SZGR2

Summary ?

GeneID	55244
Symbol	SLC47A1
Synonyms	MATE1
Description	solute carrier family 47 member 1
Reference	MIM:609832\|HGNC:HGNC:25588\|Ensembl:ENSG00000142494\|HPRD:07703\|Vega:OTTHUMG00000059466
Gene type	protein-coding
Map location	17p11.2
Pascal p-value	0.005
Sherlock p-value	0.805
Fetal beta	-0.684
DMG	1 (# studies)
eGene	Nucleus accumbens basal ganglia Putamen basal ganglia Myers' cis & trans Meta

Gene in Data Sources

Gene set name	Method of gene set	Description	Info
CV:PGCnp	Genome-wide Association Study	GWAS
DMG:Wockner_2014	Genome-wide DNA methylation analysis	This dataset includes 4641 differentially methylated probes corresponding to 2929 unique genes between schizophrenia patients (n=24) and controls (n=24).	1

Section I. Genetics and epigenetics annotation

Differentially methylated gene

Probe	Chromosome	Position	Nearest gene	P (dis)	Beta (dis)	FDR (dis)	Study
cg26959235	17	19437889	SLC47A1	3.03E-4	-0.302	0.04	DMG:Wockner_2014

eQTL annotation

SNP ID	Chromosome	Position	eGene	Gene Entrez ID	pvalue	qvalue	TSS distance	eQTL type
rs6587203	chr17	19671457	SLC47A1	55244		0.08		cis
rs205113	chr17	19673879	SLC47A1	55244		0.08		cis
rs205111	chr17	19675103	SLC47A1	55244		0.08		cis
rs205110	chr17	19675587	SLC47A1	55244		0.08		cis
rs205093	chr17	19685712	SLC47A1	55244		0.08		cis
rs157406	chr17	19710650	SLC47A1	55244		0.08		cis
rs157402	chr17	19720588	SLC47A1	55244		0.08		cis
rs157396	chr17	19726832	SLC47A1	55244		0.08		cis
rs157397	chr17	19729494	SLC47A1	55244		0.08		cis
rs172186	chr17	19780658	SLC47A1	55244		0.03		cis
rs281334	chr17	19782079	SLC47A1	55244		0.08		cis
rs4586510	chr17	19783973	SLC47A1	55244		0.08		cis
rs17131472	chr1	91962966	SLC47A1	55244		0.1		trans
rs6718379	chr2	18632808	SLC47A1	55244		0.08		trans
rs1016316	chr2	20235108	SLC47A1	55244		0.08		trans
snp_a-2190074		0	SLC47A1	55244		0.16		trans
rs17535450	chr2	39900012	SLC47A1	55244		0.03		trans
rs11706314	chr3	45309716	SLC47A1	55244		0		trans
rs11706394	chr3	45309907	SLC47A1	55244		0.01		trans
rs2922180	chr3	125280472	SLC47A1	55244		1.568E-5		trans
rs2971271	chr3	125450402	SLC47A1	55244		0		trans
rs2976809	chr3	125451738	SLC47A1	55244		4.074E-7		trans
rs9917710	chr3	176280218	SLC47A1	55244		0.07		trans
rs7668550	chr4	104384355	SLC47A1	55244		0		trans
rs3796892	chr4	111404774	SLC47A1	55244		0.11		trans
rs16894149	chr5	61013724	SLC47A1	55244		0.02		trans
rs6449550	chr5	61034312	SLC47A1	55244		0.03		trans
rs17242184	chr5	71135066	SLC47A1	55244		0.04		trans
rs6874540	chr5	149911669	SLC47A1	55244		0.05		trans
rs2273232	chr5	149912526	SLC47A1	55244		0.05		trans
rs11954814	chr5	155088338	SLC47A1	55244		0.17		trans
rs17056435	chr5	158453782	SLC47A1	55244		0.01		trans
rs9313797	chr5	158465457	SLC47A1	55244		0.03		trans
rs17056474	chr5	158468105	SLC47A1	55244		0.03		trans
rs17135521	chr6	2707631	SLC47A1	55244		0.19		trans
snp_a-1787926		0	SLC47A1	55244		0.19		trans
rs6939897	chr6	67913123	SLC47A1	55244		0.06		trans
rs6455226	chr6	67930295	SLC47A1	55244		0		trans
rs9387571	chr6	118600137	SLC47A1	55244		0.11		trans
rs283058	chr6	118625224	SLC47A1	55244		0.01		trans
rs9321275	chr6	131493217	SLC47A1	55244		0.03		trans
rs2056744	chr6	144952933	SLC47A1	55244		0.12		trans
rs17171399	chr7	38592476	SLC47A1	55244		0.08		trans
rs2430483	chr7	104548631	SLC47A1	55244		0.01		trans
rs2199402	chr8	9201002	SLC47A1	55244		0		trans
rs2169384	chr8	9216985	SLC47A1	55244		0.1		trans
rs1381350	chr8	9217194	SLC47A1	55244		0.14		trans
rs7841407	chr8	9243427	SLC47A1	55244		8.51E-6		trans
rs2739708	chr8	17992280	SLC47A1	55244		0.15		trans
rs714131	chr8	17992832	SLC47A1	55244		0.15		trans
rs2739726	chr8	17998576	SLC47A1	55244		0.08		trans
rs4733365	chr8	32480648	SLC47A1	55244		0.01		trans
rs2954041	chr8	32522625	SLC47A1	55244		0.11		trans
rs2919377	chr8	32573740	SLC47A1	55244		0.01		trans
rs2976526	chr8	32574650	SLC47A1	55244		0.11		trans
rs2975504	chr8	32578998	SLC47A1	55244		0.11		trans
rs17792062	chr8	129163736	SLC47A1	55244		0.15		trans
rs7029518	chr9	37782560	SLC47A1	55244		0.12		trans
rs427497	chr9	107982791	SLC47A1	55244		0.11		trans
rs998410	chr9	117622673	SLC47A1	55244		0.08		trans
rs9423711	chr10	2574802	SLC47A1	55244		0.01		trans
rs748375	chr10	33440178	SLC47A1	55244		0.07		trans
rs4514358	chr10	43861923	SLC47A1	55244		0.02		trans
rs7081666	chr10	47673800	SLC47A1	55244		0.08		trans
rs11820030	chr11	76133564	SLC47A1	55244		0.05		trans
rs17134872	chr11	76139845	SLC47A1	55244		0.01		trans
rs10751255		0	SLC47A1	55244		0.07		trans
rs11236774	chr11	76234952	SLC47A1	55244		0.01		trans
rs4149623	chr12	6450577	SLC47A1	55244		0.14		trans
rs11049036	chr12	27650292	SLC47A1	55244		0.08		trans
rs10747972		0	SLC47A1	55244		0.16		trans
rs10879027	chr12	70237156	SLC47A1	55244		0.15		trans
rs11112163	chr12	105072508	SLC47A1	55244		0.03		trans
rs11067174	chr12	115011927	SLC47A1	55244		0.05		trans
rs1750009	chr13	42657093	SLC47A1	55244		0		trans
rs7995192	chr13	50782598	SLC47A1	55244		0.17		trans
rs9596788	chr13	53924430	SLC47A1	55244		0.16		trans
rs9529974	chr13	72821935	SLC47A1	55244		0		trans
rs17720221	chr13	75182377	SLC47A1	55244		0.09		trans
rs17073665	chr13	81541961	SLC47A1	55244		0.01		trans
rs11840833	chr13	94378306	SLC47A1	55244		0.03		trans
rs7319060	chr13	95146303	SLC47A1	55244		0.15		trans
rs10142086	chr14	35135892	SLC47A1	55244		0.13		trans
rs2093759	chr14	97171024	SLC47A1	55244		0.01		trans
rs17244419	chr14	97171074	SLC47A1	55244		9.133E-4		trans
rs7165622	chr15	93979910	SLC47A1	55244		0.1		trans
rs13380712	chr16	25601181	SLC47A1	55244		0.02		trans
rs17294918	chr16	52717122	SLC47A1	55244		0.08		trans
rs17841422	chr17	20969134	SLC47A1	55244		0.03		trans
rs8079075	chr17	38010814	SLC47A1	55244		0.18		trans
rs16940550	chr18	13442256	SLC47A1	55244		0.19		trans
rs7236407	chr18	47827597	SLC47A1	55244		0.08		trans
rs4987765	chr18	60905021	SLC47A1	55244		0.17		trans
rs11873703	chr18	61448702	SLC47A1	55244		5.818E-6		trans
rs6095741	chr20	48666589	SLC47A1	55244		1.222E-5		trans
rs2408239	chr21	23332625	SLC47A1	55244		0.13		trans
rs17191809	chr21	36444778	SLC47A1	55244		0.04		trans
rs6000401	chr22	37149335	SLC47A1	55244		0.05		trans
rs5991662	chrX	43335796	SLC47A1	55244		0.06		trans
rs35416333	17	19427842	SLC47A1	ENSG00000142494.9	3.106E-7	0.01	29144	gtex_brain_putamen_basal
rs2440164	17	19428610	SLC47A1	ENSG00000142494.9	7.362E-7	0.01	29912	gtex_brain_putamen_basal
rs2440165	17	19428719	SLC47A1	ENSG00000142494.9	1.174E-6	0.01	30021	gtex_brain_putamen_basal
rs11870808	17	19429379	SLC47A1	ENSG00000142494.9	9.186E-7	0.01	30681	gtex_brain_putamen_basal
rs8071709	17	19429790	SLC47A1	ENSG00000142494.9	1.267E-6	0.01	31092	gtex_brain_putamen_basal
rs2453578	17	19430645	SLC47A1	ENSG00000142494.9	1.269E-6	0.01	31947	gtex_brain_putamen_basal
rs111374932	17	19431959	SLC47A1	ENSG00000142494.9	1.624E-6	0.01	33261	gtex_brain_putamen_basal
rs11871125	17	19432393	SLC47A1	ENSG00000142494.9	1.066E-6	0.01	33695	gtex_brain_putamen_basal
rs2453579	17	19435278	SLC47A1	ENSG00000142494.9	4.344E-6	0.01	36580	gtex_brain_putamen_basal
rs2252281	17	19437187	SLC47A1	ENSG00000142494.9	6.098E-7	0.01	38489	gtex_brain_putamen_basal
rs2453580	17	19438321	SLC47A1	ENSG00000142494.9	1.261E-6	0.01	39623	gtex_brain_putamen_basal
rs2453581	17	19438560	SLC47A1	ENSG00000142494.9	2.583E-7	0.01	39862	gtex_brain_putamen_basal
rs370142316	17	19438749	SLC47A1	ENSG00000142494.9	1.213E-6	0.01	40051	gtex_brain_putamen_basal
rs2453582	17	19439066	SLC47A1	ENSG00000142494.9	2.583E-7	0.01	40368	gtex_brain_putamen_basal
rs894680	17	19440538	SLC47A1	ENSG00000142494.9	1.768E-7	0.01	41840	gtex_brain_putamen_basal
rs2453583	17	19442036	SLC47A1	ENSG00000142494.9	7.088E-7	0.01	43338	gtex_brain_putamen_basal
rs2453584	17	19443445	SLC47A1	ENSG00000142494.9	2.198E-7	0.01	44747	gtex_brain_putamen_basal

Section II. Transcriptome annotation

General gene expression (GTEx)

Gene expression during devlopment (BrainCloud)

Footnote:
A total of 269 time points ploted, with n=38 fetal samples (x=1:38). Each triangle represents one time point.

Gene expression of temporal and spatial changes (BrainSpan)

Footnote:
SC: sub-cortical regions; SM: sensory-motor regions; FC: frontal cortex; and TP: temporal-parietal cortex
ST1: fetal (13 - 26 postconception weeks), ST2: early infancy to late childhood (4 months to 11 years), and ST3: adolescence to adulthood (13 - 23 years)
The bar shown representes the lower 25% and upper 25% of the expression distribution.

No co-expressed genes in brain regions

Section V. Pathway annotation

Pathway name	Pathway size	# SZGR 2.0 genes in pathway	Info
REACTOME TRANSMEMBRANE TRANSPORT OF SMALL MOLECULES	413	270	All SZGR 2.0 genes in this pathway
REACTOME SLC MEDIATED TRANSMEMBRANE TRANSPORT	241	157	All SZGR 2.0 genes in this pathway
REACTOME TRANSPORT OF GLUCOSE AND OTHER SUGARS BILE SALTS AND ORGANIC ACIDS METAL IONS AND AMINE COMPOUNDS	89	54	All SZGR 2.0 genes in this pathway
REACTOME BILE SALT AND ORGANIC ANION SLC TRANSPORTERS	11	6	All SZGR 2.0 genes in this pathway
LIU PROSTATE CANCER DN	481	290	All SZGR 2.0 genes in this pathway
COLDREN GEFITINIB RESISTANCE UP	85	57	All SZGR 2.0 genes in this pathway
PEREZ TP53 TARGETS	1174	695	All SZGR 2.0 genes in this pathway
HATADA METHYLATED IN LUNG CANCER UP	390	236	All SZGR 2.0 genes in this pathway
SHETH LIVER CANCER VS TXNIP LOSS PAM4	261	153	All SZGR 2.0 genes in this pathway
NIKOLSKY BREAST CANCER 17P11 AMPLICON	10	8	All SZGR 2.0 genes in this pathway
HELLER SILENCED BY METHYLATION DN	105	67	All SZGR 2.0 genes in this pathway
HELLER HDAC TARGETS DN	292	189	All SZGR 2.0 genes in this pathway
HELLER HDAC TARGETS SILENCED BY METHYLATION DN	281	179	All SZGR 2.0 genes in this pathway
CLAUS PGR POSITIVE MENINGIOMA UP	10	7	All SZGR 2.0 genes in this pathway
BONOME OVARIAN CANCER SURVIVAL SUBOPTIMAL DEBULKING	510	309	All SZGR 2.0 genes in this pathway
WEST ADRENOCORTICAL TUMOR DN	546	362	All SZGR 2.0 genes in this pathway
BOYLAN MULTIPLE MYELOMA D UP	89	62	All SZGR 2.0 genes in this pathway
MEISSNER NPC HCP WITH H3 UNMETHYLATED	536	296	All SZGR 2.0 genes in this pathway
MEISSNER BRAIN HCP WITH H3K27ME3	269	159	All SZGR 2.0 genes in this pathway
CHIANG LIVER CANCER SUBCLASS CTNNB1 UP	176	110	All SZGR 2.0 genes in this pathway
BOYLAN MULTIPLE MYELOMA PCA3 UP	80	54	All SZGR 2.0 genes in this pathway
MIKKELSEN MEF HCP WITH H3K27ME3	590	403	All SZGR 2.0 genes in this pathway
DUTERTRE ESTRADIOL RESPONSE 6HR UP	229	149	All SZGR 2.0 genes in this pathway
OHGUCHI LIVER HNF4A TARGETS DN	149	85	All SZGR 2.0 genes in this pathway
BHAT ESR1 TARGETS NOT VIA AKT1 UP	211	131	All SZGR 2.0 genes in this pathway
SUMI HNF4A TARGETS	34	14	All SZGR 2.0 genes in this pathway
FEVR CTNNB1 TARGETS UP	682	433	All SZGR 2.0 genes in this pathway

Gene Page: SLC47A1