Variant report

Variant	rs242448
Chromosome Location	chr9:97953379-97953380
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:97906541..97908120-chr9:97951638..97953781,2	MCF-7	breast:
2	chr9:97950017..97951848-chr9:97952772..97954598,2	MCF-7	breast:

Extended variants
information (count: 43 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs1020962	1.00[JPT][hapmap]
rs1038092	1.00[JPT][hapmap]
rs10761371	1.00[JPT][hapmap]
rs10993471	1.00[JPT][hapmap]
rs12555829	1.00[JPT][hapmap]
rs1564235	1.00[JPT][hapmap]
rs1571896	1.00[JPT][hapmap]
rs1623009	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs173339	1.00[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1871220	1.00[JPT][hapmap]
rs1888944	1.00[JPT][hapmap]
rs2061798	1.00[JPT][hapmap]
rs2061801	1.00[JPT][hapmap]
rs2306207	1.00[JPT][hapmap]
rs2655055	0.82[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2765817	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.82[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs356660	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs356661	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs356662	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs356663	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs356671	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs356685	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap];0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs356686	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3739748	1.00[JPT][hapmap]
rs3780560	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs400727	1.00[CEU][hapmap];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs420089	0.81[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs4647513	0.91[YRI][hapmap]
rs4647559	0.84[YRI][hapmap]
rs4743975	1.00[JPT][hapmap]
rs4743977	1.00[JPT][hapmap]
rs4743989	1.00[CEU][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs4744421	1.00[JPT][hapmap]
rs4744437	0.91[CEU][hapmap];1.00[JPT][hapmap]
rs4744440	1.00[CEU][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs475413	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs607105	0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs648615	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs651009	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.82[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7033294	0.91[YRI][hapmap]
rs7049188	0.82[YRI][hapmap]
rs9299427	0.94[AMR][1000 genomes];0.89[EUR][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	nsv831656	chr9:97831551-97989980	Weak transcription Strong transcription Active TSS Genic enhancers Enhancers Bivalent Enhancer Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	274 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:27 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:97941000-97959800	Weak transcription	Pancreas	Pancrea
2	chr9:97946200-97955600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
3	chr9:97946200-97955800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
4	chr9:97948800-97955600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
5	chr9:97948800-97955600	Weak transcription	HUES6 Cell Line	embryonic stem cell
6	chr9:97950600-97953400	Enhancers	Monocytes-CD14+_RO01746	blood
7	chr9:97950800-97959600	Weak transcription	Gastric	stomach
8	chr9:97951800-97955000	Weak transcription	Thymus	Thymus
9	chr9:97952000-97953600	Enhancers	Lung	lung
10	chr9:97952200-97955600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
11	chr9:97952200-97960200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
12	chr9:97952400-97955400	Weak transcription	GM12878-XiMat	blood
13	chr9:97952600-97953800	Enhancers	Stomach Smooth Muscle	stomach
14	chr9:97952600-97963200	Weak transcription	Spleen	Spleen
15	chr9:97952600-97969400	Weak transcription	Fetal Intestine Small	intestine
16	chr9:97953000-97954200	Weak transcription	Fetal Muscle Trunk	muscle
17	chr9:97953000-97954400	Weak transcription	HUVEC	blood vessel
18	chr9:97953000-97958800	Weak transcription	Right Ventricle	heart
19	chr9:97953000-97958800	Weak transcription	Skeletal Muscle Female	skeletal muscle
20	chr9:97953000-97959000	Weak transcription	Esophagus	oesophagus
21	chr9:97953000-97959800	Weak transcription	Right Atrium	heart
22	chr9:97953000-97959800	Weak transcription	Skeletal Muscle Male	skeletal muscle
23	chr9:97953000-97960000	Weak transcription	Fetal Stomach	stomach
24	chr9:97953000-97961600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
25	chr9:97953000-97961600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
26	chr9:97953200-97954000	Weak transcription	Ovary	ovary
27	chr9:97953200-97955400	Weak transcription	Aorta	Aorta

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