Variant report

Variant	rs2860404
Chromosome Location	chr11:46095567-46095568
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr11:46092875..46097320-chr11:46098971..46101372,4	K562	blood:

Extended variants
information (count: 29 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs10838535	0.87[JPT][hapmap]
rs11038720	0.83[CHD][hapmap];0.87[JPT][hapmap]
rs1125290	0.87[JPT][hapmap]
rs1976182	0.95[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs2945999	0.81[JPT][hapmap]
rs2946003	0.93[JPT][hapmap]
rs2959084	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2959087	0.87[JPT][hapmap];1.00[YRI][hapmap]
rs2959090	0.87[JPT][hapmap];1.00[YRI][hapmap]
rs2959091	0.87[JPT][hapmap];1.00[YRI][hapmap]
rs2959099	0.87[JPT][hapmap]
rs4073513	1.00[ASW][hapmap];0.95[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.83[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4144718	0.87[CHD][hapmap];0.87[JPT][hapmap];1.00[YRI][hapmap]
rs4237660	0.87[CHD][hapmap];0.87[JPT][hapmap];1.00[YRI][hapmap]
rs4756051	0.88[CHB][hapmap];0.87[JPT][hapmap];0.82[ASN][1000 genomes]
rs4756055	1.00[ASW][hapmap];1.00[CHB][hapmap];0.93[CHD][hapmap];0.88[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.98[MKK][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs6485654	0.87[JPT][hapmap]
rs7108186	0.87[CHD][hapmap];0.87[JPT][hapmap]
rs7112677	0.81[JPT][hapmap];0.83[ASN][1000 genomes]
rs7114506	0.92[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7128184	0.87[CHD][hapmap];0.87[JPT][hapmap]
rs7926314	0.87[CHD][hapmap];0.87[JPT][hapmap]
rs7948502	0.87[CHD][hapmap];0.87[JPT][hapmap]
rs7950336	0.83[CHD][hapmap];0.87[JPT][hapmap]
rs7950391	0.86[CHD][hapmap];0.87[JPT][hapmap]
rs923530	0.97[ASN][1000 genomes]
rs939107	0.87[CHD][hapmap];0.87[JPT][hapmap]
rs950105	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs953230	1.00[ASW][hapmap];0.95[CEU][hapmap];0.94[CHB][hapmap];0.93[CHD][hapmap];0.93[GIH][hapmap];0.88[JPT][hapmap];0.95[LWK][hapmap];0.83[MEX][hapmap];1.00[MKK][hapmap];0.93[TSI][hapmap];0.84[YRI][hapmap];0.92[AFR][1000 genomes];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs2860404	C11orf96	cis	parietal	SCAN
rs2860404	ARHGAP1	cis	parietal	SCAN

Chromatin state (count:111 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:46039400-46096800	Weak transcription	Rectal Mucosa Donor 29	rectum
2	chr11:46062000-46100800	Weak transcription	Brain Cingulate Gyrus	brain
3	chr11:46063200-46119800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
4	chr11:46063600-46098000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
5	chr11:46063600-46104600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
6	chr11:46064000-46097600	Weak transcription	Primary T helper cells PMA-I stimulated	--
7	chr11:46068800-46096800	Weak transcription	Fetal Thymus	thymus
8	chr11:46070800-46096800	Weak transcription	A549	lung
9	chr11:46071200-46097800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
10	chr11:46071400-46097800	Weak transcription	Fetal Muscle Trunk	muscle
11	chr11:46071400-46114800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
12	chr11:46071400-46118800	Weak transcription	Lung	lung
13	chr11:46072000-46097600	Weak transcription	Brain Hippocampus Middle	brain
14	chr11:46072000-46100800	Weak transcription	Thymus	Thymus
15	chr11:46072000-46101000	Weak transcription	Brain Anterior Caudate	brain
16	chr11:46072000-46119400	Weak transcription	Brain Angular Gyrus	brain
17	chr11:46072600-46096800	Weak transcription	NH-A	brain
18	chr11:46072600-46097600	Weak transcription	Duodenum Smooth Muscle	Duodenum
19	chr11:46072600-46100800	Weak transcription	Placenta	Placenta
20	chr11:46072800-46096800	Weak transcription	Muscle Satellite Cultured Cells	--
21	chr11:46073200-46101000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
22	chr11:46073200-46101800	Weak transcription	Fetal Stomach	stomach
23	chr11:46073800-46122200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
24	chr11:46074200-46101200	Weak transcription	Brain Substantia Nigra	brain
25	chr11:46077600-46109400	Weak transcription	HepG2	liver
26	chr11:46079000-46128200	Weak transcription	Aorta	Aorta
27	chr11:46079600-46102200	Weak transcription	H9 Cell Line	embryonic stem cell
28	chr11:46080400-46120800	Weak transcription	Stomach Smooth Muscle	stomach
29	chr11:46080600-46103000	Weak transcription	Sigmoid Colon	Sigmoid Colon
30	chr11:46082000-46114000	Strong transcription	Monocytes-CD14+_RO01746	blood
31	chr11:46083600-46107600	Strong transcription	Primary monocytes fromperipheralblood	blood
32	chr11:46084800-46104800	Weak transcription	Fetal Brain Male	brain
33	chr11:46084800-46118600	Weak transcription	Pancreas	Pancrea
34	chr11:46085000-46119600	Weak transcription	Brain Germinal Matrix	brain
35	chr11:46085400-46106000	Strong transcription	Primary neutrophils fromperipheralblood	blood
36	chr11:46085800-46111000	Weak transcription	Placenta Amnion	Placenta Amnion
37	chr11:46086200-46096800	Weak transcription	NHLF	lung
38	chr11:46086600-46112200	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
39	chr11:46086800-46099400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
40	chr11:46087000-46099400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
41	chr11:46087200-46120800	Weak transcription	H1 Cell Line	embryonic stem cell
42	chr11:46087400-46097000	Weak transcription	HUES64 Cell Line	embryonic stem cell
43	chr11:46087400-46097600	Weak transcription	Fetal Brain Female	brain
44	chr11:46087400-46103800	Weak transcription	HUES48 Cell Line	embryonic stem cell
45	chr11:46087400-46104000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
46	chr11:46087600-46097000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
47	chr11:46087600-46120400	Weak transcription	HSMMtube	muscle
48	chr11:46087600-46121000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
49	chr11:46087800-46097000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
50	chr11:46087800-46097200	Weak transcription	iPS-20b Cell Line	embryonic stem cell

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