Variant report

Variant	rs28552956
Chromosome Location	chr10:99185411-99185412
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:76)
CpG islands
(count:0)
Chromatin interactive
region (count:11)
LncRNA
region (count:1)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:76 , 50 per page) page: 1 2

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	ARID3A	chr10:99185388-99185603	K562	blood:	n/a	n/a
2	MTA3	chr10:99185069-99185663	GM12878	blood:	n/a	n/a
3	BACH1	chr10:99185352-99186070	H1-hESC	embryonic stem cell:	n/a	n/a
4	POLR2A	chr10:99185187-99186603	GM12878	blood:	n/a	n/a
5	RCOR1	chr10:99185326-99186208	K562	blood:	n/a	n/a
6	RCOR1	chr10:99185339-99186056	Hela-S3	cervix:	n/a	n/a
7	POLR2A	chr10:99185275-99187820	Hela-S3	cervix:	n/a	n/a
8	POLR2A	chr10:99185267-99186224	MCF10A-Er-Src	breast:	n/a	n/a
9	RCOR1	chr10:99185308-99185955	K562	blood:	n/a	n/a
10	POLR2A	chr10:99185276-99186602	H1-hESC	embryonic stem cell:	n/a	n/a
11	POLR2A	chr10:99185405-99186500	GM18526	blood:	n/a	n/a
12	POLR2A	chr10:99185310-99186243	IMR90	lung:	n/a	n/a
13	ELK1	chr10:99185405-99186019	Hela-S3	cervix:	n/a	n/a
14	POLR2A	chr10:99185359-99185641	GM12891	blood:	n/a	n/a
15	POLR2A	chr10:99185401-99187877	GM19193	blood:	n/a	n/a
16	POLR2A	chr10:99185289-99186435	HEK293	kidney:	n/a	n/a
17	POLR2A	chr10:99185292-99185637	U87	brain:	n/a	n/a
18	PML	chr10:99185275-99186625	GM12878	blood:	n/a	n/a
19	POLR2A	chr10:99185285-99187139	PFSK-1	brain:	n/a	n/a
20	HEY1	chr10:99185293-99185694	HepG2	liver:	n/a	chr10:99185628-99185643
21	STAT3	chr10:99185299-99185516	GM12878	blood:	n/a	n/a
22	POLR2A	chr10:99185122-99185681	HCT-116	colon:	n/a	n/a
23	PBX3	chr10:99185335-99186057	A549	lung:	n/a	n/a
24	POLR2A	chr10:99185367-99187137	GM18505	blood:	n/a	n/a
25	STAT3	chr10:99185328-99185515	MCF10A-Er-Src	breast:	n/a	n/a
26	POLR2A	chr10:99185396-99186303	Hela-S3	cervix:	n/a	n/a
27	ZMIZ1	chr10:99185314-99185638	K562	blood:	n/a	n/a
28	CBX3	chr10:99185396-99185641	K562	blood:	n/a	n/a
29	POLR2A	chr10:99185230-99186580	GM18951	blood:	n/a	n/a
30	TAF1	chr10:99185359-99186697	ECC-1	luminal epithelium:	n/a	n/a
31	HCFC1	chr10:99185048-99186666	Hela-S3	cervix:	n/a	n/a
32	POLR2A	chr10:99185387-99185682	ECC-1	luminal epithelium:	n/a	n/a
33	POLR2A	chr10:99185286-99186567	NB4	blood:	n/a	n/a
34	POLR2A	chr10:99185405-99185662	Hela-S3	cervix:	n/a	n/a
35	CHD2	chr10:99185321-99186487	GM12878	blood:	n/a	n/a
36	MYBL2	chr10:99185249-99185656	HepG2	liver:	n/a	n/a
37	POLR2A	chr10:99185209-99185659	PANC-1	pancreas:	n/a	n/a
38	BHLHE40	chr10:99185359-99186040	GM12878	blood:	n/a	n/a
39	CHD1	chr10:99185184-99185525	GM12878	blood:	n/a	n/a
40	RCOR1	chr10:99185351-99185585	GM12878	blood:	n/a	n/a
41	POLR2A	chr10:99185299-99186677	GM12878	blood:	n/a	n/a
42	WRNIP1	chr10:99185264-99185567	GM12878	blood:	n/a	n/a
43	GTF2F1	chr10:99185258-99186059	Hela-S3	cervix:	n/a	n/a
44	POLR2A	chr10:99185340-99188887	GM12878	blood:	n/a	n/a
45	NR2C2	chr10:99185347-99186018	HepG2	liver:	n/a	n/a
46	POLR2A	chr10:99185404-99185808	GM12878	blood:	n/a	n/a
47	EP300	chr10:99185165-99185499	GM12878	blood:	n/a	n/a
48	POLR2A	chr10:99185366-99185639	HepG2	liver:	n/a	n/a
49	NRF1	chr10:99185243-99186240	SK-N-SH	brain:	n/a	chr10:99185889-99185903 chr10:99185984-99185995 chr10:99185981-99185995 chr10:99185889-99185898 chr10:99185889-99185900 chr10:99185886-99185900 chr10:99185984-99185993 chr10:99185827-99185836 chr10:99185984-99185998 chr10:99185891-99185900 chr10:99185825-99185836 chr10:99185825-99185839 chr10:99185889-99185900
50	CHD2	chr10:99185247-99186133	Hela-S3	cervix:	n/a	n/a

No data

(count:11 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr10:99158602..99162553-chr10:99184335..99188453,6	MCF-7	breast:
2	chr10:99185304..99188802-chr10:99201388..99207254,8	K562	blood:
3	chr10:99183612..99185415-chr10:99346945..99349891,2	MCF-7	breast:
4	chr10:99184102..99187983-chr10:99256299..99259028,4	MCF-7	breast:
5	chr10:99183719..99185811-chr10:99191759..99194746,2	K562	blood:
6	chr10:99178412..99183286-chr10:99183902..99188289,4	K562	blood:
7	chr10:99185396..99188802-chr10:99202940..99206887,5	K562	blood:
8	chr10:99159690..99162699-chr10:99184060..99186818,5	K562	blood:
9	chr10:99159614..99162570-chr10:99184923..99189339,4	K562	blood:
10	chr10:99176991..99182775-chr10:99183273..99189892,9	MCF-7	breast:
11	chr10:99158229..99164055-chr10:99184399..99190088,9	MCF-7	breast:

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

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-AL355490.1-1	chr10:99176179-99185666	NONHSAT015863

No data

Variant related genes	Relation type
ENSG00000200737	TF binding region
PGAM1	TF binding region
ENSG00000052749	Chromatin interaction
ENSG00000231970	Chromatin interaction
ENSG00000165886	Chromatin interaction
ENSG00000200737	Chromatin interaction
ENSG00000203942	Chromatin interaction
ENSG00000171311	Chromatin interaction
ENSG00000155229	Chromatin interaction
ENSG00000171307	Chromatin interaction

Extended variants
information (count: 3 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:1)

rs_ID	r²[population]
rs29001285	1.00[LWK][hapmap]

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	nsv467440	chr10:99134784-99204791	Weak transcription Enhancers Active TSS Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
2	nsv552025	chr10:99134784-99204791	Strong transcription Genic enhancers Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Weak transcription Active TSS ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:127 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:99183200-99186000	Weak transcription	Spleen	Spleen
2	chr10:99184400-99185600	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--
3	chr10:99184400-99185600	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
4	chr10:99184800-99187000	Active TSS	H1 Cell Line	embryonic stem cell
5	chr10:99184800-99188000	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
6	chr10:99185000-99185600	Flanking Active TSS	Primary hematopoietic stem cells short term culture	blood
7	chr10:99185000-99185600	Flanking Active TSS	Adipose Nuclei	Adipose
8	chr10:99185000-99186200	Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
9	chr10:99185000-99186400	Active TSS	Primary T cells from cord blood	blood
10	chr10:99185000-99186400	Active TSS	Rectal Mucosa Donor 29	rectum
11	chr10:99185000-99186400	Active TSS	HepG2	liver
12	chr10:99185000-99186600	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
13	chr10:99185000-99186600	Active TSS	Brain Substantia Nigra	brain
14	chr10:99185000-99186600	Active TSS	Fetal Brain Female	brain
15	chr10:99185000-99186600	Active TSS	Fetal Stomach	stomach
16	chr10:99185000-99186800	Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
17	chr10:99185000-99186800	Active TSS	iPS-20b Cell Line	embryonic stem cell
18	chr10:99185000-99186800	Active TSS	Cortex derived primary cultured neurospheres	brain
19	chr10:99185000-99186800	Active TSS	Brain Anterior Caudate	brain
20	chr10:99185000-99186800	Active TSS	Brain Germinal Matrix	brain
21	chr10:99185000-99186800	Active TSS	HUVEC	blood vessel
22	chr10:99185000-99187000	Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
23	chr10:99185000-99187000	Active TSS	HUES6 Cell Line	embryonic stem cell
24	chr10:99185000-99187000	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
25	chr10:99185000-99187000	Active TSS	Muscle Satellite Cultured Cells	--
26	chr10:99185000-99187000	Active TSS	A549	lung
27	chr10:99185000-99187000	Active TSS	Hela-S3	cervix
28	chr10:99185000-99187000	Active TSS	HSMM	muscle
29	chr10:99185000-99187000	Active TSS	K562	blood
30	chr10:99185000-99187000	Active TSS	NHEK	skin
31	chr10:99185000-99187200	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
32	chr10:99185000-99187200	Active TSS	Breast Myoepithelial Primary Cells	Breast
33	chr10:99185000-99187200	Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
34	chr10:99185000-99187400	Active TSS	H9 Cell Line	embryonic stem cell
35	chr10:99185000-99187400	Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
36	chr10:99185000-99187600	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
37	chr10:99185000-99188000	Active TSS	iPS-15b Cell Line	embryonic stem cell
38	chr10:99185200-99185600	Flanking Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
39	chr10:99185200-99185600	Flanking Active TSS	Primary monocytes fromperipheralblood	blood
40	chr10:99185200-99185600	Flanking Active TSS	Primary neutrophils fromperipheralblood	blood
41	chr10:99185200-99185600	Flanking Active TSS	Primary B cells from cord blood	blood
42	chr10:99185200-99185600	Flanking Active TSS	Primary B cells from peripheral blood	blood
43	chr10:99185200-99185600	Flanking Active TSS	Primary T cells fromperipheralblood	blood
44	chr10:99185200-99185600	Flanking Active TSS	Primary hematopoietic stem cells	blood
45	chr10:99185200-99185600	Flanking Active TSS	Primary T helper naive cells from peripheral blood	blood
46	chr10:99185200-99185600	Flanking Active TSS	Primary T helper memory cells from peripheral blood 1	blood
47	chr10:99185200-99185600	Flanking Active TSS	Primary T helper 17 cells PMA-I stimulated	--
48	chr10:99185200-99185600	Flanking Active TSS	Primary T helper cells fromperipheralblood	blood
49	chr10:99185200-99185600	Flanking Active TSS	Primary T regulatory cells fromperipheralblood	blood
50	chr10:99185200-99185600	Flanking Active TSS	Primary Natural Killer cells fromperipheralblood	blood

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