Variant report

Variant	rs17134961
Chromosome Location	chr11:76257759-76257760
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 21 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs11236766	1.00[AFR][1000 genomes];0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11236767	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11532107	1.00[AFR][1000 genomes];0.81[AMR][1000 genomes];0.89[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1939469	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2155221	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3758715	0.89[CHB][hapmap];0.85[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3758716	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4426156	0.84[EUR][1000 genomes]
rs57790584	1.00[AFR][1000 genomes];0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs58003764	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs59382353	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs61696910	1.00[AFR][1000 genomes];0.81[AMR][1000 genomes];0.89[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs61894509	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs61894530	1.00[AFR][1000 genomes];0.81[AMR][1000 genomes];0.89[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs61894532	1.00[AFR][1000 genomes];0.81[AMR][1000 genomes];0.89[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs61894534	1.00[AFR][1000 genomes];0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs61894541	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs73004436	0.84[EUR][1000 genomes]
rs7940373	1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1050713	chr11:76147085-76267117	Transcr. at gene 5' and 3' Weak transcription Flanking Active TSS Strong transcription ZNF genes & repeats Enhancers Active TSS Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	45 gene(s)	inside rSNPs	diseases
2	esv1848387	chr11:76243699-76262652	Strong transcription Weak transcription Genic enhancers Enhancers ZNF genes & repeats Flanking Active TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs17134961	RP11-111M22.2	cis	Thyroid	GTEx

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:76224400-76262600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
2	chr11:76224400-76263800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr11:76230000-76265600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
4	chr11:76233600-76258800	Strong transcription	HUES64 Cell Line	embryonic stem cell
5	chr11:76233800-76258600	Strong transcription	Primary T helper cells PMA-I stimulated	--
6	chr11:76233800-76260200	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
7	chr11:76233800-76262000	Strong transcription	Placenta	Placenta
8	chr11:76233800-76262400	Strong transcription	HUES48 Cell Line	embryonic stem cell
9	chr11:76233800-76262600	Strong transcription	Primary monocytes fromperipheralblood	blood
10	chr11:76233800-76263200	Strong transcription	iPS-20b Cell Line	embryonic stem cell
11	chr11:76234000-76262600	Strong transcription	Dnd41	blood
12	chr11:76234200-76262000	Strong transcription	Primary T helper cells fromperipheralblood	blood
13	chr11:76234800-76263000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
14	chr11:76236400-76261800	Weak transcription	Stomach Mucosa	stomach
15	chr11:76237400-76261200	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
16	chr11:76239000-76259800	Strong transcription	Primary B cells from peripheral blood	blood
17	chr11:76239000-76261600	Strong transcription	Liver	Liver
18	chr11:76239600-76259000	Strong transcription	Primary neutrophils fromperipheralblood	blood
19	chr11:76239600-76262000	Strong transcription	Primary T cells from cord blood	blood
20	chr11:76239600-76262200	Strong transcription	Monocytes-CD14+_RO01746	blood
21	chr11:76239800-76259400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
22	chr11:76246600-76260600	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
23	chr11:76248200-76261400	Strong transcription	Breast Myoepithelial Primary Cells	Breast
24	chr11:76248400-76259600	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
25	chr11:76248400-76261600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
26	chr11:76250200-76258000	Strong transcription	Rectal Mucosa Donor 31	rectum
27	chr11:76250200-76259200	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
28	chr11:76251600-76260400	Strong transcription	Fetal Lung	lung
29	chr11:76252000-76257800	Strong transcription	Primary hematopoietic stem cells	blood
30	chr11:76252000-76257800	Strong transcription	Fetal Intestine Large	intestine
31	chr11:76252000-76257800	Strong transcription	Fetal Muscle Trunk	muscle
32	chr11:76252000-76258000	Strong transcription	Brain Substantia Nigra	brain
33	chr11:76252000-76259200	Strong transcription	Primary B cells from cord blood	blood
34	chr11:76252000-76262000	Strong transcription	Primary T cells fromperipheralblood	blood
35	chr11:76252000-76262600	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
36	chr11:76252200-76260600	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
37	chr11:76252600-76258200	Strong transcription	iPS-18 Cell Line	embryonic stem cell
38	chr11:76252600-76258200	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
39	chr11:76252600-76258200	Strong transcription	Duodenum Mucosa	Duodenum
40	chr11:76252600-76259200	Strong transcription	Fetal Thymus	thymus
41	chr11:76252600-76261800	Strong transcription	Primary hematopoietic stem cells short term culture	blood
42	chr11:76252600-76263000	Strong transcription	HUES6 Cell Line	embryonic stem cell
43	chr11:76252800-76258400	Strong transcription	Adipose Nuclei	Adipose
44	chr11:76252800-76258400	Strong transcription	Hela-S3	cervix
45	chr11:76252800-76258800	Strong transcription	H1 Cell Line	embryonic stem cell
46	chr11:76252800-76261600	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
47	chr11:76252800-76262000	Strong transcription	Fetal Brain Female	brain
48	chr11:76253000-76257800	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
49	chr11:76253000-76257800	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
50	chr11:76253000-76258200	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived

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