Variant report

Variant	rs17791484
Chromosome Location	chr10:61612159-61612160
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:61612117..61617926-chr10:61664918..61668274,7	MCF-7	breast:
2	chr10:61611498..61613501-chr10:61665019..61667036,2	MCF-7	breast:
3	chr10:61611168..61612736-chr10:61629304..61631288,2	K562	blood:
4	chr10:61608407..61613876-chr10:61664743..61669286,7	K562	blood:
5	chr10:61612125..61614506-chr10:61653727..61655792,2	MCF-7	breast:
6	chr10:61610249..61613076-chr10:61614715..61617033,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000108091	Chromatin interaction

Extended variants
information (count: 40 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs10509114	0.81[CEU][hapmap];0.85[CHB][hapmap];0.89[CHD][hapmap];0.88[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.87[MKK][hapmap];0.92[AMR][1000 genomes];0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12571632	0.86[CHB][hapmap]
rs12573055	0.82[CHB][hapmap];1.00[JPT][hapmap]
rs1664257	0.93[MEX][hapmap]
rs1664258	0.87[MEX][hapmap]
rs1664260	0.86[MEX][hapmap]
rs1664262	0.87[MEX][hapmap]
rs1664276	1.00[JPT][hapmap]
rs1684898	0.87[MEX][hapmap]
rs17201105	0.81[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17202345	0.85[CHB][hapmap];0.89[CHD][hapmap];0.88[GIH][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs17202600	0.85[CHB][hapmap];1.00[MEX][hapmap];0.89[ASN][1000 genomes]
rs17790289	0.86[CHB][hapmap]
rs17790901	0.85[CEU][hapmap];1.00[CHB][hapmap];0.89[CHD][hapmap];0.86[GIH][hapmap];1.00[JPT][hapmap];0.93[MEX][hapmap];0.92[TSI][hapmap];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17791132	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AFR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17791436	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17793021	1.00[JPT][hapmap]
rs1822913	0.81[MEX][hapmap]
rs1972950	0.85[CHB][hapmap];1.00[JPT][hapmap];0.93[MEX][hapmap]
rs2271561	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2271564	0.89[CHD][hapmap]
rs2440910	0.87[MEX][hapmap]
rs2450468	0.87[MEX][hapmap]
rs3763743	0.85[CHB][hapmap];1.00[JPT][hapmap]
rs3763745	0.85[CHB][hapmap];1.00[JPT][hapmap];0.93[MEX][hapmap]
rs3793866	0.82[CHB][hapmap];1.00[JPT][hapmap]
rs4948249	1.00[JPT][hapmap]
rs4948367	0.86[CHB][hapmap];0.89[CHD][hapmap]
rs4948368	1.00[CHB][hapmap];0.88[CHD][hapmap];1.00[JPT][hapmap];0.81[MEX][hapmap];0.95[ASN][1000 genomes]
rs4948369	0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4948370	0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs55826266	0.95[ASN][1000 genomes]
rs55909789	0.87[AFR][1000 genomes];0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61848700	0.87[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61848703	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61848704	0.96[AMR][1000 genomes];0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs61848705	0.96[AMR][1000 genomes];0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs61848728	0.89[ASN][1000 genomes]
rs7475730	0.90[ASN][1000 genomes]
rs895243	0.87[MEX][hapmap]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs17791484	TFAM	cis	parietal	SCAN
rs17791484	SLC16A9	cis	cerebellum	SCAN

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:61571400-61628000	Weak transcription	Spleen	Spleen
2	chr10:61571600-61616000	Weak transcription	Fetal Kidney	kidney
3	chr10:61572000-61615000	Weak transcription	Colonic Mucosa	Colon
4	chr10:61572400-61618800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
5	chr10:61578000-61623200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
6	chr10:61580200-61624200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
7	chr10:61580400-61624200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
8	chr10:61580600-61616200	Weak transcription	Fetal Brain Male	brain
9	chr10:61583200-61640600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
10	chr10:61586000-61612200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
11	chr10:61589400-61616200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
12	chr10:61591800-61624000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
13	chr10:61592600-61616600	Weak transcription	NH-A	brain
14	chr10:61593200-61629400	Weak transcription	Lung	lung
15	chr10:61594000-61614000	Weak transcription	Small Intestine	intestine
16	chr10:61595200-61614000	Weak transcription	Pancreatic Islets	Pancreatic Islet
17	chr10:61595800-61624000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
18	chr10:61598800-61614400	Weak transcription	Fetal Brain Female	brain
19	chr10:61599000-61613800	Weak transcription	Aorta	Aorta
20	chr10:61599000-61613800	Weak transcription	Placenta Amnion	Placenta Amnion
21	chr10:61600000-61616400	Weak transcription	Muscle Satellite Cultured Cells	--
22	chr10:61603000-61612400	Strong transcription	Monocytes-CD14+_RO01746	blood
23	chr10:61603800-61612400	Weak transcription	Brain Hippocampus Middle	brain
24	chr10:61603800-61612600	Weak transcription	Brain Substantia Nigra	brain
25	chr10:61603800-61614200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
26	chr10:61603800-61618400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
27	chr10:61605200-61612200	Strong transcription	Primary monocytes fromperipheralblood	blood
28	chr10:61605200-61612400	Strong transcription	Rectal Mucosa Donor 29	rectum
29	chr10:61605400-61618400	Weak transcription	Fetal Heart	heart
30	chr10:61606200-61616200	Weak transcription	NHDF-Ad	bronchial
31	chr10:61606600-61612200	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
32	chr10:61606800-61614000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
33	chr10:61607200-61612200	Strong transcription	Primary T helper cells PMA-I stimulated	--
34	chr10:61607600-61612200	Strong transcription	Rectal Mucosa Donor 31	rectum
35	chr10:61607800-61612200	Strong transcription	Dnd41	blood
36	chr10:61607800-61614200	Weak transcription	Stomach Mucosa	stomach
37	chr10:61608000-61612400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
38	chr10:61608000-61613000	Weak transcription	Psoas Muscle	Psoas
39	chr10:61608000-61614000	Weak transcription	Esophagus	oesophagus
40	chr10:61608000-61614000	Weak transcription	Gastric	stomach
41	chr10:61608000-61615000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
42	chr10:61608000-61615600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
43	chr10:61608000-61617800	Weak transcription	Pancreas	Pancrea
44	chr10:61608000-61618200	Weak transcription	H9 Cell Line	embryonic stem cell
45	chr10:61608000-61624000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
46	chr10:61608000-61624200	Weak transcription	Right Ventricle	heart
47	chr10:61608000-61637200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
48	chr10:61608600-61612200	Strong transcription	iPS-20b Cell Line	embryonic stem cell
49	chr10:61608600-61612400	Strong transcription	Primary T cells fromperipheralblood	blood
50	chr10:61608800-61612400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived

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