Variant report

Variant	rs2970604
Chromosome Location	chr1:212161706-212161707
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr1:212155560..212158137-chr1:212158738..212162212,3	K562	blood:
2	chr1:212152924..212154710-chr1:212160480..212162078,2	K562	blood:
3	chr1:212159561..212161760-chr1:212164473..212166374,2	K562	blood:

Extended variants
information (count: 18 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs1586660	1.00[CEU][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2788138	1.00[CEU][hapmap];0.84[YRI][hapmap];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2808386	0.96[EUR][1000 genomes]
rs2808388	1.00[CEU][hapmap];0.83[YRI][hapmap];0.96[EUR][1000 genomes]
rs2808389	0.96[EUR][1000 genomes]
rs2993535	1.00[CEU][hapmap];0.89[YRI][hapmap];1.00[EUR][1000 genomes]
rs2993538	0.91[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs2993539	0.88[EUR][1000 genomes]
rs2993545	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3009991	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3009997	0.81[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3010016	0.83[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs3010029	1.00[CEU][hapmap];0.94[YRI][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs4951436	0.83[EUR][1000 genomes]
rs6675701	1.00[CEU][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7520161	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7535988	0.84[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs7545292	1.00[CEU][hapmap];0.94[YRI][hapmap];0.87[AMR][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs2970604	LPGAT1	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:118 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:212112000-212170200	Weak transcription	Small Intestine	intestine
2	chr1:212112800-212202000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
3	chr1:212113600-212170200	Weak transcription	Fetal Brain Male	brain
4	chr1:212114200-212185800	Weak transcription	Brain Angular Gyrus	brain
5	chr1:212123800-212198200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
6	chr1:212125400-212170400	Weak transcription	Brain Anterior Caudate	brain
7	chr1:212129000-212167800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr1:212129400-212204000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
9	chr1:212133200-212170600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr1:212133400-212188200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
11	chr1:212133600-212170000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
12	chr1:212133600-212170200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
13	chr1:212133600-212174400	Weak transcription	Spleen	Spleen
14	chr1:212133800-212170000	Weak transcription	Pancreas	Pancrea
15	chr1:212133800-212208000	Weak transcription	Gastric	stomach
16	chr1:212134000-212207600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
17	chr1:212134000-212207800	Weak transcription	Colonic Mucosa	Colon
18	chr1:212136600-212204000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
19	chr1:212137200-212162600	Strong transcription	Dnd41	blood
20	chr1:212146000-212185600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
21	chr1:212147800-212162400	Strong transcription	Hela-S3	cervix
22	chr1:212148800-212207600	Weak transcription	Rectal Smooth Muscle	rectum
23	chr1:212149200-212180600	Weak transcription	HSMMtube	muscle
24	chr1:212149200-212199800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
25	chr1:212149800-212172400	Weak transcription	Fetal Heart	heart
26	chr1:212151800-212187000	Weak transcription	Primary neutrophils fromperipheralblood	blood
27	chr1:212152800-212201600	Weak transcription	Placenta Amnion	Placenta Amnion
28	chr1:212153400-212203600	Weak transcription	Psoas Muscle	Psoas
29	chr1:212153600-212202600	Weak transcription	H9 Cell Line	embryonic stem cell
30	chr1:212154000-212170000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
31	chr1:212154200-212170000	Weak transcription	Stomach Smooth Muscle	stomach
32	chr1:212155600-212170000	Weak transcription	Fetal Kidney	kidney
33	chr1:212157000-212180000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
34	chr1:212157200-212161800	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
35	chr1:212157600-212164400	Weak transcription	Esophagus	oesophagus
36	chr1:212157600-212183000	Weak transcription	HUVEC	blood vessel
37	chr1:212158000-212162000	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
38	chr1:212158400-212161800	Strong transcription	Fetal Thymus	thymus
39	chr1:212158800-212161800	Strong transcription	Primary hematopoietic stem cells	blood
40	chr1:212158800-212162400	Strong transcription	K562	blood
41	chr1:212159000-212161800	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
42	chr1:212159000-212161800	Strong transcription	HUES48 Cell Line	embryonic stem cell
43	chr1:212159000-212161800	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
44	chr1:212159000-212161800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
45	chr1:212159000-212161800	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
46	chr1:212159200-212161800	Strong transcription	Primary hematopoietic stem cells short term culture	blood
47	chr1:212159200-212161800	Genic enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
48	chr1:212159200-212161800	Strong transcription	Brain Germinal Matrix	brain
49	chr1:212159200-212161800	Strong transcription	Fetal Muscle Trunk	muscle
50	chr1:212159200-212161800	Strong transcription	Fetal Muscle Leg	muscle

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