Variant report

Variant	rs11165779
Chromosome Location	chr1:97564650-97564651
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	chr1:97563525..97565032-chr1:97567677..97569831,2	MCF-7	breast:

Extended variants
information (count: 13 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:9)

rs_ID	r²[population]
rs11165775	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs11165782	1.00[CEU][hapmap];0.98[MKK][hapmap];0.92[TSI][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs12135974	0.91[EUR][1000 genomes]
rs17116306	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6663838	1.00[CEU][hapmap];0.85[EUR][1000 genomes]
rs6667364	0.95[YRI][hapmap];0.90[AFR][1000 genomes]
rs6686861	1.00[CEU][hapmap];0.92[TSI][hapmap];0.95[YRI][hapmap];0.82[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs6697058	1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72963902	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv491816	chr1:97266403-98223619	Enhancers Strong transcription ZNF genes & repeats Weak transcription Flanking Active TSS Genic enhancers Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
2	nsv530048	chr1:97457175-98031501	Weak transcription Enhancers Strong transcription Genic enhancers ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv1007950	chr1:97466488-98021146	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
4	nsv830692	chr1:97501492-97625153	Enhancers Weak transcription Strong transcription ZNF genes & repeats Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:55 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:97538000-97603600	Weak transcription	Psoas Muscle	Psoas
2	chr1:97539600-97565000	Weak transcription	Duodenum Mucosa	Duodenum
3	chr1:97540000-97566800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
4	chr1:97540400-97575200	Weak transcription	Ovary	ovary
5	chr1:97542400-97584800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
6	chr1:97552600-97574600	Strong transcription	Monocytes-CD14+_RO01746	blood
7	chr1:97557600-97565000	Weak transcription	Brain Substantia Nigra	brain
8	chr1:97557600-97565000	Weak transcription	Stomach Smooth Muscle	stomach
9	chr1:97557600-97585000	Weak transcription	Brain Angular Gyrus	brain
10	chr1:97558000-97572200	Weak transcription	Brain Hippocampus Middle	brain
11	chr1:97558200-97569400	Strong transcription	Primary monocytes fromperipheralblood	blood
12	chr1:97558800-97568400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
13	chr1:97559600-97570400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
14	chr1:97559800-97570800	Weak transcription	Gastric	stomach
15	chr1:97560200-97567400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
16	chr1:97560200-97567600	Weak transcription	Fetal Stomach	stomach
17	chr1:97560200-97570200	Weak transcription	Aorta	Aorta
18	chr1:97560400-97566800	Weak transcription	HUES64 Cell Line	embryonic stem cell
19	chr1:97560400-97570200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
20	chr1:97560400-97573600	Weak transcription	NHDF-Ad	bronchial
21	chr1:97560600-97564800	Weak transcription	HUVEC	blood vessel
22	chr1:97560600-97571000	Weak transcription	NHLF	lung
23	chr1:97560600-97573600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
24	chr1:97560600-97573600	Weak transcription	Hela-S3	cervix
25	chr1:97560600-97573600	Weak transcription	HMEC	breast
26	chr1:97560800-97571400	Weak transcription	Fetal Intestine Large	intestine
27	chr1:97560800-97603600	Weak transcription	Pancreas	Pancrea
28	chr1:97561400-97566000	Strong transcription	Primary T helper cells PMA-I stimulated	--
29	chr1:97561400-97571400	Weak transcription	Skeletal Muscle Male	skeletal muscle
30	chr1:97562600-97572000	Weak transcription	Lung	lung
31	chr1:97562600-97586600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
32	chr1:97562800-97565200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
33	chr1:97563000-97565200	Weak transcription	Right Ventricle	heart
34	chr1:97563200-97571400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
35	chr1:97563200-97572800	Weak transcription	HSMM	muscle
36	chr1:97563400-97565000	Weak transcription	Left Ventricle	heart
37	chr1:97563400-97565000	Weak transcription	Skeletal Muscle Female	skeletal muscle
38	chr1:97563400-97565200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
39	chr1:97563400-97566600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
40	chr1:97563400-97570200	Weak transcription	Primary hematopoietic stem cells	blood
41	chr1:97563400-97570400	Weak transcription	Primary T cells from cord blood	blood
42	chr1:97563600-97565000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
43	chr1:97563600-97565200	Weak transcription	Adipose Nuclei	Adipose
44	chr1:97563600-97566600	Weak transcription	Primary T cells fromperipheralblood	blood
45	chr1:97563600-97569200	Weak transcription	Primary B cells from cord blood	blood
46	chr1:97563600-97594000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
47	chr1:97563600-97619200	Weak transcription	Dnd41	blood
48	chr1:97563800-97565800	Weak transcription	Primary neutrophils fromperipheralblood	blood
49	chr1:97563800-97570200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
50	chr1:97564000-97570200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived

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