Variant report

Variant	rs34888238
Chromosome Location	chr18:29508132-29508133
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr18:29506087..29508444-chr18:29510343..29513453,3	MCF-7	breast:

Extended variants
information (count: 19 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs11872757	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11873875	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11874574	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11875279	0.83[ASN][1000 genomes]
rs11876025	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11878164	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs34059722	0.93[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34176695	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72932147	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8083827	0.83[ASN][1000 genomes]
rs8083851	0.83[ASN][1000 genomes]
rs8084138	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8085470	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8088671	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8099528	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9965255	0.83[ASN][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	nsv431975	chr18:29311034-29527902	Strong transcription Weak transcription Enhancers Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	26 gene(s)	inside rSNPs	diseases
2	nsv1057229	chr18:29335175-29514265	Weak transcription Flanking Active TSS Enhancers Strong transcription ZNF genes & repeats Genic enhancers Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
3	nsv1067252	chr18:29475073-29583744	Strong transcription Active TSS Weak transcription Flanking Active TSS Enhancers Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr18:29406200-29518600	Weak transcription	Fetal Brain Male	brain
2	chr18:29417600-29515600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr18:29431800-29512600	Strong transcription	Primary monocytes fromperipheralblood	blood
4	chr18:29432600-29521400	Weak transcription	Stomach Mucosa	stomach
5	chr18:29461600-29518600	Weak transcription	Psoas Muscle	Psoas
6	chr18:29462000-29520000	Weak transcription	Fetal Heart	heart
7	chr18:29463400-29509200	Strong transcription	Primary neutrophils fromperipheralblood	blood
8	chr18:29469000-29511400	Weak transcription	Pancreatic Islets	Pancreatic Islet
9	chr18:29472800-29512000	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
10	chr18:29474200-29510800	Weak transcription	NH-A	brain
11	chr18:29478600-29522000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
12	chr18:29479600-29518600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
13	chr18:29480600-29511600	Weak transcription	Pancreas	Pancrea
14	chr18:29480600-29519400	Weak transcription	Spleen	Spleen
15	chr18:29480800-29511200	Weak transcription	Hela-S3	cervix
16	chr18:29481400-29511600	Weak transcription	Brain Inferior Temporal Lobe	brain
17	chr18:29482000-29511200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
18	chr18:29482200-29511200	Weak transcription	NHLF	lung
19	chr18:29482400-29511400	Weak transcription	Brain Hippocampus Middle	brain
20	chr18:29482400-29522000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
21	chr18:29482600-29521600	Weak transcription	Rectal Smooth Muscle	rectum
22	chr18:29482800-29521600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
23	chr18:29483200-29511200	Weak transcription	Brain Cingulate Gyrus	brain
24	chr18:29484400-29509200	Weak transcription	Gastric	stomach
25	chr18:29484400-29520800	Weak transcription	Fetal Brain Female	brain
26	chr18:29484800-29521000	Weak transcription	Skeletal Muscle Male	skeletal muscle
27	chr18:29485400-29509400	Weak transcription	Small Intestine	intestine
28	chr18:29485800-29508200	Weak transcription	Brain Germinal Matrix	brain
29	chr18:29487600-29508200	Weak transcription	Fetal Kidney	kidney
30	chr18:29487800-29511200	Weak transcription	HSMMtube	muscle
31	chr18:29488000-29519600	Weak transcription	Stomach Smooth Muscle	stomach
32	chr18:29488400-29511000	Weak transcription	Muscle Satellite Cultured Cells	--
33	chr18:29488400-29511200	Weak transcription	Brain Anterior Caudate	brain
34	chr18:29490200-29511200	Weak transcription	NHDF-Ad	bronchial
35	chr18:29490400-29519000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
36	chr18:29490800-29511200	Weak transcription	HMEC	breast
37	chr18:29491000-29508200	Weak transcription	HSMM	muscle
38	chr18:29492600-29508200	Weak transcription	Esophagus	oesophagus
39	chr18:29492600-29519600	Weak transcription	Ovary	ovary
40	chr18:29493000-29521600	Weak transcription	Aorta	Aorta
41	chr18:29493400-29521600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
42	chr18:29494000-29518400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
43	chr18:29495200-29509400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
44	chr18:29496200-29510600	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
45	chr18:29496200-29512600	Strong transcription	HUES64 Cell Line	embryonic stem cell
46	chr18:29496600-29521400	Weak transcription	NHEK	skin
47	chr18:29497800-29510400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
48	chr18:29498400-29511800	Weak transcription	Right Atrium	heart
49	chr18:29498800-29509600	Strong transcription	Breast Myoepithelial Primary Cells	Breast
50	chr18:29499000-29508600	Weak transcription	HepG2	liver

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