Variant report

Variant	rs11188255
Chromosome Location	chr10:97035475-97035476
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	GATA3	chr10:97035342-97036558	SK-N-SH	brain:	n/a	chr10:97035710-97035722
2	POLR2A	chr10:97035424-97035749	MCF10A-Er-Src	breast:	n/a	n/a
3	FOS	chr10:97035407-97035847	MCF10A-Er-Src	breast:	n/a	n/a
4	FOS	chr10:97035470-97035745	MCF10A-Er-Src	breast:	n/a	n/a
5	FOS	chr10:97035430-97035809	MCF10A-Er-Src	breast:	n/a	n/a
6	POLR2A	chr10:97035373-97035733	SK-N-SH	brain:	n/a	n/a
7	STAT3	chr10:97035223-97035634	MCF10A-Er-Src	breast:	n/a	n/a
8	STAT3	chr10:97035424-97035698	MCF10A-Er-Src	breast:	n/a	n/a
9	GATA3	chr10:97035347-97036088	SK-N-SH	brain:	n/a	chr10:97035710-97035722
10	FOS	chr10:97035427-97035754	MCF10A-Er-Src	breast:	n/a	n/a
11	NFIC	chr10:97035283-97035998	SK-N-SH	brain:	n/a	n/a
12	STAT3	chr10:97035404-97035758	MCF10A-Er-Src	breast:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr10:97030116..97038568-chr10:97046190..97052064,12	MCF-7	breast:
2	chr10:97033378..97035939-chr10:97049305..97051881,3	MCF-7	breast:
3	chr10:97034466..97036166-chr10:97046747..97048932,2	K562	blood:
4	chr10:97035457..97038031-chr10:97038055..97040397,3	MCF-7	breast:

Variant related genes	Relation type
PDLIM1	TF binding region
ENSG00000107438	Chromatin interaction

Extended variants
information (count: 15 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs10786195	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11188250	1.00[CHB][hapmap];0.92[EUR][1000 genomes]
rs11593722	1.00[CHB][hapmap];0.87[EUR][1000 genomes]
rs11594748	0.93[EUR][1000 genomes]
rs12775067	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs1385065	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs17110556	1.00[CHB][hapmap];0.87[EUR][1000 genomes]
rs2296961	1.00[CHB][hapmap];0.84[JPT][hapmap];0.92[EUR][1000 genomes]
rs35497513	0.93[EUR][1000 genomes]
rs4917683	0.84[JPT][hapmap]
rs4918905	0.92[EUR][1000 genomes]
rs4918908	0.92[EUR][1000 genomes]
rs58140424	0.80[AMR][1000 genomes];0.93[EUR][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	nsv529726	chr10:96632494-97106315	Strong transcription Enhancers Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
2	esv15160	chr10:96942869-97074756	Bivalent Enhancer Active TSS Strong transcription Enhancers Weak transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs11188255	CYP2C8,CYP2C19	cis	temporal cortex	BrainEAC

Chromatin state (count:88 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:97016800-97036000	Weak transcription	Primary hematopoietic stem cells	blood
2	chr10:97021400-97036400	Weak transcription	Stomach Smooth Muscle	stomach
3	chr10:97024800-97049400	Weak transcription	Fetal Kidney	kidney
4	chr10:97026800-97036000	Weak transcription	Fetal Lung	lung
5	chr10:97027400-97035800	Weak transcription	Pancreatic Islets	Pancreatic Islet
6	chr10:97028600-97036200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
7	chr10:97028600-97036200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
8	chr10:97028600-97038200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr10:97028800-97036000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
10	chr10:97029000-97036000	Weak transcription	Fetal Thymus	thymus
11	chr10:97029000-97039200	Weak transcription	Fetal Muscle Leg	muscle
12	chr10:97030600-97036200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
13	chr10:97030600-97037800	Weak transcription	H9 Cell Line	embryonic stem cell
14	chr10:97030800-97036200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
15	chr10:97031000-97036000	Weak transcription	Gastric	stomach
16	chr10:97031000-97038200	Weak transcription	Fetal Stomach	stomach
17	chr10:97031600-97036200	Weak transcription	Primary B cells from cord blood	blood
18	chr10:97031600-97046600	Enhancers	Rectal Mucosa Donor 31	rectum
19	chr10:97032400-97040800	Enhancers	Stomach Mucosa	stomach
20	chr10:97032600-97036400	Enhancers	Liver	Liver
21	chr10:97032600-97041000	Enhancers	Fetal Intestine Large	intestine
22	chr10:97032600-97043600	Enhancers	Sigmoid Colon	Sigmoid Colon
23	chr10:97032800-97037600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
24	chr10:97032800-97039200	Enhancers	Duodenum Mucosa	Duodenum
25	chr10:97032800-97042800	Enhancers	Small Intestine	intestine
26	chr10:97033000-97038600	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
27	chr10:97033000-97039800	Enhancers	K562	blood
28	chr10:97033400-97037000	Enhancers	Breast Myoepithelial Primary Cells	Breast
29	chr10:97033400-97037800	Enhancers	Rectal Mucosa Donor 29	rectum
30	chr10:97033400-97039000	Enhancers	Left Ventricle	heart
31	chr10:97033400-97039400	Enhancers	Skeletal Muscle Female	skeletal muscle
32	chr10:97033600-97037800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
33	chr10:97033600-97037800	Weak transcription	Colon Smooth Muscle	Colon
34	chr10:97033600-97040000	Enhancers	Adipose Nuclei	Adipose
35	chr10:97033800-97036000	Weak transcription	Primary B cells from peripheral blood	blood
36	chr10:97033800-97037600	Weak transcription	Duodenum Smooth Muscle	Duodenum
37	chr10:97033800-97038000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
38	chr10:97033800-97039800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
39	chr10:97033800-97041600	Enhancers	NHLF	lung
40	chr10:97033800-97042400	Enhancers	Osteobl	bone
41	chr10:97034000-97035600	Weak transcription	Fetal Heart	heart
42	chr10:97034000-97035600	Enhancers	Spleen	Spleen
43	chr10:97034000-97036000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
44	chr10:97034000-97036000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
45	chr10:97034000-97036000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
46	chr10:97034000-97036000	Weak transcription	Placenta	Placenta
47	chr10:97034000-97036000	Enhancers	HMEC	breast
48	chr10:97034000-97036200	Weak transcription	H1 Cell Line	embryonic stem cell
49	chr10:97034000-97036200	Weak transcription	HUES6 Cell Line	embryonic stem cell
50	chr10:97034000-97036400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell

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