Variant report

Variant	rs10006978
Chromosome Location	chr4:96679948-96679949
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	chr4:96674646..96677370-chr4:96678560..96681527,2	MCF-7	breast:

Extended variants
information (count: 28 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:21)

rs_ID	r²[population]
rs11097483	0.85[EUR][1000 genomes]
rs11097484	0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11931750	0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11931752	0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11946552	0.81[EUR][1000 genomes]
rs17024535	0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs17024571	0.83[EUR][1000 genomes]
rs1961771	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2043654	0.84[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs2043655	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs28516597	0.87[EUR][1000 genomes]
rs28841026	0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4597837	0.87[EUR][1000 genomes]
rs56166497	0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs59407834	0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs716720	0.97[AFR][1000 genomes];0.88[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs73839603	0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs73842171	0.83[EUR][1000 genomes]
rs7655617	0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7668426	0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7681417	0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv830012	chr4:96547783-96746163	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
2	esv1844506	chr4:96554889-96704333	Flanking Active TSS Weak transcription Enhancers Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
3	nsv997304	chr4:96575198-96861349	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
4	nsv1010830	chr4:96607025-96862878	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
5	nsv537191	chr4:96607025-96862878	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
6	nsv594915	chr4:96628653-97086618	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
7	nsv428767	chr4:96676384-96831793	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:96665800-96682200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
2	chr4:96666600-96682800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr4:96677400-96680200	Enhancers	HUES48 Cell Line	embryonic stem cell
4	chr4:96677600-96680000	Enhancers	iPS-18 Cell Line	embryonic stem cell
5	chr4:96677800-96680000	Enhancers	iPS-20b Cell Line	embryonic stem cell
6	chr4:96677800-96682200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
7	chr4:96678000-96680000	Enhancers	ES-I3 Cell Line	embryonic stem cell
8	chr4:96678200-96680000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
9	chr4:96678600-96680000	Enhancers	Dnd41	blood
10	chr4:96678800-96680600	Enhancers	HUVEC	blood vessel
11	chr4:96679000-96681800	Weak transcription	HUES64 Cell Line	embryonic stem cell
12	chr4:96679600-96680200	Enhancers	HUES6 Cell Line	embryonic stem cell
13	chr4:96679800-96680200	Enhancers	Brain Hippocampus Middle	brain
14	chr4:96679800-96681800	Weak transcription	iPS-15b Cell Line	embryonic stem cell

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