Variant report

Variant	rs1337006
Chromosome Location	chr1:197295886-197295887
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	chr1:197264828..197266996-chr1:197295003..197297632,2	MCF-7	breast:

Extended variants
information (count: 28 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs10494752	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs10801597	0.88[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs10801598	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs10801600	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs10801601	0.84[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.96[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.89[MKK][hapmap];0.98[TSI][hapmap];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10801602	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10922181	0.92[CEU][hapmap];0.94[JPT][hapmap];0.89[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs10922190	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs10922197	1.00[CEU][hapmap];0.87[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10922198	0.80[CHB][hapmap];0.94[JPT][hapmap];0.92[MEX][hapmap];0.82[ASN][1000 genomes]
rs12022402	1.00[CEU][hapmap];0.94[JPT][hapmap];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs12026252	0.91[CEU][hapmap];0.94[JPT][hapmap];0.89[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs12045335	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1337005	0.81[CEU][hapmap];0.82[TSI][hapmap]
rs1337007	1.00[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1337170	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1415210	1.00[CEU][hapmap];0.81[CHB][hapmap];0.98[GIH][hapmap];0.94[JPT][hapmap];1.00[MEX][hapmap];0.95[TSI][hapmap];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs1415343	1.00[CEU][hapmap];0.81[CHB][hapmap];0.98[GIH][hapmap];0.94[JPT][hapmap];1.00[MEX][hapmap];0.95[TSI][hapmap];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs1577802	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2884645	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4915393	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4915453	1.00[CEU][hapmap];0.81[CHB][hapmap];0.94[JPT][hapmap];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7418217	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7530522	0.84[ASW][hapmap];1.00[CEU][hapmap];0.81[CHB][hapmap];0.98[GIH][hapmap];0.94[JPT][hapmap];1.00[MEX][hapmap];0.82[MKK][hapmap];0.95[TSI][hapmap];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7547972	0.80[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7548481	1.00[CEU][hapmap];0.81[CHB][hapmap];0.93[JPT][hapmap];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7553508	0.84[ASW][hapmap];1.00[CEU][hapmap];0.81[CHB][hapmap];0.98[GIH][hapmap];0.94[JPT][hapmap];1.00[MEX][hapmap];0.95[TSI][hapmap];0.91[AMR][1000 genomes];0.96[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	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

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1337006	RGS18	cis	cerebellum	SCAN

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:197284400-197296800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
2	chr1:197290600-197297800	Weak transcription	Cortex derived primary cultured neurospheres	brain
3	chr1:197290800-197296400	Weak transcription	Brain Cingulate Gyrus	brain
4	chr1:197290800-197296400	Weak transcription	Brain Inferior Temporal Lobe	brain
5	chr1:197290800-197297400	Weak transcription	Brain Substantia Nigra	brain
6	chr1:197291000-197297800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
7	chr1:197294400-197296400	Weak transcription	Brain Hippocampus Middle	brain
8	chr1:197294400-197296800	Weak transcription	Brain Anterior Caudate	brain
9	chr1:197294600-197296800	Weak transcription	Brain Germinal Matrix	brain
10	chr1:197295600-197296800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin

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