Variant report

Variant	rs9516895
Chromosome Location	chr13:97940992-97940993
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	chr13:97912350..97913976-chr13:97940580..97942468,2	MCF-7	breast:
2	chr13:97940763..97942613-chr13:97953141..97954942,2	MCF-7	breast:

Extended variants
information (count: 29 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10508030	0.89[ASW][hapmap]
rs10508031	0.89[ASW][hapmap]
rs12864731	0.89[ASW][hapmap];1.00[CEU][hapmap];0.85[CHB][hapmap];1.00[CHD][hapmap];0.89[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.84[MKK][hapmap];0.84[TSI][hapmap];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1328834	1.00[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs16954000	1.00[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs17235614	0.85[CHB][hapmap];1.00[CHD][hapmap];0.90[JPT][hapmap];0.81[ASN][1000 genomes]
rs17301362	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2389823	0.81[ASW][hapmap];0.85[CEU][hapmap];0.96[GIH][hapmap];1.00[YRI][hapmap]
rs35039622	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs35538229	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs56940858	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs58421118	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs61255793	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7320723	0.86[GIH][hapmap]
rs7321962	0.86[GIH][hapmap]
rs7999038	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9513227	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs9513228	1.00[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9513229	1.00[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9513230	1.00[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9513231	0.85[CHB][hapmap];0.90[JPT][hapmap];0.90[ASN][1000 genomes]
rs9516891	1.00[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9516896	1.00[CEU][hapmap];0.85[CHB][hapmap];0.90[JPT][hapmap];0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9516897	0.89[ASW][hapmap];1.00[CEU][hapmap];0.85[CHB][hapmap];1.00[CHD][hapmap];0.89[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.89[MKK][hapmap];0.84[TSI][hapmap];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9516898	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9516899	1.00[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs953504	0.89[ASW][hapmap];1.00[CEU][hapmap];0.85[CHB][hapmap];1.00[CHD][hapmap];0.89[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.94[MKK][hapmap];0.84[TSI][hapmap];0.92[AFR][1000 genomes];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[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	nsv1045777	chr13:97875574-97955134	Enhancers Weak transcription Genic enhancers Flanking Active TSS Active TSS Bivalent Enhancer Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
2	nsv832694	chr13:97930561-98137882	ZNF genes & repeats Weak transcription Strong transcription Enhancers Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:97914200-97960200	Weak transcription	Fetal Brain Male	brain
2	chr13:97925800-97987200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
3	chr13:97929000-97947200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
4	chr13:97929400-97955000	Weak transcription	Fetal Muscle Trunk	muscle
5	chr13:97929600-97953400	Weak transcription	Primary T cells fromperipheralblood	blood
6	chr13:97929800-97953200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
7	chr13:97929800-97953400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
8	chr13:97931000-97953600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
9	chr13:97931200-97949000	Weak transcription	Primary hematopoietic stem cells	blood
10	chr13:97932200-97941200	Enhancers	Brain Substantia Nigra	brain
11	chr13:97933000-97947800	Weak transcription	Rectal Mucosa Donor 29	rectum
12	chr13:97933000-97953600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
13	chr13:97933200-97943000	Weak transcription	Osteobl	bone
14	chr13:97933200-97946600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
15	chr13:97933200-97946600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
16	chr13:97933200-97947400	Weak transcription	Duodenum Mucosa	Duodenum
17	chr13:97933200-97949600	Weak transcription	Primary B cells from peripheral blood	blood
18	chr13:97933200-97970400	Weak transcription	Placenta	Placenta
19	chr13:97933400-97952400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
20	chr13:97933600-97943200	Enhancers	Brain Hippocampus Middle	brain
21	chr13:97933600-97949200	Weak transcription	K562	blood
22	chr13:97933600-97953600	Weak transcription	Primary T helper cells fromperipheralblood	blood
23	chr13:97933800-97947000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
24	chr13:97934000-97954400	Weak transcription	Primary T helper cells PMA-I stimulated	--
25	chr13:97935600-97943000	Weak transcription	Esophagus	oesophagus
26	chr13:97935600-97947000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
27	chr13:97935600-97947200	Weak transcription	NHDF-Ad	bronchial
28	chr13:97935600-97954800	Weak transcription	Colonic Mucosa	Colon
29	chr13:97935800-97943000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
30	chr13:97935800-97943000	Weak transcription	NH-A	brain
31	chr13:97935800-97947400	Weak transcription	Stomach Mucosa	stomach
32	chr13:97935800-97949400	Weak transcription	Primary B cells from cord blood	blood
33	chr13:97936200-97942000	Weak transcription	Placenta Amnion	Placenta Amnion
34	chr13:97936200-97943000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
35	chr13:97936200-97947200	Weak transcription	Aorta	Aorta
36	chr13:97936400-97942200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
37	chr13:97936400-97943000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
38	chr13:97936400-97943000	Weak transcription	HMEC	breast
39	chr13:97936600-97942400	Weak transcription	GM12878-XiMat	blood
40	chr13:97936800-97941800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
41	chr13:97936800-97946800	Weak transcription	Adipose Nuclei	Adipose
42	chr13:97936800-97947200	Weak transcription	Fetal Stomach	stomach
43	chr13:97936800-97949400	Weak transcription	Ovary	ovary
44	chr13:97936800-97949400	Weak transcription	Monocytes-CD14+_RO01746	blood
45	chr13:97936800-97952200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
46	chr13:97937000-97951400	Weak transcription	Primary monocytes fromperipheralblood	blood
47	chr13:97937200-97947600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
48	chr13:97937600-97943000	Weak transcription	Muscle Satellite Cultured Cells	--
49	chr13:97938000-97947600	Weak transcription	Fetal Lung	lung
50	chr13:97938200-97945800	Weak transcription	HUVEC	blood vessel

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