Variant report

Variant	rs56028701
Chromosome Location	chr9:95751139-95751140
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:11)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:11 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr9:95750405..95751264-chr9:95834116..95834978,4	MCF-7	breast:
2	chr9:95749653..95752531-chr9:95761934..95764790,2	MCF-7	breast:
3	chr9:95750467..95751323-chr9:95815429..95816314,2	MCF-7	breast:
4	chr9:95750295..95753959-chr9:95856034..95859427,4	MCF-7	breast:
5	chr9:95750713..95751415-chr9:95766501..95767049,2	MCF-7	breast:
6	chr9:95750988..95753195-chr9:95764358..95766231,2	MCF-7	breast:
7	chr9:95735773..95738938-chr9:95746079..95753670,13	MCF-7	breast:
8	chr9:95751099..95753826-chr9:95754095..95756433,2	MCF-7	breast:
9	chr9:95744507..95747360-chr9:95750258..95753715,3	MCF-7	breast:
10	chr9:95746898..95754225-chr9:95890814..95897960,9	MCF-7	breast:
11	chr9:95751115..95753216-chr9:95762074..95764043,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000223446	Chromatin interaction
ENSG00000127084	Chromatin interaction
ENSG00000131669	Chromatin interaction
ENSG00000165233	Chromatin interaction

Extended variants
information (count: 9 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:7)

rs_ID	r²[population]
rs56063226	1.00[AFR][1000 genomes]
rs58971964	0.92[AFR][1000 genomes]
rs60049410	0.92[AFR][1000 genomes]
rs73651345	0.92[AFR][1000 genomes]
rs73651346	0.92[AFR][1000 genomes]
rs73651349	0.84[AFR][1000 genomes]
rs73651350	0.92[AFR][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	nsv526296	chr9:95708192-96030392	Enhancers Bivalent/Poised TSS Weak transcription Active TSS Flanking Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
2	nsv1054767	chr9:95738134-95875977	Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Enhancers Genic enhancers Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:53 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:95735400-95752600	Genic enhancers	Primary T helper cells fromperipheralblood	blood
2	chr9:95740000-95754800	Weak transcription	Gastric	stomach
3	chr9:95740000-95754800	Weak transcription	Pancreas	Pancrea
4	chr9:95744400-95751400	Strong transcription	Primary monocytes fromperipheralblood	blood
5	chr9:95745800-95753200	Genic enhancers	Primary T regulatory cells fromperipheralblood	blood
6	chr9:95746200-95751400	Genic enhancers	Primary T helper naive cells fromperipheralblood	blood
7	chr9:95746400-95752600	Genic enhancers	Primary T cells from cord blood	blood
8	chr9:95746600-95752000	Strong transcription	Monocytes-CD14+_RO01746	blood
9	chr9:95747000-95752200	Genic enhancers	Primary T cells fromperipheralblood	blood
10	chr9:95747200-95752600	Genic enhancers	Primary Natural Killer cells fromperipheralblood	blood
11	chr9:95747600-95751400	Strong transcription	Dnd41	blood
12	chr9:95747800-95754600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
13	chr9:95748200-95756000	Genic enhancers	Primary T helper cells PMA-I stimulated	--
14	chr9:95748400-95751200	Enhancers	Placenta	Placenta
15	chr9:95749000-95751800	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
16	chr9:95749000-95752800	Enhancers	HepG2	liver
17	chr9:95749200-95752000	Strong transcription	Primary neutrophils fromperipheralblood	blood
18	chr9:95749200-95755600	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
19	chr9:95749800-95751200	ZNF genes & repeats	iPS-20b Cell Line	embryonic stem cell
20	chr9:95749800-95751200	Genic enhancers	Fetal Thymus	thymus
21	chr9:95749800-95751400	ZNF genes & repeats	ES-I3 Cell Line	embryonic stem cell
22	chr9:95749800-95751400	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
23	chr9:95749800-95751400	ZNF genes & repeats	Brain Germinal Matrix	brain
24	chr9:95750000-95751200	Genic enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
25	chr9:95750000-95751200	Enhancers	Esophagus	oesophagus
26	chr9:95750000-95751400	Enhancers	HMEC	breast
27	chr9:95750000-95752000	Enhancers	NHEK	skin
28	chr9:95750000-95753000	Genic enhancers	Primary T killer naive cells fromperipheralblood	blood
29	chr9:95750200-95751200	ZNF genes & repeats	HUES48 Cell Line	embryonic stem cell
30	chr9:95750200-95751400	ZNF genes & repeats	HUES6 Cell Line	embryonic stem cell
31	chr9:95750200-95751400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
32	chr9:95750200-95754800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
33	chr9:95750400-95751200	Enhancers	Breast Myoepithelial Primary Cells	Breast
34	chr9:95750400-95751200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
35	chr9:95750400-95751200	Genic enhancers	Primary hematopoietic stem cells short term culture	blood
36	chr9:95750400-95752000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
37	chr9:95750400-95752000	Enhancers	Hela-S3	cervix
38	chr9:95750600-95751200	Enhancers	Fetal Intestine Large	intestine
39	chr9:95750600-95752800	Enhancers	Thymus	Thymus
40	chr9:95750600-95753200	Strong transcription	Primary B cells from peripheral blood	blood
41	chr9:95750600-95754400	Enhancers	Primary T helper naive cells from peripheral blood	blood
42	chr9:95750600-95754800	Weak transcription	Spleen	Spleen
43	chr9:95750600-95755000	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
44	chr9:95750800-95751400	Strong transcription	Primary B cells from cord blood	blood
45	chr9:95750800-95752200	Enhancers	Primary hematopoietic stem cells	blood
46	chr9:95750800-95753200	Enhancers	iPS-15b Cell Line	embryonic stem cell
47	chr9:95750800-95754600	Enhancers	Primary T killer memory cells from peripheral blood	blood
48	chr9:95750800-95754600	Weak transcription	GM12878-XiMat	blood
49	chr9:95750800-95754800	Weak transcription	Lung	lung
50	chr9:95751000-95751200	Enhancers	H1 Cell Line	embryonic stem cell

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