Variant report

Variant	rs7169401
Chromosome Location	chr15:83561295-83561296
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	chr15:83548573..83551400-chr15:83560401..83562858,2	MCF-7	breast:
2	chr15:83546371..83548475-chr15:83560322..83562996,2	K562	blood:

Extended variants
information (count: 27 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs10906985	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11259959	0.90[AFR][1000 genomes];0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12385964	1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs1256429	0.89[CHB][hapmap];0.86[JPT][hapmap]
rs1256434	0.88[CHB][hapmap];1.00[JPT][hapmap];0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1256451	0.89[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs1256452	0.89[CHB][hapmap];1.00[JPT][hapmap]
rs1256453	0.89[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1256455	1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs12905235	0.86[JPT][hapmap]
rs13380133	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1553883	0.86[JPT][hapmap]
rs17360083	1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2379992	0.88[JPT][hapmap]
rs2621227	0.95[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2621228	0.91[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2667382	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2667383	0.96[ASN][1000 genomes]
rs2667385	0.86[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs41310978	0.94[ASN][1000 genomes]
rs4238539	0.88[JPT][hapmap]
rs62011731	0.90[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62011732	0.99[ASN][1000 genomes]
rs62011734	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7168760	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8038679	0.89[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs9806543	0.91[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];0.84[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs7169401	HOMER2	cis	Skin Sun Exposed Lower leg	GTEx
rs7169401	WHAMM	cis	Adipose Subcutaneous	GTEx

Chromatin state (count:42 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:83520000-83563800	Weak transcription	Brain Hippocampus Middle	brain
2	chr15:83524600-83567800	Weak transcription	Left Ventricle	heart
3	chr15:83524800-83563800	Weak transcription	Cortex derived primary cultured neurospheres	brain
4	chr15:83540600-83573200	Weak transcription	Right Atrium	heart
5	chr15:83540800-83563600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
6	chr15:83541000-83566200	Weak transcription	Spleen	Spleen
7	chr15:83542400-83564000	Weak transcription	Lung	lung
8	chr15:83542400-83567200	Weak transcription	Brain Angular Gyrus	brain
9	chr15:83543600-83567600	Weak transcription	Aorta	Aorta
10	chr15:83544000-83563800	Weak transcription	Brain Anterior Caudate	brain
11	chr15:83554400-83564000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr15:83556000-83563800	Weak transcription	Brain Cingulate Gyrus	brain
13	chr15:83556800-83563800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
14	chr15:83557400-83563800	Weak transcription	Brain Substantia Nigra	brain
15	chr15:83557800-83561400	Strong transcription	Liver	Liver
16	chr15:83558000-83563800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
17	chr15:83558200-83563800	Weak transcription	H1 Cell Line	embryonic stem cell
18	chr15:83558200-83563800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
19	chr15:83558200-83563800	Weak transcription	Stomach Smooth Muscle	stomach
20	chr15:83558200-83564000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
21	chr15:83558200-83565000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
22	chr15:83558400-83563600	Weak transcription	HSMM	muscle
23	chr15:83558400-83569600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
24	chr15:83558600-83561600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
25	chr15:83558600-83563600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
26	chr15:83558600-83566600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
27	chr15:83558600-83567800	Weak transcription	Psoas Muscle	Psoas
28	chr15:83558800-83562000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
29	chr15:83559200-83563800	Weak transcription	Fetal Stomach	stomach
30	chr15:83559600-83563800	Weak transcription	Brain Inferior Temporal Lobe	brain
31	chr15:83559600-83570200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
32	chr15:83560000-83563600	Weak transcription	Rectal Smooth Muscle	rectum
33	chr15:83560000-83563800	Weak transcription	Colon Smooth Muscle	Colon
34	chr15:83560200-83563800	Weak transcription	Fetal Muscle Leg	muscle
35	chr15:83560400-83563800	Weak transcription	Skeletal Muscle Female	skeletal muscle
36	chr15:83560400-83564200	Weak transcription	HSMMtube	muscle
37	chr15:83560400-83570200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
38	chr15:83560600-83563800	Weak transcription	Pancreas	Pancrea
39	chr15:83560600-83563800	Weak transcription	Skeletal Muscle Male	skeletal muscle
40	chr15:83560600-83565200	Weak transcription	Gastric	stomach
41	chr15:83561200-83561800	Enhancers	Brain Germinal Matrix	brain
42	chr15:83561200-83561800	Bivalent Enhancer	K562	blood

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