Variant report

Variant	rs4756055
Chromosome Location	chr11:46122023-46122024
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr11:46121453..46123164-chr11:46129213..46131508,2	MCF-7	breast:
2	chr11:46119177..46122741-chr11:46145654..46148976,3	K562	blood:
3	chr11:46113459..46117369-chr11:46121468..46124057,3	MCF-7	breast:
4	chr11:46107186..46109095-chr11:46118821..46122678,3	K562	blood:
5	chr11:46121068..46122754-chr11:46132234..46134547,2	MCF-7	breast:
6	chr11:46121516..46123199-chr11:46258669..46260436,2	K562	blood:
7	chr11:46121399..46123199-chr11:46258936..46261243,2	K562	blood:

Variant related genes	Relation type
ENSG00000135365	Chromatin interaction
ENSG00000254639	Chromatin interaction

Extended variants
information (count: 33 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs10838535	0.87[JPT][hapmap]
rs11038720	0.87[JPT][hapmap]
rs1125082	0.80[CEU][hapmap]
rs1125290	0.87[JPT][hapmap]
rs11601057	0.82[AFR][1000 genomes]
rs1976182	0.98[AFR][1000 genomes];0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2860404	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]
rs2945999	0.81[JPT][hapmap]
rs2946003	0.93[JPT][hapmap]
rs2959084	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.99[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];1.00[CHB][hapmap];0.97[CHD][hapmap];0.85[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.98[MKK][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs4144718	0.87[JPT][hapmap];1.00[YRI][hapmap]
rs4237660	0.87[JPT][hapmap];1.00[YRI][hapmap]
rs4756051	0.88[CHB][hapmap];0.87[JPT][hapmap];0.81[ASN][1000 genomes]
rs6485654	0.87[JPT][hapmap]
rs7107550	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs7108186	0.87[JPT][hapmap]
rs7109480	1.00[CEU][hapmap]
rs7112677	0.81[JPT][hapmap];0.82[ASN][1000 genomes]
rs7114506	0.89[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs7128184	0.87[JPT][hapmap]
rs7926314	0.87[JPT][hapmap]
rs7948502	0.87[JPT][hapmap]
rs7950336	0.87[JPT][hapmap]
rs7950391	0.87[JPT][hapmap]
rs923530	0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs939107	0.87[JPT][hapmap]
rs950105	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs953230	1.00[ASW][hapmap];0.94[CHB][hapmap];0.93[CHD][hapmap];0.90[GIH][hapmap];0.88[JPT][hapmap];0.95[LWK][hapmap];0.98[MKK][hapmap];0.84[YRI][hapmap];0.89[AFR][1000 genomes];0.99[ASN][1000 genomes]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs4756055	ARHGAP1	cis	parietal	SCAN
rs4756055	C11orf96	cis	parietal	SCAN

Chromatin state (count:110 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:46073800-46122200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr11:46079000-46128200	Weak transcription	Aorta	Aorta
3	chr11:46094400-46128200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr11:46106400-46131800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
5	chr11:46109600-46122200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
6	chr11:46111600-46130400	Weak transcription	Fetal Stomach	stomach
7	chr11:46112600-46130400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
8	chr11:46113600-46126600	Weak transcription	Primary neutrophils fromperipheralblood	blood
9	chr11:46118200-46123000	Enhancers	Colon Smooth Muscle	Colon
10	chr11:46118800-46128200	Weak transcription	Spleen	Spleen
11	chr11:46119000-46123200	Weak transcription	Left Ventricle	heart
12	chr11:46119000-46123600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
13	chr11:46119000-46126600	Weak transcription	Lung	lung
14	chr11:46119000-46126600	Weak transcription	Pancreas	Pancrea
15	chr11:46119000-46128200	Weak transcription	Gastric	stomach
16	chr11:46119000-46131200	Weak transcription	Esophagus	oesophagus
17	chr11:46119400-46122800	Enhancers	Cortex derived primary cultured neurospheres	brain
18	chr11:46119600-46122800	Enhancers	Brain Hippocampus Middle	brain
19	chr11:46119600-46122800	Enhancers	Fetal Lung	lung
20	chr11:46119600-46122800	Enhancers	Skeletal Muscle Male	skeletal muscle
21	chr11:46120200-46122400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
22	chr11:46120200-46122600	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
23	chr11:46120200-46122800	Enhancers	Primary mononuclear cells fromperipheralblood	Blood
24	chr11:46120200-46122800	Enhancers	Brain Substantia Nigra	brain
25	chr11:46120200-46122800	Enhancers	Fetal Adrenal Gland	Adrenal Gland
26	chr11:46120400-46122400	Enhancers	Primary T killer naive cells fromperipheralblood	blood
27	chr11:46120400-46122600	Enhancers	Rectal Smooth Muscle	rectum
28	chr11:46120400-46122800	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
29	chr11:46120400-46124800	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
30	chr11:46120600-46122600	Enhancers	Primary B cells from cord blood	blood
31	chr11:46120800-46122200	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
32	chr11:46120800-46122200	Flanking Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
33	chr11:46120800-46122400	Enhancers	Psoas Muscle	Psoas
34	chr11:46120800-46122600	Enhancers	Small Intestine	intestine
35	chr11:46120800-46122800	Enhancers	iPS-15b Cell Line	embryonic stem cell
36	chr11:46120800-46122800	Enhancers	Breast Myoepithelial Primary Cells	Breast
37	chr11:46120800-46122800	Enhancers	Primary B cells from peripheral blood	blood
38	chr11:46120800-46122800	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
39	chr11:46120800-46122800	Enhancers	Skeletal Muscle Female	skeletal muscle
40	chr11:46120800-46123000	Flanking Active TSS	GM12878-XiMat	blood
41	chr11:46121000-46122200	Enhancers	HUES48 Cell Line	embryonic stem cell
42	chr11:46121000-46122200	Active TSS	Rectal Mucosa Donor 29	rectum
43	chr11:46121000-46122600	Enhancers	Sigmoid Colon	Sigmoid Colon
44	chr11:46121000-46122800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
45	chr11:46121200-46122200	Weak transcription	Fetal Heart	heart
46	chr11:46121200-46122200	Active TSS	NHDF-Ad	bronchial
47	chr11:46121200-46122400	Weak transcription	Brain Inferior Temporal Lobe	brain
48	chr11:46121200-46122400	Weak transcription	HSMMtube	muscle
49	chr11:46121200-46122600	Enhancers	iPS-18 Cell Line	embryonic stem cell
50	chr11:46121200-46122600	Enhancers	iPS-20b Cell Line	embryonic stem cell

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