Variant report

Variant	rs35522893
Chromosome Location	chr15:83526337-83526338
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:83518322..83521223-chr15:83524583..83526656,2	MCF-7	breast:
2	chr15:83524106..83526544-chr15:83528927..83531403,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000103942	Chromatin interaction

Extended variants
information (count: 7 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:4)

rs_ID	r²[population]
rs12913501	1.00[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs7178859	0.82[AMR][1000 genomes]
rs72755921	1.00[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs7496832	0.80[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv469557	chr15:83417763-83560629	Enhancers Genic enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	45 gene(s)	inside rSNPs	diseases
2	nsv482340	chr15:83417763-83560629	Strong transcription Weak transcription Active TSS Enhancers ZNF genes & repeats Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	45 gene(s)	inside rSNPs	diseases
3	nsv471687	chr15:83417764-83560629	Enhancers Flanking Active TSS Genic enhancers Strong transcription Weak transcription Active TSS 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	45 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs35522893	WHAMM	cis	Nerve Tibial	GTEx
rs35522893	WHAMM	cis	Adipose Subcutaneous	GTEx
rs35522893	HDGFRP3	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:44 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:83504600-83549400	Weak transcription	Psoas Muscle	Psoas
2	chr15:83506200-83527400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr15:83506200-83543800	Weak transcription	Pancreatic Islets	Pancreatic Islet
4	chr15:83507200-83539400	Weak transcription	Fetal Intestine Small	intestine
5	chr15:83513200-83532000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
6	chr15:83514400-83542800	Weak transcription	Primary T cells from cord blood	blood
7	chr15:83519000-83535800	Weak transcription	HUES48 Cell Line	embryonic stem cell
8	chr15:83519000-83541400	Weak transcription	Brain Anterior Caudate	brain
9	chr15:83519200-83528800	Weak transcription	Rectal Smooth Muscle	rectum
10	chr15:83519200-83536200	Weak transcription	HUES6 Cell Line	embryonic stem cell
11	chr15:83519600-83529600	Weak transcription	Brain Substantia Nigra	brain
12	chr15:83519800-83544400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
13	chr15:83520000-83543600	Weak transcription	HSMM	muscle
14	chr15:83520000-83549800	Weak transcription	Brain Cingulate Gyrus	brain
15	chr15:83520000-83563800	Weak transcription	Brain Hippocampus Middle	brain
16	chr15:83520200-83542000	Weak transcription	Brain Angular Gyrus	brain
17	chr15:83520200-83547000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
18	chr15:83521800-83526400	Weak transcription	Brain Inferior Temporal Lobe	brain
19	chr15:83521800-83529400	Weak transcription	Primary B cells from cord blood	blood
20	chr15:83522400-83543400	Weak transcription	Fetal Muscle Trunk	muscle
21	chr15:83522600-83529000	Weak transcription	Fetal Kidney	kidney
22	chr15:83522600-83542200	Weak transcription	Fetal Muscle Leg	muscle
23	chr15:83523000-83527000	Weak transcription	Skeletal Muscle Female	skeletal muscle
24	chr15:83523400-83540000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
25	chr15:83523400-83540800	Weak transcription	Stomach Smooth Muscle	stomach
26	chr15:83523600-83526400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
27	chr15:83523600-83541400	Weak transcription	Fetal Stomach	stomach
28	chr15:83523600-83558000	Weak transcription	Esophagus	oesophagus
29	chr15:83523800-83527400	Weak transcription	Liver	Liver
30	chr15:83523800-83535600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
31	chr15:83524600-83527800	Weak transcription	Spleen	Spleen
32	chr15:83524600-83567800	Weak transcription	Left Ventricle	heart
33	chr15:83524800-83526800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
34	chr15:83524800-83528800	Weak transcription	Primary hematopoietic stem cells	blood
35	chr15:83524800-83534400	Weak transcription	Adipose Nuclei	Adipose
36	chr15:83524800-83563800	Weak transcription	Cortex derived primary cultured neurospheres	brain
37	chr15:83525400-83526600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
38	chr15:83525600-83526600	Weak transcription	NH-A	brain
39	chr15:83525600-83527200	Enhancers	HSMMtube	muscle
40	chr15:83525600-83528000	Strong transcription	Gastric	stomach
41	chr15:83525800-83527200	Weak transcription	Skeletal Muscle Male	skeletal muscle
42	chr15:83525800-83527400	Strong transcription	Pancreas	Pancrea
43	chr15:83525800-83529800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
44	chr15:83526000-83541800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland

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