Variant report

Variant	rs10904197
Chromosome Location	chr10:4171967-4171968
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:4170365..4172316-chr10:4322695..4325438,2	MCF-7	breast:
2	chr10:3825405..3829399-chr10:4168357..4172262,5	MCF-7	breast:
3	chr10:4164939..4167456-chr10:4170244..4172717,2	MCF-7	breast:
4	chr10:4170399..4173353-chr10:4195678..4198644,2	K562	blood:
5	chr10:4101159..4103691-chr10:4170864..4173275,2	MCF-7	breast:
6	chr10:3817511..3819980-chr10:4171499..4173614,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000067082	Chromatin interaction

Extended variants
information (count: 36 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs10751957	0.82[EUR][1000 genomes]
rs10751960	0.93[ASN][1000 genomes]
rs10751961	0.93[ASN][1000 genomes]
rs10904194	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10904196	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs11252348	0.82[CEU][hapmap];0.81[EUR][1000 genomes]
rs11252357	0.89[EUR][1000 genomes]
rs11252367	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs11252372	0.98[EUR][1000 genomes]
rs11252374	0.98[EUR][1000 genomes]
rs12246060	0.87[EUR][1000 genomes]
rs12263895	0.88[EUR][1000 genomes]
rs12265852	0.87[EUR][1000 genomes]
rs12412777	1.00[JPT][hapmap]
rs1885475	1.00[CEU][hapmap];0.92[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1885477	0.85[JPT][hapmap]
rs1923392	1.00[CEU][hapmap];0.82[YRI][hapmap];0.82[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs2146058	0.93[AMR][1000 genomes];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs57986186	0.98[EUR][1000 genomes]
rs6601814	0.93[ASN][1000 genomes]
rs6601815	0.93[ASN][1000 genomes]
rs7069371	0.93[ASN][1000 genomes]
rs7082307	0.87[ASN][1000 genomes]
rs7087085	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs7101224	0.98[EUR][1000 genomes]
rs73599500	0.98[EUR][1000 genomes]
rs73601413	0.95[EUR][1000 genomes]
rs73601414	0.95[EUR][1000 genomes]
rs73601427	0.85[EUR][1000 genomes]
rs7901753	0.85[CEU][hapmap];0.83[EUR][1000 genomes]
rs7901893	0.85[EUR][1000 genomes]
rs7910597	0.98[EUR][1000 genomes]
rs7916036	0.85[EUR][1000 genomes]
rs9651517	0.87[EUR][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	nsv1051297	chr10:3908706-4277678	Enhancers Active TSS Weak transcription Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Flanking Active TSS Bivalent Enhancer Strong transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	13 gene(s)	inside rSNPs	diseases
2	nsv831772	chr10:4039292-4212218	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:53 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:4163000-4173400	Weak transcription	NHLF	lung
2	chr10:4167200-4174200	Weak transcription	Pancreas	Pancrea
3	chr10:4169400-4173400	Enhancers	Primary monocytes fromperipheralblood	blood
4	chr10:4169400-4175200	Enhancers	Primary B cells from peripheral blood	blood
5	chr10:4169600-4172400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
6	chr10:4169600-4172600	Enhancers	Primary neutrophils fromperipheralblood	blood
7	chr10:4169600-4172600	Enhancers	Primary hematopoietic stem cells short term culture	blood
8	chr10:4169600-4172800	Enhancers	Primary B cells from cord blood	blood
9	chr10:4169600-4172800	Enhancers	HUVEC	blood vessel
10	chr10:4169600-4173200	Enhancers	Primary hematopoietic stem cells	blood
11	chr10:4169600-4173200	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
12	chr10:4170200-4172600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
13	chr10:4170600-4172200	Weak transcription	Placenta	Placenta
14	chr10:4170600-4172400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
15	chr10:4170600-4172600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
16	chr10:4170600-4172600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
17	chr10:4170600-4172800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
18	chr10:4170800-4172200	Weak transcription	Fetal Thymus	thymus
19	chr10:4170800-4172200	Weak transcription	Small Intestine	intestine
20	chr10:4170800-4172400	Weak transcription	Psoas Muscle	Psoas
21	chr10:4170800-4172600	Weak transcription	Primary T cells from cord blood	blood
22	chr10:4170800-4172600	Weak transcription	Primary T helper cells PMA-I stimulated	--
23	chr10:4170800-4172800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
24	chr10:4170800-4172800	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
25	chr10:4170800-4172800	Weak transcription	Duodenum Mucosa	Duodenum
26	chr10:4170800-4173000	Weak transcription	HUES64 Cell Line	embryonic stem cell
27	chr10:4170800-4173200	Weak transcription	Rectal Mucosa Donor 29	rectum
28	chr10:4170800-4174400	Weak transcription	Duodenum Smooth Muscle	Duodenum
29	chr10:4171000-4172000	Weak transcription	Stomach Mucosa	stomach
30	chr10:4171000-4172200	Weak transcription	Primary T cells fromperipheralblood	blood
31	chr10:4171000-4172200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
32	chr10:4171000-4172400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
33	chr10:4171000-4172400	Weak transcription	Adipose Nuclei	Adipose
34	chr10:4171000-4172400	Weak transcription	Spleen	Spleen
35	chr10:4171000-4172600	Weak transcription	Skeletal Muscle Male	skeletal muscle
36	chr10:4171000-4172800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
37	chr10:4171000-4172800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
38	chr10:4171000-4172800	Weak transcription	Rectal Mucosa Donor 31	rectum
39	chr10:4171000-4173000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
40	chr10:4171000-4173800	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
41	chr10:4171200-4172600	Weak transcription	Fetal Lung	lung
42	chr10:4171400-4173200	Enhancers	Right Atrium	heart
43	chr10:4171400-4173800	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
44	chr10:4171400-4174800	Enhancers	Hela-S3	cervix
45	chr10:4171600-4172200	Weak transcription	Fetal Muscle Leg	muscle
46	chr10:4171600-4172400	Weak transcription	Gastric	stomach
47	chr10:4171600-4172800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
48	chr10:4171600-4173400	Enhancers	Primary T helper cells fromperipheralblood	blood
49	chr10:4171800-4172800	Enhancers	Dnd41	blood
50	chr10:4171800-4173200	Enhancers	Sigmoid Colon	Sigmoid Colon

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