Variant report

Variant	rs10035001
Chromosome Location	chr4:74039463-74039464
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	chr4:74037406..74040137-chr4:74042759..74046162,3	MCF-7	breast:

Extended variants
information (count: 29 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10006547	0.80[AMR][1000 genomes];0.93[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10034689	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.92[MEX][hapmap];0.98[TSI][hapmap];0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10050235	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];0.92[MEX][hapmap];0.98[TSI][hapmap];0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10805059	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11724514	1.00[CEU][hapmap];0.95[CHB][hapmap];0.89[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];1.00[MEX][hapmap];0.87[MKK][hapmap];0.95[TSI][hapmap]
rs11736349	1.00[CEU][hapmap];0.95[CHB][hapmap];0.86[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];1.00[MEX][hapmap];0.87[MKK][hapmap];0.98[TSI][hapmap];1.00[YRI][hapmap]
rs11935070	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap]
rs13101277	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.95[TSI][hapmap];1.00[YRI][hapmap];0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1534450	0.96[CEU][hapmap];1.00[CHB][hapmap];0.98[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.98[TSI][hapmap];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4072	0.96[CEU][hapmap];0.95[CHB][hapmap];0.86[JPT][hapmap]
rs4437217	0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4694155	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.92[MEX][hapmap];0.95[TSI][hapmap];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4694156	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4995246	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];0.95[JPT][hapmap];0.87[MEX][hapmap];0.95[TSI][hapmap];0.80[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs5020219	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.93[MKK][hapmap];0.98[TSI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6446913	1.00[YRI][hapmap]
rs6830954	1.00[YRI][hapmap];0.88[AMR][1000 genomes];0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6850870	1.00[CEU][hapmap];0.87[CHB][hapmap];0.95[JPT][hapmap];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9291182	1.00[CEU][hapmap];0.95[CHB][hapmap];0.98[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.98[TSI][hapmap];0.80[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv949371	chr4:73678470-74094500	Weak transcription Enhancers Flanking Active TSS Strong transcription Genic enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
2	nsv432611	chr4:73740665-74099265	Weak transcription Strong transcription Enhancers Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
3	nsv523169	chr4:73752242-74120910	Enhancers Genic enhancers Weak transcription Strong transcription Active TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
4	nsv998707	chr4:73753922-74044843	Weak transcription Strong transcription Genic enhancers Active TSS Enhancers Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
5	nsv537136	chr4:73753922-74044843	Enhancers Strong transcription Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
6	nsv917017	chr4:73754127-74044830	Weak transcription Strong transcription Enhancers Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
7	nsv533502	chr4:73819067-74044813	Strong transcription Weak transcription ZNF genes & repeats Enhancers Flanking Active TSS Genic enhancers Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
8	esv1849323	chr4:73926670-74115116	Strong transcription Active TSS ZNF genes & repeats Enhancers Weak transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
9	nsv1000509	chr4:73968978-74206949	Weak transcription Flanking Active TSS Enhancers Strong transcription ZNF genes & repeats Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	34 gene(s)	inside rSNPs	diseases
10	nsv879486	chr4:74031423-74114322	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Genic enhancers Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:122 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:73940400-74043400	Strong transcription	Fetal Thymus	thymus
2	chr4:73970800-74040800	Weak transcription	Stomach Mucosa	stomach
3	chr4:74006800-74043400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
4	chr4:74008800-74059600	Weak transcription	Fetal Brain Male	brain
5	chr4:74014600-74046400	Weak transcription	Hela-S3	cervix
6	chr4:74018400-74055200	Weak transcription	Psoas Muscle	Psoas
7	chr4:74019200-74043400	Strong transcription	Monocytes-CD14+_RO01746	blood
8	chr4:74024200-74043200	Strong transcription	Primary T helper cells fromperipheralblood	blood
9	chr4:74025600-74040800	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
10	chr4:74027800-74043600	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
11	chr4:74030600-74039600	Strong transcription	Primary T cells fromperipheralblood	blood
12	chr4:74030800-74043000	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
13	chr4:74030800-74043400	Strong transcription	Rectal Mucosa Donor 29	rectum
14	chr4:74031000-74043600	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
15	chr4:74031000-74043800	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
16	chr4:74031400-74041800	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
17	chr4:74031600-74043400	ZNF genes & repeats	GM12878-XiMat	blood
18	chr4:74031600-74066800	Weak transcription	HMEC	breast
19	chr4:74031600-74077200	Weak transcription	Small Intestine	intestine
20	chr4:74032400-74039600	Strong transcription	HepG2	liver
21	chr4:74032400-74039800	Strong transcription	Duodenum Mucosa	Duodenum
22	chr4:74032400-74042800	Strong transcription	Primary T helper cells PMA-I stimulated	--
23	chr4:74033200-74039600	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
24	chr4:74033400-74040200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
25	chr4:74033600-74039800	Strong transcription	Sigmoid Colon	Sigmoid Colon
26	chr4:74034000-74040400	Strong transcription	Primary T helper naive cells from peripheral blood	blood
27	chr4:74034200-74039600	Strong transcription	HUES6 Cell Line	embryonic stem cell
28	chr4:74034400-74040000	Strong transcription	Duodenum Smooth Muscle	Duodenum
29	chr4:74034400-74040400	Strong transcription	Brain Inferior Temporal Lobe	brain
30	chr4:74035800-74039800	Strong transcription	Primary monocytes fromperipheralblood	blood
31	chr4:74036000-74045800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
32	chr4:74036200-74040000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
33	chr4:74036400-74044000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
34	chr4:74036600-74039600	Weak transcription	Placenta Amnion	Placenta Amnion
35	chr4:74036600-74042200	ZNF genes & repeats	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
36	chr4:74036600-74046400	Weak transcription	Primary neutrophils fromperipheralblood	blood
37	chr4:74036600-74046600	Weak transcription	Brain Angular Gyrus	brain
38	chr4:74036600-74046600	Weak transcription	Stomach Smooth Muscle	stomach
39	chr4:74036600-74088200	Weak transcription	Colonic Mucosa	Colon
40	chr4:74036800-74040400	ZNF genes & repeats	Fetal Intestine Large	intestine
41	chr4:74036800-74041000	Strong transcription	Dnd41	blood
42	chr4:74036800-74043200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
43	chr4:74036800-74048600	Weak transcription	H9 Cell Line	embryonic stem cell
44	chr4:74036800-74049200	Weak transcription	H1 Cell Line	embryonic stem cell
45	chr4:74036800-74055200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
46	chr4:74036800-74055200	Weak transcription	Pancreas	Pancrea
47	chr4:74036800-74059400	Weak transcription	Spleen	Spleen
48	chr4:74036800-74062800	Weak transcription	Aorta	Aorta
49	chr4:74036800-74064800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
50	chr4:74037000-74040400	ZNF genes & repeats	Breast Myoepithelial Primary Cells	Breast

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