Variant report

Variant	rs2906655
Chromosome Location	chr7:101569302-101569303
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr7:101568916..101572896-chr7:101575623..101579716,5	K562	blood:
2	chr7:101563285..101566884-chr7:101569000..101572598,3	MCF-7	breast:
3	chr7:101568282..101570634-chr7:101582586..101584152,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000257923	Chromatin interaction

Extended variants
information (count: 9 )
Associated
traits (count: 2 )

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

rs_ID	r²[population]
rs11977398	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2906648	1.00[CEU][hapmap];0.91[CHB][hapmap];0.95[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.90[MEX][hapmap];1.00[TSI][hapmap];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2906652	0.82[CHB][hapmap];0.93[CHD][hapmap];0.90[JPT][hapmap];0.89[ASN][1000 genomes]
rs2906654	0.94[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.85[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][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	nsv1024319	chr7:101368299-101668159	Weak transcription Enhancers Active TSS Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	33 gene(s)	inside rSNPs	diseases
2	nsv539047	chr7:101368299-101668159	Enhancers Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Genic enhancers Strong transcription Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	33 gene(s)	inside rSNPs	diseases
3	nsv1020372	chr7:101420819-101718950	Enhancers Weak transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	34 gene(s)	inside rSNPs	diseases
4	nsv482846	chr7:101539981-101707666	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 Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
5	nsv888827	chr7:101562674-101650302	Enhancers Strong transcription Weak transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs2906655	C7orf61	cis	parietal	SCAN
rs2906655	ARPC1B	cis	cerebellum	SCAN

Chromatin state (count:103 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:101544000-101569800	Weak transcription	HMEC	breast
2	chr7:101544200-101579800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr7:101556000-101572600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
4	chr7:101557400-101573600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
5	chr7:101557600-101571200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
6	chr7:101558000-101570200	Strong transcription	Fetal Stomach	stomach
7	chr7:101558200-101570400	Strong transcription	Monocytes-CD14+_RO01746	blood
8	chr7:101558600-101577800	Weak transcription	Brain Angular Gyrus	brain
9	chr7:101560000-101577000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
10	chr7:101561200-101584000	Weak transcription	Hela-S3	cervix
11	chr7:101561400-101572600	Weak transcription	GM12878-XiMat	blood
12	chr7:101561600-101569400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
13	chr7:101561600-101571000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
14	chr7:101561600-101575200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
15	chr7:101561600-101577600	Weak transcription	Brain Cingulate Gyrus	brain
16	chr7:101561800-101571000	Weak transcription	HUES64 Cell Line	embryonic stem cell
17	chr7:101561800-101571200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
18	chr7:101561800-101574800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
19	chr7:101561800-101577400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
20	chr7:101561800-101579200	Weak transcription	NHEK	skin
21	chr7:101562000-101578000	Weak transcription	Colonic Mucosa	Colon
22	chr7:101562000-101583600	Weak transcription	Primary T cells fromperipheralblood	blood
23	chr7:101562200-101569800	Weak transcription	Primary B cells from cord blood	blood
24	chr7:101562600-101575400	Weak transcription	HUES48 Cell Line	embryonic stem cell
25	chr7:101562800-101573400	Weak transcription	Primary B cells from peripheral blood	blood
26	chr7:101562800-101578200	Weak transcription	Fetal Kidney	kidney
27	chr7:101563000-101577200	Weak transcription	Duodenum Mucosa	Duodenum
28	chr7:101563000-101578800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
29	chr7:101563200-101570800	Weak transcription	Cortex derived primary cultured neurospheres	brain
30	chr7:101563200-101570800	Weak transcription	Brain Hippocampus Middle	brain
31	chr7:101563200-101571000	Weak transcription	Primary hematopoietic stem cells	blood
32	chr7:101563200-101571000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
33	chr7:101563200-101571200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
34	chr7:101563200-101571200	Weak transcription	Adipose Nuclei	Adipose
35	chr7:101563200-101573000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
36	chr7:101563200-101577800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
37	chr7:101563400-101569800	Weak transcription	HepG2	liver
38	chr7:101563400-101570200	Weak transcription	Liver	Liver
39	chr7:101563400-101573600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
40	chr7:101563400-101578600	Weak transcription	Sigmoid Colon	Sigmoid Colon
41	chr7:101566200-101579000	Weak transcription	Spleen	Spleen
42	chr7:101566400-101569600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
43	chr7:101566400-101577800	Weak transcription	Gastric	stomach
44	chr7:101566400-101577800	Weak transcription	Lung	lung
45	chr7:101566600-101569600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
46	chr7:101566600-101577200	Weak transcription	Fetal Lung	lung
47	chr7:101566800-101571400	Strong transcription	Fetal Intestine Small	intestine
48	chr7:101567000-101577000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
49	chr7:101567000-101578000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
50	chr7:101567000-101596000	Weak transcription	Primary monocytes fromperipheralblood	blood

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