Variant report

Variant	rs4738678
Chromosome Location	chr8:55057197-55057198
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	chr8:55010890..55013599-chr8:55056433..55059069,2	MCF-7	breast:

Extended variants
information (count: 54 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:51)

rs_ID	r²[population]
rs10216491	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1039926	0.88[AFR][1000 genomes];0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10504161	0.88[AFR][1000 genomes];0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10958396	0.81[EUR][1000 genomes]
rs10958397	0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11984645	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11984672	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11991952	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11993959	0.88[AFR][1000 genomes];0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11996128	0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12114043	0.88[AFR][1000 genomes];0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12114739	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12679103	0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12679542	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12681024	0.81[EUR][1000 genomes]
rs13261058	0.85[EUR][1000 genomes]
rs13276927	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13277185	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs16919782	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs16919784	0.88[AFR][1000 genomes];0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2008122	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2271567	0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2292589	0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2292590	0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2375696	0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs28573859	0.85[AFR][1000 genomes];0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs34168614	0.83[AFR][1000 genomes];0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs34997387	0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4737487	0.91[EUR][1000 genomes]
rs4737488	0.91[EUR][1000 genomes]
rs60183530	0.90[EUR][1000 genomes]
rs61213253	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs61271559	0.90[EUR][1000 genomes]
rs61477279	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs6473909	0.90[EUR][1000 genomes]
rs6473911	0.87[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6473913	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6473914	0.88[AFR][1000 genomes];0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6473915	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6983694	0.90[EUR][1000 genomes]
rs7011379	0.88[EUR][1000 genomes]
rs7011430	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7012031	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs71517558	0.86[AFR][1000 genomes];0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs72614666	0.90[EUR][1000 genomes]
rs72614668	0.81[EUR][1000 genomes]
rs72614670	0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs72614671	0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7830051	0.87[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7842911	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs981638	0.83[EUR][1000 genomes];0.80[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1023983	chr8:54790309-55145770	Flanking Active TSS Weak transcription Enhancers Strong transcription Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
2	nsv539623	chr8:54790309-55145770	Bivalent Enhancer Genic enhancers Weak transcription Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
3	nsv1026869	chr8:54989732-55089360	Weak transcription Active TSS Strong transcription Flanking Active TSS Enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:55048600-55065600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr8:55048600-55066200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr8:55048800-55063200	Weak transcription	Pancreatic Islets	Pancreatic Islet
4	chr8:55049000-55057600	Weak transcription	Psoas Muscle	Psoas
5	chr8:55049000-55061800	Strong transcription	HUES6 Cell Line	embryonic stem cell
6	chr8:55049000-55062000	Strong transcription	iPS-18 Cell Line	embryonic stem cell
7	chr8:55049000-55065800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
8	chr8:55049200-55061600	Strong transcription	Osteobl	bone
9	chr8:55049200-55063800	Strong transcription	HUES48 Cell Line	embryonic stem cell
10	chr8:55049200-55063800	Strong transcription	Rectal Mucosa Donor 31	rectum
11	chr8:55049200-55064000	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
12	chr8:55049200-55064000	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
13	chr8:55049200-55064000	Strong transcription	iPS-20b Cell Line	embryonic stem cell
14	chr8:55049200-55064000	Strong transcription	Fetal Intestine Large	intestine
15	chr8:55049200-55064200	Strong transcription	Fetal Muscle Trunk	muscle
16	chr8:55049200-55064600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
17	chr8:55049400-55061600	Strong transcription	Stomach Smooth Muscle	stomach
18	chr8:55049400-55063600	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
19	chr8:55049400-55063800	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
20	chr8:55049400-55064000	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
21	chr8:55049400-55064000	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
22	chr8:55049400-55064000	Strong transcription	Rectal Mucosa Donor 29	rectum
23	chr8:55049400-55064600	Strong transcription	HUES64 Cell Line	embryonic stem cell
24	chr8:55049600-55062000	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
25	chr8:55049600-55064000	Strong transcription	Adipose Nuclei	Adipose
26	chr8:55049800-55063600	Strong transcription	Primary hematopoietic stem cells short term culture	blood
27	chr8:55049800-55064000	Strong transcription	Breast Myoepithelial Primary Cells	Breast
28	chr8:55050000-55063000	Strong transcription	HMEC	breast
29	chr8:55050000-55063800	Strong transcription	Duodenum Mucosa	Duodenum
30	chr8:55050600-55063800	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
31	chr8:55052000-55061600	Strong transcription	NH-A	brain
32	chr8:55052000-55061800	Strong transcription	K562	blood
33	chr8:55052200-55061400	Strong transcription	Hela-S3	cervix
34	chr8:55052200-55061800	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
35	chr8:55052200-55063200	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
36	chr8:55052400-55061600	Strong transcription	NHEK	skin
37	chr8:55052600-55062200	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
38	chr8:55052600-55063200	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
39	chr8:55052600-55065600	Weak transcription	Fetal Heart	heart
40	chr8:55053600-55060800	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
41	chr8:55053600-55061400	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
42	chr8:55053600-55061400	Strong transcription	NHLF	lung
43	chr8:55053600-55061800	Strong transcription	Primary T cells fromperipheralblood	blood
44	chr8:55053600-55061800	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
45	chr8:55053600-55061800	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
46	chr8:55053600-55063000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
47	chr8:55053600-55063800	Strong transcription	Skeletal Muscle Female	skeletal muscle
48	chr8:55053600-55064000	Strong transcription	Fetal Thymus	thymus
49	chr8:55053800-55062800	Strong transcription	Placenta	Placenta
50	chr8:55054600-55062800	Strong transcription	Fetal Stomach	stomach

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