Variant report

Variant	rs10978198
Chromosome Location	chr9:108444205-108444206
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:108438804..108448538-chr9:108453257..108460732,10	K562	blood:
2	chr9:108435190..108438594-chr9:108442822..108445206,3	K562	blood:
3	chr9:108442166..108445197-chr9:108445309..108448019,3	MCF-7	breast:
4	chr9:108418532..108421730-chr9:108444184..108446656,3	K562	blood:
5	chr9:108443536..108446444-chr9:108448478..108450783,3	K562	blood:
6	chr9:108441575..108443928-chr9:108443959..108447261,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000095209	Chromatin interaction

Extended variants
information (count: 200 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:198)

rs_ID	r²[population]
rs10046892	0.84[ASN][1000 genomes]
rs10114077	0.84[ASN][1000 genomes]
rs10114109	0.84[ASN][1000 genomes]
rs10114738	0.84[ASN][1000 genomes]
rs10114831	0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10115748	0.84[ASN][1000 genomes]
rs10115852	0.84[ASN][1000 genomes]
rs10116270	0.84[ASN][1000 genomes]
rs10117187	0.84[ASN][1000 genomes]
rs10118661	0.84[ASN][1000 genomes]
rs10119128	0.85[ASN][1000 genomes]
rs10121582	0.84[ASN][1000 genomes]
rs10121677	0.81[ASN][1000 genomes]
rs10121695	0.82[ASN][1000 genomes]
rs10122308	0.85[ASN][1000 genomes]
rs10123642	0.82[ASN][1000 genomes]
rs10124738	0.85[ASN][1000 genomes]
rs10125298	0.82[ASN][1000 genomes]
rs10125446	0.84[ASN][1000 genomes]
rs10156569	0.84[ASN][1000 genomes]
rs10156571	0.84[ASN][1000 genomes]
rs10217358	0.81[ASN][1000 genomes]
rs10217508	0.81[ASN][1000 genomes]
rs10441744	0.84[ASN][1000 genomes]
rs10512340	0.84[ASN][1000 genomes]
rs10739213	0.84[ASN][1000 genomes]
rs10759128	0.87[ASN][1000 genomes]
rs10759132	0.84[ASN][1000 genomes]
rs10759133	0.84[ASN][1000 genomes]
rs10759134	0.84[ASN][1000 genomes]
rs10759135	0.84[ASN][1000 genomes]
rs10759136	0.83[ASN][1000 genomes]
rs10759137	0.82[ASN][1000 genomes]
rs10759138	0.82[ASN][1000 genomes]
rs10816294	0.92[ASN][1000 genomes]
rs10816295	0.97[AFR][1000 genomes];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10816296	0.86[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs10816297	0.94[ASN][1000 genomes]
rs10816298	0.92[ASN][1000 genomes]
rs10816299	0.87[ASN][1000 genomes]
rs10816300	0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10816301	0.84[ASN][1000 genomes]
rs10816302	0.84[ASN][1000 genomes]
rs10816304	0.84[ASN][1000 genomes]
rs10816308	0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10816310	0.83[ASN][1000 genomes]
rs10816311	0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10816312	0.84[ASN][1000 genomes]
rs10816313	0.84[ASN][1000 genomes]
rs10816314	0.83[ASN][1000 genomes]
rs10816318	0.84[ASN][1000 genomes]
rs10816319	0.84[ASN][1000 genomes]
rs10816324	0.83[ASN][1000 genomes]
rs10816330	0.83[ASN][1000 genomes]
rs10816331	0.81[ASN][1000 genomes]
rs10816334	0.83[ASN][1000 genomes]
rs10816336	0.80[ASN][1000 genomes]
rs10816337	0.82[ASN][1000 genomes]
rs10978196	0.97[AFR][1000 genomes];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10978202	0.92[ASN][1000 genomes]
rs10978203	0.92[ASN][1000 genomes]
rs10978209	0.87[ASN][1000 genomes]
rs10978210	0.87[ASN][1000 genomes]
rs10978211	0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10978220	0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10978222	0.84[ASN][1000 genomes]
rs10978223	0.84[ASN][1000 genomes]
rs10978226	0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10978227	0.84[ASN][1000 genomes]
rs10978228	0.84[ASN][1000 genomes]
rs10978230	0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10978232	0.84[ASN][1000 genomes]
rs10978233	0.82[ASN][1000 genomes]
rs10978234	0.84[ASN][1000 genomes]
rs10978235	0.84[ASN][1000 genomes]
rs10978236	0.84[ASN][1000 genomes]
rs10978239	0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10978240	0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10978241	0.83[ASN][1000 genomes]
rs10978242	0.84[ASN][1000 genomes]
rs10978251	0.81[ASN][1000 genomes]
rs10978252	0.83[ASN][1000 genomes]
rs10978253	0.83[ASN][1000 genomes]
rs10978255	0.81[ASN][1000 genomes]
rs10978257	0.82[ASN][1000 genomes]
rs10978259	0.82[ASN][1000 genomes]
rs10978263	0.81[ASN][1000 genomes]
rs10978264	0.81[ASN][1000 genomes]
rs10978265	0.81[ASN][1000 genomes]
rs10978267	0.81[ASN][1000 genomes]
rs1124097	0.95[ASN][1000 genomes]
rs11562290	0.82[ASN][1000 genomes]
rs12001759	0.83[ASN][1000 genomes]
rs12003526	0.83[ASN][1000 genomes]
rs12337178	0.84[ASN][1000 genomes]
rs12338812	0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12338851	0.83[ASN][1000 genomes]
rs12339468	0.82[ASN][1000 genomes]
rs12341846	0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12341885	0.85[ASN][1000 genomes]
rs12342953	0.83[ASN][1000 genomes]
rs12344129	1.00[AFR][1000 genomes];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12344225	0.81[ASN][1000 genomes]
rs12345343	0.84[ASN][1000 genomes]
rs12346348	0.84[ASN][1000 genomes]
rs12347783	0.83[ASN][1000 genomes]
rs12347903	0.96[ASN][1000 genomes]
rs12348107	0.81[ASN][1000 genomes]
rs12348647	0.81[ASN][1000 genomes]
rs12684672	0.84[ASN][1000 genomes]
rs13283916	0.80[ASN][1000 genomes]
rs13286237	0.81[ASN][1000 genomes]
rs13301124	0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1979992	0.83[ASN][1000 genomes]
rs1979993	0.83[ASN][1000 genomes]
rs2136407	0.81[ASN][1000 genomes]
rs2136408	0.84[ASN][1000 genomes]
rs2136410	0.81[ASN][1000 genomes]
rs2175121	0.84[ASN][1000 genomes]
rs2175122	0.84[ASN][1000 genomes]
rs2271246	0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs28579191	0.87[ASN][1000 genomes]
rs35164306	0.84[ASN][1000 genomes]
rs3817141	0.85[ASN][1000 genomes]
rs4360347	0.84[ASN][1000 genomes]
rs6477453	0.84[ASN][1000 genomes]
rs6477454	0.84[ASN][1000 genomes]
rs6477455	0.84[ASN][1000 genomes]
rs6477456	0.84[ASN][1000 genomes]
rs6477457	0.83[ASN][1000 genomes]
rs6477459	0.84[ASN][1000 genomes]
rs6477460	0.85[ASN][1000 genomes]
rs6477462	0.84[ASN][1000 genomes]
rs6477463	0.84[ASN][1000 genomes]
rs6477464	0.84[ASN][1000 genomes]
rs6477466	0.80[ASN][1000 genomes]
rs66993159	0.81[ASN][1000 genomes]
rs67705477	0.81[ASN][1000 genomes]
rs7020276	0.84[ASN][1000 genomes]
rs7020523	0.84[ASN][1000 genomes]
rs7021342	0.82[ASN][1000 genomes]
rs7021727	0.81[ASN][1000 genomes]
rs7022124	0.84[ASN][1000 genomes]
rs7024278	0.84[ASN][1000 genomes]
rs7025950	0.85[ASN][1000 genomes]
rs7026814	0.84[ASN][1000 genomes]
rs7026968	0.84[ASN][1000 genomes]
rs7028906	0.94[ASN][1000 genomes]
rs7029064	0.82[ASN][1000 genomes]
rs7029124	0.85[ASN][1000 genomes]
rs7029200	0.87[ASN][1000 genomes]
rs7030399	0.83[ASN][1000 genomes]
rs7030619	0.87[ASN][1000 genomes]
rs7031063	0.84[ASN][1000 genomes]
rs7031360	0.84[ASN][1000 genomes]
rs7031431	0.84[ASN][1000 genomes]
rs7037785	0.85[ASN][1000 genomes]
rs7038788	0.84[ASN][1000 genomes]
rs7040532	0.84[ASN][1000 genomes]
rs7040890	0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7046212	0.84[ASN][1000 genomes]
rs7046293	0.84[ASN][1000 genomes]
rs7046947	0.81[ASN][1000 genomes]
rs7047435	0.84[ASN][1000 genomes]
rs7047678	0.97[AFR][1000 genomes];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs73522059	0.82[ASN][1000 genomes]
rs7846853	0.84[ASN][1000 genomes]
rs7846993	0.84[ASN][1000 genomes]
rs7848176	0.84[ASN][1000 genomes]
rs7852501	0.84[ASN][1000 genomes]
rs7853483	0.81[ASN][1000 genomes]
rs7854472	0.81[ASN][1000 genomes]
rs7856126	0.83[ASN][1000 genomes]
rs7856356	0.83[ASN][1000 genomes]
rs7858409	0.83[ASN][1000 genomes]
rs7858663	0.84[ASN][1000 genomes]
rs7861670	0.84[ASN][1000 genomes]
rs7862921	0.82[ASN][1000 genomes]
rs7866285	0.82[ASN][1000 genomes]
rs7867049	0.84[ASN][1000 genomes]
rs7867239	0.81[ASN][1000 genomes]
rs7867503	0.82[ASN][1000 genomes]
rs7867973	0.84[ASN][1000 genomes]
rs7869654	0.81[ASN][1000 genomes]
rs7871299	0.84[ASN][1000 genomes]
rs7871452	0.84[ASN][1000 genomes]
rs7873663	0.84[ASN][1000 genomes]
rs7874069	0.83[ASN][1000 genomes]
rs7875434	0.84[ASN][1000 genomes]
rs9696294	0.87[ASN][1000 genomes]
rs9696296	0.85[ASN][1000 genomes]
rs9777628	0.84[ASN][1000 genomes]
rs9969715	0.84[ASN][1000 genomes]
rs9969789	0.95[ASN][1000 genomes]
rs9987409	0.81[ASN][1000 genomes]
rs9987489	0.81[ASN][1000 genomes]
rs9987692	0.81[ASN][1000 genomes]
rs9987932	0.81[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv519023	chr9:108371549-108454745	Weak transcription Bivalent/Poised TSS Enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	n/a
2	nsv893693	chr9:108427062-108683134	Weak transcription Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10978198	TMEM38B	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:108423600-108451600	Weak transcription	Psoas Muscle	Psoas
2	chr9:108441000-108445600	Weak transcription	Fetal Muscle Leg	muscle
3	chr9:108441400-108445800	Weak transcription	HSMMtube	muscle
4	chr9:108442000-108450600	Weak transcription	Skeletal Muscle Female	skeletal muscle
5	chr9:108442200-108445600	Weak transcription	Skeletal Muscle Male	skeletal muscle
6	chr9:108442600-108444400	Enhancers	K562	blood
7	chr9:108443400-108444600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
8	chr9:108443600-108444600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

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