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=4.433e^-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
No significant result.

Kruskal-Wallis test
No significant result.

PNG PDF

QQplot

PNG PDF

Manhattan plot

GWAS results

1927 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	4692539	3L_4692539_SNP [dm3] 3L_4692539_SNP [dm6]	T	C	1.152e^-6	0.921	UPSTREAM RhoGEF64C INTERGENIC	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl mE1_TFBS_HSA mE1_TFBS_inv mE1_TFBS_Trl
3L	4692512	3L_4692512_SNP [dm3] 3L_4692512_SNP [dm6]	T	C	1.522e^-6	0.921	UPSTREAM RhoGEF64C INTERGENIC	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl mE1_TFBS_HSA mE1_TFBS_inv mE1_TFBS_Trl
3L	18117607	3L_18117607_SNP [dm3] 3L_18124507_SNP [dm6]	G	A	1.674e^-6	0.921	INTERGENIC
3L	4692547	3L_4692547_INS [dm3] 3L_4692547_INS [dm6]	G	GC	3.513e^-6	0.921	UPSTREAM RhoGEF64C INTERGENIC	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl mE1_TFBS_HSA mE1_TFBS_inv mE1_TFBS_Trl
3R	13418710	3R_13418710_SNP [dm3] 3R_17592988_SNP [dm6]	C	T	3.638e^-6	0.921	INTERGENIC
3L	1139881	3L_1139881_SNP [dm3] 3L_1139881_SNP [dm6]	G	C	4.041e^-6	0.921	DOWNSTREAM bab2 INTERGENIC	TF binding site mE1_TFBS_HSA
3R	10652408	3R_10652408_SNP [dm3] 3R_14826686_SNP [dm6]	C	T	4.386e^-6	0.921	SYNONYMOUS_CODING btsz	TF binding site mE1_TFBS_cad mE1_TFBS_chinmo mE1_TFBS_HSA
3L	1139878	3L_1139878_SNP [dm3] 3L_1139878_SNP [dm6]	T	G	5.261e^-6	0.921	DOWNSTREAM bab2 INTERGENIC	TF binding site mE1_TFBS_HSA
3R	11217493	3R_11217493_SNP [dm3] 3R_15391771_SNP [dm6]	C	T	5.281e^-6	0.921	INTRON Rbp	TF binding site mE1_TFBS_cad
X	16220389	X_16220389_SNP [dm3] X_16326356_SNP [dm6]	A	G	5.924e^-6	0.921	SYNONYMOUS_CODING CalpC DOWNSTREAM CG32579	TF binding site mE1_TFBS_cad mE1_TFBS_chinmo mE1_TFBS_HSA mE1_TFBS_inv mE1_TFBS_sens
3R	17086505	3R_17086505_SNP [dm3] 3R_21260783_SNP [dm6]	C	T	6.097e^-6	0.921	INTRON ETHR
2L	316928	2L_316928_SNP [dm3] 2L_316928_SNP [dm6]	G	T	7.753e^-6	0.921	INTRON Plc21C
3R	17683579	3R_17683579_SNP [dm3] 3R_21857857_SNP [dm6]	A	G	8.753e^-6	0.921	INTERGENIC	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_hb BDTNP1_TFBS_Med BDTNP1_TFBS_prd BDTNP1_TFBS_twi mE1_TFBS_cad mE1_TFBS_cnc mE1_TFBS_HSA
3L	20995071	3L_20995071_DEL [dm3] 3L_21001971_DEL [dm6]	GACTTGGGG	G	8.938e^-6	0.921	INTRON skd	TF binding site mE1_TFBS_cad
X	5877626	X_5877626_SNP [dm3] X_5983593_SNP [dm6]	C	T	9.572e^-6	0.921	INTRON Grip
3L	2866986	3L_2866986_SNP [dm3] 3L_2866986_SNP [dm6]	C	T	1.000e^-5	0.921	INTRON CG43444	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_twi mE1_TFBS_cad mE1_TFBS_HSA mE1_TFBS_sens
2R	7043637	2R_7043637_SNP [dm3] 2R_11156132_SNP [dm6]	C	T	1.001e^-5	0.921	DOWNSTREAM CG13230 INTRON CG13229	TF binding site mE1_TFBS_inv transposable element FlyBase
2R	17209052	2R_17209052_SNP [dm3] 2R_21321547_SNP [dm6]	A	G	1.015e^-5	0.921	SYNONYMOUS_CODING CG30394
3L	3834874	3L_3834874_SNP [dm3] 3L_3834874_SNP [dm6]	A	T	1.059e^-5	0.921	INTRON enc
2R	14092184	2R_14092184_SNP [dm3] 2R_18204679_SNP [dm6]	A	C	1.117e^-5	0.921	INTERGENIC
2R	15588170	2R_15588170_SNP [dm3] 2R_19700665_SNP [dm6]	G	T	1.169e^-5	0.921	SYNONYMOUS_CODING Obp56c	regulatory region REDfly_CRMs TF binding site mE1_TFBS_cad
3L	23993445	3L_23993445_SNP [dm3] 3L_24000345_SNP [dm6]	T	C	1.171e^-5	0.921	INTERGENIC
3L	6678422	3L_6678422_SNP [dm3] 3L_6685322_SNP [dm6]	G	A	1.195e^-5	0.921	INTERGENIC
3R	23522340	3R_23522340_SNP [dm3] 3R_27696618_SNP [dm6]	C	T	1.275e^-5	0.921	UTR_3_PRIME ALiX DOWNSTREAM CG43320
3L	3834899	3L_3834899_SNP [dm3] 3L_3834899_SNP [dm6]	C	A	1.276e^-5	0.921	INTRON enc
2L	13768026	2L_13768026_SNP [dm3] 2L_13768026_SNP [dm6]	G	T	1.300e^-5	0.921	INTRON TM9SF4
2L	7127119	2L_7127119_SNP [dm3] 2L_7127119_SNP [dm6]	G	T	1.327e^-5	0.921	INTRON Pvf3
3R	17785992	3R_17785992_SNP [dm3] 3R_21960270_SNP [dm6]	A	T	1.392e^-5	0.926	INTRON Eip93F
2R	15903063	2R_15903063_SNP [dm3] 2R_20015558_SNP [dm6]	A	C	1.442e^-5	0.926	DOWNSTREAM CR44629 & 1 other INTERGENIC
3L	8196704	3L_8196704_DEL [dm3] 3L_8203604_DEL [dm6]	GTCATCGGGACGACG...	G	1.526e^-5	0.926	DOWNSTREAM CG13679 INTERGENIC
2R	7043680	2R_7043680_SNP [dm3] 2R_11156175_SNP [dm6]	T	C	1.531e^-5	0.926	DOWNSTREAM CG13230 INTRON CG13229	TF binding site mE1_TFBS_inv transposable element FlyBase
2R	9551925	2R_9551925_SNP [dm3] 2R_13664420_SNP [dm6]	T	G	1.734e^-5	0.931	UPSTREAM CG6209 & 1 other INTRON fas	TF binding site mE1_TFBS_cad mE1_TFBS_HSA
3R	12980352	3R_12980352_SNP [dm3] 3R_17154630_SNP [dm6]	G	A	1.781e^-5	0.931	NON_SYNONYMOUS_CODING Mur89F DOWNSTREAM CG5292	TF binding site mE1_TFBS_cad mE1_TFBS_sens
2R	15889492	2R_15889492_SNP [dm3] 2R_20001987_SNP [dm6]	A	T	1.819e^-5	0.931	INTERGENIC
2R	15064063	2R_15064063_SNP [dm3] 2R_19176558_SNP [dm6]	A	T	1.962e^-5	0.931	INTRON CG10737
2L	9028967	2L_9028967_SNP [dm3] 2L_9028967_SNP [dm6]	A	G	1.979e^-5	0.931	INTRON CG9582 & 1 other
3R	13180985	3R_13180985_DEL [dm3] 3R_17355263_DEL [dm6]	TTGT	T	2.164e^-5	0.931	INTRON beat-IIa	TF binding site mE1_TFBS_inv
X	16220521	X_16220521_SNP [dm3] X_16326488_SNP [dm6]	C	T	2.211e^-5	0.931	SYNONYMOUS_CODING CalpC DOWNSTREAM CG32579	TF binding site mE1_TFBS_cad mE1_TFBS_chinmo mE1_TFBS_HSA mE1_TFBS_sens
2L	803903	2L_803903_SNP [dm3] 2L_803903_SNP [dm6]	G	A	2.295e^-5	0.931	INTERGENIC	TF binding site mE1_TFBS_chinmo
2L	13768040	2L_13768040_SNP [dm3] 2L_13768040_SNP [dm6]	T	A	2.363e^-5	0.931	INTRON TM9SF4
2R	17526011	2R_17526011_SNP [dm3] 2R_21638506_SNP [dm6]	A	G	2.391e^-5	0.931	DOWNSTREAM CG10321 INTERGENIC
3L	19257198	3L_19257198_DEL [dm3] 3L_19264098_DEL [dm6]	TAA	T	2.405e^-5	0.931	UTR_5_PRIME Max UPSTREAM CG9666 & 1 other INTRON CG9666 & 1 other	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_Med mE1_TFBS_cad mE1_TFBS_HSA
3L	8752031	3L_8752031_DEL [dm3] 3L_8758931_DEL [dm6]	AA	A	2.460e^-5	0.931	INTRON Fhos
X	3904226	X_3904226_SNP [dm3] X_4010193_SNP [dm6]	T	G	2.505e^-5	0.931	INTERGENIC
2R	15268200	2R_15268200_SNP [dm3] 2R_19380695_SNP [dm6]	C	A	2.527e^-5	0.931	UPSTREAM CG10073 DOWNSTREAM CG10062 INTRON CG10073
3R	13415548	3R_13415548_SNP [dm3] 3R_17589826_SNP [dm6]	G	A	2.545e^-5	0.931	INTERGENIC
3R	19532893	3R_19532893_SNP [dm3] 3R_23707171_SNP [dm6]	A	G	2.834e^-5	0.931	UPSTREAM CR44052 INTRON CG31414
2L	13768024	2L_13768024_SNP [dm3] 2L_13768024_SNP [dm6]	C	G	2.850e^-5	0.931	INTRON TM9SF4
3R	13187998	3R_13187998_SNP [dm3] 3R_17362276_SNP [dm6]	A	C	2.859e^-5	0.931	INTRON beat-IIa
X	10186300	X_10186300_SNP [dm3] X_10292267_SNP [dm6]	G	T	2.864e^-5	0.931	INTRON alpha-Man-I	TF binding site mE1_TFBS_inv
2L	316991	2L_316991_SNP [dm3] 2L_316991_SNP [dm6]	T	A	2.874e^-5	0.931	INTRON Plc21C
2R	17208956	2R_17208956_SNP [dm3] 2R_21321451_SNP [dm6]	C	T	2.875e^-5	0.931	SYNONYMOUS_CODING CG30394
3R	11210531	3R_11210531_SNP [dm3] 3R_15384809_SNP [dm6]	G	C	2.884e^-5	0.931	INTRON Rbp
2R	15064051	2R_15064051_SNP [dm3] 2R_19176546_SNP [dm6]	T	G	2.996e^-5	0.931	INTRON CG10737
3R	20848802	3R_20848802_SNP [dm3] 3R_25023080_SNP [dm6]	T	A	3.003e^-5	0.931	UPSTREAM beta4GalT7 DOWNSTREAM tnc INTERGENIC
2R	9965586	2R_9965586_SNP [dm3] 2R_14078081_SNP [dm6]	T	C	3.014e^-5	0.931	INTRON Prosap
3L	18115777	3L_18115777_SNP [dm3] 3L_18122677_SNP [dm6]	A	T	3.031e^-5	0.931	UPSTREAM CG42853 INTERGENIC
3L	16738356	3L_16738356_SNP [dm3] 3L_16745256_SNP [dm6]	G	A	3.033e^-5	0.931	INTERGENIC	TF binding site BDTNP1_TFBS_da mE1_TFBS_cad mE1_TFBS_HSA
3L	5284038	3L_5284038_INS [dm3] 3L_5290938_INS [dm6]	A	AGCCAGAAAAGAAGATTTTC...	3.108e^-5	0.931	INTERGENIC
X	5064259	X_5064259_SNP [dm3] X_5170226_SNP [dm6]	T	A	3.220e^-5	0.931	INTRON rg & 1 other
2R	16313474	2R_16313474_SNP [dm3] 2R_20425969_SNP [dm6]	G	T	3.232e^-5	0.931	INTRON CG12484
2R	18336298	2R_18336298_SNP [dm3] 2R_22448793_SNP [dm6]	G	A	3.372e^-5	0.931	INTERGENIC
2R	18598788	2R_18598788_SNP [dm3] 2R_22711283_SNP [dm6]	G	C	3.513e^-5	0.931	SYNONYMOUS_CODING CG30275 UTR_3_PRIME CG30275
3L	1921363	3L_1921363_SNP [dm3] 3L_1921363_SNP [dm6]	T	G	3.583e^-5	0.931	UTR_5_PRIME Dbx	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_sna BDTNP1_TFBS_twi mE1_TFBS_chinmo mE1_TFBS_HSA mE1_TFBS_Trl
3L	18116153	3L_18116153_SNP [dm3] 3L_18123053_SNP [dm6]	G	A	3.646e^-5	0.931	INTERGENIC
3R	1611375	3R_1611375_SNP [dm3] 3R_5785653_SNP [dm6]	T	C	3.735e^-5	0.931	SYNONYMOUS_CODING kat-60L1	TF binding site mE1_TFBS_chinmo
3L	3834872	3L_3834872_SNP [dm3] 3L_3834872_SNP [dm6]	T	G	3.844e^-5	0.931	INTRON enc
3R	10576324	3R_10576324_SNP [dm3] 3R_14750602_SNP [dm6]	C	T	3.880e^-5	0.931	INTRON jvl & 1 other	TF binding site BDTNP1_TFBS_z
2L	16714297	2L_16714297_SNP [dm3] 2L_16714297_SNP [dm6]	T	A	3.924e^-5	0.931	INTRON CG31808
3R	18470693	3R_18470693_SNP [dm3] 3R_22644971_SNP [dm6]	G	A	4.019e^-5	0.931	INTRON CG45058
3R	10576766	3R_10576766_SNP [dm3] 3R_14751044_SNP [dm6]	C	T	4.054e^-5	0.931	DOWNSTREAM CG7362 INTRON jvl & 1 other
3L	10925882	3L_10925882_SNP [dm3] 3L_10932782_SNP [dm6]	C	T	4.054e^-5	0.931	INTERGENIC
3R	11465272	3R_11465272_SNP [dm3] 3R_15639550_SNP [dm6]	C	T	4.056e^-5	0.931	INTERGENIC	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_Med BDTNP1_TFBS_twi
2L	13413829	2L_13413829_SNP [dm3] 2L_13413829_SNP [dm6]	A	G	4.080e^-5	0.931	UTR_3_PRIME CG16956 DOWNSTREAM CG16848
2R	16563536	2R_16563536_SNP [dm3] 2R_20676031_SNP [dm6]	G	A	4.084e^-5	0.931	INTERGENIC
3L	21216701	3L_21216701_SNP [dm3] 3L_21223601_SNP [dm6]	C	A	4.212e^-5	0.931	DOWNSTREAM CG43219 INTERGENIC
X	5673877	X_5673877_SNP [dm3] X_5779844_SNP [dm6]	G	A	4.380e^-5	0.931	NON_SYNONYMOUS_CODING CG3108 INTRON CG42699
2R	18717698	2R_18717698_SNP [dm3] 2R_22830175_SNP [dm6]	C	T	4.406e^-5	0.931	SYNONYMOUS_CODING CG30272
3L	1139879	3L_1139879_SNP [dm3] 3L_1139879_SNP [dm6]	C	G	4.497e^-5	0.931	DOWNSTREAM bab2 INTERGENIC	TF binding site mE1_TFBS_HSA
2R	12464260	2R_12464260_SNP [dm3] 2R_16576755_SNP [dm6]	A	T	4.525e^-5	0.931	UPSTREAM CG8317 INTERGENIC
3L	1139200	3L_1139200_SNP [dm3] 3L_1139200_SNP [dm6]	C	T	4.565e^-5	0.931	INTERGENIC	TF binding site mE1_TFBS_chinmo mE1_TFBS_HSA mE1_TFBS_inv
3L	3927541	3L_3927541_SNP [dm3] 3L_3927541_SNP [dm6]	T	A	4.569e^-5	0.931	INTRON Eip63F-1
3L	18116289	3L_18116289_SNP [dm3] 3L_18123189_SNP [dm6]	A	T	4.683e^-5	0.931	INTERGENIC
X	15818762	X_15818762_SNP [dm3] X_15924729_SNP [dm6]	A	G	4.771e^-5	0.931	UPSTREAM Lcch3 DOWNSTREAM CG8916 INTERGENIC
2R	14645198	2R_14645198_SNP [dm3] 2R_18757693_SNP [dm6]	T	C	4.835e^-5	0.931	SYNONYMOUS_CODING Jabba UTR_3_PRIME Jabba DOWNSTREAM Cyp12b2 & 1 other INTRON Jabba
2R	14645244	2R_14645244_SNP [dm3] 2R_18757739_SNP [dm6]	G	A	4.835e^-5	0.931	NON_SYNONYMOUS_CODING Jabba UTR_3_PRIME Jabba DOWNSTREAM Cyp12b2 & 1 other INTRON Jabba
2L	5994222	2L_5994222_SNP [dm3] 2L_5994222_SNP [dm6]	G	T	4.852e^-5	0.931	SYNONYMOUS_CODING lid	TF binding site mE1_TFBS_cad mE1_TFBS_HSA mE1_TFBS_sens
X	5877627	X_5877627_SNP [dm3] X_5983594_SNP [dm6]	G	A	4.865e^-5	0.931	INTRON Grip
3L	4692562	3L_4692562_SNP [dm3] 3L_4692562_SNP [dm6]	T	G	4.948e^-5	0.931	UPSTREAM RhoGEF64C INTERGENIC	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl mE1_TFBS_HSA mE1_TFBS_Trl
2L	13413672	2L_13413672_SNP [dm3] 2L_13413672_SNP [dm6]	T	G	5.043e^-5	0.931	UTR_3_PRIME CG16848 DOWNSTREAM CG16956
3R	10517603	3R_10517603_SNP [dm3] 3R_14691881_SNP [dm6]	C	T	5.257e^-5	0.931	INTRON Meltrin	TF binding site BDTNP1_TFBS_dl
3R	10576767	3R_10576767_SNP [dm3] 3R_14751045_SNP [dm6]	C	T	5.321e^-5	0.931	DOWNSTREAM CG7362 INTRON jvl & 1 other
2L	13992088	2L_13992088_SNP [dm3] 2L_13992088_SNP [dm6]	G	A	5.347e^-5	0.931	INTRON rk
3R	27227237	3R_27227237_SNP [dm3] 3R_31401515_SNP [dm6]	T	G	5.437e^-5	0.931	UTR_3_PRIME Gcn2 DOWNSTREAM CG11337
3R	13415765	3R_13415765_SNP [dm3] 3R_17590043_SNP [dm6]	T	C	5.449e^-5	0.931	INTERGENIC
2L	13915865	2L_13915865_SNP [dm3] 2L_13915865_SNP [dm6]	A	G	5.674e^-5	0.931	NON_SYNONYMOUS_CODING Ance-3	TF binding site BDTNP1_TFBS_twi
3R	18664977	3R_18664977_SNP [dm3] 3R_22839255_SNP [dm6]	T	C	5.676e^-5	0.931	INTERGENIC
3R	7096706	3R_7096706_SNP [dm3] 3R_11270984_SNP [dm6]	G	A	5.693e^-5	0.931	EXON CR31386
3R	7096741	3R_7096741_SNP [dm3] 3R_11271019_SNP [dm6]	C	G	5.693e^-5	0.931	EXON CR31386
3R	10530682	3R_10530682_SNP [dm3] 3R_14704960_SNP [dm6]	G	A	5.695e^-5	0.931	INTRON kibra

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By genomic position
Variant impact
Gene name

mn_Weight_HighDiet phenotype

Phenotype distribution and association to known covariates

QQplot

Manhattan plot

GWAS results