Variant report

Variant	rs12164341
Chromosome Location	chrX:75403652-75403653
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chrX:75391615..75394640-chrX:75400468..75405139,4	MCF-7	breast:
2	chrX:75396624..75399008-chrX:75402474..75405316,3	K562	blood:
3	chrX:75396624..75398262-chrX:75402474..75404216,2	K562	blood:

Variant related genes	Relation type
ENSG00000102390	Chromatin interaction

Extended variants
information (count: 6 )
Associated
traits (count: 2 )

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

rs_ID	r²[population]
rs2301862	0.91[JPT][hapmap]
rs2301863	1.00[ASW][hapmap];1.00[CHB][hapmap];0.83[GIH][hapmap];1.00[JPT][hapmap];0.93[MKK][hapmap];1.00[YRI][hapmap]
rs4892428	0.81[JPT][hapmap]
rs5938407	0.91[JPT][hapmap]
rs5938419	0.81[JPT][hapmap]
rs5981411	0.84[GIH][hapmap];0.91[JPT][hapmap];0.82[MEX][hapmap]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs12164341	PHYHD1	trans	lymphoblastoid	seeQTL
rs12164341	SLC7A7	trans	lymphoblastoid	seeQTL

Chromatin state (count:105 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chrX:75393800-75406000	Weak transcription	Small Intestine	intestine
2	chrX:75393800-75406200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chrX:75394200-75405000	Weak transcription	Aorta	Aorta
4	chrX:75394200-75405000	Weak transcription	Brain Substantia Nigra	brain
5	chrX:75394200-75405800	Weak transcription	Colonic Mucosa	Colon
6	chrX:75394200-75406400	Weak transcription	Pancreas	Pancrea
7	chrX:75394200-75406600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
8	chrX:75394200-75407400	Weak transcription	Esophagus	oesophagus
9	chrX:75394400-75406000	Weak transcription	Placenta Amnion	Placenta Amnion
10	chrX:75394400-75409400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
11	chrX:75394600-75404000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
12	chrX:75394600-75407600	Weak transcription	Fetal Brain Male	brain
13	chrX:75394800-75404600	Weak transcription	Ovary	ovary
14	chrX:75394800-75406400	Weak transcription	Right Ventricle	heart
15	chrX:75395000-75405400	Weak transcription	Brain Anterior Caudate	brain
16	chrX:75395000-75406400	Weak transcription	Brain Inferior Temporal Lobe	brain
17	chrX:75395200-75403800	Weak transcription	Skeletal Muscle Male	skeletal muscle
18	chrX:75395200-75404200	Weak transcription	Brain Cingulate Gyrus	brain
19	chrX:75395200-75405800	Weak transcription	Brain Germinal Matrix	brain
20	chrX:75395200-75410200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
21	chrX:75395400-75406200	Strong transcription	HUES64 Cell Line	embryonic stem cell
22	chrX:75395400-75406400	Weak transcription	HUVEC	blood vessel
23	chrX:75395400-75407000	Weak transcription	Colon Smooth Muscle	Colon
24	chrX:75395400-75407600	Weak transcription	Primary B cells from cord blood	blood
25	chrX:75395600-75405400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
26	chrX:75395800-75405800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
27	chrX:75396000-75405400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
28	chrX:75396000-75407200	Weak transcription	Primary T cells from cord blood	blood
29	chrX:75397200-75404600	Weak transcription	HSMMtube	muscle
30	chrX:75397400-75406000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
31	chrX:75397800-75404800	Weak transcription	HSMM	muscle
32	chrX:75398000-75405000	Weak transcription	Sigmoid Colon	Sigmoid Colon
33	chrX:75398000-75405400	Weak transcription	NHEK	skin
34	chrX:75398000-75406000	Weak transcription	NHLF	lung
35	chrX:75398000-75406200	Weak transcription	H9 Cell Line	embryonic stem cell
36	chrX:75398000-75406200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
37	chrX:75398000-75406800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
38	chrX:75398000-75409400	Weak transcription	HMEC	breast
39	chrX:75398000-75410600	Weak transcription	Muscle Satellite Cultured Cells	--
40	chrX:75398400-75404600	Weak transcription	Osteobl	bone
41	chrX:75398600-75404400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
42	chrX:75399200-75404600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
43	chrX:75399200-75404600	Weak transcription	A549	lung
44	chrX:75399600-75404800	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
45	chrX:75399800-75405800	Strong transcription	iPS-20b Cell Line	embryonic stem cell
46	chrX:75400000-75404000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
47	chrX:75400000-75406200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
48	chrX:75400000-75406400	Strong transcription	HUES6 Cell Line	embryonic stem cell
49	chrX:75400600-75406000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
50	chrX:75400600-75406200	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

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