Heatmap of thromboQTL asssociation mapping

GAIT2, MAF >= 0.01, genome-wide significant level < 5e-8

Andrey Ziyatdinov, The UGCD group

April, 2015

Heatmap

• 72 out of 81 traits are on the y axis (9 traits have no associated SNPs at the genome-wide significant level).
• Up to 250 bins (each of 1Mb size) per chromosome are on the x axis.
• 22 chromosomes represent the separate panels.
• Color encodes the number of associated SNPs (the genome-wide significant level) inside a bin.

Tip 1: The tooltip appears when hovering over a point. The following information is displayed: the number of SNPs, the name of a trait, the chromosome and the position of a bin.

Tip 2: One can clearly see some known signals.

• The two strong signals for FXI are in Chromosome 3 and 4.
• The known signal for TGTETP trait in Chromosome 11.

Summary table

• N is the total number of SNPs associated with a given trait at the genome-wide significant level.

group	trait	N
TEG	inorm_CT_intem	13
TEG	inorm_CT_natem	4
TEG	inorm_CT_tiftem	7
TEG	inorm_CFT_intem	109
TEG	inorm_CFT_intemuk	145
TEG	inorm_CFT_natem	7
TEG	inorm_CFT_tiftem	18
TEG	inorm_alpha_intem	113
TEG	inorm_alpha_intemuk	148
TEG	inorm_alpha_tiftem	4
TEG	inorm_MCFt_intem	51
TEG	inorm_MCFt_intemuk	19
TEG	inorm_MCFt_natem	44
TEG	inorm_MCFt_tiftem	8
TEG	inorm_MCF_intem	24
TEG	inorm_MCF_natem	2
TEG	inorm_MCF_tiftem	1
TEG	inorm_TGTlagtime	12
TEG	inorm_TGTETP	9
TEG	inorm_Lclisis	29
TEG	inorm_LclisisTM	340
PFA	inorm_PFAadp	149
PFA	inorm_PFAepin	82
HEMO	inorm_PTES	70
HEMO	inorm_PCTES	27
HEMO	inorm_LE	3
HEMO	inorm_NE	3
HEMO	inorm_LI	24
HEMO	inorm_MOt	3
TE	inorm_COX1	2
TE	inorm_mPGES1	35
TE	inorm_TXAS	4
TE	inorm_PLA2G4A	9
LC	inorm_e5LOX	4
LC	inorm_FLAP	16
LC	inorm_LTA4H	1
LC	inorm_LTC4S	32
LC	inorm_LTB4	21
LC	inorm_e5LOX_NE	19
LC	inorm_FLAP_NE	12
GTF	inorm_TMTHG	8
GTF	inorm_THRGEN	3
GTF	inorm_RTMTH	6
GTF	inorm_FIBc	17
GTF	inorm_FVIIc	64
GTF	inorm_FVIIIc	117
GTF	inorm_FIXc	7
GTF	inorm_FXIc	136
GTF	inorm_FXIIc	203
GTF	inorm_APCR	4
GTF	inorm_APTT	108
GTF	inorm_ATIIIf	2
GTF	inorm_GAB2	15
GTF	inorm_GACA	11
GTF	inorm_GAFS	136
GTF	inorm_GAPS	53
GTF	inorm_MAB2	396
GTF	inorm_MACA	2
GTF	inorm_MAFS	11
GTF	inorm_MAPS	28
GTF	inorm_Pcam	474
GTF	inorm_PSfree	8
GTF	inorm_PSfunc	22
GTF	inorm_PSt	6
GTF	inorm_PT	6
GTF	inorm_TT	4
HOMO	inorm_CYShplc	26
HOMO	inorm_HCYhplc	2
HOMO	inorm_METhplc	1
HOMO	inorm_SAMhplc	2
HOMO	inorm_SAHhplc	552
HOMO	inorm_SAMsah	435