Variant report

Variant	rs155201
Chromosome Location	chr12:32421790-32421791
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 45 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:41)

rs_ID	r²[population]
rs1151038	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1151039	0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1151045	0.85[ASN][1000 genomes]
rs1239398	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1239399	0.81[EUR][1000 genomes]
rs1239401	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs161979	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs161980	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs161981	0.99[AFR][1000 genomes];0.87[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs185487	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2129590	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2594000	0.85[ASN][1000 genomes]
rs2608402	0.81[EUR][1000 genomes]
rs2608403	0.81[EUR][1000 genomes]
rs261868	0.93[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs261869	0.99[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs261870	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2632344	0.99[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2632365	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2650125	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2650137	0.85[ASN][1000 genomes]
rs2728704	0.84[ASN][1000 genomes]
rs2728800	0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2728801	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs326633	0.80[EUR][1000 genomes]
rs326634	0.81[EUR][1000 genomes]
rs326636	0.81[EUR][1000 genomes]
rs326637	0.81[EUR][1000 genomes]
rs708225	0.85[ASN][1000 genomes]
rs708226	0.85[ASN][1000 genomes]
rs708227	0.85[ASN][1000 genomes]
rs751720	0.85[ASN][1000 genomes]
rs753296	0.85[ASN][1000 genomes]
rs792473	0.85[ASN][1000 genomes]
rs792474	0.92[ASN][1000 genomes]
rs792861	0.89[AFR][1000 genomes];0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs792863	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs792866	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs806784	0.85[ASN][1000 genomes]
rs814243	0.85[ASN][1000 genomes]
rs901598	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	nsv531960	chr12:32257285-32775277	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
2	esv2751096	chr12:32280340-32702784	Strong transcription Enhancers Weak transcription Active TSS Genic enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
3	nsv558171	chr12:32287259-32559693	Weak transcription Flanking Active TSS Genic enhancers Enhancers Strong transcription Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
4	nsv832366	chr12:32328559-32511360	Weak transcription Flanking Active TSS Enhancers Genic enhancers Strong transcription ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs155201	BICD1	cis	Thyroid	GTEx

Chromatin state (count:61 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:32393600-32423800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
2	chr12:32394000-32424200	Weak transcription	Muscle Satellite Cultured Cells	--
3	chr12:32394400-32423800	Weak transcription	NH-A	brain
4	chr12:32402000-32424000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
5	chr12:32402400-32423600	Weak transcription	Osteobl	bone
6	chr12:32403000-32424400	Weak transcription	HSMMtube	muscle
7	chr12:32403200-32424000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
8	chr12:32403200-32424400	Weak transcription	HSMM	muscle
9	chr12:32403400-32423600	Weak transcription	Brain Germinal Matrix	brain
10	chr12:32405000-32423800	Weak transcription	Left Ventricle	heart
11	chr12:32405600-32423200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
12	chr12:32405600-32423800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
13	chr12:32407000-32423600	Weak transcription	HUES64 Cell Line	embryonic stem cell
14	chr12:32407800-32423400	Weak transcription	Brain Anterior Caudate	brain
15	chr12:32408200-32424000	Weak transcription	Hela-S3	cervix
16	chr12:32408200-32425600	Weak transcription	Primary T cells from cord blood	blood
17	chr12:32409400-32423600	Weak transcription	HUES6 Cell Line	embryonic stem cell
18	chr12:32409400-32423800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
19	chr12:32411200-32423600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
20	chr12:32411200-32423600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
21	chr12:32411200-32426200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
22	chr12:32411400-32424200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
23	chr12:32411600-32424200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
24	chr12:32412600-32424000	Weak transcription	HUES48 Cell Line	embryonic stem cell
25	chr12:32412600-32426000	Weak transcription	K562	blood
26	chr12:32413400-32437600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
27	chr12:32414400-32423800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
28	chr12:32414600-32423600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
29	chr12:32414600-32423800	Weak transcription	H1 Cell Line	embryonic stem cell
30	chr12:32418200-32422800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
31	chr12:32418200-32423800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
32	chr12:32418200-32423800	Weak transcription	Spleen	Spleen
33	chr12:32418400-32423200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
34	chr12:32418400-32423600	Weak transcription	Brain Angular Gyrus	brain
35	chr12:32418400-32423600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
36	chr12:32418400-32423800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
37	chr12:32418400-32423800	Weak transcription	Brain Hippocampus Middle	brain
38	chr12:32418400-32426400	Weak transcription	Fetal Muscle Leg	muscle
39	chr12:32418600-32423800	Weak transcription	Fetal Stomach	stomach
40	chr12:32418600-32424000	Weak transcription	Fetal Intestine Small	intestine
41	chr12:32418600-32428400	Weak transcription	Ovary	ovary
42	chr12:32419000-32423800	Weak transcription	HUVEC	blood vessel
43	chr12:32419200-32423800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
44	chr12:32419200-32423800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
45	chr12:32419200-32423800	Weak transcription	NHDF-Ad	bronchial
46	chr12:32419200-32425600	Weak transcription	Thymus	Thymus
47	chr12:32419200-32426600	Weak transcription	Dnd41	blood
48	chr12:32419400-32423800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
49	chr12:32419800-32423600	Weak transcription	Primary B cells from peripheral blood	blood
50	chr12:32420000-32423600	Weak transcription	Primary B cells from cord blood	blood

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