Variant report

Variant	rs8041866
Chromosome Location	chr15:52096862-52096863
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:52095961..52098733-chr15:52121375..52123490,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000138594	Chromatin interaction

Extended variants
information (count: 93 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:91)

rs_ID	r²[population]
rs10444824	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10444825	0.90[AMR][1000 genomes];0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10851503	0.82[EUR][1000 genomes]
rs11070868	0.83[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs11070869	0.85[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs11630579	0.97[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11630943	0.85[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs11631858	0.97[AMR][1000 genomes];0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11636869	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11637876	0.88[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12050524	0.97[AMR][1000 genomes];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12591672	0.80[EUR][1000 genomes]
rs12593708	0.82[EUR][1000 genomes]
rs12901638	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs12904413	0.87[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs12904900	0.87[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs12905283	0.84[EUR][1000 genomes]
rs12908327	0.81[EUR][1000 genomes]
rs12912928	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12913583	0.88[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12913850	0.82[EUR][1000 genomes]
rs12915015	0.81[EUR][1000 genomes]
rs12915568	0.80[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs17526463	0.86[AFR][1000 genomes];0.99[AMR][1000 genomes];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs17526760	0.80[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs17610862	0.87[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs17611193	0.86[AFR][1000 genomes];0.99[AMR][1000 genomes];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1840708	0.80[ASN][1000 genomes]
rs1863430	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2006773	0.82[EUR][1000 genomes]
rs2007335	0.80[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2007355	0.80[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2010026	0.86[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs2011995	0.81[EUR][1000 genomes]
rs2034856	0.89[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs2052708	0.81[EUR][1000 genomes]
rs2252831	0.82[EUR][1000 genomes]
rs2303443	0.85[AMR][1000 genomes]
rs2436655	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs2436662	0.82[EUR][1000 genomes]
rs2554314	0.86[AFR][1000 genomes];0.99[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2554327	0.82[EUR][1000 genomes]
rs2554328	0.82[EUR][1000 genomes]
rs2554353	0.82[EUR][1000 genomes]
rs2570238	0.82[EUR][1000 genomes]
rs2570239	0.82[EUR][1000 genomes]
rs2570248	0.82[EUR][1000 genomes]
rs2623271	0.82[EUR][1000 genomes]
rs2912186	0.80[EUR][1000 genomes]
rs2916169	0.80[EUR][1000 genomes]
rs2929423	0.80[EUR][1000 genomes]
rs2929426	0.82[ASN][1000 genomes]
rs2959285	0.80[AMR][1000 genomes]
rs2959307	0.80[AMR][1000 genomes]
rs34504520	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs35270232	0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs35823585	0.87[AMR][1000 genomes];0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs3794532	0.85[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs55887408	0.89[AMR][1000 genomes]
rs56148956	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs56185947	0.86[AFR][1000 genomes];0.99[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs62016192	0.80[EUR][1000 genomes]
rs6493520	0.87[AMR][1000 genomes];0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6493521	0.90[AMR][1000 genomes];0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6493525	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs6493526	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs67895020	0.85[AMR][1000 genomes]
rs7162176	0.80[AMR][1000 genomes]
rs7163541	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs7164961	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7170091	0.97[AMR][1000 genomes];0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7170910	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7171516	0.97[AMR][1000 genomes];0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7171796	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7175017	0.81[AMR][1000 genomes]
rs7178561	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7178776	0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7178940	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7179599	0.90[AMR][1000 genomes];0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7182917	0.83[AMR][1000 genomes]
rs726158	0.85[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs8024585	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs8026521	0.83[EUR][1000 genomes]
rs8028486	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs8028922	0.89[AMR][1000 genomes];0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs8033433	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs8035126	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs8038344	0.81[EUR][1000 genomes]
rs8040975	0.80[ASN][1000 genomes]
rs8040991	0.82[EUR][1000 genomes]
rs9944235	0.84[AMR][1000 genomes];0.83[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv569409	chr15:52028914-52268144	Strong transcription Weak transcription Flanking Active TSS Enhancers Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
2	esv3361968	chr15:52087428-52107237	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats	Chromatin interactive region miRNA target site	2 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:87 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:52052200-52101800	Weak transcription	Colonic Mucosa	Colon
2	chr15:52052600-52106600	Weak transcription	HSMM	muscle
3	chr15:52060200-52103400	Weak transcription	Rectal Mucosa Donor 31	rectum
4	chr15:52060800-52101200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
5	chr15:52060800-52102600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
6	chr15:52060800-52105400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
7	chr15:52061600-52112000	Weak transcription	NHLF	lung
8	chr15:52061800-52098600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
9	chr15:52074000-52100000	Weak transcription	NHDF-Ad	bronchial
10	chr15:52074800-52102800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
11	chr15:52076400-52098400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
12	chr15:52076800-52104400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
13	chr15:52077200-52098600	Weak transcription	Fetal Brain Male	brain
14	chr15:52079000-52098400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
15	chr15:52079200-52098600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
16	chr15:52080000-52099000	Weak transcription	Colon Smooth Muscle	Colon
17	chr15:52080800-52102600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
18	chr15:52085800-52105200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
19	chr15:52085800-52108800	Weak transcription	Pancreatic Islets	Pancreatic Islet
20	chr15:52086400-52098400	Weak transcription	Brain Substantia Nigra	brain
21	chr15:52089000-52106400	Weak transcription	HSMMtube	muscle
22	chr15:52089200-52107200	Strong transcription	Monocytes-CD14+_RO01746	blood
23	chr15:52089400-52099200	Weak transcription	Duodenum Mucosa	Duodenum
24	chr15:52089600-52101200	Weak transcription	Muscle Satellite Cultured Cells	--
25	chr15:52089800-52098400	Weak transcription	Fetal Intestine Large	intestine
26	chr15:52089800-52101000	Weak transcription	Fetal Intestine Small	intestine
27	chr15:52090400-52104400	Strong transcription	Primary monocytes fromperipheralblood	blood
28	chr15:52091000-52098200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
29	chr15:52091200-52098600	Weak transcription	Skeletal Muscle Male	skeletal muscle
30	chr15:52091200-52104600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
31	chr15:52091200-52109400	Weak transcription	Gastric	stomach
32	chr15:52091400-52098400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
33	chr15:52091400-52098400	Weak transcription	Esophagus	oesophagus
34	chr15:52091400-52098400	Weak transcription	Rectal Smooth Muscle	rectum
35	chr15:52091400-52099400	Weak transcription	Pancreas	Pancrea
36	chr15:52091400-52103600	Weak transcription	Rectal Mucosa Donor 29	rectum
37	chr15:52091600-52098200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
38	chr15:52091600-52098400	Weak transcription	Primary hematopoietic stem cells	blood
39	chr15:52091600-52098400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
40	chr15:52091600-52098600	Weak transcription	Spleen	Spleen
41	chr15:52091800-52098400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
42	chr15:52091800-52098400	Weak transcription	Aorta	Aorta
43	chr15:52091800-52098400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
44	chr15:52091800-52108200	Weak transcription	Sigmoid Colon	Sigmoid Colon
45	chr15:52092000-52097200	Weak transcription	Primary T helper cells fromperipheralblood	blood
46	chr15:52092000-52098200	Weak transcription	Primary neutrophils fromperipheralblood	blood
47	chr15:52092000-52098400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
48	chr15:52092000-52098400	Weak transcription	Brain Angular Gyrus	brain
49	chr15:52092000-52098400	Weak transcription	Brain Anterior Caudate	brain
50	chr15:52092000-52098400	Weak transcription	Fetal Muscle Trunk	muscle

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