Variant report

Variant	rs870957
Chromosome Location	chr10:45478092-45478093
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr10:45476252-45478259	HUVEC	blood vessel:	n/a	n/a
2	POLR2A	chr10:45477803-45478252	GM12878	blood:	n/a	n/a
3	POLR2A	chr10:45476156-45478298	U87	brain:	n/a	n/a
4	POLR2A	chr10:45476205-45478182	U87	brain:	n/a	n/a
5	POLR2A	chr10:45475989-45478887	U87	brain:	n/a	n/a
6	POLR2A	chr10:45475995-45478881	U87	brain:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr10:45472768..45475523-chr10:45475664..45479867,4	MCF-7	breast:
2	chr10:45469560..45475620-chr10:45475961..45481693,7	MCF-7	breast:
3	chr10:45453318..45455327-chr10:45477856..45480219,2	MCF-7	breast:

Variant related genes	Relation type
C10orf10	TF binding region
RASSF4	TF binding region
ENSG00000107551	Chromatin interaction
ENSG00000273363	Chromatin interaction
ENSG00000224812	Chromatin interaction
ENSG00000165507	Chromatin interaction

Extended variants
information (count: 6 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:4)

rs_ID	r²[population]
rs11239301	0.83[CEU][hapmap]
rs7079700	0.87[CEU][hapmap];0.90[GIH][hapmap];0.92[TSI][hapmap]
rs871043	0.93[ASW][hapmap];0.88[CEU][hapmap];0.95[CHB][hapmap];0.95[CHD][hapmap];0.92[GIH][hapmap];1.00[JPT][hapmap];0.87[LWK][hapmap];0.90[MKK][hapmap];0.96[TSI][hapmap];0.96[YRI][hapmap];0.90[AFR][1000 genomes];0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs914703	0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[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	nsv831846	chr10:45322236-45556370	Bivalent Enhancer Active TSS Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
2	nsv526734	chr10:45458485-45492054	Active TSS Enhancers Weak transcription Strong transcription Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs870957	RASSF4	cis	multi-tissue	Pritchard

Chromatin state (count:102 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:45470800-45479400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
2	chr10:45474200-45478200	Enhancers	Esophagus	oesophagus
3	chr10:45474200-45478200	Enhancers	Psoas Muscle	Psoas
4	chr10:45474200-45478400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
5	chr10:45474200-45478800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
6	chr10:45474200-45479000	Enhancers	Stomach Mucosa	stomach
7	chr10:45474200-45479000	Enhancers	HUVEC	blood vessel
8	chr10:45474400-45478200	Enhancers	Fetal Stomach	stomach
9	chr10:45474400-45478400	Enhancers	Right Atrium	heart
10	chr10:45474400-45478600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
11	chr10:45474400-45478800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
12	chr10:45474400-45480000	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
13	chr10:45474400-45484000	Weak transcription	Pancreatic Islets	Pancreatic Islet
14	chr10:45474400-45490800	Strong transcription	Primary monocytes fromperipheralblood	blood
15	chr10:45474400-45490800	Strong transcription	Monocytes-CD14+_RO01746	blood
16	chr10:45474600-45478400	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
17	chr10:45474600-45478400	Enhancers	NHLF	lung
18	chr10:45474600-45483000	Enhancers	Ovary	ovary
19	chr10:45474800-45478400	Enhancers	Breast Myoepithelial Primary Cells	Breast
20	chr10:45474800-45478800	Enhancers	Right Ventricle	heart
21	chr10:45474800-45479000	Enhancers	Left Ventricle	heart
22	chr10:45474800-45482400	Enhancers	Fetal Heart	heart
23	chr10:45474800-45490200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
24	chr10:45475000-45478400	Enhancers	Rectal Mucosa Donor 31	rectum
25	chr10:45475000-45479000	Weak transcription	Fetal Brain Female	brain
26	chr10:45475000-45485000	Weak transcription	H9 Cell Line	embryonic stem cell
27	chr10:45476200-45480600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
28	chr10:45476200-45484600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
29	chr10:45476400-45479600	Weak transcription	Brain Germinal Matrix	brain
30	chr10:45476400-45480200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
31	chr10:45476400-45480800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
32	chr10:45476400-45480800	Weak transcription	HUES64 Cell Line	embryonic stem cell
33	chr10:45476400-45480800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
34	chr10:45476400-45481200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
35	chr10:45476600-45480400	Weak transcription	H1 Cell Line	embryonic stem cell
36	chr10:45476600-45480600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
37	chr10:45476600-45480800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
38	chr10:45476600-45483800	Weak transcription	Rectal Mucosa Donor 29	rectum
39	chr10:45476800-45478400	Enhancers	Liver	Liver
40	chr10:45476800-45480600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
41	chr10:45476800-45480800	Weak transcription	HUES6 Cell Line	embryonic stem cell
42	chr10:45476800-45481000	Weak transcription	HUES48 Cell Line	embryonic stem cell
43	chr10:45476800-45481400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
44	chr10:45476800-45484600	Weak transcription	Fetal Thymus	thymus
45	chr10:45476800-45487400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
46	chr10:45476800-45491400	Weak transcription	Fetal Kidney	kidney
47	chr10:45477000-45480400	Weak transcription	K562	blood
48	chr10:45477200-45478400	Enhancers	Gastric	stomach
49	chr10:45477200-45479600	Enhancers	Lung	lung
50	chr10:45477200-45480200	Weak transcription	Fetal Lung	lung

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