Variant report

Variant	rs10922234
Chromosome Location	chr1:197436039-197436040
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:197434277..197436893-chr1:197438363..197440563,2	MCF-7	breast:

Extended variants
information (count: 52 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:50)

rs_ID	r²[population]
rs10494758	0.80[EUR][1000 genomes]
rs10754224	0.82[EUR][1000 genomes]
rs10801603	0.86[CEU][hapmap]
rs10801614	0.89[CHB][hapmap]
rs10922251	0.85[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap]
rs10922253	0.90[CEU][hapmap];0.83[CHB][hapmap];0.82[CHD][hapmap];0.84[GIH][hapmap];0.82[JPT][hapmap];0.83[MEX][hapmap];0.89[TSI][hapmap];0.80[EUR][1000 genomes]
rs10922261	0.92[CHB][hapmap];1.00[JPT][hapmap]
rs12023045	0.93[AFR][1000 genomes];0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12025476	0.80[EUR][1000 genomes]
rs12028758	0.80[EUR][1000 genomes]
rs12041661	1.00[ASW][hapmap];0.85[CEU][hapmap];0.92[CHB][hapmap];1.00[CHD][hapmap];0.80[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];0.87[MKK][hapmap];0.82[TSI][hapmap]
rs12125739	0.80[EUR][1000 genomes]
rs12131160	0.89[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap]
rs12133885	0.85[CEU][hapmap];0.83[CHB][hapmap];0.82[CHD][hapmap];0.80[GIH][hapmap];0.82[JPT][hapmap];0.83[MEX][hapmap];0.82[TSI][hapmap]
rs12134409	1.00[ASW][hapmap];0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.84[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];0.96[TSI][hapmap];1.00[YRI][hapmap]
rs12563307	1.00[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];0.93[AFR][1000 genomes];0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12563879	0.80[EUR][1000 genomes]
rs12731480	0.80[EUR][1000 genomes]
rs12744898	1.00[ASW][hapmap];0.85[CEU][hapmap];0.92[CHB][hapmap];1.00[CHD][hapmap];0.80[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];0.82[TSI][hapmap]
rs1337167	0.86[CEU][hapmap];0.81[TSI][hapmap]
rs1337168	0.86[CEU][hapmap]
rs17554990	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs1775453	0.83[CHB][hapmap];0.82[CHD][hapmap];0.82[JPT][hapmap];0.83[MEX][hapmap]
rs2111931	0.80[EUR][1000 genomes]
rs2193733	0.90[CEU][hapmap];0.83[CHB][hapmap];0.82[CHD][hapmap];0.84[GIH][hapmap];0.82[JPT][hapmap];0.83[MEX][hapmap];0.89[TSI][hapmap]
rs2476019	0.90[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs2476023	0.90[CEU][hapmap];0.84[GIH][hapmap];0.93[TSI][hapmap]
rs2494269	0.82[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs2759656	0.90[CEU][hapmap];0.84[GIH][hapmap];0.83[MEX][hapmap];0.93[TSI][hapmap]
rs2759661	0.90[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs2786098	0.86[CEU][hapmap];0.81[TSI][hapmap]
rs2786101	0.86[CEU][hapmap]
rs2786116	0.86[CEU][hapmap];0.81[TSI][hapmap]
rs2786117	0.86[CEU][hapmap]
rs2786119	0.85[CEU][hapmap]
rs2821107	0.90[CEU][hapmap];0.84[GIH][hapmap];0.92[TSI][hapmap]
rs2821115	0.85[CEU][hapmap]
rs2821116	0.86[CEU][hapmap]
rs2821117	0.85[CEU][hapmap]
rs2821125	0.86[CEU][hapmap]
rs2821132	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs34261593	0.80[EUR][1000 genomes]
rs4303099	0.80[EUR][1000 genomes]
rs4915550	0.82[EUR][1000 genomes]
rs4915552	0.81[EUR][1000 genomes]
rs6677361	0.85[TSI][hapmap]
rs6682689	0.80[EUR][1000 genomes]
rs6685222	1.00[ASW][hapmap];0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.84[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.91[MEX][hapmap];1.00[MKK][hapmap];0.96[TSI][hapmap];1.00[YRI][hapmap]
rs6688993	0.80[EUR][1000 genomes]
rs6691173	0.80[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	nsv528460	chr1:196542567-197446702	Weak transcription Active TSS Strong transcription Enhancers Flanking Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
2	nsv1014039	chr1:197311285-197529212	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:31 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:197430800-197439000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
2	chr1:197432000-197436200	Enhancers	Cortex derived primary cultured neurospheres	brain
3	chr1:197432200-197439600	Weak transcription	Brain Inferior Temporal Lobe	brain
4	chr1:197432800-197439000	Weak transcription	Brain Hippocampus Middle	brain
5	chr1:197433000-197439000	Weak transcription	Brain Anterior Caudate	brain
6	chr1:197433200-197439000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
7	chr1:197433400-197439000	Weak transcription	H1 Cell Line	embryonic stem cell
8	chr1:197433600-197437600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
9	chr1:197433600-197438600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
10	chr1:197433600-197438600	Weak transcription	HUES64 Cell Line	embryonic stem cell
11	chr1:197433600-197438600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
12	chr1:197433600-197438800	Weak transcription	H9 Cell Line	embryonic stem cell
13	chr1:197433600-197438800	Weak transcription	HUES48 Cell Line	embryonic stem cell
14	chr1:197433600-197439000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
15	chr1:197433600-197439000	Weak transcription	HUES6 Cell Line	embryonic stem cell
16	chr1:197433600-197439000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
17	chr1:197433600-197439000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
18	chr1:197433600-197439200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
19	chr1:197433800-197436800	Weak transcription	NH-A	brain
20	chr1:197433800-197437000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
21	chr1:197433800-197438800	Weak transcription	Primary monocytes fromperipheralblood	blood
22	chr1:197434000-197436600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
23	chr1:197434200-197440000	Weak transcription	Fetal Brain Female	brain
24	chr1:197435200-197436200	Enhancers	Ovary	ovary
25	chr1:197435200-197436400	Enhancers	Fetal Intestine Large	intestine
26	chr1:197435200-197440800	Enhancers	Primary hematopoietic stem cells short term culture	blood
27	chr1:197435400-197439000	Weak transcription	Brain Germinal Matrix	brain
28	chr1:197435600-197439000	Weak transcription	Fetal Brain Male	brain
29	chr1:197435600-197439800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
30	chr1:197435800-197440800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
31	chr1:197436000-197438800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--

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