Variant report

Variant	rs11140004
Chromosome Location	chr9:85899105-85899106
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr4:11914973..11915747-chr9:85898451..85899210,2	MCF-7	breast:

Extended variants
information (count: 31 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs10117251	0.82[JPT][hapmap]
rs10867967	0.92[CEU][hapmap];0.91[CHB][hapmap];0.83[JPT][hapmap];0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10867971	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10867973	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10867974	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10867975	0.86[CEU][hapmap];0.95[CHB][hapmap];0.94[JPT][hapmap];0.95[ASN][1000 genomes]
rs10867976	0.86[CEU][hapmap];0.95[CHB][hapmap];0.94[JPT][hapmap];0.81[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10867977	0.83[JPT][hapmap]
rs11795034	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11795096	0.87[CEU][hapmap];0.88[CHB][hapmap];0.94[JPT][hapmap];0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1323784	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1535752	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.82[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1535753	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.82[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1544064	0.91[CHB][hapmap]
rs1924242	0.84[EUR][1000 genomes]
rs2209186	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2209187	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.82[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2209188	0.86[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2378658	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.81[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2889953	0.86[CHB][hapmap]
rs3739658	0.80[AMR][1000 genomes];0.82[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4418413	0.80[ASN][1000 genomes]
rs4877751	0.81[CEU][hapmap];0.83[JPT][hapmap]
rs72743036	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs942278	0.85[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.82[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs942279	0.92[ASN][1000 genomes]
rs942280	0.85[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.82[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs942282	0.86[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.82[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs942283	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.82[EUR][1000 genomes];0.98[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	nsv1046491	chr9:85861492-86063992	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer	TF binding region Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
2	nsv6586	chr9:85869828-85914812	Weak transcription Strong transcription Active TSS Enhancers Flanking Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:36 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:85856200-85910600	Weak transcription	Monocytes-CD14+_RO01746	blood
2	chr9:85866200-85913000	Weak transcription	Aorta	Aorta
3	chr9:85884200-85912400	Weak transcription	HepG2	liver
4	chr9:85890400-85902400	Weak transcription	Left Ventricle	heart
5	chr9:85892600-85899600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
6	chr9:85895000-85912800	Weak transcription	Fetal Brain Female	brain
7	chr9:85896000-85913600	Weak transcription	Psoas Muscle	Psoas
8	chr9:85896000-85919800	Weak transcription	Lung	lung
9	chr9:85896400-85912600	Weak transcription	Gastric	stomach
10	chr9:85896400-85913400	Weak transcription	Brain Germinal Matrix	brain
11	chr9:85896600-85913000	Weak transcription	Primary monocytes fromperipheralblood	blood
12	chr9:85896800-85899200	Weak transcription	Fetal Muscle Trunk	muscle
13	chr9:85896800-85900000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr9:85896800-85905400	Weak transcription	Stomach Smooth Muscle	stomach
15	chr9:85896800-85906200	Weak transcription	Sigmoid Colon	Sigmoid Colon
16	chr9:85896800-85910800	Weak transcription	Primary neutrophils fromperipheralblood	blood
17	chr9:85896800-85922800	Weak transcription	Spleen	Spleen
18	chr9:85897000-85899400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
19	chr9:85897000-85903800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
20	chr9:85897000-85905400	Weak transcription	Fetal Stomach	stomach
21	chr9:85897000-85912600	Weak transcription	Adipose Nuclei	Adipose
22	chr9:85897000-85912600	Weak transcription	Ovary	ovary
23	chr9:85897000-85912800	Weak transcription	Right Ventricle	heart
24	chr9:85897200-85899600	Weak transcription	Fetal Heart	heart
25	chr9:85897200-85900200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
26	chr9:85897200-85912000	Weak transcription	Skeletal Muscle Female	skeletal muscle
27	chr9:85897200-85913000	Weak transcription	Rectal Mucosa Donor 29	rectum
28	chr9:85897200-85919200	Weak transcription	Duodenum Smooth Muscle	Duodenum
29	chr9:85897200-85922000	Weak transcription	Rectal Mucosa Donor 31	rectum
30	chr9:85897400-85914800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
31	chr9:85897800-85900000	Weak transcription	HSMMtube	muscle
32	chr9:85897800-85901600	Weak transcription	NHDF-Ad	bronchial
33	chr9:85898000-85900000	Weak transcription	Cortex derived primary cultured neurospheres	brain
34	chr9:85898600-85899600	Enhancers	Fetal Kidney	kidney
35	chr9:85898600-85902400	Enhancers	Fetal Muscle Leg	muscle
36	chr9:85898800-85901600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived

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