Variant report

Variant	rs11172155
Chromosome Location	chr12:57705631-57705632
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr12:57701803..57704165-chr12:57704746..57706326,2	MCF-7	breast:
2	chr12:57704289..57706468-chr12:57708550..57710916,2	MCF-7	breast:
3	chr12:57702958..57705932-chr12:57847921..57850927,4	K562	blood:
4	chr12:57696649..57699351-chr12:57704431..57706467,2	K562	blood:

Variant related genes	Relation type
ENSG00000139269	Chromatin interaction

Extended variants
information (count: 26 )
Associated
traits (count: 7 )

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs10876968	0.83[ASW][hapmap];0.81[CEU][hapmap];0.95[CHB][hapmap];0.93[CHD][hapmap];0.98[GIH][hapmap];0.95[JPT][hapmap];1.00[MEX][hapmap];0.83[TSI][hapmap];0.86[YRI][hapmap];0.86[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs10876971	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10876973	0.88[AFR][1000 genomes];0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10876974	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11172140	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11172142	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.86[YRI][hapmap];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11614077	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11830804	0.91[ASW][hapmap];1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.86[YRI][hapmap];0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11831937	1.00[LWK][hapmap]
rs12227309	0.91[ASW][hapmap];0.95[CEU][hapmap];0.95[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.86[YRI][hapmap];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs28473132	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2943692	1.00[CEU][hapmap]
rs2943693	0.82[ASW][hapmap];1.00[CEU][hapmap];0.90[CHB][hapmap];0.85[CHD][hapmap];0.82[GIH][hapmap];0.90[JPT][hapmap];1.00[MEX][hapmap];0.96[TSI][hapmap]
rs3204635	1.00[GIH][hapmap];0.85[MEX][hapmap];0.83[TSI][hapmap];0.86[YRI][hapmap]
rs36050407	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs473465	1.00[CEU][hapmap];0.81[JPT][hapmap];0.86[MEX][hapmap];0.92[TSI][hapmap]
rs507562	1.00[CEU][hapmap];0.81[JPT][hapmap]
rs538548	0.91[ASW][hapmap];1.00[CEU][hapmap];0.95[CHB][hapmap];0.93[CHD][hapmap];0.95[GIH][hapmap];0.95[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.86[YRI][hapmap]
rs567895	0.91[ASW][hapmap];1.00[CEU][hapmap];0.95[CHB][hapmap];0.93[CHD][hapmap];0.98[GIH][hapmap];0.90[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.86[YRI][hapmap]
rs6581138	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7133572	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7302906	0.91[ASW][hapmap];1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.86[YRI][hapmap];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs73115907	0.85[ASN][1000 genomes]
rs7963352	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7966846	0.86[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs7976512	0.83[YRI][hapmap];0.88[AFR][1000 genomes];0.86[AMR][1000 genomes];0.84[ASN][1000 genomes]

mRNA abundance (count:7)

SNP	Gene	Cis/trans	Tissue	Source
rs11172155	ZNF679	trans	parietal	SCAN
rs11172155	FIGNL2	cis	parietal	SCAN
rs11172155	XRCC6BP1	cis	parietal	SCAN
rs11172155	DNAJC14	cis	cerebellum	SCAN
rs11172155	NPFF	cis	cerebellum	SCAN
rs11172155	KRT2	cis	parietal	SCAN
rs11172155	ORMDL2	cis	parietal	SCAN

Chromatin state (count:88 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:57662800-57706000	Strong transcription	Primary monocytes fromperipheralblood	blood
2	chr12:57670400-57707000	Strong transcription	Monocytes-CD14+_RO01746	blood
3	chr12:57675400-57707000	Strong transcription	Primary T helper cells fromperipheralblood	blood
4	chr12:57677600-57713000	Weak transcription	Stomach Mucosa	stomach
5	chr12:57678000-57713000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
6	chr12:57691000-57736200	Weak transcription	Right Atrium	heart
7	chr12:57693200-57705800	Weak transcription	K562	blood
8	chr12:57693600-57743800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
9	chr12:57693800-57713000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
10	chr12:57694000-57706200	Weak transcription	HUES48 Cell Line	embryonic stem cell
11	chr12:57694000-57709400	Weak transcription	Colonic Mucosa	Colon
12	chr12:57694000-57710000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
13	chr12:57694000-57713200	Weak transcription	HUES64 Cell Line	embryonic stem cell
14	chr12:57694000-57713200	Weak transcription	Skeletal Muscle Male	skeletal muscle
15	chr12:57694000-57780000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
16	chr12:57694200-57734000	Weak transcription	Rectal Smooth Muscle	rectum
17	chr12:57694400-57732400	Weak transcription	Ovary	ovary
18	chr12:57694400-57735000	Weak transcription	Psoas Muscle	Psoas
19	chr12:57695200-57794600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
20	chr12:57696800-57715200	Weak transcription	Gastric	stomach
21	chr12:57697000-57726000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
22	chr12:57697000-57735400	Weak transcription	Right Ventricle	heart
23	chr12:57697200-57707200	Weak transcription	Placenta Amnion	Placenta Amnion
24	chr12:57697200-57734000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
25	chr12:57697200-57745000	Weak transcription	Lung	lung
26	chr12:57697400-57713000	Weak transcription	Fetal Lung	lung
27	chr12:57697400-57721400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
28	chr12:57699800-57762400	Weak transcription	Left Ventricle	heart
29	chr12:57700000-57712600	Weak transcription	Fetal Muscle Leg	muscle
30	chr12:57700000-57717800	Weak transcription	Cortex derived primary cultured neurospheres	brain
31	chr12:57700000-57719800	Weak transcription	Fetal Kidney	kidney
32	chr12:57700000-57720000	Weak transcription	Fetal Intestine Large	intestine
33	chr12:57700000-57733800	Weak transcription	Skeletal Muscle Female	skeletal muscle
34	chr12:57700000-57736000	Weak transcription	Fetal Brain Male	brain
35	chr12:57700200-57709800	Weak transcription	Fetal Brain Female	brain
36	chr12:57700400-57721600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
37	chr12:57702600-57706200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
38	chr12:57703200-57713000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
39	chr12:57703400-57706200	Weak transcription	Hela-S3	cervix
40	chr12:57703400-57733800	Weak transcription	Primary hematopoietic stem cells	blood
41	chr12:57703400-57734600	Weak transcription	Stomach Smooth Muscle	stomach
42	chr12:57703400-57742000	Weak transcription	Sigmoid Colon	Sigmoid Colon
43	chr12:57703600-57706000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
44	chr12:57703600-57719000	Weak transcription	Primary B cells from peripheral blood	blood
45	chr12:57703800-57713400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
46	chr12:57703800-57720200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
47	chr12:57703800-57723400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
48	chr12:57703800-57725000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
49	chr12:57703800-57726600	Weak transcription	Colon Smooth Muscle	Colon
50	chr12:57704000-57706000	Weak transcription	Fetal Intestine Small	intestine

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