Variant report

Variant	rs357560
Chromosome Location	chr9:98177308-98177309
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:2)
CpG islands
(count:0)
Chromatin interactive
region (count:6)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:2 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	TCF12	chr9:98177245-98177877	A549	lung:	n/a	n/a
2	FOSL2	chr9:98177243-98177897	A549	lung:	n/a	n/a

No data

(count:6 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr9:98176993..98179487-chr9:98191596..98193512,2	MCF-7	breast:
2	chr9:98173705..98177734-chr9:98187506..98190870,3	MCF-7	breast:
3	chr9:98175981..98178590-chr9:98187199..98190110,4	MCF-7	breast:
4	chr9:98173730..98177988-chr9:98187520..98191004,5	K562	blood:
5	chr9:98174491..98183187-chr9:98187141..98190074,10	K562	blood:
6	chr9:98171854..98174072-chr9:98176315..98178311,2	MCF-7	breast:

No data

Variant related genes	Relation type
MT1P1	TF binding region
ENSG00000237857	Chromatin interaction

Extended variants
information (count: 29 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs10993543	0.96[EUR][1000 genomes]
rs16909865	1.00[AFR][1000 genomes]
rs28517704	1.00[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs357520	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs357523	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs357524	0.83[EUR][1000 genomes]
rs357525	0.84[EUR][1000 genomes]
rs357526	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs357527	0.80[EUR][1000 genomes]
rs357530	1.00[AFR][1000 genomes];0.83[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs357531	1.00[AFR][1000 genomes];0.83[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs357535	1.00[AFR][1000 genomes];0.83[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs357537	0.96[EUR][1000 genomes]
rs357541	1.00[AFR][1000 genomes];0.81[EUR][1000 genomes]
rs357544	0.83[EUR][1000 genomes]
rs357545	1.00[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs357555	1.00[AFR][1000 genomes]
rs357556	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs357561	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs357562	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs419574	0.81[JPT][hapmap];1.00[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs57247461	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs58831996	0.87[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs613040	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs61652825	0.83[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv831657	chr9:97959274-98204769	Enhancers Weak transcription Bivalent/Poised TSS Bivalent Enhancer Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	32 gene(s)	inside rSNPs	diseases
2	nsv531633	chr9:98078300-98431120	Flanking Active TSS Active TSS Strong transcription Enhancers Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	44 gene(s)	inside rSNPs	diseases
3	nsv831658	chr9:98152971-98342178	Transcr. at gene 5' and 3' Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS Strong transcription Enhancers Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
4	nsv1051731	chr9:98154815-98201115	Active TSS ZNF genes & repeats Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:24 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:98160400-98188400	Weak transcription	Pancreas	Pancrea
2	chr9:98169800-98183600	Weak transcription	Skeletal Muscle Male	skeletal muscle
3	chr9:98169800-98183800	Weak transcription	HUES6 Cell Line	embryonic stem cell
4	chr9:98172800-98183600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
5	chr9:98173000-98177600	Weak transcription	NHLF	lung
6	chr9:98173000-98181200	Weak transcription	NHEK	skin
7	chr9:98173000-98183600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
8	chr9:98173200-98183400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
9	chr9:98173200-98184000	Weak transcription	Fetal Intestine Large	intestine
10	chr9:98173400-98184000	Weak transcription	HUES64 Cell Line	embryonic stem cell
11	chr9:98173600-98188200	Weak transcription	H9 Cell Line	embryonic stem cell
12	chr9:98173800-98184000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
13	chr9:98174000-98183800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
14	chr9:98174200-98183400	Weak transcription	Fetal Intestine Small	intestine
15	chr9:98174200-98183800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
16	chr9:98174600-98182800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
17	chr9:98174800-98177800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
18	chr9:98175200-98183800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
19	chr9:98175200-98184200	Weak transcription	K562	blood
20	chr9:98176000-98177600	Enhancers	A549	lung
21	chr9:98176000-98178800	Weak transcription	Ovary	ovary
22	chr9:98176400-98184800	Weak transcription	HUES48 Cell Line	embryonic stem cell
23	chr9:98176600-98185200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
24	chr9:98177000-98178200	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung

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