Variant report

Variant	rs2659537
Chromosome Location	chr4:102122636-102122637
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	chr4:102121617..102124341-chr4:102190145..102192909,2	MCF-7	breast:

Extended variants
information (count: 35 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs1354785	0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1395475	0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1506799	0.86[AMR][1000 genomes];0.81[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1506800	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1506802	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1506803	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1543856	0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2659506	0.90[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2659508	0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2659509	0.91[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2659511	0.91[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2659512	0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2659513	0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2659532	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2659533	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2659534	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2659538	0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2659539	0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2659540	0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2659541	0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2659542	0.92[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2850985	0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2850987	0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2850989	0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2850990	0.85[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2850991	0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2850994	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2850995	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3804366	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv931418	chr4:101500167-102443207	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
2	nsv999741	chr4:102009017-102454115	Enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	7 gene(s)	inside rSNPs	diseases
3	nsv537199	chr4:102009017-102454115	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	7 gene(s)	inside rSNPs	diseases
4	nsv1004766	chr4:102009017-102713765	Flanking Active TSS Enhancers Weak transcription Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA	8 gene(s)	inside rSNPs	diseases
5	nsv537200	chr4:102009017-102713765	Weak transcription Flanking Active TSS Enhancers Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	8 gene(s)	inside rSNPs	diseases
6	nsv1011351	chr4:102056024-102450302	Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:72 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:102105400-102126200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
2	chr4:102107600-102126600	Weak transcription	Primary T cells fromperipheralblood	blood
3	chr4:102109200-102126200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
4	chr4:102113200-102124400	Weak transcription	Pancreas	Pancrea
5	chr4:102113600-102122800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
6	chr4:102113800-102122800	Weak transcription	Right Atrium	heart
7	chr4:102113800-102126200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
8	chr4:102113800-102127200	Weak transcription	H9 Cell Line	embryonic stem cell
9	chr4:102113800-102131800	Weak transcription	HUES64 Cell Line	embryonic stem cell
10	chr4:102117200-102125800	Weak transcription	Dnd41	blood
11	chr4:102117200-102126200	Weak transcription	Primary T helper cells fromperipheralblood	blood
12	chr4:102117600-102123000	Enhancers	HepG2	liver
13	chr4:102117800-102124200	Enhancers	Pancreatic Islets	Pancreatic Islet
14	chr4:102118000-102132600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
15	chr4:102118200-102126800	Weak transcription	Primary hematopoietic stem cells	blood
16	chr4:102118800-102126200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
17	chr4:102119400-102122800	Enhancers	Primary T helper cells PMA-I stimulated	--
18	chr4:102119400-102123200	Enhancers	Primary B cells from peripheral blood	blood
19	chr4:102119400-102123200	Enhancers	Sigmoid Colon	Sigmoid Colon
20	chr4:102119400-102123200	Enhancers	Skeletal Muscle Male	skeletal muscle
21	chr4:102119400-102123200	Enhancers	Skeletal Muscle Female	skeletal muscle
22	chr4:102119600-102126200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
23	chr4:102120000-102122800	Enhancers	Duodenum Mucosa	Duodenum
24	chr4:102120000-102131400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
25	chr4:102120200-102122800	Weak transcription	Gastric	stomach
26	chr4:102120200-102122800	Weak transcription	Left Ventricle	heart
27	chr4:102120200-102123200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
28	chr4:102120200-102125200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
29	chr4:102120400-102123200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
30	chr4:102120600-102122800	Enhancers	HUVEC	blood vessel
31	chr4:102120600-102123200	Enhancers	NHLF	lung
32	chr4:102120600-102126600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
33	chr4:102120800-102122800	Enhancers	Muscle Satellite Cultured Cells	--
34	chr4:102120800-102123000	Enhancers	NH-A	brain
35	chr4:102120800-102123200	Enhancers	Small Intestine	intestine
36	chr4:102121000-102122800	Enhancers	Hela-S3	cervix
37	chr4:102121000-102123000	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
38	chr4:102121000-102123200	Enhancers	HMEC	breast
39	chr4:102121000-102126600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
40	chr4:102121200-102122800	Enhancers	Primary monocytes fromperipheralblood	blood
41	chr4:102121200-102123000	Enhancers	Monocytes-CD14+_RO01746	blood
42	chr4:102121200-102123200	Enhancers	Ovary	ovary
43	chr4:102121200-102123200	Enhancers	Psoas Muscle	Psoas
44	chr4:102121200-102123200	Enhancers	NHEK	skin
45	chr4:102121600-102123200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
46	chr4:102121600-102123400	Enhancers	Primary neutrophils fromperipheralblood	blood
47	chr4:102121600-102127000	Weak transcription	Brain Hippocampus Middle	brain
48	chr4:102121800-102123000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
49	chr4:102121800-102123000	Weak transcription	Stomach Mucosa	stomach
50	chr4:102121800-102123000	Enhancers	NHDF-Ad	bronchial

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