Variant report

Variant	rs9806257
Chromosome Location	chr15:78395362-78395363
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:78389206..78391508-chr15:78393451..78395983,2	MCF-7	breast:
2	chr15:78394209..78398078-chr15:78398123..78400882,3	MCF-7	breast:
3	chr15:78372548..78375148-chr15:78394682..78397059,2	MCF-7	breast:

Extended variants
information (count: 26 )
Associated
traits (count: 5 )

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs11072727	0.84[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11072728	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.87[JPT][hapmap];0.81[TSI][hapmap];0.84[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11072729	0.92[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.81[JPT][hapmap];0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11639461	0.81[ASN][1000 genomes]
rs12440984	0.83[CEU][hapmap]
rs16969507	0.93[CHB][hapmap];0.91[CHD][hapmap]
rs16969508	0.93[CHB][hapmap];0.91[CHD][hapmap]
rs16969514	0.93[CHB][hapmap];0.91[CHD][hapmap];0.81[JPT][hapmap]
rs1971151	0.86[CHB][hapmap];0.81[JPT][hapmap]
rs2289524	0.83[LWK][hapmap]
rs2304829	0.91[CEU][hapmap];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2867922	0.93[CHB][hapmap];0.91[CHD][hapmap];0.81[ASN][1000 genomes]
rs3784328	0.86[CHB][hapmap]
rs59999498	0.84[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs62009267	0.81[ASN][1000 genomes]
rs62009270	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62009271	0.84[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6495273	0.91[CEU][hapmap];0.88[AMR][1000 genomes];0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7162025	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7164338	0.92[CEU][hapmap];1.00[CHB][hapmap];0.87[JPT][hapmap];0.81[TSI][hapmap];0.84[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs72732564	0.81[ASN][1000 genomes]
rs7359294	0.86[CHB][hapmap]
rs8028859	0.88[AMR][1000 genomes];0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs8032449	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs8036417	0.86[CHB][hapmap];0.91[CHD][hapmap];0.81[JPT][hapmap]

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	nsv529491	chr15:77932659-78751516	Genic enhancers Bivalent Enhancer Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	80 gene(s)	inside rSNPs	diseases

mRNA abundance (count:5)

SNP	Gene	Cis/trans	Tissue	Source
rs9806257	CIB2	cis	Esophagus Mucosa	GTEx
rs9806257	CIB2	cis	Liver	GTEx
rs9806257	CIB2	cis	lymphoblastoid	seeQTL
rs9806257	PPCDC	cis	cerebellum	SCAN
rs9806257	CIB2	cis	Muscle Skeletal	GTEx

Chromatin state (count:54 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:78385200-78400600	Weak transcription	Pancreas	Pancrea
2	chr15:78385600-78395400	Weak transcription	Spleen	Spleen
3	chr15:78386200-78396000	Weak transcription	Gastric	stomach
4	chr15:78386600-78396400	Weak transcription	Fetal Lung	lung
5	chr15:78386800-78396000	Weak transcription	Right Atrium	heart
6	chr15:78387000-78395400	Weak transcription	Fetal Stomach	stomach
7	chr15:78387200-78395400	Weak transcription	Fetal Intestine Large	intestine
8	chr15:78390000-78395600	Strong transcription	Fetal Intestine Small	intestine
9	chr15:78391000-78395800	Weak transcription	Fetal Brain Female	brain
10	chr15:78391200-78396000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
11	chr15:78391800-78397000	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
12	chr15:78392000-78400600	Strong transcription	Thymus	Thymus
13	chr15:78393200-78397000	Weak transcription	HUES6 Cell Line	embryonic stem cell
14	chr15:78393200-78398000	Weak transcription	H1 Cell Line	embryonic stem cell
15	chr15:78393200-78406000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
16	chr15:78393400-78401200	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
17	chr15:78393800-78399200	Enhancers	Primary T cells fromperipheralblood	blood
18	chr15:78394200-78395800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
19	chr15:78394200-78395800	Weak transcription	Stomach Smooth Muscle	stomach
20	chr15:78394200-78399200	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
21	chr15:78394400-78395800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
22	chr15:78394400-78396000	Weak transcription	Brain Germinal Matrix	brain
23	chr15:78394600-78398600	Enhancers	Primary T killer memory cells from peripheral blood	blood
24	chr15:78394600-78398800	Enhancers	Primary T helper naive cells from peripheral blood	blood
25	chr15:78394800-78395800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
26	chr15:78394800-78396000	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
27	chr15:78394800-78397400	Weak transcription	Cortex derived primary cultured neurospheres	brain
28	chr15:78394800-78398600	Enhancers	Primary T helper naive cells fromperipheralblood	blood
29	chr15:78394800-78398600	Enhancers	Primary T helper cells PMA-I stimulated	--
30	chr15:78394800-78398800	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
31	chr15:78394800-78398800	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
32	chr15:78394800-78398800	Enhancers	Primary T killer naive cells fromperipheralblood	blood
33	chr15:78394800-78399000	Enhancers	Primary T helper cells fromperipheralblood	blood
34	chr15:78395000-78396000	Enhancers	Primary T cells from cord blood	blood
35	chr15:78395000-78396200	Enhancers	Colonic Mucosa	Colon
36	chr15:78395000-78396600	Enhancers	Placenta Amnion	Placenta Amnion
37	chr15:78395000-78397000	Enhancers	Dnd41	blood
38	chr15:78395000-78397200	Enhancers	Rectal Mucosa Donor 29	rectum
39	chr15:78395000-78398600	Enhancers	Primary hematopoietic stem cells short term culture	blood
40	chr15:78395000-78398800	Enhancers	Primary T regulatory cells fromperipheralblood	blood
41	chr15:78395000-78405600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
42	chr15:78395200-78395400	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
43	chr15:78395200-78395400	Enhancers	Placenta	Placenta
44	chr15:78395200-78395800	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
45	chr15:78395200-78395800	Enhancers	GM12878-XiMat	blood
46	chr15:78395200-78396400	Enhancers	Skeletal Muscle Female	skeletal muscle
47	chr15:78395200-78396600	Enhancers	Primary neutrophils fromperipheralblood	blood
48	chr15:78395200-78397600	Enhancers	Fetal Muscle Leg	muscle
49	chr15:78395200-78398000	Enhancers	Esophagus	oesophagus
50	chr15:78395200-78398200	Bivalent Enhancer	Fetal Muscle Trunk	muscle

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