Variant report

Variant	rs1548950
Chromosome Location	chr7:107882091-107882092
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	chr7:107880559..107882949-chr7:107899019..107901919,2	MCF-7	breast:

Extended variants
information (count: 59 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:56)

rs_ID	r²[population]
rs10487842	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs10487843	0.85[AFR][1000 genomes];0.98[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs10953560	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs11978605	0.82[ASN][1000 genomes]
rs11980184	0.85[AFR][1000 genomes];0.98[AMR][1000 genomes];0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs11980771	0.84[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11984362	0.85[AFR][1000 genomes];0.95[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12531607	0.81[AMR][1000 genomes]
rs12534073	0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12534706	0.88[AFR][1000 genomes];0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12536606	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs12538125	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12705439	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs13228054	0.82[EUR][1000 genomes]
rs13228675	0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs13231463	0.95[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs13237289	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs13242621	0.86[AFR][1000 genomes];0.95[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs13245910	0.94[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs13247108	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs17155187	0.85[AFR][1000 genomes];0.95[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs17155196	0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17155335	0.85[EUR][1000 genomes]
rs17331230	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs2111203	0.96[EUR][1000 genomes]
rs2191046	0.84[AFR][1000 genomes];0.92[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2193252	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2193253	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2193254	0.85[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2267876	0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2267877	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2267878	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2272617	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2284284	0.84[EUR][1000 genomes]
rs2299992	0.84[AFR][1000 genomes];0.98[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2299996	0.84[AFR][1000 genomes];0.98[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2299999	0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2300000	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2300002	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34723270	0.97[EUR][1000 genomes]
rs34754517	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs55643449	0.95[AMR][1000 genomes];0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs67133820	0.85[AFR][1000 genomes];0.95[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6958333	0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6964282	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs6977003	0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6980041	0.89[AFR][1000 genomes];0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs71568512	0.86[AFR][1000 genomes];0.95[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs73199565	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7776972	0.97[EUR][1000 genomes]
rs7783282	0.88[AMR][1000 genomes]
rs7784186	0.85[AFR][1000 genomes];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7789291	0.86[AFR][1000 genomes];0.95[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7795834	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7796675	0.84[AFR][1000 genomes];0.95[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7809003	0.94[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[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	esv3348839	chr7:107377311-108286538	Weak transcription Enhancers Flanking Active TSS Genic enhancers ZNF genes & repeats Strong transcription Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	91 gene(s)	inside rSNPs	diseases
2	nsv949344	chr7:107396502-107987085	Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
3	nsv831090	chr7:107786650-108011196	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:31 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:107830400-107886400	Weak transcription	Brain Inferior Temporal Lobe	brain
2	chr7:107860600-107886600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
3	chr7:107871200-107886400	Weak transcription	Brain Anterior Caudate	brain
4	chr7:107874800-107886200	Weak transcription	HSMMtube	muscle
5	chr7:107876400-107886400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
6	chr7:107877000-107885600	Weak transcription	HSMM	muscle
7	chr7:107877000-107886200	Weak transcription	HMEC	breast
8	chr7:107877800-107884600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
9	chr7:107877800-107884600	Weak transcription	Fetal Intestine Small	intestine
10	chr7:107877800-107886400	Weak transcription	Pancreas	Pancrea
11	chr7:107878400-107885200	Weak transcription	Fetal Intestine Large	intestine
12	chr7:107880400-107882800	Weak transcription	Pancreatic Islets	Pancreatic Islet
13	chr7:107880400-107884400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
14	chr7:107880400-107886200	Weak transcription	HUES6 Cell Line	embryonic stem cell
15	chr7:107880600-107884600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
16	chr7:107880600-107884600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
17	chr7:107880600-107885200	Weak transcription	K562	blood
18	chr7:107880600-107887000	Weak transcription	H9 Cell Line	embryonic stem cell
19	chr7:107880800-107883600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
20	chr7:107880800-107886600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
21	chr7:107881000-107886200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
22	chr7:107881200-107884400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
23	chr7:107881200-107886000	Weak transcription	Cortex derived primary cultured neurospheres	brain
24	chr7:107881200-107886400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
25	chr7:107881200-107886400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
26	chr7:107881200-107886400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
27	chr7:107881200-107886400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
28	chr7:107881200-107886600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
29	chr7:107881600-107884600	Weak transcription	HUES48 Cell Line	embryonic stem cell
30	chr7:107881800-107886400	Weak transcription	HUES64 Cell Line	embryonic stem cell
31	chr7:107882000-107882200	Flanking Active TSS	A549	lung

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