Variant report

Variant	rs10494928
Chromosome Location	chr1:210870120-210870121
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr1:210846826..210848354-chr1:210867968..210870812,2	K562	blood:
2	chr1:210865698..210867541-chr1:210869096..210870691,2	K562	blood:
3	chr1:210865100..210867541-chr1:210867654..210870691,4	K562	blood:

Extended variants
information (count: 20 )
Associated
traits (count: 2 )

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

rs_ID	r²[population]
rs11119571	0.92[CEU][hapmap];0.81[CHB][hapmap];0.88[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs11119575	0.92[CEU][hapmap];0.81[CHB][hapmap];0.98[GIH][hapmap];0.83[MEX][hapmap];0.87[TSI][hapmap];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs12122565	1.00[CHB][hapmap];1.00[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];0.82[MEX][hapmap];0.81[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs12123159	0.90[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs12125545	0.85[CEU][hapmap];0.91[JPT][hapmap];0.84[MKK][hapmap];0.81[AMR][1000 genomes]
rs12126038	0.83[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs12127398	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12140954	0.92[CEU][hapmap];0.87[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs12141923	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];0.98[TSI][hapmap];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17188416	0.90[CHB][hapmap];1.00[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];0.82[MEX][hapmap];0.81[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs17188506	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];0.90[MKK][hapmap];0.85[TSI][hapmap];0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2226023	0.81[CHB][hapmap]
rs2357921	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs28513183	0.81[EUR][1000 genomes]
rs4628571	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs60195529	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv873148	chr1:210665583-210994339	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Strong transcription Genic enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh	Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
2	nsv873150	chr1:210808270-210893233	Enhancers Weak transcription ZNF genes & repeats Strong transcription Active TSS Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer	Chromatin interactive region lncRNA miRNA target site	1 gene(s)	inside rSNPs	diseases
3	nsv468083	chr1:210854815-210876192	Weak transcription Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Active TSS Bivalent Enhancer	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
4	nsv549123	chr1:210854815-210876192	Strong transcription Weak transcription ZNF genes & repeats Enhancers Flanking Active TSS Genic enhancers Active TSS Bivalent Enhancer	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs10494928	C1orf107	cis	parietal	SCAN
rs10494928	G0S2	cis	cerebellum	SCAN

Chromatin state (count:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:210838000-210880400	Weak transcription	Gastric	stomach
2	chr1:210846400-210884600	Weak transcription	Ovary	ovary
3	chr1:210857200-210882600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
4	chr1:210857800-210870800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
5	chr1:210858000-210880400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr1:210864400-210889800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
7	chr1:210865600-210870600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
8	chr1:210866200-210870800	Enhancers	HSMMtube	muscle
9	chr1:210866800-210872000	Weak transcription	Brain Inferior Temporal Lobe	brain
10	chr1:210866800-210884800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
11	chr1:210868000-210871200	Enhancers	HSMM	muscle
12	chr1:210869000-210871200	Enhancers	Fetal Muscle Leg	muscle
13	chr1:210869200-210870600	Enhancers	Brain Cingulate Gyrus	brain
14	chr1:210869200-210871200	Enhancers	Cortex derived primary cultured neurospheres	brain
15	chr1:210869400-210870400	Enhancers	GM12878-XiMat	blood
16	chr1:210869400-210870800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
17	chr1:210869400-210870800	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
18	chr1:210869600-210870800	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
19	chr1:210869800-210870200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
20	chr1:210869800-210870200	Weak transcription	Fetal Muscle Trunk	muscle
21	chr1:210869800-210870400	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
22	chr1:210869800-210870600	Enhancers	Brain Substantia Nigra	brain
23	chr1:210869800-210873400	Weak transcription	Fetal Lung	lung
24	chr1:210869800-210882600	Weak transcription	Brain Anterior Caudate	brain
25	chr1:210870000-210870400	Enhancers	A549	lung
26	chr1:210870000-210871800	Weak transcription	Brain Hippocampus Middle	brain

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