Variant report

Variant	rs3769154
Chromosome Location	chr2:174098201-174098202
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	chr2:174091632..174094180-chr2:174097237..174099910,2	MCF-7	breast:

Extended variants
information (count: 18 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs10169914	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs16861406	0.91[CHB][hapmap];0.86[CHD][hapmap];0.89[JPT][hapmap];0.91[ASN][1000 genomes]
rs16861417	0.86[CHB][hapmap];0.81[ASN][1000 genomes]
rs2119123	0.95[CHB][hapmap];0.95[CHD][hapmap];0.90[JPT][hapmap];0.85[TSI][hapmap];0.92[ASN][1000 genomes]
rs2119124	0.82[JPT][hapmap]
rs3739103	0.95[CHB][hapmap];0.93[CHD][hapmap];0.89[ASN][1000 genomes]
rs3754737	0.86[CHB][hapmap];0.84[ASN][1000 genomes]
rs3754738	0.95[CHB][hapmap];0.91[ASN][1000 genomes]
rs3769150	0.95[CHB][hapmap];0.91[ASN][1000 genomes]
rs3769151	0.95[CHB][hapmap];0.93[CHD][hapmap];0.91[ASN][1000 genomes]
rs3769152	0.95[CHB][hapmap];0.91[ASN][1000 genomes]
rs3820831	0.86[CHB][hapmap];0.82[ASN][1000 genomes]
rs3820832	0.95[CHB][hapmap];0.91[ASN][1000 genomes]
rs41268713	0.97[ASN][1000 genomes]
rs4972538	1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs72625241	0.84[ASN][1000 genomes]
rs72625242	0.84[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1011724	chr2:173916482-174231908	Enhancers Flanking Bivalent TSS/Enh Strong transcription Flanking Active TSS Weak transcription Bivalent Enhancer Active TSS Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:84 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:174058000-174112800	Weak transcription	Spleen	Spleen
2	chr2:174083400-174100600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
3	chr2:174083400-174136400	Weak transcription	Esophagus	oesophagus
4	chr2:174083600-174103400	Weak transcription	NHLF	lung
5	chr2:174083800-174119200	Weak transcription	HMEC	breast
6	chr2:174086200-174101600	Weak transcription	Ovary	ovary
7	chr2:174086400-174098400	Weak transcription	GM12878-XiMat	blood
8	chr2:174089600-174103000	Weak transcription	K562	blood
9	chr2:174092200-174109400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
10	chr2:174092400-174100600	Weak transcription	H1 Cell Line	embryonic stem cell
11	chr2:174092400-174100600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
12	chr2:174092400-174101200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
13	chr2:174092800-174101200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
14	chr2:174092800-174109200	Weak transcription	H9 Cell Line	embryonic stem cell
15	chr2:174093000-174098400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
16	chr2:174093000-174101200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
17	chr2:174093000-174102600	Weak transcription	Fetal Lung	lung
18	chr2:174093800-174106800	Strong transcription	Monocytes-CD14+_RO01746	blood
19	chr2:174094200-174100800	Strong transcription	Primary monocytes fromperipheralblood	blood
20	chr2:174094800-174114600	Weak transcription	HUVEC	blood vessel
21	chr2:174095200-174098600	Enhancers	Thymus	Thymus
22	chr2:174095800-174098600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
23	chr2:174095800-174102800	Strong transcription	Fetal Stomach	stomach
24	chr2:174096000-174128800	Weak transcription	Sigmoid Colon	Sigmoid Colon
25	chr2:174096200-174100200	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
26	chr2:174096200-174100800	Weak transcription	Primary B cells from peripheral blood	blood
27	chr2:174096200-174102400	Weak transcription	Stomach Mucosa	stomach
28	chr2:174096200-174118200	Weak transcription	Rectal Smooth Muscle	rectum
29	chr2:174096400-174098600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
30	chr2:174096400-174098800	Strong transcription	Dnd41	blood
31	chr2:174096400-174100200	Weak transcription	Brain Germinal Matrix	brain
32	chr2:174096400-174107000	Strong transcription	Primary hematopoietic stem cells short term culture	blood
33	chr2:174096400-174109200	Weak transcription	Rectal Mucosa Donor 29	rectum
34	chr2:174096400-174112600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
35	chr2:174096600-174099600	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
36	chr2:174096600-174099600	Strong transcription	A549	lung
37	chr2:174096600-174103400	Weak transcription	Duodenum Mucosa	Duodenum
38	chr2:174096600-174104400	Weak transcription	Skeletal Muscle Female	skeletal muscle
39	chr2:174096600-174105600	Strong transcription	Stomach Smooth Muscle	stomach
40	chr2:174096600-174110800	Weak transcription	Small Intestine	intestine
41	chr2:174096600-174128800	Weak transcription	Pancreas	Pancrea
42	chr2:174096600-174130800	Weak transcription	Gastric	stomach
43	chr2:174096800-174099000	Weak transcription	Fetal Intestine Small	intestine
44	chr2:174096800-174099600	Strong transcription	Placenta	Placenta
45	chr2:174096800-174102800	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
46	chr2:174096800-174108200	Weak transcription	Fetal Heart	heart
47	chr2:174096800-174108400	Strong transcription	Adipose Nuclei	Adipose
48	chr2:174097000-174098600	Strong transcription	Primary neutrophils fromperipheralblood	blood
49	chr2:174097000-174098800	Strong transcription	Aorta	Aorta
50	chr2:174097000-174099400	Strong transcription	Fetal Muscle Trunk	muscle

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