Variant report

Variant	rs11640759
Chromosome Location	chr16:81415869-81415870
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr16:81409982..81413670-chr16:81414350..81417251,3	K562	blood:
2	chr16:81409751..81411946-chr16:81415475..81417498,3	MCF-7	breast:
3	chr16:81406782..81409533-chr16:81410750..81415931,4	K562	blood:
4	chr16:81409982..81414172-chr16:81414350..81416327,5	K562	blood:

Extended variants
information (count: 17 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs1037972	0.81[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs12932319	0.88[CEU][hapmap]
rs1345896	0.81[CEU][hapmap]
rs192835	0.82[ASN][1000 genomes]
rs2081261	0.93[ASN][1000 genomes]
rs2081262	0.92[ASN][1000 genomes]
rs2873408	0.81[CEU][hapmap]
rs6564874	0.92[ASN][1000 genomes]
rs6564876	0.81[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs8051575	0.88[CEU][hapmap]
rs8054106	0.93[ASN][1000 genomes]
rs889746	0.92[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv532569	chr16:80980356-81700149	Weak transcription Flanking Active TSS Genic enhancers Enhancers Strong transcription Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	71 gene(s)	inside rSNPs	diseases
2	nsv1058519	chr16:81177767-81735333	Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Enhancers Transcr. at gene 5' and 3' Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	36 gene(s)	inside rSNPs	diseases
3	nsv948448	chr16:81198147-81906766	Enhancers Flanking Active TSS Weak transcription Strong transcription Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	37 gene(s)	inside rSNPs	diseases
4	nsv1061359	chr16:81349826-81471867	Weak transcription ZNF genes & repeats Strong transcription Flanking Active TSS Enhancers Genic enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	17 gene(s)	inside rSNPs	diseases
5	nsv542992	chr16:81349826-81471867	Weak transcription Enhancers ZNF genes & repeats Strong transcription Active TSS Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	17 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs11640759	GAN	cis	parietal	SCAN

Chromatin state (count:122 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr16:81382400-81418400	Weak transcription	Small Intestine	intestine
2	chr16:81384200-81434600	Weak transcription	NHLF	lung
3	chr16:81384200-81437400	Weak transcription	Fetal Brain Male	brain
4	chr16:81385600-81418200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr16:81386400-81424200	Weak transcription	Psoas Muscle	Psoas
6	chr16:81387000-81428600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
7	chr16:81391200-81417600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
8	chr16:81392000-81428400	Weak transcription	Fetal Heart	heart
9	chr16:81397400-81426400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
10	chr16:81399000-81417400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
11	chr16:81399200-81431000	Weak transcription	Placenta Amnion	Placenta Amnion
12	chr16:81400000-81427200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
13	chr16:81400000-81434600	Weak transcription	Muscle Satellite Cultured Cells	--
14	chr16:81402200-81418000	Weak transcription	Brain Germinal Matrix	brain
15	chr16:81404400-81417200	Weak transcription	H1 Cell Line	embryonic stem cell
16	chr16:81405200-81418400	Weak transcription	Right Atrium	heart
17	chr16:81406600-81423800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
18	chr16:81411200-81424400	Weak transcription	Colonic Mucosa	Colon
19	chr16:81411200-81428400	Weak transcription	GM12878-XiMat	blood
20	chr16:81411400-81416400	Weak transcription	HUVEC	blood vessel
21	chr16:81411400-81417000	Weak transcription	Ovary	ovary
22	chr16:81411400-81418200	Weak transcription	H9 Cell Line	embryonic stem cell
23	chr16:81411400-81418400	Weak transcription	Lung	lung
24	chr16:81411400-81419200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
25	chr16:81411400-81421600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
26	chr16:81411400-81422600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
27	chr16:81411400-81428000	Weak transcription	Spleen	Spleen
28	chr16:81411400-81428200	Weak transcription	Stomach Mucosa	stomach
29	chr16:81411400-81429200	Weak transcription	Primary B cells from peripheral blood	blood
30	chr16:81411400-81429600	Weak transcription	HSMM	muscle
31	chr16:81411600-81417400	Weak transcription	Brain Inferior Temporal Lobe	brain
32	chr16:81411600-81418400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
33	chr16:81411600-81420400	Weak transcription	Right Ventricle	heart
34	chr16:81411600-81428600	Weak transcription	Fetal Kidney	kidney
35	chr16:81411600-81437400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
36	chr16:81411800-81416000	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
37	chr16:81411800-81417200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
38	chr16:81411800-81417200	Weak transcription	Brain Cingulate Gyrus	brain
39	chr16:81411800-81417400	Weak transcription	Brain Anterior Caudate	brain
40	chr16:81411800-81419000	Weak transcription	Fetal Muscle Trunk	muscle
41	chr16:81411800-81423000	Weak transcription	Rectal Mucosa Donor 31	rectum
42	chr16:81411800-81424400	Weak transcription	Skeletal Muscle Female	skeletal muscle
43	chr16:81411800-81424600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
44	chr16:81411800-81428200	Weak transcription	Fetal Brain Female	brain
45	chr16:81411800-81428200	Weak transcription	Osteobl	bone
46	chr16:81411800-81428600	Weak transcription	HSMMtube	muscle
47	chr16:81411800-81431000	Weak transcription	K562	blood
48	chr16:81411800-81432400	Weak transcription	A549	lung
49	chr16:81412000-81417200	Weak transcription	Brain Substantia Nigra	brain
50	chr16:81412000-81417200	Weak transcription	Stomach Smooth Muscle	stomach

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