Variant report

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:37549451..37550961-chr6:37553159..37556146,2	MCF-7	breast:

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs1621500	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs1738442	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1738444	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs1738458	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1776441	0.96[CEU][hapmap];0.94[CHB][hapmap];0.95[CHD][hapmap];0.84[GIH][hapmap];0.92[JPT][hapmap];1.00[MEX][hapmap];0.93[TSI][hapmap];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2012000	0.87[ASN][1000 genomes]
rs2395675	0.88[ASN][1000 genomes]
rs2395676	0.88[ASN][1000 genomes]
rs2395677	0.88[ASN][1000 genomes]
rs2746439	0.89[CEU][hapmap];0.88[MEX][hapmap];0.81[AMR][1000 genomes]
rs2797787	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2894413	0.88[ASN][1000 genomes]
rs6458004	0.89[ASN][1000 genomes]
rs6903811	0.81[ASN][1000 genomes]
rs6903990	0.84[ASN][1000 genomes]
rs6904374	0.84[ASN][1000 genomes]
rs6923753	0.84[ASN][1000 genomes]
rs7749225	0.89[ASN][1000 genomes]
rs7753616	0.88[ASN][1000 genomes]
rs7765821	0.83[ASN][1000 genomes]
rs7774871	0.88[ASN][1000 genomes]
rs9394440	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9470636	0.88[ASN][1000 genomes]
rs9470637	0.84[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	esv2752124	chr6:37416219-37680622	Weak transcription Enhancers Flanking Active TSS Genic enhancers Strong transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	22 gene(s)	inside rSNPs	diseases
2	nsv1028825	chr6:37495154-38278320	Enhancers Active TSS Weak transcription Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	19 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1738443	LRFN2	cis	cerebellum	SCAN

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:37534200-37556600	Weak transcription	Right Atrium	heart
2	chr6:37550000-37555600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr6:37550200-37555400	Weak transcription	HUES48 Cell Line	embryonic stem cell
4	chr6:37550200-37556000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
5	chr6:37550400-37556400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
6	chr6:37550800-37556200	Weak transcription	HUES64 Cell Line	embryonic stem cell
7	chr6:37552000-37556800	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
8	chr6:37552600-37558600	Enhancers	Fetal Brain Male	brain
9	chr6:37553000-37555400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr6:37553400-37555000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
11	chr6:37553400-37559400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr6:37553600-37555000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
13	chr6:37554200-37556000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
14	chr6:37554400-37555400	Weak transcription	Brain Germinal Matrix	brain
15	chr6:37554400-37555400	Weak transcription	Fetal Brain Female	brain
16	chr6:37554400-37555800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
17	chr6:37554800-37556400	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain

Quick Search: