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=9.916e^-4)
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

2395 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	19030449	3R_19030449_INS [dm3] 3R_23204727_INS [dm6]	G	GTT	3.002e^-7	0.521	UPSTREAM fzo INTRON cnc	TF binding site mE1_TFBS_cnc
3L	16388169	3L_16388169_SNP [dm3] 3L_16395069_SNP [dm6]	T	C	8.303e^-7	0.521	SYNONYMOUS_CODING Grp INTRON CG44836	TF binding site mE1_TFBS_HSA
2R	19972748	2R_19972748_SNP [dm3] 2R_24085225_SNP [dm6]	G	A	1.545e^-6	0.521	SYNONYMOUS_CODING CG16786	TF binding site mE1_TFBS_sens
3L	4871873	3L_4871873_DEL [dm3] 3L_4871873_DEL [dm6]	TC	T	1.596e^-6	0.521	INTRON CG17150	TF binding site mE1_TFBS_HSA
3R	18524225	3R_18524225_SNP [dm3] 3R_22698503_SNP [dm6]	C	T	1.634e^-6	0.521	SYNONYMOUS_CODING Cyp6d4 DOWNSTREAM cd	TF binding site mE1_TFBS_HSA mE1_TFBS_Trl
3L	4871845	3L_4871845_SNP [dm3] 3L_4871845_SNP [dm6]	G	A	1.897e^-6	0.521	INTRON CG17150	TF binding site mE1_TFBS_HSA
2R	19982478	2R_19982478_SNP [dm3] 2R_24094955_SNP [dm6]	C	A	1.944e^-6	0.521	SYNONYMOUS_CODING gek	TF binding site mE1_TFBS_cad mE1_TFBS_HSA mE1_TFBS_sens
3R	19030580	3R_19030580_INS [dm3] 3R_23204858_INS [dm6]	A	AT	2.694e^-6	0.551	UPSTREAM fzo INTRON cnc	TF binding site mE1_TFBS_cnc
3L	4871912	3L_4871912_SNP [dm3] 3L_4871912_SNP [dm6]	A	G	2.912e^-6	0.551	INTRON CG17150	TF binding site mE1_TFBS_HSA
3R	19030560	3R_19030560_SNP [dm3] 3R_23204838_SNP [dm6]	T	G	3.037e^-6	0.551	UPSTREAM fzo INTRON cnc	TF binding site mE1_TFBS_cnc
3L	15171675	3L_15171675_SNP [dm3] 3L_15178575_SNP [dm6]	G	A	3.861e^-6	0.551	INTERGENIC	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_twi mE1_TFBS_HSA mE1_TFBS_sens
3R	21030752	3R_21030752_SNP [dm3] 3R_25205030_SNP [dm6]	A	T	4.245e^-6	0.551	INTRON CG13654 & 1 other
3L	4876217	3L_4876217_SNP [dm3] 3L_4876217_SNP [dm6]	A	T	4.483e^-6	0.551	INTRON CG17150
3R	19030611	3R_19030611_SNP [dm3] 3R_23204889_SNP [dm6]	T	C	4.562e^-6	0.551	UPSTREAM fzo INTRON cnc	TF binding site mE1_TFBS_cnc
2R	18972435	2R_18972435_SNP [dm3] 2R_23084912_SNP [dm6]	T	A	5.064e^-6	0.551	DOWNSTREAM CG9877 INTERGENIC	TF binding site BDTNP1_TFBS_twi mE1_TFBS_cad
2R	19975004	2R_19975004_SNP [dm3] 2R_24087481_SNP [dm6]	G	C	5.362e^-6	0.551	INTRON snama	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_twi
3L	3987713	3L_3987713_SNP [dm3] 3L_3987713_SNP [dm6]	C	T	5.400e^-6	0.551	SYNONYMOUS_CODING scrt	TF binding site BDTNP1_TFBS_twi mE1_TFBS_cad mE1_TFBS_chinmo mE1_TFBS_HSA
3R	19030584	3R_19030584_SNP [dm3] 3R_23204862_SNP [dm6]	C	T	6.062e^-6	0.551	UPSTREAM fzo INTRON cnc	TF binding site mE1_TFBS_cnc
2R	19982493	2R_19982493_SNP [dm3] 2R_24094970_SNP [dm6]	T	C	6.257e^-6	0.551	SYNONYMOUS_CODING gek	TF binding site mE1_TFBS_cad mE1_TFBS_HSA mE1_TFBS_sens
X	6452220	X_6452220_SNP [dm3] X_6558187_SNP [dm6]	T	C	7.511e^-6	0.551	NON_SYNONYMOUS_CODING CG34417 INTRON CG34417
3L	4871887	3L_4871887_SNP [dm3] 3L_4871887_SNP [dm6]	T	C	7.840e^-6	0.551	INTRON CG17150	TF binding site mE1_TFBS_HSA
2L	20437146	2L_20437146_SNP [dm3] 2L_20437146_SNP [dm6]	G	A	8.257e^-6	0.551	DOWNSTREAM CR43607 INTRON CG31688	TF binding site BDTNP1_TFBS_twi mE1_TFBS_HSA
2R	7392805	2R_7392805_SNP [dm3] 2R_11505300_SNP [dm6]	T	A	8.499e^-6	0.551	INTRON inv
2L	13142019	2L_13142019_SNP [dm3] 2L_13142019_SNP [dm6]	C	T	9.131e^-6	0.551	DOWNSTREAM CG9928 INTERGENIC
3R	11515362	3R_11515362_SNP [dm3] 3R_15689640_SNP [dm6]	C	T	9.485e^-6	0.551	UTR_3_PRIME pxb
2R	18670641	2R_18670641_DEL [dm3] 2R_22783136_DEL [dm6]	AAG	A	1.000e^-5	0.551	INTRON CG42260
2L	4956395	2L_4956395_SNP [dm3] 2L_4956395_SNP [dm6]	A	G	1.020e^-5	0.551	INTRON Marcal1	TF binding site mE1_TFBS_HSA mE1_TFBS_sens
3R	10371209	3R_10371209_SNP [dm3] 3R_14545487_SNP [dm6]	T	A	1.067e^-5	0.551	INTRON Pde6
2L	22307250	2L_22307250_SNP [dm3] 2L_22307250_SNP [dm6]	T	G	1.068e^-5	0.551	INTERGENIC
2L	20403587	2L_20403587_SNP [dm3] 2L_20403587_SNP [dm6]	G	T	1.072e^-5	0.551	INTRON CG10947
2L	20343221	2L_20343221_SNP [dm3] 2L_20343221_SNP [dm6]	A	T	1.107e^-5	0.551	INTRON spir
3R	4723832	3R_4723832_DEL [dm3] 3R_8898110_DEL [dm6]	TCTGCAAATCACAAT...	T	1.115e^-5	0.551	INTRON pyd	TF binding site BDTNP1_TFBS_dl
3L	4880296	3L_4880296_SNP [dm3] 3L_4880296_SNP [dm6]	T	C	1.133e^-5	0.551	INTRON CG17150
X	18245824	X_18245824_INS [dm3] X_18351791_INS [dm6]	C	AGA	1.141e^-5	0.551	INTRON CG6123
3L	4871832	3L_4871832_SNP [dm3] 3L_4871832_SNP [dm6]	T	G	1.157e^-5	0.551	INTRON CG17150	TF binding site mE1_TFBS_HSA
3R	19030577	3R_19030577_SNP [dm3] 3R_23204855_SNP [dm6]	A	C	1.167e^-5	0.551	UPSTREAM fzo INTRON cnc	TF binding site mE1_TFBS_cnc
3R	21030790	3R_21030790_SNP [dm3] 3R_25205068_SNP [dm6]	G	A	1.201e^-5	0.551	INTRON CG13654 & 1 other
3L	17032067	3L_17032067_SNP [dm3] 3L_17038967_SNP [dm6]	T	C	1.270e^-5	0.551	INTRON scaf6	TF binding site mE1_TFBS_cad
2L	4956360	2L_4956360_SNP [dm3] 2L_4956360_SNP [dm6]	C	T	1.272e^-5	0.551	INTRON Marcal1	TF binding site mE1_TFBS_HSA mE1_TFBS_sens
3R	11487768	3R_11487768_SNP [dm3] 3R_15662046_SNP [dm6]	T	G	1.279e^-5	0.551	INTERGENIC	TF binding site mE1_TFBS_HSA mE1_TFBS_Kr
3L	11839461	3L_11839461_SNP [dm3] 3L_11846361_SNP [dm6]	C	G	1.303e^-5	0.551	INTERGENIC	TF binding site BDTNP1_TFBS_dl mE1_TFBS_h mE1_TFBS_HSA
3L	10454556	3L_10454556_SNP [dm3] 3L_10461456_SNP [dm6]	T	A	1.307e^-5	0.551	NON_SYNONYMOUS_CODING Gem3
3R	10156929	3R_10156929_SNP [dm3] 3R_14331207_SNP [dm6]	C	T	1.378e^-5	0.551	INTRON NK7.1	TF binding site BDTNP1_TFBS_dl mE1_TFBS_Trl
3R	10156930	3R_10156930_SNP [dm3] 3R_14331208_SNP [dm6]	C	A	1.378e^-5	0.551	INTRON NK7.1	TF binding site BDTNP1_TFBS_dl mE1_TFBS_Trl
2L	4956397	2L_4956397_DEL [dm3] 2L_4956397_DEL [dm6]	CAT	C	1.379e^-5	0.551	INTRON Marcal1	TF binding site mE1_TFBS_HSA mE1_TFBS_sens
3L	1935439	3L_1935439_SNP [dm3] 3L_1935439_SNP [dm6]	G	A	1.422e^-5	0.551	SYNONYMOUS_CODING CG5687	TF binding site mE1_TFBS_sens
3L	4872644	3L_4872644_SNP [dm3] 3L_4872644_SNP [dm6]	C	T	1.452e^-5	0.551	SYNONYMOUS_CODING CG17150	TF binding site mE1_TFBS_cad mE1_TFBS_chinmo mE1_TFBS_HSA
2R	18670862	2R_18670862_SNP [dm3] 2R_22783357_SNP [dm6]	C	A	1.530e^-5	0.551	UPSTREAM CG30270 INTRON CG42260
3L	7769852	3L_7769852_SNP [dm3] 3L_7776752_SNP [dm6]	A	G	1.551e^-5	0.551	DOWNSTREAM CG32369 INTERGENIC	regulatory region REDfly_CRMs
3R	10156944	3R_10156944_SNP [dm3] 3R_14331222_SNP [dm6]	G	C	1.560e^-5	0.551	INTRON NK7.1	TF binding site BDTNP1_TFBS_dl mE1_TFBS_Trl
3R	10156910	3R_10156910_INS [dm3] 3R_14331188_INS [dm6]	T	TGTAT	1.593e^-5	0.551	INTRON NK7.1	TF binding site BDTNP1_TFBS_dl mE1_TFBS_Trl
2R	19984116	2R_19984116_SNP [dm3] 2R_24096593_SNP [dm6]	G	T	1.627e^-5	0.551	SYNONYMOUS_CODING gek	TF binding site mE1_TFBS_cad mE1_TFBS_HSA mE1_TFBS_sens
2R	18972454	2R_18972454_SNP [dm3] 2R_23084931_SNP [dm6]	G	A	1.630e^-5	0.551	DOWNSTREAM CG9877 INTERGENIC	TF binding site BDTNP1_TFBS_twi mE1_TFBS_cad
2R	19974129	2R_19974129_SNP [dm3] 2R_24086606_SNP [dm6]	G	T	1.664e^-5	0.551	UTR_5_PRIME snama DOWNSTREAM CG16786	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_twi mE1_TFBS_D mE1_TFBS_h mE1_TFBS_HSA mE1_TFBS_kn mE1_TFBS_Ubx
2R	19974764	2R_19974764_SNP [dm3] 2R_24087241_SNP [dm6]	T	C	1.664e^-5	0.551	DOWNSTREAM CG16786 INTRON snama	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_twi mE1_TFBS_HSA
3R	13169991	3R_13169991_SNP [dm3] 3R_17344269_SNP [dm6]	G	A	1.709e^-5	0.551	INTRON beat-IIa
X	18245828	X_18245828_SNP [dm3] X_18351795_SNP [dm6]	T	C	1.743e^-5	0.551	INTRON CG6123
3L	4871889	3L_4871889_SNP [dm3] 3L_4871889_SNP [dm6]	T	C	1.749e^-5	0.551	INTRON CG17150	TF binding site mE1_TFBS_HSA
3R	10156937	3R_10156937_SNP [dm3] 3R_14331215_SNP [dm6]	G	A	1.759e^-5	0.551	INTRON NK7.1	TF binding site BDTNP1_TFBS_dl mE1_TFBS_Trl
X	9858685	X_9858685_SNP [dm3] X_9964652_SNP [dm6]	C	T	1.795e^-5	0.551	SYNONYMOUS_CODING CG1791 UTR_5_PRIME CG1791 UPSTREAM CG1889
2R	18972461	2R_18972461_SNP [dm3] 2R_23084938_SNP [dm6]	A	G	1.802e^-5	0.551	DOWNSTREAM CG9877 INTERGENIC	TF binding site BDTNP1_TFBS_twi mE1_TFBS_cad
2L	13263711	2L_13263711_SNP [dm3] 2L_13263711_SNP [dm6]	C	T	1.821e^-5	0.551	INTRON CG44085
3R	14338370	3R_14338370_SNP [dm3] 3R_18512648_SNP [dm6]	G	C	1.860e^-5	0.554	INTRON fru
3R	10156932	3R_10156932_INS [dm3] 3R_14331210_INS [dm6]	G	GTAT	1.957e^-5	0.555	INTRON NK7.1	TF binding site BDTNP1_TFBS_dl mE1_TFBS_Trl
3R	10156939	3R_10156939_INS [dm3] 3R_14331217_INS [dm6]	A	ATGTACATATATCATTTTTT...	2.063e^-5	0.555	INTRON NK7.1	TF binding site BDTNP1_TFBS_dl mE1_TFBS_Trl
3R	10156950	3R_10156950_SNP [dm3] 3R_14331228_SNP [dm6]	G	C	2.063e^-5	0.555	INTRON NK7.1	TF binding site BDTNP1_TFBS_dl mE1_TFBS_Trl
3R	10156952	3R_10156952_INS [dm3] 3R_14331230_INS [dm6]	G	GATTAAAT	2.063e^-5	0.555	INTRON NK7.1	TF binding site BDTNP1_TFBS_dl mE1_TFBS_Trl
3R	10156948	3R_10156948_SNP [dm3] 3R_14331226_SNP [dm6]	C	T	2.084e^-5	0.555	INTRON NK7.1	TF binding site BDTNP1_TFBS_dl mE1_TFBS_Trl
3L	4872506	3L_4872506_SNP [dm3] 3L_4872506_SNP [dm6]	A	G	2.092e^-5	0.555	SYNONYMOUS_CODING CG17150	TF binding site mE1_TFBS_cad mE1_TFBS_chinmo mE1_TFBS_HSA
2L	20268713	2L_20268713_SNP [dm3] 2L_20268713_SNP [dm6]	T	C	2.098e^-5	0.555	INTERGENIC
2L	20132606	2L_20132606_SNP [dm3] 2L_20132606_SNP [dm6]	C	A	2.100e^-5	0.555	INTERGENIC	TF binding site mE1_TFBS_inv
3R	20699174	3R_20699174_SNP [dm3] 3R_24873452_SNP [dm6]	T	C	2.209e^-5	0.57	SYNONYMOUS_CODING CG3744	TF binding site mE1_TFBS_inv
3R	24978494	3R_24978494_SNP [dm3] 3R_29152772_SNP [dm6]	G	A	2.219e^-5	0.57	SYNONYMOUS_CODING Slbp UPSTREAM ligatin & 1 other	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_twi mE1_TFBS_sens
3R	620938	3R_620938_DEL [dm3] 3R_4795216_DEL [dm6]	TT	T	2.283e^-5	0.577	INTRON ctrip	TF binding site mE1_TFBS_cad mE1_TFBS_HSA
3R	11487767	3R_11487767_SNP [dm3] 3R_15662045_SNP [dm6]	C	A	2.307e^-5	0.577	INTERGENIC	TF binding site mE1_TFBS_HSA mE1_TFBS_Kr
3L	9251875	3L_9251875_SNP [dm3] 3L_9258775_SNP [dm6]	T	C	2.442e^-5	0.602	INTRON GluRIB
2L	20379285	2L_20379285_SNP [dm3] 2L_20379285_SNP [dm6]	G	T	2.475e^-5	0.602	SYNONYMOUS_CODING CG16798
2R	19996423	2R_19996423_SNP [dm3] 2R_24108900_SNP [dm6]	G	T	2.515e^-5	0.602	SYNONYMOUS_CODING CG4049
3R	26042222	3R_26042222_SNP [dm3] 3R_30216500_SNP [dm6]	T	C	2.579e^-5	0.602	UTR_5_PRIME CecC
2L	20350998	2L_20350998_SNP [dm3] 2L_20350998_SNP [dm6]	C	A	2.581e^-5	0.602	UPSTREAM La INTRON RtGEF	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_z mE1_TFBS_D
3R	620936	3R_620936_SNP [dm3] 3R_4795214_SNP [dm6]	G	A	2.601e^-5	0.602	INTRON ctrip	TF binding site mE1_TFBS_cad mE1_TFBS_HSA
2L	20437153	2L_20437153_SNP [dm3] 2L_20437153_SNP [dm6]	C	G	2.666e^-5	0.608	DOWNSTREAM CR43607 INTRON CG31688	TF binding site BDTNP1_TFBS_twi mE1_TFBS_HSA
3R	620935	3R_620935_SNP [dm3] 3R_4795213_SNP [dm6]	A	C	2.699e^-5	0.608	INTRON ctrip	TF binding site mE1_TFBS_cad mE1_TFBS_HSA
X	4560961	X_4560961_SNP [dm3] X_4666928_SNP [dm6]	T	A	2.768e^-5	0.608	UPSTREAM CG3009 DOWNSTREAM rap INTERGENIC	TF binding site mE1_TFBS_bab1 mE1_TFBS_disco mE1_TFBS_HSA
3R	19030436	3R_19030436_SNP [dm3] 3R_23204714_SNP [dm6]	T	C	2.778e^-5	0.608	UPSTREAM fzo INTRON cnc	TF binding site mE1_TFBS_cnc
3L	6307933	3L_6307933_SNP [dm3] 3L_6314833_SNP [dm6]	T	A	2.899e^-5	0.608	INTERGENIC
2L	15386524	2L_15386524_SNP [dm3] 2L_15386524_SNP [dm6]	C	G	2.900e^-5	0.608	INTERGENIC
3R	18945930	3R_18945930_SNP [dm3] 3R_23120208_SNP [dm6]	C	T	2.915e^-5	0.608	INTRON CenB1A	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_twi mE1_TFBS_sens
3R	10156955	3R_10156955_SNP [dm3] 3R_14331233_SNP [dm6]	G	A	2.917e^-5	0.608	INTRON NK7.1	TF binding site BDTNP1_TFBS_dl mE1_TFBS_Trl
2R	12460216	2R_12460216_INS [dm3] 2R_16572711_INS [dm6]	A	AA	2.930e^-5	0.608	INTRON CG4927
3L	3702945	3L_3702945_SNP [dm3] 3L_3702945_SNP [dm6]	C	T	3.049e^-5	0.608	INTERGENIC	TF binding site BDTNP1_TFBS_dl mE1_TFBS_HSA
2R	19976766	2R_19976766_SNP [dm3] 2R_24089243_SNP [dm6]	A	G	3.084e^-5	0.608	NON_SYNONYMOUS_CODING snama
2R	7392807	2R_7392807_INS [dm3] 2R_11505302_INS [dm6]	T	TT	3.102e^-5	0.608	INTRON inv
2L	13142029	2L_13142029_SNP [dm3] 2L_13142029_SNP [dm6]	T	C	3.127e^-5	0.608	DOWNSTREAM CG9928 INTERGENIC
3R	10156938	3R_10156938_SNP [dm3] 3R_14331216_SNP [dm6]	A	C	3.145e^-5	0.608	INTRON NK7.1	TF binding site BDTNP1_TFBS_dl mE1_TFBS_Trl
3R	6857972	3R_6857972_SNP [dm3] 3R_11032250_SNP [dm6]	A	G	3.155e^-5	0.608	INTRON CG34114
3L	11839688	3L_11839688_SNP [dm3] 3L_11846588_SNP [dm6]	G	A	3.172e^-5	0.608	DOWNSTREAM CG12521 INTERGENIC	TF binding site BDTNP1_TFBS_dl mE1_TFBS_h mE1_TFBS_HSA
X	3643803	X_3643803_SNP [dm3] X_3749770_SNP [dm6]	T	C	3.179e^-5	0.608	INTRON tlk	TF binding site BDTNP1_TFBS_dl mE1_TFBS_HSA mE1_TFBS_Trl
3R	17769455	3R_17769455_SNP [dm3] 3R_21943733_SNP [dm6]	A	C	3.315e^-5	0.612	INTERGENIC
3R	11529801	3R_11529801_SNP [dm3] 3R_15704079_SNP [dm6]	T	C	3.315e^-5	0.612	UPSTREAM CG5404 INTERGENIC

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Missing results

By genomic position
Variant impact
Gene name

mn_StarvationRes_ADJ phenotype

Phenotype distribution and association to known covariates

QQplot

Manhattan plot

GWAS results