Variant report

Variant	rs2450468
Chromosome Location	chr10:61634056-61634057
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:12)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:12 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr10:61633677..61637740-chr10:61638115..61642166,4	K562	blood:
2	chr10:61632812..61634893-chr10:61666626..61669207,2	K562	blood:
3	chr10:61631763..61634620-chr10:61659289..61660920,2	MCF-7	breast:
4	chr10:61631384..61634848-chr10:61664834..61667747,10	MCF-7	breast:
5	chr10:61631791..61635794-chr10:61666340..61668454,4	K562	blood:
6	chr10:61633143..61635751-chr10:61635824..61637359,2	K562	blood:
7	chr10:61633082..61635671-chr10:61637536..61639687,3	MCF-7	breast:
8	chr10:61632537..61634435-chr10:61640656..61642857,2	MCF-7	breast:
9	chr10:61632628..61634680-chr10:61647299..61649721,2	K562	blood:
10	chr10:61628499..61631972-chr10:61632717..61636046,5	K562	blood:
11	chr10:61632628..61635950-chr10:61647299..61651205,3	K562	blood:
12	chr10:61628076..61632189-chr10:61632717..61638646,7	K562	blood:

No data

Variant related genes	Relation type
ENSG00000108091	Chromatin interaction

Extended variants
information (count: 42 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs10509114	0.87[MEX][hapmap]
rs1171787	0.80[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs1171820	0.89[GIH][hapmap]
rs1171833	0.88[CEU][hapmap];1.00[CHB][hapmap];0.94[CHD][hapmap];0.88[GIH][hapmap];1.00[JPT][hapmap];0.88[MEX][hapmap];0.87[TSI][hapmap]
rs1180657	0.80[GIH][hapmap]
rs1184089	0.89[GIH][hapmap]
rs12573055	0.95[CEU][hapmap]
rs12776024	0.85[CHB][hapmap]
rs1624715	0.92[CEU][hapmap];1.00[CHB][hapmap];0.88[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1627130	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1627152	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1628136	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1664254	0.90[CEU][hapmap];1.00[CHB][hapmap];0.86[JPT][hapmap];0.86[AMR][1000 genomes];0.85[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1664257	1.00[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.90[LWK][hapmap];0.94[MEX][hapmap];0.95[MKK][hapmap];0.82[TSI][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.92[AMR][1000 genomes];0.86[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1664258	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.95[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]
rs1664260	1.00[ASW][hapmap];1.00[CEU][hapmap];0.93[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.97[MKK][hapmap];0.97[TSI][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1664261	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1664262	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.97[MKK][hapmap];1.00[TSI][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]
rs1664263	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1664276	0.84[CEU][hapmap]
rs1684898	0.81[CEU][hapmap];1.00[CHB][hapmap];0.94[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.87[MEX][hapmap];0.82[TSI][hapmap];0.86[AMR][1000 genomes];0.84[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1684900	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];0.83[MEX][hapmap];0.80[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1684902	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]
rs1684903	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1684914	0.85[JPT][hapmap]
rs17202345	0.80[EUR][1000 genomes]
rs17202600	0.87[MEX][hapmap];0.81[AMR][1000 genomes]
rs17790901	0.81[MEX][hapmap]
rs17791484	0.87[MEX][hapmap]
rs1972950	0.96[CEU][hapmap];0.94[MEX][hapmap];1.00[TSI][hapmap]
rs2440906	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2440908	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2440909	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2440910	0.91[ASW][hapmap];0.96[CEU][hapmap];1.00[CHB][hapmap];0.94[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.90[LWK][hapmap];1.00[MEX][hapmap];0.95[MKK][hapmap];1.00[TSI][hapmap];0.85[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2440911	0.85[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2440918	0.83[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];0.82[TSI][hapmap]
rs2450469	0.96[AFR][1000 genomes];0.90[AMR][1000 genomes];0.84[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2450471	0.85[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3763745	0.81[MEX][hapmap]
rs3793866	0.84[CEU][hapmap]
rs4146652	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs895243	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[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];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs2450468	SLC16A9	cis	cerebellum	SCAN

Chromatin state (count:106 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:61583200-61640600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr10:61608000-61637200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr10:61624800-61641000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
4	chr10:61625000-61638800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
5	chr10:61625000-61655400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr10:61625200-61639200	Weak transcription	Primary hematopoietic stem cells	blood
7	chr10:61628600-61638600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
8	chr10:61629000-61634200	Weak transcription	HepG2	liver
9	chr10:61629800-61635400	Enhancers	Brain Hippocampus Middle	brain
10	chr10:61630000-61647800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
11	chr10:61631000-61635600	Enhancers	H1 Cell Line	embryonic stem cell
12	chr10:61631200-61634400	Enhancers	Stomach Mucosa	stomach
13	chr10:61631200-61635600	Enhancers	HUES48 Cell Line	embryonic stem cell
14	chr10:61631400-61634600	Enhancers	Small Intestine	intestine
15	chr10:61631400-61634800	Enhancers	Sigmoid Colon	Sigmoid Colon
16	chr10:61631400-61635200	Enhancers	iPS-20b Cell Line	embryonic stem cell
17	chr10:61631400-61635800	Enhancers	iPS-18 Cell Line	embryonic stem cell
18	chr10:61631600-61634400	Enhancers	Primary T killer memory cells from peripheral blood	blood
19	chr10:61631600-61634400	Enhancers	Cortex derived primary cultured neurospheres	brain
20	chr10:61631600-61634600	Enhancers	Primary B cells from cord blood	blood
21	chr10:61631600-61635600	Enhancers	iPS-15b Cell Line	embryonic stem cell
22	chr10:61631800-61634600	Enhancers	Pancreas	Pancrea
23	chr10:61631800-61634800	Enhancers	HUES6 Cell Line	embryonic stem cell
24	chr10:61631800-61635000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
25	chr10:61631800-61635000	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
26	chr10:61631800-61635200	Enhancers	HUES64 Cell Line	embryonic stem cell
27	chr10:61632000-61634400	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
28	chr10:61632000-61634600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
29	chr10:61632000-61634600	Enhancers	Left Ventricle	heart
30	chr10:61632000-61634800	Enhancers	Brain Cingulate Gyrus	brain
31	chr10:61632000-61635000	Enhancers	ES-I3 Cell Line	embryonic stem cell
32	chr10:61632400-61634400	Active TSS	Aorta	Aorta
33	chr10:61632400-61635400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
34	chr10:61632600-61634400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
35	chr10:61632600-61635000	Enhancers	Brain Substantia Nigra	brain
36	chr10:61632800-61634800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
37	chr10:61632800-61635000	Enhancers	Primary T helper cells PMA-I stimulated	--
38	chr10:61633000-61634400	Active TSS	Pancreatic Islets	Pancreatic Islet
39	chr10:61633000-61635000	Enhancers	Brain Anterior Caudate	brain
40	chr10:61633000-61637600	Weak transcription	Duodenum Smooth Muscle	Duodenum
41	chr10:61633000-61638200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
42	chr10:61633000-61638400	Weak transcription	Primary T cells from cord blood	blood
43	chr10:61633000-61638400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
44	chr10:61633000-61638400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
45	chr10:61633000-61639200	Weak transcription	Spleen	Spleen
46	chr10:61633000-61640600	Weak transcription	Gastric	stomach
47	chr10:61633200-61634200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
48	chr10:61633200-61634200	Weak transcription	Brain Inferior Temporal Lobe	brain
49	chr10:61633200-61634400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
50	chr10:61633200-61634600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin

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