Variant report

Variant	rs956440
Chromosome Location	chr6:150725278-150725279
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	chr6:150725228..150728366-chr6:150731535..150733828,3	K562	blood:
2	chr6:150723506..150725309-chr6:150728737..150730322,2	MCF-7	breast:

Extended variants
information (count: 8 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:6)

rs_ID	r²[population]
rs11541678	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11758050	0.91[GIH][hapmap];0.88[JPT][hapmap];0.81[TSI][hapmap];0.81[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs2211106	1.00[CHB][hapmap];0.97[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];0.86[LWK][hapmap];0.90[TSI][hapmap];0.83[YRI][hapmap];0.81[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3734737	0.93[CEU][hapmap];0.89[CHB][hapmap];0.82[JPT][hapmap];0.81[TSI][hapmap];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs665389	0.98[ASN][1000 genomes]
rs72563997	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.99[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv464078	chr6:150720439-150729878	Weak transcription Bivalent Enhancer Enhancers Flanking Active TSS Strong transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
2	nsv604849	chr6:150720439-150729878	Weak transcription Flanking Active TSS Enhancers Strong transcription Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs956440	LATS1	cis	parietal	SCAN
rs956440	ZC3H12D	cis	lymphoblastoid	seeQTL
rs956440	ESR1	cis	cerebellum	SCAN

Chromatin state (count:33 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:150721800-150729800	Weak transcription	Liver	Liver
2	chr6:150723800-150725400	Enhancers	Fetal Heart	heart
3	chr6:150724000-150725400	Enhancers	Adipose Nuclei	Adipose
4	chr6:150724000-150725400	Enhancers	Fetal Lung	lung
5	chr6:150724000-150725400	Enhancers	Fetal Stomach	stomach
6	chr6:150724000-150725600	Enhancers	Osteobl	bone
7	chr6:150724200-150725400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
8	chr6:150724200-150725400	Enhancers	Muscle Satellite Cultured Cells	--
9	chr6:150724200-150725600	Enhancers	Hela-S3	cervix
10	chr6:150724200-150725600	Enhancers	NH-A	brain
11	chr6:150724400-150725400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
12	chr6:150724400-150725400	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
13	chr6:150724400-150725400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
14	chr6:150724400-150725400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
15	chr6:150724400-150725400	Enhancers	Esophagus	oesophagus
16	chr6:150724400-150725400	Enhancers	Fetal Muscle Leg	muscle
17	chr6:150724400-150725400	Enhancers	Right Ventricle	heart
18	chr6:150724400-150725400	Bivalent Enhancer	HUVEC	blood vessel
19	chr6:150724400-150725400	Enhancers	NHEK	skin
20	chr6:150724400-150725600	Enhancers	Fetal Kidney	kidney
21	chr6:150724600-150725400	Enhancers	Cortex derived primary cultured neurospheres	brain
22	chr6:150724600-150725400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
23	chr6:150724600-150725400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
24	chr6:150724600-150725400	Enhancers	Gastric	stomach
25	chr6:150724600-150725400	Enhancers	Skeletal Muscle Male	skeletal muscle
26	chr6:150724800-150725400	Enhancers	Stomach Mucosa	stomach
27	chr6:150724800-150728600	Weak transcription	Fetal Muscle Trunk	muscle
28	chr6:150724800-150730000	Weak transcription	Left Ventricle	heart
29	chr6:150724800-150731000	Weak transcription	Lung	lung
30	chr6:150725000-150730000	Weak transcription	HMEC	breast
31	chr6:150725200-150725400	Enhancers	Breast Myoepithelial Primary Cells	Breast
32	chr6:150725200-150725400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
33	chr6:150725200-150725600	Enhancers	Pancreatic Islets	Pancreatic Islet

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