Variant report

Variant	rs4698956
Chromosome Location	chr4:106978321-106978322
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 7 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:5)

rs_ID	r²[population]
rs13101737	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13138818	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs34271829	0.88[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs66500360	1.00[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs66911869	0.88[EUR][1000 genomes];0.80[ASN][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	nsv1014993	chr4:106796019-106980727	Enhancers Flanking Bivalent TSS/Enh Weak transcription Bivalent/Poised TSS Bivalent Enhancer Strong transcription Active TSS Genic enhancers Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
2	nsv522792	chr4:106895964-106982793	Weak transcription Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs4698956	NHEDC1	cis	parietal	SCAN

Chromatin state (count:18 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:106959600-106983400	Weak transcription	HepG2	liver
2	chr4:106967600-106983600	Weak transcription	Skeletal Muscle Female	skeletal muscle
3	chr4:106967600-106983800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
4	chr4:106967800-106984200	Weak transcription	Primary hematopoietic stem cells	blood
5	chr4:106967800-106994600	Weak transcription	Rectal Mucosa Donor 29	rectum
6	chr4:106968000-106984600	Weak transcription	Primary B cells from cord blood	blood
7	chr4:106972400-106997000	Weak transcription	Sigmoid Colon	Sigmoid Colon
8	chr4:106973000-106982800	Weak transcription	Fetal Lung	lung
9	chr4:106977800-106980200	Enhancers	iPS-18 Cell Line	embryonic stem cell
10	chr4:106977800-106980200	Enhancers	iPS-20b Cell Line	embryonic stem cell
11	chr4:106977800-106980400	Enhancers	HUES64 Cell Line	embryonic stem cell
12	chr4:106978000-106978400	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
13	chr4:106978000-106978600	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr4:106978000-106978800	Enhancers	HUES6 Cell Line	embryonic stem cell
15	chr4:106978000-106980400	Enhancers	iPS-15b Cell Line	embryonic stem cell
16	chr4:106978000-106980600	Enhancers	HUES48 Cell Line	embryonic stem cell
17	chr4:106978200-106978800	Enhancers	Ovary	ovary
18	chr4:106978200-106980600	Enhancers	ES-I3 Cell Line	embryonic stem cell

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dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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