Variant report

Variant	rs9556498
Chromosome Location	chr13:96438059-96438060
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr13:96437224..96440401-chr13:96442107..96444722,3	K562	blood:
2	chr13:96431368..96434044-chr13:96435858..96438220,2	MCF-7	breast:

Extended variants
information (count: 33 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs12583253	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12583374	0.81[ASN][1000 genomes]
rs12585001	0.81[ASN][1000 genomes]
rs12585954	0.83[ASN][1000 genomes]
rs17881101	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs17882362	0.84[ASN][1000 genomes]
rs2289812	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.96[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2289813	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.96[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3099358	1.00[YRI][hapmap]
rs3848075	1.00[CHB][hapmap];0.86[CHD][hapmap];0.96[GIH][hapmap];1.00[JPT][hapmap];0.92[MEX][hapmap];0.84[ASN][1000 genomes]
rs58498169	0.84[ASN][1000 genomes]
rs60253451	0.82[ASN][1000 genomes]
rs72632666	0.82[ASN][1000 genomes]
rs72632667	0.84[ASN][1000 genomes]
rs72632670	0.96[EUR][1000 genomes]
rs72632671	0.92[EUR][1000 genomes]
rs7335888	0.84[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7336750	1.00[CEU][hapmap];0.91[CHB][hapmap];0.96[GIH][hapmap];0.94[JPT][hapmap];1.00[LWK][hapmap];0.95[MKK][hapmap];1.00[TSI][hapmap];0.96[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9556494	0.82[ASN][1000 genomes]
rs9561925	0.86[JPT][hapmap]
rs9561933	1.00[CHB][hapmap];0.96[GIH][hapmap];1.00[JPT][hapmap];0.92[MEX][hapmap];0.84[ASN][1000 genomes]
rs9561938	1.00[CHB][hapmap];0.90[CHD][hapmap];0.96[GIH][hapmap];1.00[JPT][hapmap];0.92[MEX][hapmap];0.84[ASN][1000 genomes]
rs9561944	0.88[ASN][1000 genomes]
rs9561950	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9561952	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.93[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9561954	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9561958	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9561966	1.00[CEU][hapmap];0.91[CHB][hapmap];0.96[GIH][hapmap];0.94[JPT][hapmap];1.00[LWK][hapmap];0.95[MKK][hapmap];1.00[TSI][hapmap];0.96[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9561970	1.00[CEU][hapmap];0.91[CHB][hapmap];0.94[JPT][hapmap];0.96[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9561994	1.00[CEU][hapmap];0.90[CHB][hapmap];0.94[JPT][hapmap];0.96[EUR][1000 genomes]
rs9561997	1.00[CEU][hapmap];0.86[CHB][hapmap];0.92[JPT][hapmap];0.92[EUR][1000 genomes]
rs9669929	0.82[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv832690	chr13:96330757-96508077	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Strong transcription Genic enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:118 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:96394400-96438400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
2	chr13:96398400-96439400	Weak transcription	Brain Hippocampus Middle	brain
3	chr13:96404000-96439400	Weak transcription	Thymus	Thymus
4	chr13:96405400-96439400	Weak transcription	Brain Cingulate Gyrus	brain
5	chr13:96405400-96452600	Weak transcription	Psoas Muscle	Psoas
6	chr13:96405600-96455800	Weak transcription	Fetal Heart	heart
7	chr13:96407200-96439400	Weak transcription	Brain Anterior Caudate	brain
8	chr13:96408400-96443600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
9	chr13:96408600-96443200	Weak transcription	HUES48 Cell Line	embryonic stem cell
10	chr13:96408600-96445400	Weak transcription	K562	blood
11	chr13:96411400-96439400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
12	chr13:96412000-96443400	Weak transcription	Colonic Mucosa	Colon
13	chr13:96413200-96439800	Weak transcription	Cortex derived primary cultured neurospheres	brain
14	chr13:96414000-96443400	Weak transcription	Brain Angular Gyrus	brain
15	chr13:96414400-96443400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
16	chr13:96415600-96439400	Weak transcription	Brain Inferior Temporal Lobe	brain
17	chr13:96416200-96439200	Weak transcription	Brain Substantia Nigra	brain
18	chr13:96416200-96439200	Weak transcription	Fetal Muscle Trunk	muscle
19	chr13:96416200-96443400	Weak transcription	Skeletal Muscle Male	skeletal muscle
20	chr13:96416200-96445400	Weak transcription	Fetal Kidney	kidney
21	chr13:96416400-96440000	Weak transcription	HUES6 Cell Line	embryonic stem cell
22	chr13:96416400-96440200	Weak transcription	HepG2	liver
23	chr13:96417600-96438400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
24	chr13:96417600-96439400	Weak transcription	HUES64 Cell Line	embryonic stem cell
25	chr13:96417600-96439400	Weak transcription	Skeletal Muscle Female	skeletal muscle
26	chr13:96422200-96440600	Weak transcription	Fetal Lung	lung
27	chr13:96422400-96439400	Weak transcription	Small Intestine	intestine
28	chr13:96423800-96439600	Weak transcription	Esophagus	oesophagus
29	chr13:96429600-96444200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
30	chr13:96430000-96457400	Weak transcription	Brain Germinal Matrix	brain
31	chr13:96431000-96438400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
32	chr13:96431000-96439400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
33	chr13:96431600-96442400	Weak transcription	Fetal Brain Female	brain
34	chr13:96432400-96443000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
35	chr13:96433000-96453000	Weak transcription	Pancreatic Islets	Pancreatic Islet
36	chr13:96433600-96439200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
37	chr13:96433800-96438400	Weak transcription	Primary hematopoietic stem cells	blood
38	chr13:96433800-96438600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
39	chr13:96433800-96439000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
40	chr13:96433800-96439000	Weak transcription	Fetal Intestine Large	intestine
41	chr13:96433800-96439400	Weak transcription	Lung	lung
42	chr13:96433800-96439400	Weak transcription	Sigmoid Colon	Sigmoid Colon
43	chr13:96433800-96439400	Weak transcription	Spleen	Spleen
44	chr13:96434000-96438400	Weak transcription	Rectal Mucosa Donor 31	rectum
45	chr13:96434000-96438600	Weak transcription	Adipose Nuclei	Adipose
46	chr13:96434000-96439200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
47	chr13:96434000-96439200	Weak transcription	Rectal Mucosa Donor 29	rectum
48	chr13:96434200-96439600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
49	chr13:96434200-96441600	Weak transcription	Fetal Intestine Small	intestine
50	chr13:96434400-96438400	Weak transcription	Duodenum Mucosa	Duodenum

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