Variant report

Variant	rs10239118
Chromosome Location	chr7:129368612-129368613
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr7:129366782..129368831-chr7:129463577..129465593,2	MCF-7	breast:
2	chr7:129250897..129252925-chr7:129366093..129368743,2	K562	blood:

Variant related genes	Relation type
ENSG00000273329	Chromatin interaction
ENSG00000106459	Chromatin interaction

Extended variants
information (count: 13 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs10244147	0.86[ASW][hapmap];0.83[CHB][hapmap];0.92[GIH][hapmap];0.92[LWK][hapmap];0.95[MKK][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes]
rs10244241	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10259352	0.80[ASN][1000 genomes]
rs10267039	0.81[ASW][hapmap];0.97[LWK][hapmap];0.82[MKK][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes]
rs10500120	1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];0.97[LWK][hapmap];0.95[MEX][hapmap];0.95[MKK][hapmap];0.87[TSI][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12538553	0.83[YRI][hapmap]
rs13246612	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2402970	0.81[ASW][hapmap];0.97[LWK][hapmap];0.82[MKK][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes]
rs35268174	0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];0.87[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs36094093	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4731620	0.89[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.92[AFR][1000 genomes];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs62489304	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6978860	0.97[LWK][hapmap];0.82[MKK][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes]

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs10239118	LEP	cis	cerebellum	SCAN
rs10239118	FAM71F1	cis	parietal	SCAN
rs10239118	CTSZ	trans	cerebellum	SCAN

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:129315600-129373600	Weak transcription	Psoas Muscle	Psoas
2	chr7:129319000-129380000	Weak transcription	NHDF-Ad	bronchial
3	chr7:129328000-129369000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr7:129339200-129381800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
5	chr7:129343200-129379600	Weak transcription	Stomach Mucosa	stomach
6	chr7:129346800-129372400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr7:129348200-129375600	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
8	chr7:129348200-129392000	Strong transcription	Primary T helper cells fromperipheralblood	blood
9	chr7:129348400-129372400	Strong transcription	Primary T helper cells PMA-I stimulated	--
10	chr7:129348400-129372400	Strong transcription	Dnd41	blood
11	chr7:129348600-129372400	Strong transcription	HUES6 Cell Line	embryonic stem cell
12	chr7:129348600-129372600	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
13	chr7:129348600-129375200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
14	chr7:129348600-129375800	Strong transcription	Primary T cells fromperipheralblood	blood
15	chr7:129351600-129394800	Weak transcription	Hela-S3	cervix
16	chr7:129352600-129371200	Weak transcription	HMEC	breast
17	chr7:129355200-129380600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
18	chr7:129357000-129392400	Strong transcription	Breast Myoepithelial Primary Cells	Breast
19	chr7:129357400-129378400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
20	chr7:129357800-129371400	Weak transcription	Rectal Smooth Muscle	rectum
21	chr7:129357800-129374200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
22	chr7:129358000-129371200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
23	chr7:129358200-129371800	Weak transcription	NH-A	brain
24	chr7:129358400-129373800	Weak transcription	Skeletal Muscle Male	skeletal muscle
25	chr7:129358800-129371400	Weak transcription	NHLF	lung
26	chr7:129358800-129376800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
27	chr7:129360400-129373800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
28	chr7:129360600-129368800	Weak transcription	Brain Hippocampus Middle	brain
29	chr7:129360600-129369000	Weak transcription	Brain Substantia Nigra	brain
30	chr7:129360600-129371200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
31	chr7:129360600-129394800	Weak transcription	Small Intestine	intestine
32	chr7:129361200-129371400	Weak transcription	HepG2	liver
33	chr7:129361800-129372200	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
34	chr7:129361800-129392400	Strong transcription	Monocytes-CD14+_RO01746	blood
35	chr7:129362200-129369400	Strong transcription	NHEK	skin
36	chr7:129362200-129372400	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
37	chr7:129362200-129372600	Strong transcription	Fetal Thymus	thymus
38	chr7:129362200-129374800	Strong transcription	HUES48 Cell Line	embryonic stem cell
39	chr7:129362200-129375000	Strong transcription	Primary T cells from cord blood	blood
40	chr7:129362200-129376000	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
41	chr7:129362200-129379000	Strong transcription	Placenta	Placenta
42	chr7:129362200-129380600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
43	chr7:129362200-129381200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
44	chr7:129362200-129387800	Strong transcription	Liver	Liver
45	chr7:129362400-129372200	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
46	chr7:129362400-129372200	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
47	chr7:129362400-129372200	Strong transcription	Fetal Muscle Trunk	muscle
48	chr7:129362400-129372800	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
49	chr7:129362400-129375200	Strong transcription	Primary B cells from peripheral blood	blood
50	chr7:129363400-129370800	Strong transcription	Primary hematopoietic stem cells	blood

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