Variant report

Variant	rs1856967
Chromosome Location	chr1:179100121-179100122
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:179097406..179100383-chr1:179127242..179129431,2	MCF-7	breast:
2	chr1:179095025..179097028-chr1:179098926..179100910,2	K562	blood:

Extended variants
information (count: 78 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:75)

rs_ID	r²[population]
rs1078872	0.88[EUR][1000 genomes]
rs10913690	0.95[EUR][1000 genomes]
rs10913695	0.98[EUR][1000 genomes]
rs10913697	0.98[EUR][1000 genomes]
rs1173077	0.89[EUR][1000 genomes]
rs12130276	0.98[EUR][1000 genomes]
rs1325195	0.85[EUR][1000 genomes]
rs1856968	0.98[EUR][1000 genomes]
rs1858551	0.98[EUR][1000 genomes]
rs2066279	0.90[EUR][1000 genomes]
rs2087559	0.94[EUR][1000 genomes]
rs2130576	0.90[EUR][1000 genomes]
rs2171959	0.98[EUR][1000 genomes]
rs2258217	0.95[EUR][1000 genomes]
rs2258221	0.92[EUR][1000 genomes]
rs2486995	0.98[EUR][1000 genomes]
rs2486997	0.98[EUR][1000 genomes]
rs2493124	0.98[EUR][1000 genomes]
rs2636265	0.88[EUR][1000 genomes]
rs2636274	0.97[EUR][1000 genomes]
rs2636276	0.96[EUR][1000 genomes]
rs2636280	0.93[EUR][1000 genomes]
rs2636281	0.90[EUR][1000 genomes]
rs2636282	0.89[EUR][1000 genomes]
rs2636287	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2791940	0.95[EUR][1000 genomes]
rs2791941	0.96[EUR][1000 genomes]
rs2791942	0.86[EUR][1000 genomes]
rs2791943	0.97[EUR][1000 genomes]
rs2793793	0.94[EUR][1000 genomes]
rs2793795	0.90[EUR][1000 genomes]
rs2793796	0.97[EUR][1000 genomes]
rs2793797	0.98[EUR][1000 genomes]
rs2793798	0.98[EUR][1000 genomes]
rs2793799	0.90[EUR][1000 genomes]
rs2793803	0.89[EUR][1000 genomes]
rs2793806	0.88[EUR][1000 genomes]
rs2793812	0.93[EUR][1000 genomes]
rs2816167	0.90[EUR][1000 genomes]
rs2816183	0.95[EUR][1000 genomes]
rs2816185	0.94[EUR][1000 genomes]
rs2816186	0.96[EUR][1000 genomes]
rs2816187	0.97[EUR][1000 genomes]
rs2816189	0.95[EUR][1000 genomes]
rs2816196	0.97[EUR][1000 genomes]
rs2816197	0.92[EUR][1000 genomes]
rs2816198	0.93[EUR][1000 genomes]
rs2816199	0.93[EUR][1000 genomes]
rs2816202	0.93[EUR][1000 genomes]
rs2816203	0.93[EUR][1000 genomes]
rs2816204	0.93[EUR][1000 genomes]
rs2816206	0.91[EUR][1000 genomes]
rs2816208	0.90[EUR][1000 genomes]
rs2816209	0.91[EUR][1000 genomes]
rs2816210	0.87[EUR][1000 genomes]
rs2816211	0.89[EUR][1000 genomes]
rs2816214	0.90[EUR][1000 genomes]
rs3210839	0.83[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs36122838	0.96[EUR][1000 genomes]
rs377785	0.88[EUR][1000 genomes]
rs3813642	0.95[EUR][1000 genomes]
rs3813643	0.95[EUR][1000 genomes]
rs411266	0.88[EUR][1000 genomes]
rs434283	0.88[EUR][1000 genomes]
rs451088	0.88[EUR][1000 genomes]
rs4651012	0.96[EUR][1000 genomes]
rs4651013	0.96[EUR][1000 genomes]
rs4652357	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7556011	0.83[EUR][1000 genomes]
rs915337	0.88[EUR][1000 genomes]
rs965401	0.95[EUR][1000 genomes]
rs9726961	0.98[EUR][1000 genomes]
rs9727252	0.98[EUR][1000 genomes]
rs9728480	0.98[EUR][1000 genomes]
rs9729199	0.96[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1012667	chr1:179094571-179120280	Weak transcription Enhancers ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Strong transcription Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
2	nsv1002253	chr1:179094571-179120938	Strong transcription Genic enhancers Enhancers Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
3	nsv1001191	chr1:179097246-179120938	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:99 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:179063200-179112000	Weak transcription	Fetal Kidney	kidney
2	chr1:179079600-179109800	Weak transcription	Small Intestine	intestine
3	chr1:179080200-179101600	Weak transcription	Fetal Brain Male	brain
4	chr1:179080400-179103800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
5	chr1:179086600-179105000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
6	chr1:179087800-179113000	Weak transcription	Placenta Amnion	Placenta Amnion
7	chr1:179088200-179102400	Weak transcription	Brain Germinal Matrix	brain
8	chr1:179090800-179104400	Weak transcription	Fetal Brain Female	brain
9	chr1:179091000-179108800	Weak transcription	H9 Cell Line	embryonic stem cell
10	chr1:179091000-179109000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
11	chr1:179091000-179109200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
12	chr1:179093400-179117200	Weak transcription	Fetal Stomach	stomach
13	chr1:179095600-179101000	Genic enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
14	chr1:179095800-179100800	Genic enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
15	chr1:179095800-179101800	Weak transcription	HUES6 Cell Line	embryonic stem cell
16	chr1:179095800-179103600	Weak transcription	Fetal Intestine Large	intestine
17	chr1:179095800-179106800	Weak transcription	Gastric	stomach
18	chr1:179095800-179107400	Weak transcription	H1 Cell Line	embryonic stem cell
19	chr1:179096400-179108800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
20	chr1:179096600-179106800	Weak transcription	Fetal Lung	lung
21	chr1:179096600-179110200	Weak transcription	Cortex derived primary cultured neurospheres	brain
22	chr1:179097000-179101600	Genic enhancers	HUVEC	blood vessel
23	chr1:179098200-179112000	Weak transcription	Lung	lung
24	chr1:179098400-179101000	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
25	chr1:179098600-179100800	Strong transcription	HSMMtube	muscle
26	chr1:179098800-179101000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
27	chr1:179098800-179101000	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
28	chr1:179099000-179100600	Strong transcription	Fetal Intestine Small	intestine
29	chr1:179099000-179100800	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
30	chr1:179099200-179100800	Strong transcription	Fetal Muscle Trunk	muscle
31	chr1:179099200-179100800	Genic enhancers	NHDF-Ad	bronchial
32	chr1:179099200-179101000	Genic enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
33	chr1:179099200-179101200	Genic enhancers	HSMM	muscle
34	chr1:179099200-179110200	Weak transcription	Primary hematopoietic stem cells	blood
35	chr1:179099200-179110400	Weak transcription	Brain Angular Gyrus	brain
36	chr1:179099200-179110400	Weak transcription	Brain Anterior Caudate	brain
37	chr1:179099200-179114800	Weak transcription	Brain Cingulate Gyrus	brain
38	chr1:179099400-179100400	Weak transcription	Pancreatic Islets	Pancreatic Islet
39	chr1:179099400-179100400	Weak transcription	Fetal Thymus	thymus
40	chr1:179099400-179100800	Strong transcription	HUES48 Cell Line	embryonic stem cell
41	chr1:179099400-179100800	Genic enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
42	chr1:179099400-179100800	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
43	chr1:179099400-179101000	Strong transcription	iPS-20b Cell Line	embryonic stem cell
44	chr1:179099400-179101000	Genic enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
45	chr1:179099400-179101600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
46	chr1:179099400-179103400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
47	chr1:179099400-179106800	Weak transcription	Pancreas	Pancrea
48	chr1:179099400-179106800	Weak transcription	Skeletal Muscle Male	skeletal muscle
49	chr1:179099400-179106800	Weak transcription	Skeletal Muscle Female	skeletal muscle
50	chr1:179099400-179107000	Weak transcription	Placenta	Placenta

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