Variant report

Variant	rs1544981
Chromosome Location	chr8:10678089-10678090
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr8:10674954..10678350-chr8:10693952..10697087,3	K562	blood:
2	chr8:10674524..10677009-chr8:10677940..10680830,2	K562	blood:
3	chr8:10672246..10673781-chr8:10676914..10678468,2	K562	blood:
4	chr8:10674524..10677009-chr8:10677940..10682794,6	K562	blood:
5	chr8:10671204..10673781-chr8:10675039..10678414,4	K562	blood:

Extended variants
information (count: 65 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:53)

rs_ID	r²[population]
rs10088888	0.84[ASN][1000 genomes]
rs10094907	0.82[CEU][hapmap];1.00[YRI][hapmap]
rs10098699	0.83[CHB][hapmap];0.81[ASN][1000 genomes]
rs10099021	0.80[CEU][hapmap];0.86[GIH][hapmap];0.93[LWK][hapmap];0.94[MKK][hapmap];0.94[TSI][hapmap];1.00[YRI][hapmap]
rs10099137	0.80[CEU][hapmap];0.86[YRI][hapmap];0.81[EUR][1000 genomes]
rs10099928	0.80[CEU][hapmap];1.00[YRI][hapmap];0.82[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs10107180	0.86[ASW][hapmap];0.85[CEU][hapmap];0.82[GIH][hapmap];0.93[LWK][hapmap];0.94[MKK][hapmap];0.91[TSI][hapmap]
rs10109034	1.00[YRI][hapmap];0.81[EUR][1000 genomes]
rs10109550	0.95[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10113332	0.80[CEU][hapmap];0.86[GIH][hapmap];0.88[MKK][hapmap];0.94[TSI][hapmap]
rs11776674	0.80[CHB][hapmap]
rs11986013	0.85[ASN][1000 genomes]
rs11986015	0.85[ASN][1000 genomes]
rs12550169	1.00[YRI][hapmap];0.81[EUR][1000 genomes]
rs1469557	1.00[YRI][hapmap]
rs1544980	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs1549794	0.85[CEU][hapmap];0.93[YRI][hapmap];0.91[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs17152520	0.85[CEU][hapmap];0.86[GIH][hapmap];0.82[MKK][hapmap];0.97[TSI][hapmap];0.89[EUR][1000 genomes]
rs2052963	1.00[ASW][hapmap];0.85[CEU][hapmap];0.89[GIH][hapmap];0.96[LWK][hapmap];0.97[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.98[EUR][1000 genomes]
rs2271356	0.94[CEU][hapmap];1.00[YRI][hapmap]
rs2271357	0.83[CHD][hapmap]
rs2277130	0.83[CHB][hapmap];0.80[ASN][1000 genomes]
rs2409651	0.94[CEU][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.98[EUR][1000 genomes]
rs28429578	0.84[EUR][1000 genomes]
rs28710808	0.81[ASN][1000 genomes]
rs34653170	0.81[ASN][1000 genomes]
rs3808605	0.83[ASN][1000 genomes]
rs60011038	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6601524	0.85[ASW][hapmap];0.80[CEU][hapmap];0.90[LWK][hapmap];0.82[MKK][hapmap];0.91[TSI][hapmap];1.00[YRI][hapmap]
rs6980805	0.83[CHB][hapmap]
rs6985218	0.86[ASW][hapmap];0.80[CEU][hapmap];0.86[GIH][hapmap];0.93[LWK][hapmap];0.95[MKK][hapmap];0.94[TSI][hapmap];1.00[YRI][hapmap]
rs6985890	0.87[AFR][1000 genomes];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6989846	0.94[CEU][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.87[AFR][1000 genomes];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6990589	0.83[CHD][hapmap];0.92[JPT][hapmap];0.83[ASN][1000 genomes]
rs6991499	0.83[CHD][hapmap]
rs6992039	0.92[AFR][1000 genomes];0.95[EUR][1000 genomes]
rs7000939	0.83[CHD][hapmap]
rs7004998	0.83[CHD][hapmap]
rs7005531	0.81[ASW][hapmap];0.95[CEU][hapmap];0.81[CHB][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];0.95[MKK][hapmap];1.00[TSI][hapmap];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7010709	0.85[ASW][hapmap];0.92[JPT][hapmap];0.82[MKK][hapmap];1.00[YRI][hapmap];0.83[ASN][1000 genomes]
rs714371	0.80[CEU][hapmap];0.93[YRI][hapmap];0.83[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs7820819	0.81[EUR][1000 genomes]
rs7823521	0.88[CEU][hapmap];0.91[YRI][hapmap];0.89[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs7824384	0.95[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7826180	0.80[CEU][hapmap];0.82[GIH][hapmap];0.85[TSI][hapmap]
rs7826458	0.80[CEU][hapmap];0.95[MKK][hapmap];0.94[TSI][hapmap];0.86[YRI][hapmap]
rs7833945	0.80[CHB][hapmap]
rs7838341	0.84[YRI][hapmap];0.81[EUR][1000 genomes]
rs7840785	0.86[GIH][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7841093	0.92[ASN][1000 genomes]
rs891554	0.85[CEU][hapmap]
rs9644730	0.80[CEU][hapmap];1.00[YRI][hapmap]
rs9657541	0.93[LWK][hapmap];0.85[MKK][hapmap];1.00[YRI][hapmap]

Variant overlapped rSNPs/rCNVs (count:12 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv917085	chr8:10237508-10828204	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
2	nsv1026802	chr8:10576444-10754489	Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' Active TSS Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA	20 gene(s)	inside rSNPs	diseases
3	nsv539469	chr8:10576444-10754489	Flanking Bivalent TSS/Enh Bivalent Enhancer Enhancers Transcr. at gene 5' and 3' Weak transcription Flanking Active TSS Bivalent/Poised TSS Active TSS Strong transcription ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA	20 gene(s)	inside rSNPs	diseases
4	nsv1017836	chr8:10591801-10803617	Enhancers ZNF genes & repeats Strong transcription Weak transcription Bivalent Enhancer Flanking Active TSS Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	14 gene(s)	inside rSNPs	diseases
5	nsv1034988	chr8:10591801-10804243	Genic enhancers Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	14 gene(s)	inside rSNPs	diseases
6	nsv519768	chr8:10600254-10691993	Flanking Active TSS Weak transcription Enhancers Strong transcription ZNF genes & repeats Genic enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	5 gene(s)	inside rSNPs	diseases
7	nsv831232	chr8:10606053-10774948	Flanking Active TSS Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	12 gene(s)	inside rSNPs	diseases
8	nsv519376	chr8:10611708-10691993	Weak transcription Strong transcription Enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	5 gene(s)	inside rSNPs	diseases
9	nsv429860	chr8:10615990-10685890	Strong transcription Weak transcription Bivalent Enhancer Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	5 gene(s)	inside rSNPs	diseases
10	nsv1019754	chr8:10617908-10700140	Enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	11 gene(s)	inside rSNPs	diseases
11	nsv539471	chr8:10617908-10700140	Weak transcription Flanking Active TSS Enhancers Active TSS Strong transcription ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	11 gene(s)	inside rSNPs	diseases
12	nsv1031726	chr8:10627742-10749369	Active TSS Enhancers Flanking Active TSS Weak transcription Strong transcription Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	11 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs1544981	FLJ10661	cis	parietal	SCAN
rs1544981	MFHAS1	cis	cerebellum	SCAN

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:10647000-10681200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
2	chr8:10648200-10683400	Weak transcription	Brain Angular Gyrus	brain
3	chr8:10657400-10681400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
4	chr8:10657400-10685800	Weak transcription	Psoas Muscle	Psoas
5	chr8:10657600-10681800	Weak transcription	Rectal Smooth Muscle	rectum
6	chr8:10657800-10680600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr8:10657800-10680600	Weak transcription	HSMMtube	muscle
8	chr8:10659600-10682400	Weak transcription	Muscle Satellite Cultured Cells	--
9	chr8:10660000-10679200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
10	chr8:10663000-10681200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
11	chr8:10663000-10681400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
12	chr8:10663000-10696200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
13	chr8:10665400-10678600	Weak transcription	Rectal Mucosa Donor 31	rectum
14	chr8:10665400-10680800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
15	chr8:10665600-10680200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
16	chr8:10665800-10688200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
17	chr8:10666400-10678600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
18	chr8:10666400-10695200	Strong transcription	Primary T cells from cord blood	blood
19	chr8:10666800-10692400	Strong transcription	Breast Myoepithelial Primary Cells	Breast
20	chr8:10667600-10693200	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
21	chr8:10668400-10682400	Weak transcription	Colonic Mucosa	Colon
22	chr8:10668400-10696200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
23	chr8:10668600-10681400	Weak transcription	A549	lung
24	chr8:10669200-10679600	Strong transcription	Dnd41	blood
25	chr8:10669200-10692800	Strong transcription	Primary B cells from cord blood	blood
26	chr8:10669400-10692200	Strong transcription	Primary T cells fromperipheralblood	blood
27	chr8:10669600-10691800	Strong transcription	GM12878-XiMat	blood
28	chr8:10669600-10692800	Strong transcription	Primary T helper cells PMA-I stimulated	--
29	chr8:10670200-10680800	Weak transcription	Placenta	Placenta
30	chr8:10670200-10692000	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
31	chr8:10670400-10692800	Strong transcription	Primary T helper cells fromperipheralblood	blood
32	chr8:10671000-10681000	Weak transcription	Osteobl	bone
33	chr8:10671400-10679600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
34	chr8:10671400-10692000	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
35	chr8:10672000-10681200	Weak transcription	Brain Inferior Temporal Lobe	brain
36	chr8:10673000-10686800	Strong transcription	Fetal Thymus	thymus
37	chr8:10673000-10692000	Strong transcription	Primary B cells from peripheral blood	blood
38	chr8:10673200-10679800	Strong transcription	Duodenum Mucosa	Duodenum
39	chr8:10673200-10682600	Weak transcription	Fetal Brain Male	brain
40	chr8:10673200-10683000	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
41	chr8:10673200-10686600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
42	chr8:10673200-10692200	Strong transcription	Rectal Mucosa Donor 29	rectum
43	chr8:10673200-10692400	Strong transcription	HUES6 Cell Line	embryonic stem cell
44	chr8:10673400-10684600	Weak transcription	Small Intestine	intestine
45	chr8:10673600-10679800	Weak transcription	Colon Smooth Muscle	Colon
46	chr8:10673800-10679600	Strong transcription	HMEC	breast
47	chr8:10673800-10683400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
48	chr8:10673800-10684000	Weak transcription	Primary neutrophils fromperipheralblood	blood
49	chr8:10673800-10692000	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
50	chr8:10674000-10690200	Weak transcription	Pancreatic Islets	Pancreatic Islet

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