Variant report

Variant	rs10992441
Chromosome Location	chr9:95499671-95499672
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:95497607..95506128-chr9:95524589..95529183,18	MCF-7	breast:
2	chr9:95499523..95501060-chr9:95503592..95505354,2	K562	blood:
3	chr9:95499325..95502717-chr9:95506980..95509904,5	MCF-7	breast:
4	chr9:95497520..95500210-chr9:95502956..95506656,3	MCF-7	breast:
5	chr9:95498170..95500745-chr9:95500865..95503028,2	K562	blood:
6	chr9:95489709..95492274-chr9:95498684..95502250,4	MCF-7	breast:
7	chr9:95495321..95504616-chr9:95523710..95529272,20	MCF-7	breast:

Variant related genes	Relation type
ENSG00000185963	Chromatin interaction

Extended variants
information (count: 127 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:127)

rs_ID	r²[population]
rs1010823	0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10821000	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10821001	0.82[ASN][1000 genomes]
rs10821002	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10821003	0.82[ASN][1000 genomes]
rs10821004	0.82[ASN][1000 genomes]
rs10821005	0.81[ASN][1000 genomes]
rs10821007	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10821009	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10821010	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10821011	0.85[ASN][1000 genomes]
rs10821012	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10821014	0.85[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs10821015	0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10821016	0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10992402	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10992403	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10992404	0.80[EUR][1000 genomes]
rs10992406	0.82[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs10992413	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10992414	0.81[ASN][1000 genomes]
rs10992416	0.82[ASN][1000 genomes]
rs10992417	0.82[ASN][1000 genomes]
rs10992418	0.86[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs10992419	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10992420	0.82[ASN][1000 genomes]
rs10992422	0.82[ASN][1000 genomes]
rs10992423	0.82[ASN][1000 genomes]
rs10992426	0.88[AFR][1000 genomes];0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs10992427	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10992430	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10992431	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10992432	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10992433	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10992434	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10992436	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10992437	0.85[ASN][1000 genomes]
rs10992438	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10992442	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10992443	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10992444	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10992445	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10992448	0.83[ASN][1000 genomes]
rs10992451	0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10992453	0.85[ASN][1000 genomes]
rs10992454	0.83[AFR][1000 genomes]
rs10992456	0.96[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10992460	0.85[ASN][1000 genomes]
rs10992461	0.85[ASN][1000 genomes]
rs10992462	0.92[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10992472	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs1125063	0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1125064	0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11533010	0.82[ASN][1000 genomes]
rs11535540	0.86[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs12236393	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12236516	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12236747	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12236754	0.85[ASN][1000 genomes]
rs12236788	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12237216	0.82[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs12238691	0.83[ASN][1000 genomes]
rs12683839	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12683944	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12684587	0.81[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs12685080	0.89[ASN][1000 genomes]
rs12685256	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12685257	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12685358	0.82[ASN][1000 genomes]
rs12685780	0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12685791	0.91[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12686058	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1407944	0.88[AFR][1000 genomes];0.87[AMR][1000 genomes];0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1552908	0.92[AMR][1000 genomes]
rs1874128	0.88[AMR][1000 genomes]
rs1980705	0.87[AMR][1000 genomes]
rs2038686	0.88[AMR][1000 genomes]
rs2088055	0.82[AMR][1000 genomes]
rs2181584	0.82[ASN][1000 genomes]
rs2181586	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2274413	0.88[AMR][1000 genomes]
rs2277164	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2277166	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2281888	0.87[AMR][1000 genomes]
rs2296080	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3203916	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3739605	0.81[ASN][1000 genomes]
rs41266683	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4545157	0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs556	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs56111209	0.92[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs56203846	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs56311406	0.85[ASN][1000 genomes]
rs56339669	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs57421019	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs57720404	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs57737182	0.85[ASN][1000 genomes]
rs58045868	0.85[AMR][1000 genomes]
rs58952648	0.81[ASN][1000 genomes]
rs60173654	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs60457563	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs60498616	0.83[ASN][1000 genomes]
rs66493272	0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs68022962	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs68046436	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7031163	0.85[ASN][1000 genomes]
rs7037961	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs753802	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs753803	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs753804	0.85[ASN][1000 genomes]
rs7850871	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7851947	0.85[AFR][1000 genomes];0.87[AMR][1000 genomes];0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7860628	0.83[ASN][1000 genomes]
rs7862106	0.86[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs7863890	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7864889	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7869529	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7869603	0.83[ASN][1000 genomes]
rs7875227	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs8181065	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs878610	0.82[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs879812	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs912259	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs912261	0.82[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs976320	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs976321	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9775970	0.80[AFR][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10992441	BICD2	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:120 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:95484800-95501800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
2	chr9:95485600-95511600	Weak transcription	Aorta	Aorta
3	chr9:95490000-95507400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
4	chr9:95490400-95501400	Weak transcription	Primary hematopoietic stem cells	blood
5	chr9:95490600-95502200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
6	chr9:95491200-95499800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
7	chr9:95491200-95503000	Weak transcription	Fetal Kidney	kidney
8	chr9:95491400-95501400	Weak transcription	HUES64 Cell Line	embryonic stem cell
9	chr9:95491400-95501800	Weak transcription	Liver	Liver
10	chr9:95491400-95507600	Weak transcription	H9 Cell Line	embryonic stem cell
11	chr9:95491600-95499800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
12	chr9:95491600-95500000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
13	chr9:95491600-95500400	Weak transcription	Placenta Amnion	Placenta Amnion
14	chr9:95491600-95502400	Weak transcription	Primary T cells from cord blood	blood
15	chr9:95491600-95503000	Weak transcription	Fetal Lung	lung
16	chr9:95491800-95507600	Weak transcription	HUES48 Cell Line	embryonic stem cell
17	chr9:95492200-95501000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
18	chr9:95492200-95503200	Weak transcription	HepG2	liver
19	chr9:95492400-95501000	Weak transcription	Fetal Brain Female	brain
20	chr9:95492600-95501000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
21	chr9:95493800-95500000	Weak transcription	Fetal Stomach	stomach
22	chr9:95494400-95500400	Weak transcription	Monocytes-CD14+_RO01746	blood
23	chr9:95494400-95500600	Weak transcription	Primary monocytes fromperipheralblood	blood
24	chr9:95494600-95500400	Weak transcription	Thymus	Thymus
25	chr9:95496400-95502400	Enhancers	Placenta	Placenta
26	chr9:95496600-95502400	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
27	chr9:95496800-95501800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
28	chr9:95496800-95502200	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
29	chr9:95496800-95502400	Enhancers	Primary B cells from cord blood	blood
30	chr9:95496800-95502400	Enhancers	Right Ventricle	heart
31	chr9:95496800-95502800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
32	chr9:95496800-95506600	Enhancers	Primary B cells from peripheral blood	blood
33	chr9:95497000-95499800	Enhancers	NHEK	skin
34	chr9:95497000-95500200	Enhancers	Spleen	Spleen
35	chr9:95497000-95500600	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
36	chr9:95497000-95501800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
37	chr9:95497000-95502200	Enhancers	Lung	lung
38	chr9:95497000-95502200	Enhancers	Sigmoid Colon	Sigmoid Colon
39	chr9:95497000-95502400	Enhancers	Fetal Heart	heart
40	chr9:95497000-95502400	Enhancers	Pancreas	Pancrea
41	chr9:95497000-95502600	Enhancers	Right Atrium	heart
42	chr9:95497000-95503000	Enhancers	Skeletal Muscle Female	skeletal muscle
43	chr9:95497000-95503600	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
44	chr9:95497000-95503600	Enhancers	Left Ventricle	heart
45	chr9:95497000-95503600	Enhancers	Ovary	ovary
46	chr9:95497000-95503600	Enhancers	Skeletal Muscle Male	skeletal muscle
47	chr9:95497000-95504200	Enhancers	Primary hematopoietic stem cells short term culture	blood
48	chr9:95497000-95504800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
49	chr9:95497200-95502400	Enhancers	Adipose Nuclei	Adipose
50	chr9:95497200-95503400	Weak transcription	A549	lung

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