Variant report

Variant	rs7850685
Chromosome Location	chr9:100763890-100763891
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:100682069..100685909-chr9:100763582..100766887,4	K562	blood:
2	chr9:100680633..100684807-chr9:100763582..100766480,4	K562	blood:
3	chr9:100762718..100765862-chr9:100769993..100772306,3	MCF-7	breast:
4	chr9:100763380..100766123-chr9:100768484..100771216,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000136932	Chromatin interaction

Extended variants
information (count: 22 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs1059273	0.80[CEU][hapmap]
rs12001675	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[YRI][hapmap];0.85[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12554172	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.88[AFR][1000 genomes];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs16912622	0.80[CEU][hapmap];0.80[GIH][hapmap]
rs3739672	0.89[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.85[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];0.93[MEX][hapmap];0.85[MKK][hapmap];1.00[TSI][hapmap];0.88[YRI][hapmap];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4742711	1.00[CEU][hapmap];1.00[CHB][hapmap];0.89[JPT][hapmap];0.96[YRI][hapmap];0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4742716	0.80[CEU][hapmap]
rs4743150	0.89[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.85[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.93[MEX][hapmap];0.85[MKK][hapmap];1.00[TSI][hapmap];0.85[YRI][hapmap];0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4743151	0.87[AFR][1000 genomes];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4743157	0.80[CEU][hapmap];0.81[MEX][hapmap]
rs4743158	0.80[CEU][hapmap]
rs6478522	0.96[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6478539	0.80[CEU][hapmap];0.80[GIH][hapmap];0.81[MEX][hapmap]
rs6478556	0.80[CEU][hapmap];0.80[GIH][hapmap]
rs7019033	0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7020081	0.80[CEU][hapmap]
rs7041878	0.88[ASN][1000 genomes]
rs7852752	0.89[CHB][hapmap];0.87[GIH][hapmap];0.89[JPT][hapmap]
rs7855432	0.94[ASW][hapmap];0.90[CEU][hapmap];1.00[CHB][hapmap];0.85[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];0.85[MEX][hapmap];0.97[MKK][hapmap];1.00[TSI][hapmap];0.88[YRI][hapmap];0.88[AFR][1000 genomes];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7869762	0.80[CEU][hapmap];0.86[MEX][hapmap]
rs874610	0.94[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.93[MEX][hapmap];0.92[MKK][hapmap];1.00[TSI][hapmap];0.88[YRI][hapmap];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs957955	0.82[AFR][1000 genomes];0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs7850685	C9orf156	cis	parietal	SCAN
rs7850685	HIATL1	cis	cerebellum	SCAN

Chromatin state (count:127 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:100748000-100767200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
2	chr9:100749200-100767200	Weak transcription	Esophagus	oesophagus
3	chr9:100750000-100767200	Weak transcription	H9 Cell Line	embryonic stem cell
4	chr9:100750000-100767400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
5	chr9:100750800-100764000	Weak transcription	Fetal Brain Female	brain
6	chr9:100751000-100764200	Weak transcription	Fetal Brain Male	brain
7	chr9:100751000-100765200	Weak transcription	Aorta	Aorta
8	chr9:100752000-100784000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr9:100753000-100767800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
10	chr9:100753000-100768400	Weak transcription	Fetal Heart	heart
11	chr9:100753000-100769000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
12	chr9:100753400-100767200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
13	chr9:100753600-100767200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
14	chr9:100754600-100784200	Strong transcription	Dnd41	blood
15	chr9:100754600-100784400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
16	chr9:100755200-100782200	Strong transcription	HepG2	liver
17	chr9:100755200-100783800	Strong transcription	NHEK	skin
18	chr9:100755400-100783000	Weak transcription	Stomach Mucosa	stomach
19	chr9:100755600-100769200	Weak transcription	Pancreatic Islets	Pancreatic Islet
20	chr9:100755600-100784400	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
21	chr9:100755800-100782200	Strong transcription	K562	blood
22	chr9:100756000-100777800	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
23	chr9:100756200-100767200	Weak transcription	Colonic Mucosa	Colon
24	chr9:100756400-100767200	Weak transcription	Spleen	Spleen
25	chr9:100756400-100772600	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
26	chr9:100756400-100783600	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
27	chr9:100756400-100783800	Strong transcription	Fetal Muscle Trunk	muscle
28	chr9:100756400-100784400	Strong transcription	Fetal Thymus	thymus
29	chr9:100756600-100767600	Weak transcription	Brain Germinal Matrix	brain
30	chr9:100756600-100785600	Strong transcription	Primary hematopoietic stem cells short term culture	blood
31	chr9:100756800-100765600	Strong transcription	Fetal Muscle Leg	muscle
32	chr9:100756800-100771600	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
33	chr9:100756800-100771800	Strong transcription	Monocytes-CD14+_RO01746	blood
34	chr9:100756800-100781200	Strong transcription	HUES64 Cell Line	embryonic stem cell
35	chr9:100756800-100783000	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
36	chr9:100756800-100783400	Strong transcription	HMEC	breast
37	chr9:100757000-100765600	Strong transcription	Sigmoid Colon	Sigmoid Colon
38	chr9:100757000-100768000	Strong transcription	Left Ventricle	heart
39	chr9:100757000-100769400	Strong transcription	HUVEC	blood vessel
40	chr9:100757000-100771000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
41	chr9:100757000-100771600	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
42	chr9:100757000-100771600	Strong transcription	HSMM	muscle
43	chr9:100757000-100771800	Strong transcription	Primary monocytes fromperipheralblood	blood
44	chr9:100757000-100772200	Strong transcription	Primary B cells from peripheral blood	blood
45	chr9:100757000-100772600	Strong transcription	Primary T cells fromperipheralblood	blood
46	chr9:100757000-100781000	Strong transcription	Rectal Mucosa Donor 29	rectum
47	chr9:100757000-100785200	Strong transcription	Placenta	Placenta
48	chr9:100757200-100765800	Strong transcription	Fetal Lung	lung
49	chr9:100757200-100783600	Strong transcription	Liver	Liver
50	chr9:100757400-100770800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--

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