Variant report

Variant	rs11188950
Chromosome Location	chr10:98619863-98619864
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	chr10:98615796..98618493-chr10:98618946..98621745,3	MCF-7	breast:

Extended variants
information (count: 23 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:21)

rs_ID	r²[population]
rs10219031	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.82[LWK][hapmap];1.00[MEX][hapmap];0.89[MKK][hapmap];1.00[TSI][hapmap];0.85[AMR][1000 genomes]
rs10430660	0.84[MKK][hapmap];1.00[TSI][hapmap];0.95[AMR][1000 genomes];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10786316	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.82[LWK][hapmap];1.00[MEX][hapmap];0.89[MKK][hapmap];1.00[TSI][hapmap];0.85[AMR][1000 genomes]
rs10882847	0.91[ASN][1000 genomes]
rs10882852	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10882855	1.00[ASW][hapmap];1.00[CEU][hapmap];0.90[CHB][hapmap];0.97[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];0.90[LWK][hapmap];0.85[TSI][hapmap];0.91[AFR][1000 genomes];0.95[AMR][1000 genomes];0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10882856	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.85[AMR][1000 genomes]
rs10882861	0.89[CHB][hapmap];0.97[CHD][hapmap];0.90[LWK][hapmap];0.94[MEX][hapmap];1.00[YRI][hapmap]
rs11188935	0.80[ASN][1000 genomes]
rs11188952	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11188962	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11188964	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12257954	0.81[ASN][1000 genomes]
rs12265203	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.82[LWK][hapmap];1.00[MEX][hapmap];0.89[MKK][hapmap];1.00[TSI][hapmap];0.95[AMR][1000 genomes];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3814163	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.92[GIH][hapmap];0.94[MEX][hapmap];1.00[TSI][hapmap]
rs4132965	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.82[LWK][hapmap];1.00[MEX][hapmap];0.89[MKK][hapmap];1.00[TSI][hapmap];0.83[AMR][1000 genomes]
rs4146592	1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.83[AMR][1000 genomes]
rs7082522	1.00[CEU][hapmap]
rs7088648	0.81[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs7098255	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[LWK][hapmap];0.94[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap]
rs7924085	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[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	nsv532232	chr10:98360775-99141797	Enhancers Strong transcription Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	53 gene(s)	inside rSNPs	diseases
2	nsv895910	chr10:98386483-98640994	ZNF genes & repeats Weak transcription Enhancers Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	21 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs11188950	ZNF518A	cis	lymphoblastoid	seeQTL

Chromatin state (count:121 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:98593800-98624200	Weak transcription	Colonic Mucosa	Colon
2	chr10:98594200-98639400	Weak transcription	Thymus	Thymus
3	chr10:98600200-98624000	Weak transcription	Fetal Brain Male	brain
4	chr10:98602200-98621200	Weak transcription	Fetal Muscle Trunk	muscle
5	chr10:98603200-98620000	Weak transcription	Hela-S3	cervix
6	chr10:98603200-98621400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
7	chr10:98604600-98623400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
8	chr10:98604800-98623600	Weak transcription	Fetal Brain Female	brain
9	chr10:98606200-98623200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
10	chr10:98606800-98623600	Weak transcription	Stomach Mucosa	stomach
11	chr10:98607000-98624000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
12	chr10:98610600-98622000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
13	chr10:98610800-98632200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
14	chr10:98611000-98620000	Weak transcription	Rectal Mucosa Donor 29	rectum
15	chr10:98611000-98621600	Weak transcription	Placenta	Placenta
16	chr10:98611000-98623200	Weak transcription	A549	lung
17	chr10:98611000-98649800	Weak transcription	H1 Cell Line	embryonic stem cell
18	chr10:98611000-98713000	Weak transcription	Aorta	Aorta
19	chr10:98611200-98623400	Weak transcription	H9 Cell Line	embryonic stem cell
20	chr10:98611200-98623600	Weak transcription	HUES6 Cell Line	embryonic stem cell
21	chr10:98611200-98623600	Weak transcription	Placenta Amnion	Placenta Amnion
22	chr10:98611200-98640200	Weak transcription	Fetal Heart	heart
23	chr10:98611400-98620000	Weak transcription	Brain Inferior Temporal Lobe	brain
24	chr10:98612200-98623400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
25	chr10:98614000-98623400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
26	chr10:98616200-98620400	Enhancers	Skeletal Muscle Female	skeletal muscle
27	chr10:98616200-98621400	Enhancers	Skeletal Muscle Male	skeletal muscle
28	chr10:98616400-98621600	Weak transcription	Gastric	stomach
29	chr10:98616400-98622200	Weak transcription	Lung	lung
30	chr10:98616400-98624200	Weak transcription	Ovary	ovary
31	chr10:98616600-98621200	Weak transcription	Fetal Muscle Leg	muscle
32	chr10:98616600-98621600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
33	chr10:98616600-98622400	Weak transcription	HUVEC	blood vessel
34	chr10:98616600-98629600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
35	chr10:98617200-98651600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
36	chr10:98617600-98620000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
37	chr10:98617600-98622600	Strong transcription	Monocytes-CD14+_RO01746	blood
38	chr10:98617600-98623600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
39	chr10:98617600-98624000	Weak transcription	Adipose Nuclei	Adipose
40	chr10:98617600-98624400	Weak transcription	HUES48 Cell Line	embryonic stem cell
41	chr10:98617600-98631600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
42	chr10:98617800-98620600	Strong transcription	Primary B cells from cord blood	blood
43	chr10:98617800-98621600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
44	chr10:98617800-98622600	Strong transcription	Primary monocytes fromperipheralblood	blood
45	chr10:98617800-98623200	Weak transcription	Liver	Liver
46	chr10:98617800-98623400	Weak transcription	HMEC	breast
47	chr10:98617800-98623600	Weak transcription	HUES64 Cell Line	embryonic stem cell
48	chr10:98618000-98620200	Weak transcription	Primary T helper cells PMA-I stimulated	--
49	chr10:98618000-98621000	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
50	chr10:98618000-98623400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood

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