Variant report

Variant	rs7901642
Chromosome Location	chr10:6170404-6170405
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:6164842..6170645-chr10:6170879..6175262,7	K562	blood:
2	chr10:6168583..6171186-chr10:6243382..6246451,4	MCF-7	breast:
3	chr10:6167871..6170657-chr10:6186915..6188419,2	MCF-7	breast:
4	chr10:6168287..6170696-chr10:6258777..6261462,2	MCF-7	breast:
5	chr10:6170183..6172118-chr10:6243569..6246358,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000213994	Chromatin interaction
ENSG00000170525	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs10795823	1.00[MEX][hapmap];1.00[AMR][1000 genomes]
rs11256269	1.00[AMR][1000 genomes]
rs12250725	1.00[AMR][1000 genomes]
rs12260184	1.00[AMR][1000 genomes]
rs12261085	1.00[AMR][1000 genomes]
rs12261535	1.00[MEX][hapmap];0.85[YRI][hapmap];1.00[AMR][1000 genomes]
rs12722641	1.00[MEX][hapmap];1.00[AMR][1000 genomes]
rs12722663	1.00[AMR][1000 genomes]
rs12722667	1.00[AMR][1000 genomes]
rs12722670	1.00[AMR][1000 genomes]
rs12722674	1.00[AMR][1000 genomes]
rs12722698	1.00[MEX][hapmap];1.00[AMR][1000 genomes]
rs1341925	1.00[MEX][hapmap]
rs4237413	1.00[MEX][hapmap]
rs4509667	1.00[YRI][hapmap];0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4749956	1.00[AMR][1000 genomes]
rs4749964	1.00[AMR][1000 genomes]
rs4749993	1.00[AMR][1000 genomes]
rs60269484	1.00[AMR][1000 genomes]
rs6602367	1.00[AMR][1000 genomes]
rs7897471	0.86[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7907241	1.00[AMR][1000 genomes]
rs7910558	1.00[AMR][1000 genomes]
rs943123	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv34061	chr10:5726821-6225187	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
2	nsv1042286	chr10:5795129-6578445	Enhancers Weak transcription Genic enhancers Active TSS Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	76 gene(s)	inside rSNPs	diseases
3	nsv1040721	chr10:6155144-6322566	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
4	nsv540476	chr10:6155144-6322566	Genic enhancers Flanking Active TSS Enhancers Weak transcription Flanking Bivalent TSS/Enh Active TSS Strong transcription 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	31 gene(s)	inside rSNPs	diseases
5	nsv1054044	chr10:6155144-6487217	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	40 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:85 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:6157000-6170800	Weak transcription	Gastric	stomach
2	chr10:6157600-6171000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
3	chr10:6157600-6172000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr10:6157800-6170800	Weak transcription	Placenta Amnion	Placenta Amnion
5	chr10:6159000-6170800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
6	chr10:6159200-6170600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
7	chr10:6159200-6170600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
8	chr10:6159200-6170600	Weak transcription	Primary T helper cells fromperipheralblood	blood
9	chr10:6159400-6172000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr10:6163000-6171200	Weak transcription	Esophagus	oesophagus
11	chr10:6165800-6170600	Weak transcription	HSMMtube	muscle
12	chr10:6167000-6171000	Weak transcription	HUVEC	blood vessel
13	chr10:6167000-6172000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
14	chr10:6167400-6170600	Weak transcription	Brain Anterior Caudate	brain
15	chr10:6167600-6170800	Enhancers	Ovary	ovary
16	chr10:6167600-6172200	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
17	chr10:6167600-6174800	Enhancers	Fetal Adrenal Gland	Adrenal Gland
18	chr10:6168200-6170600	Weak transcription	HSMM	muscle
19	chr10:6168200-6178200	Weak transcription	A549	lung
20	chr10:6168400-6170600	Weak transcription	Muscle Satellite Cultured Cells	--
21	chr10:6168400-6171000	Weak transcription	Fetal Kidney	kidney
22	chr10:6168400-6171800	Weak transcription	Psoas Muscle	Psoas
23	chr10:6168600-6172000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
24	chr10:6168800-6171400	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
25	chr10:6168800-6172400	Enhancers	Spleen	Spleen
26	chr10:6169600-6172200	Enhancers	Primary neutrophils fromperipheralblood	blood
27	chr10:6169800-6170600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
28	chr10:6169800-6171200	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
29	chr10:6169800-6171200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
30	chr10:6170000-6170800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
31	chr10:6170000-6170800	Enhancers	Brain Cingulate Gyrus	brain
32	chr10:6170000-6170800	Enhancers	Brain Inferior Temporal Lobe	brain
33	chr10:6170000-6171400	Enhancers	Primary hematopoietic stem cells	blood
34	chr10:6170000-6172200	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
35	chr10:6170000-6172400	Enhancers	Primary hematopoietic stem cells short term culture	blood
36	chr10:6170000-6172400	Bivalent Enhancer	Foreskin Fibroblast Primary Cells skin02	Skin
37	chr10:6170000-6172400	Enhancers	Fetal Lung	lung
38	chr10:6170000-6172400	Bivalent Enhancer	Fetal Muscle Trunk	muscle
39	chr10:6170200-6170600	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
40	chr10:6170200-6170600	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
41	chr10:6170200-6170600	Enhancers	Brain Hippocampus Middle	brain
42	chr10:6170200-6170600	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
43	chr10:6170200-6170600	Enhancers	Brain Substantia Nigra	brain
44	chr10:6170200-6170600	Enhancers	Monocytes-CD14+_RO01746	blood
45	chr10:6170200-6170800	Bivalent Enhancer	Foreskin Fibroblast Primary Cells skin01	Skin
46	chr10:6170200-6170800	Enhancers	Adipose Nuclei	Adipose
47	chr10:6170200-6170800	Enhancers	Duodenum Smooth Muscle	Duodenum
48	chr10:6170200-6170800	Enhancers	NHLF	lung
49	chr10:6170200-6171400	Enhancers	Fetal Heart	heart
50	chr10:6170200-6171400	Enhancers	Right Ventricle	heart

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