Variant report

Variant	rs10961441
Chromosome Location	chr9:14236134-14236135
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:14218690..14221524-chr9:14235018..14237230,2	MCF-7	breast:

Extended variants
information (count: 13 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:7)

rs_ID	r²[population]
rs10961443	0.84[CEU][hapmap];0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10961444	1.00[CEU][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11789657	0.87[CEU][hapmap];0.88[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs1322985	0.82[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs1322986	0.84[AMR][1000 genomes]
rs1322987	0.83[AMR][1000 genomes]
rs7040053	0.96[CEU][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1023303	chr9:14025605-14286269	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
2	nsv540069	chr9:14025605-14286269	Weak transcription Enhancers Active TSS Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
3	nsv1029491	chr9:14033607-14942373	Enhancers ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Weak transcription Strong transcription Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
4	nsv915804	chr9:14182608-14903050	Enhancers Strong transcription Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
5	nsv916811	chr9:14210978-14542068	Enhancers Weak transcription Flanking Bivalent TSS/Enh Genic enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
6	nsv892598	chr9:14234315-14274950	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:66 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:14221200-14245600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr9:14221800-14237400	Weak transcription	Aorta	Aorta
3	chr9:14221800-14237400	Weak transcription	Gastric	stomach
4	chr9:14222400-14236400	Weak transcription	HSMM	muscle
5	chr9:14222400-14236800	Weak transcription	NHLF	lung
6	chr9:14222400-14237200	Weak transcription	Stomach Mucosa	stomach
7	chr9:14222400-14237800	Weak transcription	NH-A	brain
8	chr9:14222400-14238000	Weak transcription	Placenta	Placenta
9	chr9:14222400-14240600	Weak transcription	Stomach Smooth Muscle	stomach
10	chr9:14222600-14236400	Weak transcription	Psoas Muscle	Psoas
11	chr9:14222600-14236400	Weak transcription	HMEC	breast
12	chr9:14222600-14236800	Weak transcription	NHEK	skin
13	chr9:14222600-14237000	Weak transcription	Hela-S3	cervix
14	chr9:14222600-14238000	Weak transcription	Osteobl	bone
15	chr9:14222800-14236800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
16	chr9:14223000-14236400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
17	chr9:14223200-14236600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
18	chr9:14224000-14238000	Weak transcription	Pancreas	Pancrea
19	chr9:14224400-14246800	Weak transcription	Fetal Muscle Trunk	muscle
20	chr9:14224800-14237800	Weak transcription	Sigmoid Colon	Sigmoid Colon
21	chr9:14227600-14236400	Weak transcription	Skeletal Muscle Male	skeletal muscle
22	chr9:14230000-14237000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
23	chr9:14231000-14238200	Weak transcription	Ovary	ovary
24	chr9:14232400-14236200	Weak transcription	Fetal Stomach	stomach
25	chr9:14232400-14237000	Weak transcription	Skeletal Muscle Female	skeletal muscle
26	chr9:14232600-14237000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
27	chr9:14232600-14237400	Weak transcription	H9 Cell Line	embryonic stem cell
28	chr9:14233000-14237400	Weak transcription	Fetal Muscle Leg	muscle
29	chr9:14233000-14237400	Weak transcription	Lung	lung
30	chr9:14233000-14237400	Weak transcription	Right Atrium	heart
31	chr9:14233000-14240200	Weak transcription	Brain Germinal Matrix	brain
32	chr9:14233200-14236200	Weak transcription	Fetal Brain Female	brain
33	chr9:14233200-14236400	Weak transcription	Cortex derived primary cultured neurospheres	brain
34	chr9:14233800-14236400	Weak transcription	Left Ventricle	heart
35	chr9:14234800-14236600	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
36	chr9:14234800-14240200	Enhancers	Fetal Heart	heart
37	chr9:14235000-14236400	Enhancers	Fetal Lung	lung
38	chr9:14235000-14236400	Enhancers	HUVEC	blood vessel
39	chr9:14235000-14239800	Enhancers	iPS-20b Cell Line	embryonic stem cell
40	chr9:14235200-14236600	Enhancers	Duodenum Mucosa	Duodenum
41	chr9:14235200-14236600	Enhancers	Fetal Intestine Large	intestine
42	chr9:14235200-14236600	Enhancers	Small Intestine	intestine
43	chr9:14235200-14236800	Enhancers	A549	lung
44	chr9:14235200-14238400	Genic enhancers	Breast Myoepithelial Primary Cells	Breast
45	chr9:14235200-14238400	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
46	chr9:14235200-14238800	Enhancers	Fetal Intestine Small	intestine
47	chr9:14235200-14241800	Enhancers	Adipose Nuclei	Adipose
48	chr9:14235400-14236400	Weak transcription	HUES64 Cell Line	embryonic stem cell
49	chr9:14235400-14239400	Enhancers	Brain Anterior Caudate	brain
50	chr9:14235600-14237600	Enhancers	Colon Smooth Muscle	Colon

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