Variant report

Variant	rs2863156
Chromosome Location	chr11:45188860-45188861
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr11:45167324..45169317-chr11:45187434..45189028,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000019485	Chromatin interaction

Extended variants
information (count: 30 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs1075293	0.91[GIH][hapmap]
rs1078931	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10838430	1.00[CEU][hapmap];0.92[TSI][hapmap];0.93[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs11038296	0.91[GIH][hapmap]
rs11038318	1.00[CHB][hapmap];1.00[GIH][hapmap]
rs11038359	0.82[EUR][1000 genomes]
rs12363092	1.00[CHB][hapmap]
rs12363331	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs12363718	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs1487719	1.00[GIH][hapmap]
rs16938170	1.00[CHB][hapmap]
rs2077427	0.91[GIH][hapmap]
rs2863160	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2863161	1.00[CEU][hapmap];1.00[CHB][hapmap];0.81[GIH][hapmap];0.82[MEX][hapmap];0.92[TSI][hapmap];0.89[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2863168	0.83[EUR][1000 genomes]
rs2863169	0.83[EUR][1000 genomes]
rs2863171	0.85[TSI][hapmap]
rs4531454	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs4755309	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs4755947	0.82[EUR][1000 genomes]
rs4755950	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6416127	0.82[TSI][hapmap]
rs7122974	0.84[GIH][hapmap]
rs7126559	0.82[EUR][1000 genomes]
rs73466442	0.83[EUR][1000 genomes]
rs7480089	1.00[CEU][hapmap];0.81[GIH][hapmap];0.92[TSI][hapmap];0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7943729	1.00[CEU][hapmap];0.96[YRI][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv825852	chr11:45141386-45228580	Bivalent/Poised TSS Genic enhancers Strong transcription Enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
2	nsv541025	chr11:45154352-45193352	Weak transcription Active TSS Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	9 gene(s)	inside rSNPs	diseases
3	nsv1048493	chr11:45166054-45205695	Enhancers Flanking Active TSS Bivalent/Poised TSS Weak transcription Strong transcription Bivalent Enhancer Genic enhancers Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	17 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs2863156	OR4X2	cis	parietal	SCAN

Chromatin state (count:35 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:45170000-45190000	Weak transcription	Primary B cells from cord blood	blood
2	chr11:45172400-45190000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
3	chr11:45180000-45193000	Weak transcription	Sigmoid Colon	Sigmoid Colon
4	chr11:45181600-45193600	Weak transcription	Fetal Intestine Large	intestine
5	chr11:45183600-45200400	Weak transcription	Esophagus	oesophagus
6	chr11:45183800-45190400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
7	chr11:45183800-45190800	Weak transcription	Rectal Smooth Muscle	rectum
8	chr11:45183800-45201200	Weak transcription	Gastric	stomach
9	chr11:45184200-45190000	Weak transcription	Fetal Lung	lung
10	chr11:45184800-45190000	Weak transcription	Pancreas	Pancrea
11	chr11:45185600-45190000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
12	chr11:45185800-45189800	Weak transcription	Lung	lung
13	chr11:45186000-45190600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
14	chr11:45186000-45193000	Weak transcription	Primary B cells from peripheral blood	blood
15	chr11:45186200-45189400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
16	chr11:45186400-45190200	Weak transcription	Colon Smooth Muscle	Colon
17	chr11:45186400-45190200	Weak transcription	Right Atrium	heart
18	chr11:45186400-45190400	Weak transcription	Left Ventricle	heart
19	chr11:45186400-45201200	Weak transcription	Brain Substantia Nigra	brain
20	chr11:45186600-45201400	Weak transcription	Fetal Brain Female	brain
21	chr11:45186800-45189600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
22	chr11:45186800-45190400	Weak transcription	Skeletal Muscle Female	skeletal muscle
23	chr11:45186800-45200600	Weak transcription	Brain Inferior Temporal Lobe	brain
24	chr11:45187000-45190400	Weak transcription	Right Ventricle	heart
25	chr11:45187200-45190400	Weak transcription	Skeletal Muscle Male	skeletal muscle
26	chr11:45187200-45190400	Weak transcription	Stomach Smooth Muscle	stomach
27	chr11:45187400-45189800	Weak transcription	Ovary	ovary
28	chr11:45187600-45189000	Weak transcription	Fetal Brain Male	brain
29	chr11:45187600-45190200	Weak transcription	Fetal Heart	heart
30	chr11:45187800-45190000	Weak transcription	Fetal Muscle Trunk	muscle
31	chr11:45188000-45190000	Weak transcription	Fetal Muscle Leg	muscle
32	chr11:45188200-45189200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
33	chr11:45188200-45190200	Weak transcription	Fetal Stomach	stomach
34	chr11:45188400-45189400	Weak transcription	Spleen	Spleen
35	chr11:45188400-45193400	Weak transcription	Fetal Intestine Small	intestine

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