Variant report

Variant	rs1340837
Chromosome Location	chr10:97542035-97542036
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:97529390..97531168-chr10:97540641..97542614,2	MCF-7	breast:

Extended variants
information (count: 126 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:120)

rs_ID	r²[population]
rs10159941	0.87[JPT][hapmap]
rs10509686	0.83[CEU][hapmap]
rs10509687	0.86[JPT][hapmap]
rs10736093	0.94[CHB][hapmap]
rs10748635	0.91[JPT][hapmap]
rs10748637	0.87[JPT][hapmap]
rs10748642	0.94[CHB][hapmap]
rs10748643	0.94[CHB][hapmap]
rs10748648	1.00[CHB][hapmap]
rs10786230	0.86[JPT][hapmap]
rs10786235	0.86[JPT][hapmap]
rs10786236	0.94[CHB][hapmap]
rs10882649	0.85[CEU][hapmap]
rs10882651	0.83[CHB][hapmap]
rs10882652	0.83[CHB][hapmap]
rs10882653	0.86[JPT][hapmap]
rs10882656	0.94[CHB][hapmap]
rs10882657	0.94[CHB][hapmap]
rs10882660	0.94[CHB][hapmap]
rs10882670	0.86[JPT][hapmap]
rs10882671	0.83[CEU][hapmap]
rs10882673	1.00[CHB][hapmap]
rs10882675	0.94[CHB][hapmap]
rs10882676	1.00[CHB][hapmap]
rs10882700	0.83[YRI][hapmap]
rs11188398	0.81[CEU][hapmap]
rs11188407	0.81[CEU][hapmap]
rs11188411	0.81[CEU][hapmap]
rs11188417	0.81[CEU][hapmap]
rs11188444	0.85[CEU][hapmap]
rs11188455	0.83[CEU][hapmap]
rs11188459	0.87[JPT][hapmap]
rs11188484	0.83[CEU][hapmap]
rs11188485	0.93[JPT][hapmap];0.95[YRI][hapmap]
rs11188486	0.94[CHB][hapmap]
rs11188488	0.86[JPT][hapmap]
rs11188497	0.93[CHB][hapmap]
rs11188504	0.85[CEU][hapmap]
rs11188513	0.94[CHB][hapmap]
rs12244559	0.88[CHB][hapmap]
rs12262943	0.87[JPT][hapmap]
rs12354848	0.82[CEU][hapmap]
rs12357173	0.83[CEU][hapmap]
rs12358481	0.82[CEU][hapmap]
rs1342790	0.94[CHB][hapmap]
rs1418709	0.94[CHB][hapmap]
rs1573112	0.87[CHB][hapmap]
rs17111041	0.87[JPT][hapmap]
rs17461546	0.85[CEU][hapmap]
rs17462179	0.83[CEU][hapmap]
rs17553401	0.85[CEU][hapmap]
rs1891536	0.85[CEU][hapmap]
rs1933165	0.94[CHB][hapmap]
rs1933166	0.86[JPT][hapmap]
rs1953710	0.87[JPT][hapmap]
rs2051052	0.94[CHB][hapmap]
rs2096219	0.88[ASN][1000 genomes]
rs2153913	0.94[CHB][hapmap]
rs2153914	0.94[CHB][hapmap]
rs2185818	0.94[CHB][hapmap]
rs2225893	0.86[JPT][hapmap]
rs2226163	0.93[CHB][hapmap]
rs2275759	0.94[CHB][hapmap]
rs2297788	0.83[CHB][hapmap]
rs2861147	0.94[CHB][hapmap]
rs2861148	0.94[CHB][hapmap]
rs2861151	0.85[CEU][hapmap]
rs3176881	0.94[CHB][hapmap]
rs3176883	0.86[JPT][hapmap];0.91[YRI][hapmap]
rs3176891	0.94[CHB][hapmap]
rs3176895	0.83[CEU][hapmap]
rs3181122	0.83[CEU][hapmap]
rs3181124	0.94[CHB][hapmap]
rs3181129	0.88[CHB][hapmap]
rs3181131	0.94[CHB][hapmap]
rs3793748	0.86[JPT][hapmap]
rs3814159	0.94[CHB][hapmap]
rs3929900	0.94[CHB][hapmap]
rs3934409	0.94[CHB][hapmap]
rs4074424	0.94[CHB][hapmap]
rs4075310	0.94[CHB][hapmap]
rs4075311	0.85[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];0.86[AMR][1000 genomes];0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4258314	0.81[CEU][hapmap]
rs4396219	0.94[CHB][hapmap]
rs4431963	0.94[CHB][hapmap]
rs4457685	0.86[JPT][hapmap]
rs4512761	0.82[CEU][hapmap]
rs4551688	0.94[CHB][hapmap]
rs4582902	0.94[CHB][hapmap]
rs4614366	0.88[CHB][hapmap]
rs4918962	0.94[CHB][hapmap]
rs4918964	0.92[JPT][hapmap]
rs4918966	0.85[CEU][hapmap]
rs497331	0.93[JPT][hapmap];0.95[YRI][hapmap]
rs5014871	0.94[CHB][hapmap]
rs6584022	0.94[CHB][hapmap]
rs6584023	0.94[CHB][hapmap]
rs6584026	0.86[JPT][hapmap]
rs6584027	0.94[CHB][hapmap]
rs6584028	0.86[JPT][hapmap]
rs6584033	0.86[JPT][hapmap]
rs7067762	0.94[CHB][hapmap]
rs7069234	0.87[JPT][hapmap]
rs7071836	0.94[CHB][hapmap]
rs7073723	0.86[JPT][hapmap]
rs7074403	0.94[CHB][hapmap]
rs7077566	0.94[CHB][hapmap]
rs7081414	0.87[JPT][hapmap]
rs7086986	0.94[CHB][hapmap]
rs7088584	0.94[CHB][hapmap]
rs7089668	0.85[CEU][hapmap]
rs7095587	0.94[CHB][hapmap]
rs7096317	0.94[CHB][hapmap]
rs7098750	0.87[JPT][hapmap];0.92[YRI][hapmap]
rs7100137	0.89[AFR][1000 genomes]
rs7894648	0.83[CHB][hapmap]
rs7905653	0.85[JPT][hapmap]
rs7915345	0.86[JPT][hapmap]
rs7920801	0.83[CHB][hapmap]
rs7920850	0.86[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv531923	chr10:97366055-97725757	Enhancers Strong transcription Active TSS Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
2	nsv895905	chr10:97513362-97686064	Enhancers Weak transcription Active TSS Strong transcription Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
3	nsv895906	chr10:97513362-97703650	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
4	nsv895907	chr10:97529318-97686064	Weak transcription Enhancers Strong transcription Active TSS Genic enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
5	nsv1052213	chr10:97536795-97561941	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Active TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
6	esv3425976	chr10:97541996-97542116	Weak transcription Enhancers Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs1340837	ALDH18A1	Cis_1M	lymphoblastoid	RTeQTL
rs1340837	ENTPD1	Cis_1M	lymphoblastoid	RTeQTL
rs1340837	ENTPD1	cis	Lymphoblastoid	GTEx
rs1340837	ENTPD1	cis	multi-tissue	Pritchard

Chromatin state (count:14 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:97529000-97544200	Weak transcription	Spleen	Spleen
2	chr10:97536600-97543600	Weak transcription	Stomach Smooth Muscle	stomach
3	chr10:97537600-97543000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
4	chr10:97540400-97545800	Enhancers	Primary neutrophils fromperipheralblood	blood
5	chr10:97541400-97542400	Enhancers	Monocytes-CD14+_RO01746	blood
6	chr10:97541400-97544200	Enhancers	Primary monocytes fromperipheralblood	blood
7	chr10:97541400-97544400	Enhancers	Primary hematopoietic stem cells	blood
8	chr10:97541400-97544600	Enhancers	Rectal Smooth Muscle	rectum
9	chr10:97541400-97547800	Enhancers	Primary B cells from cord blood	blood
10	chr10:97541400-97548400	Enhancers	Primary B cells from peripheral blood	blood
11	chr10:97541600-97543600	Flanking Active TSS	GM12878-XiMat	blood
12	chr10:97541800-97545000	Enhancers	Colon Smooth Muscle	Colon
13	chr10:97542000-97542200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
14	chr10:97542000-97542600	Weak transcription	Aorta	Aorta

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