402e^-7	0.383	INTRON CG45186
X	20453090	X_20453090_INS [dm3] X_20582063_INS [dm6]	G	GCGGTGGCTTGGTG...	4.082e^-7	0.383	INTERGENIC
X	13428568	X_13428568_SNP [dm3] X_13534535_SNP [dm6]	G	A	6.945e^-7	0.434	SYNONYMOUS_CODING CG15756
3R	4370437	3R_4370437_SNP [dm3] 3R_8544715_SNP [dm6]	T	C	1.002e^-6	0.47	UPSTREAM CR45575 INTERGENIC
2L	7192878	2L_7192878_SNP [dm3] 2L_7192878_SNP [dm6]	T	C	1.527e^-6	0.572	SYNONYMOUS_CODING CG4497	TF binding site mE1_TFBS_chinmo mE1_TFBS_HSA mE1_TFBS_sens
3R	4370439	3R_4370439_SNP [dm3] 3R_8544717_SNP [dm6]	T	G	3.037e^-6	0.76	UPSTREAM CR45575 INTERGENIC
X	13428577	X_13428577_SNP [dm3] X_13534544_SNP [dm6]	A	C	3.440e^-6	0.76	SYNONYMOUS_CODING CG15756
X	13428654	X_13428654_SNP [dm3] X_13534621_SNP [dm6]	T	G	3.817e^-6	0.76	NON_SYNONYMOUS_CODING CG15756
X	3193907	X_3193907_SNP [dm3] X_3299874_SNP [dm6]	C	A	3.995e^-6	0.76	INTRON dnc
X	20452179	X_20452179_DEL [dm3] X_20581152_DEL [dm6]	TTTCGGC	T	4.054e^-6	0.76	INTERGENIC
2L	16540052	2L_16540052_SNP [dm3] 2L_16540052_SNP [dm6]	T	C	6.148e^-6	0.916	INTERGENIC
2L	15407473	2L_15407473_SNP [dm3] 2L_15407473_SNP [dm6]	T	G	6.214e^-6	0.916	INTERGENIC
2R	19128037	2R_19128037_INS [dm3] 2R_23240514_INS [dm6]	A	AA	6.429e^-6	0.916	INTERGENIC
3R	15771872	3R_15771872_SNP [dm3] 3R_19946150_SNP [dm6]	T	G	6.839e^-6	0.916	INTRON Hs6st
3R	4635583	3R_4635583_SNP [dm3] 3R_8809861_SNP [dm6]	C	T	8.353e^-6	0.946	UPSTREAM CG9837 INTRON CG9837	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_sna BDTNP1_TFBS_twi mE1_TFBS_inv mE1_TFBS_sens
2L	7008495	2L_7008495_SNP [dm3] 2L_7008495_SNP [dm6]	G	A	9.117e^-6	0.946	START_GAINED uif UTR_5_PRIME uif INTRON uif	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_hb
X	13428628	X_13428628_SNP [dm3] X_13534595_SNP [dm6]	C	T	1.039e^-5	0.946	SYNONYMOUS_CODING CG15756
2L	7192827	2L_7192827_SNP [dm3] 2L_7192827_SNP [dm6]	A	G	1.059e^-5	0.946	SYNONYMOUS_CODING CG4497	TF binding site mE1_TFBS_chinmo mE1_TFBS_HSA mE1_TFBS_sens
2L	5890114	2L_5890114_SNP [dm3] 2L_5890114_SNP [dm6]	C	T	1.090e^-5	0.946	INTERGENIC	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_Med BDTNP1_TFBS_prd BDTNP1_TFBS_twi mE1_TFBS_HSA
2L	3046748	2L_3046748_SNP [dm3] 2L_3046748_SNP [dm6]	G	C	1.249e^-5	0.946	INTRON v_2_k05816 EXON CR43708	TF binding site mE1_TFBS_cad mE1_TFBS_chinmo
2L	16539816	2L_16539816_SNP [dm3] 2L_16539816_SNP [dm6]	G	T	1.265e^-5	0.946	INTERGENIC
2L	15540906	2L_15540906_SNP [dm3] 2L_15540906_SNP [dm6]	A	G	1.633e^-5	0.946	INTERGENIC
3L	6372267	3L_6372267_SNP [dm3] 3L_6379167_SNP [dm6]	A	G	1.886e^-5	0.946	INTERGENIC
3L	2604195	3L_2604195_SNP [dm3] 3L_2604195_SNP [dm6]	G	A	2.014e^-5	0.946	SYNONYMOUS_CODING Pxn	TF binding site mE1_TFBS_cad mE1_TFBS_chinmo
3L	11585031	3L_11585031_SNP [dm3] 3L_11591931_SNP [dm6]	C	A	2.068e^-5	0.946	UPSTREAM CG33268 DOWNSTREAM CR45672 & 1 other INTERGENIC	TF binding site BDTNP1_TFBS_dl mE1_TFBS_HSA mE1_TFBS_Trl
X	3145247	X_3145247_SNP [dm3] X_3251214_SNP [dm6]	T	C	2.074e^-5	0.946	DOWNSTREAM Sgs4 INTRON dnc
3L	10363732	3L_10363732_SNP [dm3] 3L_10370632_SNP [dm6]	T	C	2.166e^-5	0.946	INTERGENIC
3R	17006277	3R_17006277_SNP [dm3] 3R_21180555_SNP [dm6]	A	C	2.227e^-5	0.946	UPSTREAM SNF4Agamma INTRON SNF4Agamma	TF binding site BDTNP1_TFBS_dl mE1_TFBS_HSA
3R	4383673	3R_4383673_SNP [dm3] 3R_8557951_SNP [dm6]	C	A	2.233e^-5	0.946	INTERGENIC
2L	3119493	2L_3119493_SNP [dm3] 2L_3119493_SNP [dm6]	A	C	2.282e^-5	0.946	INTRON toc
3R	16991883	3R_16991883_SNP [dm3] 3R_21166161_SNP [dm6]	T	C	2.298e^-5	0.946	SYNONYMOUS_CODING Snmp1 DOWNSTREAM CG5810 INTRON SNF4Agamma
3L	7411004	3L_7411004_SNP [dm3] 3L_7417904_SNP [dm6]	C	T	2.332e^-5	0.946	INTERGENIC
X	20453085	X_20453085_SNP [dm3] X_20582058_SNP [dm6]	G	T	2.342e^-5	0.946	INTERGENIC
3R	15131309	3R_15131309_SNP [dm3] 3R_19305587_SNP [dm6]	T	C	2.353e^-5	0.946	SYNONYMOUS_CODING Dl	TF binding site BDTNP1_TFBS_sna mE1_TFBS_HSA mE1_TFBS_sens
X	20145500	X_20145500_SNP [dm3] X_20274474_SNP [dm6]	C	T	2.370e^-5	0.946	INTERGENIC	TF binding site BDTNP1_TFBS_twi
X	20452192	X_20452192_SNP [dm3] X_20581165_SNP [dm6]	T	A	2.440e^-5	0.946	INTERGENIC
3R	17006271	3R_17006271_SNP [dm3] 3R_21180549_SNP [dm6]	A	T	2.456e^-5	0.946	UPSTREAM SNF4Agamma INTRON SNF4Agamma	TF binding site BDTNP1_TFBS_dl mE1_TFBS_bab1 mE1_TFBS_HSA
X	13428625	X_13428625_SNP [dm3] X_13534592_SNP [dm6]	T	C	2.533e^-5	0.946	SYNONYMOUS_CODING CG15756
2L	987293	2L_987293_SNP [dm3] 2L_987293_SNP [dm6]	C	T	2.583e^-5	0.946	DOWNSTREAM CR44801 INTERGENIC
X	20452327	X_20452327_SNP [dm3] X_20581300_SNP [dm6]	T	A	2.670e^-5	0.946	INTERGENIC
2L	3957779	2L_3957779_SNP [dm3] 2L_3957779_SNP [dm6]	G	T	2.744e^-5	0.946	INTRON fred
2L	16005502	2L_16005502_SNP [dm3] 2L_16005502_SNP [dm6]	T	A	2.799e^-5	0.946	UPSTREAM CR44844 DOWNSTREAM CG31820 & 2 others INTRON beat-Ic
X	4243293	X_4243293_SNP [dm3] X_4349260_SNP [dm6]	A	G	2.939e^-5	0.946	UTR_5_PRIME norpA
2R	16294644	2R_16294644_SNP [dm3] 2R_20407139_SNP [dm6]	T	G	2.991e^-5	0.946	INTERGENIC
X	20453149	X_20453149_SNP [dm3] X_20582122_SNP [dm6]	A	G	3.006e^-5	0.946	INTERGENIC
X	12404511	X_12404511_SNP [dm3] X_12510478_SNP [dm6]	T	C	3.043e^-5	0.946	INTRON CG2556
3R	3200401	3R_3200401_SNP [dm3] 3R_7374679_SNP [dm6]	C	T	3.090e^-5	0.946	INTERGENIC
3L	2993333	3L_2993333_SNP [dm3] 3L_2993333_SNP [dm6]	C	G	3.120e^-5	0.946	INTERGENIC
2R	16998517	2R_16998517_SNP [dm3] 2R_21111012_SNP [dm6]	A	G	3.197e^-5	0.946	INTRON ktub
3R	5733186	3R_5733186_SNP [dm3] 3R_9907464_SNP [dm6]	T	G	3.212e^-5	0.946	INTRON Glut4EF
3R	24878215	3R_24878215_SNP [dm3] 3R_29052493_SNP [dm6]	C	A	3.262e^-5	0.946	UPSTREAM CG11842 DOWNSTREAM CG11841 INTERGENIC
2R	19241664	2R_19241664_SNP [dm3] 2R_23354141_SNP [dm6]	T	C	3.300e^-5	0.946	UPSTREAM CG30409 INTERGENIC	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_twi mE1_TFBS_HSA
2L	6936174	2L_6936174_SNP [dm3] 2L_6936174_SNP [dm6]	C	T	3.322e^-5	0.946	SYNONYMOUS_CODING CG18304	TF binding site mE1_TFBS_cad mE1_TFBS_chinmo mE1_TFBS_HSA
3L	2566049	3L_2566049_SNP [dm3] 3L_2566049_SNP [dm6]	C	T	3.338e^-5	0.946	INTRON msn	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_twi mE1_TFBS_HSA
3L	2381258	3L_2381258_SNP [dm3] 3L_2381258_SNP [dm6]	A	G	3.437e^-5	0.946	INTRON CG45186
2L	14358786	2L_14358786_SNP [dm3] 2L_14358786_SNP [dm6]	C	A	3.473e^-5	0.946	UPSTREAM Pgant35A DOWNSTREAM CR43463 & 1 other INTERGENIC	TF binding site BDTNP1_TFBS_dl mE1_TFBS_Ubx
2R	9203490	2R_9203490_SNP [dm3] 2R_13315985_SNP [dm6]	A	C	3.737e^-5	0.946	INTERGENIC
X	3783645	X_3783645_SNP [dm3] X_3889612_SNP [dm6]	A	G	3.786e^-5	0.946	INTRON CG15239	TF binding site mE1_TFBS_cad mE1_TFBS_chinmo
2L	4378510	2L_4378510_SNP [dm3] 2L_4378510_SNP [dm6]	T	C	3.862e^-5	0.946	INTRON Traf4	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_prd BDTNP1_TFBS_slp1 BDTNP1_TFBS_sna BDTNP1_TFBS_twi mE1_TFBS_cad mE1_TFBS_disco mE1_TFBS_HSA mE1_TFBS_sens mE1_TFBS_Trl
3L	3934635	3L_3934635_SNP [dm3] 3L_3934635_SNP [dm6]	C	T	3.964e^-5	0.946	UPSTREAM Eip63F-1 & 1 other INTRON Eip63F-1
3R	17006280	3R_17006280_SNP [dm3] 3R_21180558_SNP [dm6]	A	T	4.030e^-5	0.946	UPSTREAM SNF4Agamma INTRON SNF4Agamma	TF binding site BDTNP1_TFBS_dl mE1_TFBS_HSA
2R	9057775	2R_9057775_SNP [dm3] 2R_13170270_SNP [dm6]	T	C	4.045e^-5	0.946	INTRON CR45142 & 1 other
X	12263539	X_12263539_SNP [dm3] X_12369506_SNP [dm6]	G	T	4.172e^-5	0.946	INTERGENIC
2L	7011372	2L_7011372_SNP [dm3] 2L_7011372_SNP [dm6]	G	A	4.212e^-5	0.946	UPSTREAM CG43321 INTERGENIC	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_gt BDTNP1_TFBS_hb BDTNP1_TFBS_Med BDTNP1_TFBS_sna BDTNP1_TFBS_twi mE1_TFBS_cad
2L	6230391	2L_6230391_SNP [dm3] 2L_6230391_SNP [dm6]	G	C	4.221e^-5	0.946	INTERGENIC	TF binding site BDTNP1_TFBS_gt BDTNP1_TFBS_hb BDTNP1_TFBS_Med BDTNP1_TFBS_sna BDTNP1_TFBS_twi mE1_TFBS_HSA
2L	15409309	2L_15409309_SNP [dm3] 2L_15409309_SNP [dm6]	A	T	4.261e^-5	0.946	INTERGENIC
2L	9413708	2L_9413708_SNP [dm3] 2L_9413708_SNP [dm6]	C	A	4.309e^-5	0.946	INTRON Shawl
2R	12861676	2R_12861676_SNP [dm3] 2R_16974171_SNP [dm6]	A	G	4.317e^-5	0.946	INTRON Cbp53E
X	8553578	X_8553578_SNP [dm3] X_8659545_SNP [dm6]	G	A	4.389e^-5	0.946	INTERGENIC	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_hb BDTNP1_TFBS_slp1 mE1_TFBS_HSA
3R	15368598	3R_15368598_SNP [dm3] 3R_19542876_SNP [dm6]	G	A	4.448e^-5	0.946	INTRON Dys
2L	4718623	2L_4718623_SNP [dm3] 2L_4718623_SNP [dm6]	A	G	4.485e^-5	0.946	INTRON CG34351
2L	14358791	2L_14358791_SNP [dm3] 2L_14358791_SNP [dm6]	A	T	4.488e^-5	0.946	UPSTREAM Pgant35A DOWNSTREAM CR43463 & 1 other INTERGENIC	TF binding site BDTNP1_TFBS_dl mE1_TFBS_Ubx
3R	18325276	3R_18325276_SNP [dm3] 3R_22499554_SNP [dm6]	T	C	4.532e^-5	0.946	INTRON Octbeta1R
3L	19400368	3L_19400368_SNP [dm3] 3L_19407268_SNP [dm6]	C	G	4.540e^-5	0.946	INTRON CG32206
X	16523825	X_16523825_SNP [dm3] X_16629792_SNP [dm6]	A	G	4.553e^-5	0.946	SYNONYMOUS_CODING Rok DOWNSTREAM CG9777	TF binding site mE1_TFBS_cad mE1_TFBS_chinmo
X	20396960	X_20396960_INS [dm3] X_20525933_INS [dm6]	AA	GTTGTT	4.590e^-5	0.946	INTERGENIC	transposable element FlyBase
X	3145264	X_3145264_SNP [dm3] X_3251231_SNP [dm6]	G	A	4.617e^-5	0.946	DOWNSTREAM Sgs4 INTRON dnc
2L	4748605	2L_4748605_SNP [dm3] 2L_4748605_SNP [dm6]	T	A	4.620e^-5	0.946	INTRON CG15630
3L	12435933	3L_12435933_SNP [dm3] 3L_12442833_SNP [dm6]	G	A	4.655e^-5	0.946	INTERGENIC	TF binding site mE1_TFBS_chinmo mE1_TFBS_HSA
3L	11585027	3L_11585027_SNP [dm3] 3L_11591927_SNP [dm6]	G	T	4.713e^-5	0.946	UPSTREAM CG33268 DOWNSTREAM CR45672 & 1 other INTERGENIC	TF binding site BDTNP1_TFBS_dl mE1_TFBS_HSA mE1_TFBS_Trl
2L	5479381	2L_5479381_SNP [dm3] 2L_5479381_SNP [dm6]	A	G	4.728e^-5	0.946	INTERGENIC	TF binding site mE1_TFBS_cad
3L	5650511	3L_5650511_SNP [dm3] 3L_5657411_SNP [dm6]	G	A	4.731e^-5	0.946	UPSTREAM sif DOWNSTREAM lin-28 INTERGENIC	TF binding site BDTNP1_TFBS_dl mE1_TFBS_HSA mE1_TFBS_Trl
3L	11585035	3L_11585035_SNP [dm3] 3L_11591935_SNP [dm6]	A	G	4.744e^-5	0.946	UPSTREAM CG33268 DOWNSTREAM CR45672 & 1 other INTERGENIC	TF binding site BDTNP1_TFBS_dl mE1_TFBS_HSA mE1_TFBS_Trl
2L	15409321	2L_15409321_SNP [dm3] 2L_15409321_SNP [dm6]	T	A	4.753e^-5	0.946	INTERGENIC
2R	10326051	2R_10326051_SNP [dm3] 2R_14438546_SNP [dm6]	C	G	4.776e^-5	0.946	INTRON Oaz	TF binding site mE1_TFBS_cad mE1_TFBS_HSA
3L	951541	3L_951541_SNP [dm3] 3L_951541_SNP [dm6]	C	A	4.812e^-5	0.946	INTRON Glut1
2L	16540004	2L_16540004_SNP [dm3] 2L_16540004_SNP [dm6]	A	G	4.847e^-5	0.946	INTERGENIC
2L	3903139	2L_3903139_SNP [dm3] 2L_3903139_SNP [dm6]	T	C	4.916e^-5	0.946	UTR_3_PRIME fred UPSTREAM capu
2R	15696311	2R_15696311_SNP [dm3] 2R_19808806_SNP [dm6]	T	A	4.946e^-5	0.946	INTERGENIC	TF binding site BDTNP1_TFBS_dl
2R	15696327	2R_15696327_SNP [dm3] 2R_19808822_SNP [dm6]	T	A	4.946e^-5	0.946	INTERGENIC	TF binding site BDTNP1_TFBS_dl
3R	13202531	3R_13202531_SNP [dm3] 3R_17376809_SNP [dm6]	C	T	4.970e^-5	0.946	INTRON Brf
2L	987166	2L_987166_SNP [dm3] 2L_987166_SNP [dm6]	T	A	5.014e^-5	0.946	DOWNSTREAM CR44801 INTERGENIC
2L	987170	2L_987170_SNP [dm3] 2L_987170_SNP [dm6]	G	A	5.014e^-5	0.946	DOWNSTREAM CR44801 INTERGENIC
3L	2380728	3L_2380728_SNP [dm3] 3L_2380728_SNP [dm6]	G	A	5.074e^-5	0.946	INTRON CG45186
2R	9207102	2R_9207102_SNP [dm3] 2R_13319597_SNP [dm6]	A	T	5.141e^-5	0.946	INTERGENIC
3R	13202519	3R_13202519_SNP [dm3] 3R_17376797_SNP [dm6]	G	A	5.257e^-5	0.946	INTRON Brf
2L	3997216	2L_3997216_SNP [dm3] 2L_3997216_SNP [dm6]	A	T	5.261e^-5	0.946	INTERGENIC
2R	15696305	2R_15696305_SNP [dm3] 2R_19808800_SNP [dm6]	A	G	5.271e^-5	0.946	INTERGENIC	TF binding site BDTNP1_TFBS_dl
X	13428595	X_13428595_SNP [dm3] X_13534562_SNP [dm6]	G	A	5.352e^-5	0.946	SYNONYMOUS_CODING CG15756
3L	2993331	3L_2993331_SNP [dm3] 3L_2993331_SNP [dm6]	C	A	5.388e^-5	0.946	INTERGENIC

Showing 1 to 100 of 1,000 entries

Previous1 2 3 4 5…10Next

By genomic position
Variant impact
Gene name

mn_Protein_LowDiet phenotype

Phenotype distribution and association to known covariates

QQplot

Manhattan plot

GWAS results