Variant report

Variant	rs2802556
Chromosome Location	chr1:224967259-224967260
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:224958593..224960248-chr1:224966899..224969772,2	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]
rs12097622	0.82[EUR][1000 genomes]
rs1316512	0.95[AFR][1000 genomes];0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1361923	0.95[AFR][1000 genomes];0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1436166	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16856396	0.82[AFR][1000 genomes]
rs16856435	0.82[AFR][1000 genomes]
rs16856463	0.82[AFR][1000 genomes]
rs16856829	0.82[AFR][1000 genomes]
rs1892121	0.95[AFR][1000 genomes];0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1936632	0.95[AFR][1000 genomes];0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs2016652	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2252950	0.95[AFR][1000 genomes];0.88[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2298257	0.82[AFR][1000 genomes]
rs2574874	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2574876	0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2574877	0.85[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs2574879	0.82[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs2574881	0.82[AMR][1000 genomes]
rs2662906	0.90[ASN][1000 genomes]
rs2662907	0.82[AFR][1000 genomes];0.85[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs2662922	0.82[AMR][1000 genomes]
rs2662923	0.82[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs2662924	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2662925	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2662927	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2662929	0.95[AFR][1000 genomes];0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2802552	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2802558	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2802559	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2802561	0.85[AMR][1000 genomes]
rs2802562	0.82[AFR][1000 genomes];0.88[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs2802563	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2802740	0.81[AMR][1000 genomes]
rs2802744	0.91[AFR][1000 genomes];0.88[AMR][1000 genomes];0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2997478	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2997499	0.84[AMR][1000 genomes]
rs2997501	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs3012182	0.89[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs3012184	0.88[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs4587536	0.82[AFR][1000 genomes]
rs55752315	0.82[AFR][1000 genomes]
rs56237431	0.82[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	nsv524125	chr1:224902054-225021860	Enhancers Weak transcription Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:16 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:224958000-224972400	Weak transcription	Sigmoid Colon	Sigmoid Colon
2	chr1:224958800-224972000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
3	chr1:224966200-224967800	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
4	chr1:224966400-224967400	Enhancers	HUES48 Cell Line	embryonic stem cell
5	chr1:224966400-224969600	Enhancers	HUES64 Cell Line	embryonic stem cell
6	chr1:224966600-224967400	Enhancers	iPS-15b Cell Line	embryonic stem cell
7	chr1:224966800-224967600	Enhancers	ES-I3 Cell Line	embryonic stem cell
8	chr1:224966800-224967600	Flanking Active TSS	iPS-18 Cell Line	embryonic stem cell
9	chr1:224966800-224968600	Enhancers	H1 Cell Line	embryonic stem cell
10	chr1:224966800-224969000	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
11	chr1:224966800-224969000	Enhancers	H9 Cell Line	embryonic stem cell
12	chr1:224967000-224969000	Enhancers	HUES6 Cell Line	embryonic stem cell
13	chr1:224967200-224967400	Enhancers	iPS-20b Cell Line	embryonic stem cell
14	chr1:224967200-224967400	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
15	chr1:224967200-224967600	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
16	chr1:224967200-224968000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived

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