Variant report

Variant	rs35918529
Chromosome Location	chr1:169344594-169344595
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:169341801..169344771-chr1:169346777..169350780,3	MCF-7	breast:

Extended variants
information (count: 42 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:36)

rs_ID	r²[population]
rs1028180	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12729761	0.81[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs12733037	0.81[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs12744859	0.81[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs12752953	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1533518	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1533519	0.94[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16862097	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs16862133	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16862153	0.96[AFR][1000 genomes];0.94[AMR][1000 genomes];0.80[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs16862176	0.87[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs16862180	0.87[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs16862217	0.81[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs1883167	0.81[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs2037249	0.94[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2203743	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2271762	0.94[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2272801	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34057682	0.92[AFR][1000 genomes];0.94[AMR][1000 genomes];0.80[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs34373126	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs34599582	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs34640648	0.94[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34858340	0.81[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs35171152	0.94[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35686518	0.81[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs3765229	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3766097	0.94[AMR][1000 genomes];0.84[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3862937	0.81[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs4551642	0.96[AFR][1000 genomes];0.87[AMR][1000 genomes];0.80[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4590731	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57295069	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58809384	0.94[AMR][1000 genomes];0.84[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs66512221	0.94[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs66937324	0.96[AFR][1000 genomes];0.94[AMR][1000 genomes];0.80[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs67795749	0.96[AFR][1000 genomes];0.94[AMR][1000 genomes];0.80[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs72637232	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv10418	chr1:169059628-169621268	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Strong transcription ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	56 gene(s)	inside rSNPs	diseases
2	nsv1010010	chr1:169189586-169347545	Active TSS Weak transcription Flanking Active TSS Genic enhancers Enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
3	nsv872531	chr1:169191860-169388193	Active TSS Weak transcription Strong transcription Flanking Active TSS Genic enhancers Enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
4	nsv872532	chr1:169275630-169363203	Strong transcription Flanking Active TSS Enhancers Weak transcription Genic enhancers Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
5	nsv831871	chr1:169320673-169486680	Weak transcription Strong transcription Active TSS Flanking Active TSS Enhancers Bivalent/Poised TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
6	esv3436980	chr1:169344228-169345276	Weak transcription Strong transcription Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:169338000-169351200	Weak transcription	Lung	lung
2	chr1:169338000-169351200	Weak transcription	Spleen	Spleen
3	chr1:169338000-169353600	Weak transcription	Small Intestine	intestine
4	chr1:169338000-169358000	Weak transcription	Esophagus	oesophagus
5	chr1:169338000-169360000	Weak transcription	Fetal Heart	heart
6	chr1:169338000-169360400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
7	chr1:169338000-169365200	Weak transcription	Gastric	stomach
8	chr1:169338000-169365600	Weak transcription	Pancreas	Pancrea
9	chr1:169338200-169345800	Weak transcription	Primary B cells from peripheral blood	blood
10	chr1:169338200-169345800	Weak transcription	Ovary	ovary
11	chr1:169338200-169351800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
12	chr1:169338200-169360400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
13	chr1:169338200-169360400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr1:169338200-169362200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
15	chr1:169338200-169363600	Weak transcription	H9 Cell Line	embryonic stem cell
16	chr1:169338200-169363600	Weak transcription	Stomach Mucosa	stomach
17	chr1:169338200-169369000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
18	chr1:169338400-169345800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
19	chr1:169338400-169345800	Weak transcription	Right Ventricle	heart
20	chr1:169338400-169349600	Weak transcription	HSMMtube	muscle
21	chr1:169338400-169360200	Weak transcription	H1 Cell Line	embryonic stem cell
22	chr1:169338400-169362600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
23	chr1:169338600-169345800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
24	chr1:169338600-169345800	Weak transcription	Colonic Mucosa	Colon
25	chr1:169338600-169345800	Weak transcription	Colon Smooth Muscle	Colon
26	chr1:169338600-169345800	Weak transcription	Psoas Muscle	Psoas
27	chr1:169338600-169346000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
28	chr1:169338600-169346000	Weak transcription	Placenta Amnion	Placenta Amnion
29	chr1:169338600-169349800	Weak transcription	Cortex derived primary cultured neurospheres	brain
30	chr1:169338600-169351400	Weak transcription	Thymus	Thymus
31	chr1:169338600-169352200	Weak transcription	Aorta	Aorta
32	chr1:169338600-169352200	Weak transcription	Fetal Stomach	stomach
33	chr1:169338600-169352400	Weak transcription	Fetal Intestine Small	intestine
34	chr1:169338600-169352800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
35	chr1:169338600-169357600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
36	chr1:169338800-169345800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
37	chr1:169338800-169347400	Weak transcription	Fetal Brain Female	brain
38	chr1:169339200-169345600	Weak transcription	A549	lung
39	chr1:169339200-169351800	Weak transcription	Fetal Brain Male	brain
40	chr1:169339400-169345600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
41	chr1:169339400-169345800	Weak transcription	HepG2	liver
42	chr1:169339400-169346000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
43	chr1:169339400-169347600	Weak transcription	Rectal Smooth Muscle	rectum
44	chr1:169339600-169345200	Weak transcription	Brain Angular Gyrus	brain
45	chr1:169339600-169345800	Weak transcription	Brain Cingulate Gyrus	brain
46	chr1:169339600-169345800	Weak transcription	Duodenum Smooth Muscle	Duodenum
47	chr1:169339600-169351000	Weak transcription	Skeletal Muscle Male	skeletal muscle
48	chr1:169339800-169345800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
49	chr1:169340000-169345600	Weak transcription	Duodenum Mucosa	Duodenum
50	chr1:169340200-169344800	Weak transcription	Primary T cells fromperipheralblood	blood

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