Variant report

Variant	rs11932879
Chromosome Location	chr4:79459087-79459088
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr4:79457662..79460244-chr4:79461746..79464247,2	MCF-7	breast:

Extended variants
information (count: 92 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:91)

rs_ID	r²[population]
rs10518200	0.88[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs11098208	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs11721380	0.88[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11722061	0.88[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs11723383	0.88[AMR][1000 genomes];0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11723415	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs11724180	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs11725388	0.88[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs11725573	0.88[AMR][1000 genomes]
rs11727119	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs11727137	0.88[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs11728117	0.88[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs11728640	1.00[ASN][1000 genomes]
rs11728758	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs11728817	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs11729604	0.88[AMR][1000 genomes]
rs11729705	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs11730601	0.88[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs11730636	0.88[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs11730668	0.88[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs11731012	0.88[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs11731315	0.88[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11731480	0.88[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11731575	0.88[AMR][1000 genomes]
rs11733290	0.88[AMR][1000 genomes];0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11733471	0.88[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs11736504	0.88[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11933630	0.81[AMR][1000 genomes]
rs11933879	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11937000	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11937001	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11939230	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs11939289	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs11940228	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs11943426	0.83[AMR][1000 genomes]
rs1390742	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1496600	1.00[ASN][1000 genomes]
rs17003235	1.00[ASN][1000 genomes]
rs17427362	1.00[ASN][1000 genomes]
rs17429053	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs17429432	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs17429467	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs17429649	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs17429670	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs17429718	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs17429816	0.88[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs17429963	0.88[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs17430075	0.88[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs17430137	0.88[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs17430229	0.88[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs17430243	0.88[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs17430334	0.88[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs17469341	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs17469981	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs17470002	0.88[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs17470023	0.88[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs17470072	0.88[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs17470303	0.88[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs17470490	0.88[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs17470553	1.00[ASN][1000 genomes]
rs17470609	0.88[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs17470811	0.88[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17471069	0.86[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17471104	0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17471139	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17481799	0.88[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35933858	0.88[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs55849455	1.00[ASN][1000 genomes]
rs56681862	1.00[ASN][1000 genomes]
rs56874454	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57325795	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs57356999	0.88[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs57558056	0.88[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs57771713	0.88[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs58467919	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58547899	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59347621	1.00[ASN][1000 genomes]
rs59373877	1.00[ASN][1000 genomes]
rs59658562	0.85[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs60805155	0.85[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs60991776	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs61185935	0.88[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs61346341	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72659058	1.00[ASN][1000 genomes]
rs72873310	0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72873312	0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72873313	0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7675866	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7700192	0.85[EUR][1000 genomes]
rs931603	0.88[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs931605	0.88[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1009633	chr4:78887573-79652236	Weak transcription Strong transcription Enhancers Flanking Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Active TSS 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	41 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:49 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:79363800-79464200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr4:79385000-79467400	Weak transcription	Fetal Brain Male	brain
3	chr4:79393800-79467200	Weak transcription	Skeletal Muscle Male	skeletal muscle
4	chr4:79401000-79467200	Weak transcription	Psoas Muscle	Psoas
5	chr4:79410200-79461800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
6	chr4:79428200-79466200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
7	chr4:79435600-79463000	Weak transcription	Fetal Heart	heart
8	chr4:79435600-79467200	Weak transcription	Skeletal Muscle Female	skeletal muscle
9	chr4:79440600-79465800	Weak transcription	Lung	lung
10	chr4:79440600-79467200	Weak transcription	Left Ventricle	heart
11	chr4:79442400-79465600	Weak transcription	Fetal Stomach	stomach
12	chr4:79444800-79472400	Weak transcription	Right Atrium	heart
13	chr4:79451400-79462800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
14	chr4:79451600-79461600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
15	chr4:79451800-79463400	Weak transcription	NHDF-Ad	bronchial
16	chr4:79451800-79463800	Weak transcription	NH-A	brain
17	chr4:79452000-79461600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
18	chr4:79453400-79464200	Strong transcription	iPS-20b Cell Line	embryonic stem cell
19	chr4:79453400-79467200	Weak transcription	Placenta	Placenta
20	chr4:79454600-79463800	Strong transcription	H1 Cell Line	embryonic stem cell
21	chr4:79454800-79463600	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
22	chr4:79455000-79463400	Weak transcription	Fetal Muscle Trunk	muscle
23	chr4:79455200-79460400	Weak transcription	Esophagus	oesophagus
24	chr4:79455400-79463200	Strong transcription	HUES48 Cell Line	embryonic stem cell
25	chr4:79455400-79464400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
26	chr4:79455600-79459200	Strong transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
27	chr4:79455600-79462600	Strong transcription	HUES64 Cell Line	embryonic stem cell
28	chr4:79455600-79462800	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
29	chr4:79456000-79461600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
30	chr4:79456000-79461600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
31	chr4:79456000-79464400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
32	chr4:79456200-79463400	Weak transcription	HSMMtube	muscle
33	chr4:79456400-79464600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
34	chr4:79456400-79471200	Weak transcription	Fetal Kidney	kidney
35	chr4:79456600-79464000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
36	chr4:79456600-79464400	Weak transcription	Pancreas	Pancrea
37	chr4:79456800-79463600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
38	chr4:79456800-79464200	Weak transcription	Fetal Lung	lung
39	chr4:79456800-79464600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
40	chr4:79457000-79471200	Weak transcription	H9 Cell Line	embryonic stem cell
41	chr4:79457200-79461600	Weak transcription	Fetal Intestine Small	intestine
42	chr4:79457600-79461600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
43	chr4:79457600-79463000	Weak transcription	HMEC	breast
44	chr4:79458400-79461000	Weak transcription	HepG2	liver
45	chr4:79458600-79460400	Weak transcription	HUES6 Cell Line	embryonic stem cell
46	chr4:79458600-79461600	Weak transcription	Fetal Intestine Large	intestine
47	chr4:79458600-79463200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
48	chr4:79458600-79471000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
49	chr4:79459000-79460400	Weak transcription	iPS-18 Cell Line	embryonic stem cell

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