Variant report

Variant	rs6765957
Chromosome Location	chr3:17135597-17135598
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	chr20:52468474..52471005-chr3:17134540..17137301,2	MCF-7	breast:

Extended variants
information (count: 9 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:9)

rs_ID	r²[population]
rs11716021	0.82[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3924971	0.81[CEU][hapmap]
rs4334629	0.81[CEU][hapmap]
rs4472039	0.84[CEU][hapmap]
rs4563393	0.89[YRI][hapmap];0.94[AFR][1000 genomes];0.91[AMR][1000 genomes];0.87[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4618210	0.93[ASW][hapmap];0.96[CEU][hapmap];0.95[CHB][hapmap];0.95[CHD][hapmap];0.95[GIH][hapmap];0.84[JPT][hapmap];0.97[LWK][hapmap];1.00[MEX][hapmap];0.88[MKK][hapmap];0.87[YRI][hapmap];0.94[AFR][1000 genomes];0.92[AMR][1000 genomes];0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4685427	0.96[CEU][hapmap];0.95[CHB][hapmap];0.84[JPT][hapmap]
rs4685428	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6442667	0.94[AFR][1000 genomes];0.91[AMR][1000 genomes];0.87[EUR][1000 genomes];0.95[ASN][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs6765957	CHCHD4	cis	parietal	SCAN

Chromatin state (count:44 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:17112200-17137400	Weak transcription	Brain Germinal Matrix	brain
2	chr3:17112600-17135800	Weak transcription	H1 Cell Line	embryonic stem cell
3	chr3:17122800-17136000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr3:17127200-17136000	Weak transcription	Fetal Intestine Small	intestine
5	chr3:17129000-17141400	Weak transcription	Fetal Brain Female	brain
6	chr3:17130000-17135800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
7	chr3:17130400-17143400	Weak transcription	Thymus	Thymus
8	chr3:17130800-17136000	Weak transcription	Fetal Muscle Trunk	muscle
9	chr3:17130800-17136000	Weak transcription	Right Ventricle	heart
10	chr3:17130800-17137000	Enhancers	Skeletal Muscle Male	skeletal muscle
11	chr3:17131200-17143800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
12	chr3:17131600-17136200	Weak transcription	Brain Hippocampus Middle	brain
13	chr3:17132000-17136000	Weak transcription	Right Atrium	heart
14	chr3:17132400-17135600	Weak transcription	HUES6 Cell Line	embryonic stem cell
15	chr3:17132400-17135800	Weak transcription	Fetal Heart	heart
16	chr3:17133000-17135600	Weak transcription	H9 Cell Line	embryonic stem cell
17	chr3:17133000-17136200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
18	chr3:17133000-17137000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
19	chr3:17133600-17135600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
20	chr3:17133600-17142600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
21	chr3:17133800-17135600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
22	chr3:17133800-17137400	Weak transcription	Primary B cells from cord blood	blood
23	chr3:17133800-17137400	Weak transcription	Primary T cells from cord blood	blood
24	chr3:17134000-17135800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
25	chr3:17134000-17136200	Weak transcription	Sigmoid Colon	Sigmoid Colon
26	chr3:17134000-17142600	Weak transcription	Primary T helper cells fromperipheralblood	blood
27	chr3:17134200-17135600	Weak transcription	HUES64 Cell Line	embryonic stem cell
28	chr3:17134200-17136000	Weak transcription	Primary monocytes fromperipheralblood	blood
29	chr3:17134200-17136200	Weak transcription	GM12878-XiMat	blood
30	chr3:17134200-17142800	Weak transcription	Primary B cells from peripheral blood	blood
31	chr3:17134400-17135800	Weak transcription	HUES48 Cell Line	embryonic stem cell
32	chr3:17134400-17136000	Weak transcription	Liver	Liver
33	chr3:17134400-17136000	Weak transcription	Monocytes-CD14+_RO01746	blood
34	chr3:17134600-17135600	Weak transcription	Fetal Muscle Leg	muscle
35	chr3:17134600-17135600	Weak transcription	Psoas Muscle	Psoas
36	chr3:17134600-17135600	Weak transcription	Skeletal Muscle Female	skeletal muscle
37	chr3:17134600-17135600	Weak transcription	Spleen	Spleen
38	chr3:17134600-17135800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
39	chr3:17134600-17136200	Weak transcription	Primary neutrophils fromperipheralblood	blood
40	chr3:17134600-17136200	Weak transcription	Primary T cells fromperipheralblood	blood
41	chr3:17134600-17136200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
42	chr3:17134800-17135800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
43	chr3:17135000-17136000	Weak transcription	Left Ventricle	heart
44	chr3:17135000-17137200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood

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