Variant report

Variant	rs542208
Chromosome Location	chr8:102900851-102900852
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr8:102895916..102899783-chr8:102900314..102903177,4	MCF-7	breast:

Extended variants
information (count: 89 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:85)

rs_ID	r²[population]
rs1144545	0.93[AFR][1000 genomes];0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1148497	0.81[EUR][1000 genomes]
rs1148499	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs1264942	0.92[ASN][1000 genomes]
rs1264946	0.80[AMR][1000 genomes];0.88[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1264948	0.89[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs1264949	0.88[EUR][1000 genomes]
rs1271946	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1313944	0.87[AFR][1000 genomes];0.84[AMR][1000 genomes];0.81[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1313945	0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs472638	0.84[AFR][1000 genomes];0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs472963	0.81[EUR][1000 genomes]
rs473498	0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs477236	0.89[AFR][1000 genomes];0.82[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs478092	0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs478189	0.83[AFR][1000 genomes];0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs478896	0.89[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs478917	0.92[AFR][1000 genomes];0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs479041	0.82[AFR][1000 genomes];0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs479742	0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs480570	0.86[AFR][1000 genomes];0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs480955	0.83[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs481545	0.93[AFR][1000 genomes];0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs482023	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs484657	0.88[EUR][1000 genomes]
rs485252	0.90[AFR][1000 genomes];0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs485263	0.86[AFR][1000 genomes];0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs485363	0.91[AFR][1000 genomes];0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs486196	0.83[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs486496	0.89[EUR][1000 genomes]
rs487863	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs487987	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs488034	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs489973	0.83[AFR][1000 genomes];0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs490032	0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs490096	0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs490125	0.81[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs494352	0.83[AFR][1000 genomes];0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs495636	0.93[AFR][1000 genomes];0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs497905	0.84[AFR][1000 genomes];0.84[AMR][1000 genomes];0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs502334	0.85[AFR][1000 genomes];0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs505460	0.84[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs506026	0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs508386	0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs510524	0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs512202	0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs513159	0.94[EUR][1000 genomes]
rs513472	0.90[AFR][1000 genomes];0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs514057	0.85[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs517868	0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs519197	0.81[EUR][1000 genomes]
rs520880	0.81[EUR][1000 genomes]
rs526533	0.93[AFR][1000 genomes];0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs529684	0.86[AFR][1000 genomes];0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs531624	0.86[AFR][1000 genomes];0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs540459	0.93[AFR][1000 genomes];0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs543897	0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs544821	0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs544928	0.88[AFR][1000 genomes];0.82[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs549281	0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs550281	0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs551295	0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs553463	0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs554945	0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs557654	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs558159	0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs558772	0.89[AFR][1000 genomes];0.83[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs558985	0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs561000	0.81[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs561603	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs562037	0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs563463	0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs564718	0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs566264	0.80[AFR][1000 genomes];0.83[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs566315	0.93[AFR][1000 genomes];0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs566392	0.81[AFR][1000 genomes];0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs566501	0.93[ASN][1000 genomes]
rs568194	0.83[AFR][1000 genomes];0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs569015	0.93[AFR][1000 genomes];0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs569787	0.81[AFR][1000 genomes];0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs571673	0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs572692	0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs576173	0.85[AFR][1000 genomes];0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs577756	0.82[AFR][1000 genomes];0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs578603	0.88[AFR][1000 genomes];0.81[AMR][1000 genomes];0.96[ASN][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	nsv1018653	chr8:102818271-103009082	Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
2	nsv539700	chr8:102818271-103009082	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription Genic enhancers Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
3	nsv465749	chr8:102847202-102929460	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
4	nsv611819	chr8:102847202-102929460	Active TSS Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:36 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:102888800-102901000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
2	chr8:102894400-102901200	Weak transcription	Duodenum Smooth Muscle	Duodenum
3	chr8:102896400-102914800	Weak transcription	Right Ventricle	heart
4	chr8:102897600-102903600	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
5	chr8:102898000-102901400	Weak transcription	Right Atrium	heart
6	chr8:102898000-102914600	Weak transcription	Ovary	ovary
7	chr8:102898400-102902600	Weak transcription	Sigmoid Colon	Sigmoid Colon
8	chr8:102898800-102902600	Weak transcription	Small Intestine	intestine
9	chr8:102898800-102903200	Weak transcription	NHEK	skin
10	chr8:102899000-102903000	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
11	chr8:102899200-102901600	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
12	chr8:102899200-102902000	Enhancers	Primary T killer naive cells fromperipheralblood	blood
13	chr8:102899600-102901000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
14	chr8:102899600-102901000	Weak transcription	HUES48 Cell Line	embryonic stem cell
15	chr8:102899600-102901000	Weak transcription	HUES64 Cell Line	embryonic stem cell
16	chr8:102899600-102901200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
17	chr8:102899600-102901200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
18	chr8:102899600-102902800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
19	chr8:102899600-102903200	Weak transcription	Primary T cells from cord blood	blood
20	chr8:102899600-102904600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
21	chr8:102899600-102914600	Weak transcription	Left Ventricle	heart
22	chr8:102899800-102901000	Weak transcription	H1 Cell Line	embryonic stem cell
23	chr8:102899800-102901000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
24	chr8:102899800-102901000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
25	chr8:102899800-102901200	Weak transcription	HUES6 Cell Line	embryonic stem cell
26	chr8:102899800-102901400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
27	chr8:102899800-102902600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
28	chr8:102899800-102904000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
29	chr8:102900000-102903400	Enhancers	K562	blood
30	chr8:102900200-102901800	Enhancers	Skeletal Muscle Female	skeletal muscle
31	chr8:102900200-102902800	Weak transcription	Primary T helper cells PMA-I stimulated	--
32	chr8:102900400-102902200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
33	chr8:102900800-102901600	Enhancers	Primary T cells fromperipheralblood	blood
34	chr8:102900800-102901600	Enhancers	Psoas Muscle	Psoas
35	chr8:102900800-102901600	Enhancers	Stomach Mucosa	stomach
36	chr8:102900800-102903200	Enhancers	iPS-18 Cell Line	embryonic stem cell

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