Variant report

Variant	rs7162176
Chromosome Location	chr15:52046156-52046157
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	SPI1	chr15:52045874-52046243	HL-60	blood:	n/a	chr15:52046098-52046111 chr15:52046099-52046112 chr15:52046101-52046110

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:52028355..52032748-chr15:52040539..52046492,10	K562	blood:

Variant related genes	Relation type
LYSMD2	TF binding region
ENSG00000140280	Chromatin interaction

Extended variants
information (count: 169 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:167)

rs_ID	r²[population]
rs1001690	0.84[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs1035737	0.81[EUR][1000 genomes]
rs10444824	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10444825	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10851503	0.83[EUR][1000 genomes]
rs10851504	0.80[EUR][1000 genomes]
rs11070865	0.94[EUR][1000 genomes]
rs11070866	0.81[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11070867	0.83[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11070868	0.80[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11070869	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11630253	0.80[EUR][1000 genomes]
rs11630579	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11630943	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11631858	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11636869	0.88[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11637876	0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12050524	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12591672	0.80[EUR][1000 genomes]
rs12593708	0.83[EUR][1000 genomes]
rs12901638	0.85[EUR][1000 genomes]
rs12903500	0.98[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12904413	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12904900	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12905283	0.88[EUR][1000 genomes]
rs12908327	0.84[EUR][1000 genomes]
rs12912928	0.88[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs12913583	0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12913850	0.83[EUR][1000 genomes]
rs12915015	0.84[EUR][1000 genomes]
rs12915568	0.84[EUR][1000 genomes]
rs17526463	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs17526760	0.84[EUR][1000 genomes]
rs17539905	0.80[EUR][1000 genomes]
rs17610862	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs17611193	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1840708	0.85[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1863430	0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2006773	0.83[EUR][1000 genomes]
rs2007335	0.83[EUR][1000 genomes]
rs2007355	0.83[EUR][1000 genomes]
rs2010026	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2011995	0.84[EUR][1000 genomes]
rs2034856	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2052706	0.80[EUR][1000 genomes]
rs2052708	0.84[EUR][1000 genomes]
rs2052709	0.80[EUR][1000 genomes]
rs2114191	0.80[EUR][1000 genomes]
rs2252831	0.83[EUR][1000 genomes]
rs2433217	0.80[EUR][1000 genomes]
rs2433222	0.80[EUR][1000 genomes]
rs2436655	0.83[EUR][1000 genomes]
rs2436657	0.80[EUR][1000 genomes]
rs2436660	0.80[EUR][1000 genomes]
rs2436662	0.83[EUR][1000 genomes]
rs2441780	0.81[EUR][1000 genomes]
rs2448946	0.81[EUR][1000 genomes]
rs2448947	0.81[EUR][1000 genomes]
rs2448948	0.81[EUR][1000 genomes]
rs2448950	0.81[EUR][1000 genomes]
rs2448951	0.81[EUR][1000 genomes]
rs2470600	0.81[EUR][1000 genomes]
rs2470601	0.81[EUR][1000 genomes]
rs2470608	0.81[EUR][1000 genomes]
rs2470610	0.81[EUR][1000 genomes]
rs2470611	0.80[EUR][1000 genomes]
rs2470618	0.80[EUR][1000 genomes]
rs2554314	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2554327	0.83[EUR][1000 genomes]
rs2554328	0.83[EUR][1000 genomes]
rs2554349	0.80[EUR][1000 genomes]
rs2554350	0.80[EUR][1000 genomes]
rs2554353	0.83[EUR][1000 genomes]
rs2570238	0.83[EUR][1000 genomes]
rs2570239	0.83[EUR][1000 genomes]
rs2570240	0.80[EUR][1000 genomes]
rs2570241	0.80[EUR][1000 genomes]
rs2570248	0.83[EUR][1000 genomes]
rs2593168	0.80[EUR][1000 genomes]
rs2593173	0.80[EUR][1000 genomes]
rs2593182	0.80[EUR][1000 genomes]
rs2593183	0.80[EUR][1000 genomes]
rs2623266	0.80[EUR][1000 genomes]
rs2623271	0.83[EUR][1000 genomes]
rs2623279	0.80[EUR][1000 genomes]
rs2623281	0.80[EUR][1000 genomes]
rs2623282	0.80[EUR][1000 genomes]
rs2623283	0.80[EUR][1000 genomes]
rs2623284	0.80[EUR][1000 genomes]
rs2623285	0.80[EUR][1000 genomes]
rs2623286	0.80[EUR][1000 genomes]
rs28699115	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2912186	0.80[EUR][1000 genomes]
rs2912189	0.80[EUR][1000 genomes]
rs2916169	0.80[EUR][1000 genomes]
rs2916172	0.81[EUR][1000 genomes]
rs2916175	0.81[EUR][1000 genomes]
rs2916176	0.81[EUR][1000 genomes]
rs2916177	0.80[EUR][1000 genomes]
rs2921951	0.80[EUR][1000 genomes]
rs2921953	0.81[EUR][1000 genomes]
rs2929423	0.80[EUR][1000 genomes]
rs2929424	0.83[EUR][1000 genomes]
rs2929425	0.81[EUR][1000 genomes]
rs2929426	0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2929428	0.80[EUR][1000 genomes]
rs2959285	0.81[EUR][1000 genomes]
rs2959289	0.81[EUR][1000 genomes]
rs2959298	0.81[EUR][1000 genomes]
rs2959299	0.81[EUR][1000 genomes]
rs2959300	0.81[EUR][1000 genomes]
rs2959305	0.81[EUR][1000 genomes]
rs2959307	0.81[EUR][1000 genomes]
rs3088312	0.92[EUR][1000 genomes]
rs34098740	0.86[ASN][1000 genomes]
rs34504520	0.93[AFR][1000 genomes];0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs35270232	0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs35391204	0.87[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs35823585	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs36087956	0.81[EUR][1000 genomes]
rs3794532	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3898905	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4365237	0.85[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55887408	0.89[AMR][1000 genomes]
rs56148956	0.93[AFR][1000 genomes];0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs56185947	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs62016192	0.80[EUR][1000 genomes]
rs6493520	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6493521	0.86[AFR][1000 genomes];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6493525	0.87[EUR][1000 genomes]
rs6493526	0.87[EUR][1000 genomes]
rs7163541	0.83[EUR][1000 genomes]
rs7164961	0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7166962	0.85[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs7168659	0.82[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs7170091	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7170910	0.86[EUR][1000 genomes]
rs7171516	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7171796	0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7174497	0.85[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7174808	0.85[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7175017	0.85[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7178166	0.83[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7178561	0.88[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7178776	0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7178940	0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7179599	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7181540	0.83[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7182917	0.83[AMR][1000 genomes]
rs726158	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs72732914	0.81[EUR][1000 genomes]
rs8024585	0.88[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs8025069	0.85[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8026521	0.89[EUR][1000 genomes]
rs8027721	0.82[EUR][1000 genomes]
rs8028486	0.89[EUR][1000 genomes]
rs8028922	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs8033433	0.87[EUR][1000 genomes]
rs8035126	0.86[EUR][1000 genomes]
rs8035173	0.84[EUR][1000 genomes]
rs8038344	0.84[EUR][1000 genomes]
rs8040975	0.86[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs8040986	0.86[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs8040991	0.83[EUR][1000 genomes]
rs8041866	0.80[AMR][1000 genomes]
rs990665	0.80[EUR][1000 genomes]
rs9944235	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2830011	chr15:52027777-52048710	Flanking Active TSS Bivalent Enhancer Active TSS Enhancers Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	n/a
2	nsv569409	chr15:52028914-52268144	Strong transcription Weak transcription Flanking Active TSS Enhancers Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	47 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:57 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:52044400-52046400	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
2	chr15:52044400-52050800	Weak transcription	Gastric	stomach
3	chr15:52044600-52046800	Enhancers	Primary T helper naive cells fromperipheralblood	blood
4	chr15:52044600-52060000	Weak transcription	Esophagus	oesophagus
5	chr15:52044600-52060200	Weak transcription	Aorta	Aorta
6	chr15:52044800-52046800	Enhancers	Primary hematopoietic stem cells short term culture	blood
7	chr15:52044800-52047600	Weak transcription	Placenta	Placenta
8	chr15:52044800-52047600	Weak transcription	Lung	lung
9	chr15:52044800-52047800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
10	chr15:52044800-52049800	Weak transcription	Psoas Muscle	Psoas
11	chr15:52044800-52050600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
12	chr15:52044800-52051000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
13	chr15:52044800-52051000	Weak transcription	Right Ventricle	heart
14	chr15:52044800-52060000	Weak transcription	Spleen	Spleen
15	chr15:52045000-52046200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
16	chr15:52045000-52046400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
17	chr15:52045000-52046800	Enhancers	Fetal Thymus	thymus
18	chr15:52045000-52047000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
19	chr15:52045000-52049800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
20	chr15:52045000-52049800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
21	chr15:52045000-52050600	Weak transcription	Skeletal Muscle Female	skeletal muscle
22	chr15:52045000-52050800	Weak transcription	HMEC	breast
23	chr15:52045000-52060200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
24	chr15:52045200-52046200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
25	chr15:52045200-52046400	Weak transcription	Primary T helper cells PMA-I stimulated	--
26	chr15:52045200-52046400	Weak transcription	Primary T helper cells fromperipheralblood	blood
27	chr15:52045200-52046400	Enhancers	Brain Substantia Nigra	brain
28	chr15:52045200-52047400	Enhancers	Primary T cells from cord blood	blood
29	chr15:52045200-52047600	Enhancers	Dnd41	blood
30	chr15:52045200-52048200	Weak transcription	Primary hematopoietic stem cells	blood
31	chr15:52045200-52049800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
32	chr15:52045200-52050600	Weak transcription	Brain Germinal Matrix	brain
33	chr15:52045200-52053400	Enhancers	Primary monocytes fromperipheralblood	blood
34	chr15:52045400-52047600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
35	chr15:52045400-52048600	Weak transcription	Cortex derived primary cultured neurospheres	brain
36	chr15:52045400-52050400	Weak transcription	Fetal Brain Female	brain
37	chr15:52045400-52050600	Weak transcription	Rectal Smooth Muscle	rectum
38	chr15:52045400-52050600	Weak transcription	Stomach Smooth Muscle	stomach
39	chr15:52045400-52051000	Weak transcription	Left Ventricle	heart
40	chr15:52045600-52047600	Weak transcription	Right Atrium	heart
41	chr15:52045600-52047600	Weak transcription	K562	blood
42	chr15:52045600-52048200	Weak transcription	Adipose Nuclei	Adipose
43	chr15:52045600-52049800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
44	chr15:52045600-52050600	Weak transcription	Colon Smooth Muscle	Colon
45	chr15:52045800-52046400	Enhancers	Brain Inferior Temporal Lobe	brain
46	chr15:52045800-52046600	Enhancers	Brain Angular Gyrus	brain
47	chr15:52045800-52046800	Enhancers	Brain Cingulate Gyrus	brain
48	chr15:52045800-52047600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
49	chr15:52045800-52048000	Enhancers	Primary neutrophils fromperipheralblood	blood
50	chr15:52045800-52049800	Weak transcription	Duodenum Smooth Muscle	Duodenum

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