SZGR2

Summary ?

GeneID	5962
Symbol	RDX
Synonyms	DFNB24
Description	radixin
Reference	MIM:179410\|HGNC:HGNC:9944\|Ensembl:ENSG00000137710\|HPRD:01534\|Vega:OTTHUMG00000166574
Gene type	protein-coding
Map location	11q23
Pascal p-value	0.547
Sherlock p-value	0.401
DEG p-value	DEG:Zhao_2015:p=3.25e-04:q=0.0924
Fetal beta	1.38
eGene	Myers' cis & trans

Gene in Data Sources

Gene set name	Method of gene set	Description
CV:PGCnp	Genome-wide Association Study	GWAS
DEG:Zhao_2015	RNA Sequencing analysis	Transcriptome sequencing and genome-wide association analyses reveal lysosomal function and actin cytoskeleton remodeling in schizophrenia and bipolar disorder.
GSMA_I	Genome scan meta-analysis	Psr: 0.006
GO_Annotation	Mapping neuro-related keywords to Gene Ontology annotations	Hits with neuro-related keywords: 1

Section I. Genetics and epigenetics annotation

eQTL annotation

SNP ID	Chromosome	Position	eGene	Gene Entrez ID	pvalue	qvalue	TSS distance	eQTL type
rs1076773	chr1	37136422	RDX	5962		0.17		trans

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.

Top co-expressed genes in brain regions

Top 10 positively co-expressed genes
Gene	Pearson's Correlation	Spearman's Correlation
AC097382.4	0.85	0.86
YY1	0.82	0.85
ZBTB9	0.81	0.83
SNIP1	0.81	0.84
POLR1B	0.81	0.83
CSTF2T	0.81	0.81
KLHL20	0.81	0.83
CRK	0.81	0.85
AGPAT6	0.81	0.83
AP003115.1	0.81	0.82

Top 10 negatively co-expressed genes
Gene	Pearson's Correlation	Spearman's Correlation
MT-CO2	-0.68	-0.76
AF347015.31	-0.67	-0.75
FXYD1	-0.65	-0.72
AF347015.27	-0.65	-0.73
MT-CYB	-0.63	-0.72
AF347015.33	-0.63	-0.69
AF347015.21	-0.63	-0.74
IFI27	-0.63	-0.68
AF347015.8	-0.63	-0.73
HIGD1B	-0.62	-0.71

Section III. Gene Ontology annotation

Molecular function	GO term	Evidence	Neuro keywords	PubMed ID
GO:0003779	actin binding	IEA		-
GO:0005198	structural molecule activity	IEA		-
Biological process	GO term	Evidence	Neuro keywords	PubMed ID
GO:0007605	sensory perception of sound	IEA		-
GO:0051016	barbed-end actin filament capping	IEA		-
GO:0030033	microvillus biogenesis	IEA		-
GO:0045176	apical protein localization	IEA		-
Cellular component	GO term	Evidence	Neuro keywords	PubMed ID
GO:0030175	filopodium	IEA	axon (GO term level: 5)	-
GO:0001726	ruffle	IEA		-
GO:0005856	cytoskeleton	IEA		-
GO:0005737	cytoplasm	IEA		-
GO:0030027	lamellipodium	IEA		-
GO:0005886	plasma membrane	IEA		-
GO:0019898	extrinsic to membrane	IEA		-
GO:0032420	stereocilium	IEA		-
GO:0045177	apical part of cell	IEA		-

Section IV. Protein-protein interaction annotation

Interactors	Aliases B	Official full name B	Experimental	Source	PubMed ID
ABCC2	ABC30 \| CMOAT \| DJS \| KIAA1010 \| MRP2 \| cMRP	ATP-binding cassette, sub-family C (CFTR/MRP), member 2	-	HPRD	12068294
ARHGDIA	GDIA1 \| MGC117248 \| RHOGDI \| RHOGDI-1	Rho GDP dissociation inhibitor (GDI) alpha	-	HPRD,BioGRID	9287351
CPNE1	COPN1 \| CPN1 \| MGC1142	copine I	-	HPRD	12522145
CPNE2	COPN2 \| CPN2 \| DKFZp686E06199 \| MGC16924	copine II	-	HPRD	12522145
CPNE4	COPN4 \| CPN4 \| MGC15604	copine IV	-	HPRD	12522145
DRD3	D3DR \| ETM1 \| FET1 \| MGC149204 \| MGC149205	dopamine receptor D3	Two-hybrid	BioGRID	14499480
EZR	CVIL \| CVL \| DKFZp762H157 \| FLJ26216 \| MGC1584 \| VIL2	ezrin	-	HPRD	9501018
GNA13	G13 \| MGC46138	guanine nucleotide binding protein (G protein), alpha 13	Affinity Capture-Western Reconstituted Complex Two-hybrid	BioGRID	10816569
ICAM2	CD102	intercellular adhesion molecule 2	-	HPRD,BioGRID	11375520
L1CAM	CAML1 \| CD171 \| HSAS \| HSAS1 \| MASA \| MIC5 \| N-CAML1 \| S10 \| SPG1	L1 cell adhesion molecule	-	HPRD	12070130
SLC9A3R1	EBP50 \| NHERF \| NHERF1 \| NPHLOP2	solute carrier family 9 (sodium/hydrogen exchanger), member 3 regulator 1	Radixin interacts with hNHE-RF. This interaction was modeled on a demonstrated interaction between chicken radixin and human hNHE-RF.	BIND	9430655
SLC9A3R1	EBP50 \| NHERF \| NHERF1 \| NPHLOP2	solute carrier family 9 (sodium/hydrogen exchanger), member 3 regulator 1	-	HPRD	9430655\|12499563
SLC9A3R2	E3KARP \| MGC104639 \| NHE3RF2 \| NHERF-2 \| NHERF2 \| OCTS2 \| SIP-1 \| SIP1 \| TKA-1	solute carrier family 9 (sodium/hydrogen exchanger), member 3 regulator 2	-	HPRD	12499563
TSC1	KIAA0243 \| LAM \| MGC86987 \| TSC	tuberous sclerosis 1	Hamartin interacts with radixin. This interaction was modeled on a demonstrated interaction between murine hamartin and human radixin.	BIND	10806479
TSC1	KIAA0243 \| LAM \| MGC86987 \| TSC	tuberous sclerosis 1	-	HPRD	10806479\|12226091

Section V. Pathway annotation

Pathway name	Pathway size	# SZGR 2.0 genes in pathway	Info
KEGG REGULATION OF ACTIN CYTOSKELETON	216	144	All SZGR 2.0 genes in this pathway
ST GA13 PATHWAY	37	32	All SZGR 2.0 genes in this pathway
PID RHOA PATHWAY	45	33	All SZGR 2.0 genes in this pathway
REACTOME DEVELOPMENTAL BIOLOGY	396	292	All SZGR 2.0 genes in this pathway
REACTOME AXON GUIDANCE	251	188	All SZGR 2.0 genes in this pathway
REACTOME L1CAM INTERACTIONS	86	62	All SZGR 2.0 genes in this pathway
REACTOME RECYCLING PATHWAY OF L1	27	15	All SZGR 2.0 genes in this pathway
PARENT MTOR SIGNALING UP	567	375	All SZGR 2.0 genes in this pathway
ONKEN UVEAL MELANOMA UP	783	507	All SZGR 2.0 genes in this pathway
FRASOR TAMOXIFEN RESPONSE UP	51	36	All SZGR 2.0 genes in this pathway
GAZDA DIAMOND BLACKFAN ANEMIA ERYTHROID DN	493	298	All SZGR 2.0 genes in this pathway
FULCHER INFLAMMATORY RESPONSE LECTIN VS LPS DN	463	290	All SZGR 2.0 genes in this pathway
THUM SYSTOLIC HEART FAILURE UP	423	283	All SZGR 2.0 genes in this pathway
CASORELLI ACUTE PROMYELOCYTIC LEUKEMIA DN	663	425	All SZGR 2.0 genes in this pathway
DEURIG T CELL PROLYMPHOCYTIC LEUKEMIA DN	320	184	All SZGR 2.0 genes in this pathway
GRABARCZYK BCL11B TARGETS UP	81	40	All SZGR 2.0 genes in this pathway
RODRIGUES NTN1 TARGETS UP	17	11	All SZGR 2.0 genes in this pathway
WANG LMO4 TARGETS DN	352	225	All SZGR 2.0 genes in this pathway
ZHOU INFLAMMATORY RESPONSE FIMA UP	544	308	All SZGR 2.0 genes in this pathway
ZHOU INFLAMMATORY RESPONSE LPS UP	431	237	All SZGR 2.0 genes in this pathway
JAATINEN HEMATOPOIETIC STEM CELL UP	316	190	All SZGR 2.0 genes in this pathway
ENK UV RESPONSE KERATINOCYTE DN	485	334	All SZGR 2.0 genes in this pathway
GRAESSMANN APOPTOSIS BY DOXORUBICIN DN	1781	1082	All SZGR 2.0 genes in this pathway
HAMAI APOPTOSIS VIA TRAIL UP	584	356	All SZGR 2.0 genes in this pathway
LASTOWSKA NEUROBLASTOMA COPY NUMBER DN	800	473	All SZGR 2.0 genes in this pathway
DACOSTA UV RESPONSE VIA ERCC3 DN	855	609	All SZGR 2.0 genes in this pathway
GRUETZMANN PANCREATIC CANCER DN	203	134	All SZGR 2.0 genes in this pathway
SIMBULAN UV RESPONSE IMMORTALIZED DN	31	26	All SZGR 2.0 genes in this pathway
RICKMAN METASTASIS DN	261	155	All SZGR 2.0 genes in this pathway
BENPORATH PROLIFERATION	147	80	All SZGR 2.0 genes in this pathway
SHEN SMARCA2 TARGETS UP	424	268	All SZGR 2.0 genes in this pathway
ASTON MAJOR DEPRESSIVE DISORDER DN	160	110	All SZGR 2.0 genes in this pathway
ROSS AML OF FAB M7 TYPE	68	44	All SZGR 2.0 genes in this pathway
FLECHNER BIOPSY KIDNEY TRANSPLANT REJECTED VS OK DN	546	351	All SZGR 2.0 genes in this pathway
JIANG AGING CEREBRAL CORTEX UP	36	27	All SZGR 2.0 genes in this pathway
LU AGING BRAIN UP	262	186	All SZGR 2.0 genes in this pathway
WELCSH BRCA1 TARGETS UP	198	132	All SZGR 2.0 genes in this pathway
BAELDE DIABETIC NEPHROPATHY DN	434	302	All SZGR 2.0 genes in this pathway
DOUGLAS BMI1 TARGETS UP	566	371	All SZGR 2.0 genes in this pathway
CLASPER LYMPHATIC VESSELS DURING METASTASIS DN	36	23	All SZGR 2.0 genes in this pathway
MARSON BOUND BY FOXP3 UNSTIMULATED	1229	713	All SZGR 2.0 genes in this pathway
AMUNDSON POOR SURVIVAL AFTER GAMMA RADIATION 8G	95	62	All SZGR 2.0 genes in this pathway
DAIRKEE CANCER PRONE RESPONSE BPA	51	35	All SZGR 2.0 genes in this pathway
ACEVEDO LIVER CANCER UP	973	570	All SZGR 2.0 genes in this pathway
BOCHKIS FOXA2 TARGETS	425	261	All SZGR 2.0 genes in this pathway
LABBE WNT3A TARGETS UP	112	71	All SZGR 2.0 genes in this pathway
WANG TUMOR INVASIVENESS UP	374	247	All SZGR 2.0 genes in this pathway
RUTELLA RESPONSE TO CSF2RB AND IL4 UP	338	225	All SZGR 2.0 genes in this pathway
RUTELLA RESPONSE TO HGF UP	418	282	All SZGR 2.0 genes in this pathway
RUTELLA RESPONSE TO HGF VS CSF2RB AND IL4 UP	408	276	All SZGR 2.0 genes in this pathway
VANTVEER BREAST CANCER ESR1 DN	240	153	All SZGR 2.0 genes in this pathway
ZHANG TLX TARGETS 60HR DN	277	166	All SZGR 2.0 genes in this pathway
BOYLAN MULTIPLE MYELOMA PCA3 DN	69	38	All SZGR 2.0 genes in this pathway
YAO TEMPORAL RESPONSE TO PROGESTERONE CLUSTER 11	103	68	All SZGR 2.0 genes in this pathway
PILON KLF1 TARGETS DN	1972	1213	All SZGR 2.0 genes in this pathway

Section VI. microRNA annotation

miRNA family	Target position			miRNA ID	miRNA seq
miRNA family	UTR start	UTR end	Match method	miRNA ID	miRNA seq
let-7/98	974	981	1A,m8	hsa-let-7a^brain	UGAGGUAGUAGGUUGUAUAGUU
				hsa-let-7b^brain	UGAGGUAGUAGGUUGUGUGGUU
				hsa-let-7c^brain	UGAGGUAGUAGGUUGUAUGGUU
				hsa-let-7d^brain	AGAGGUAGUAGGUUGCAUAGU
				hsa-let-7e^brain	UGAGGUAGGAGGUUGUAUAGU
				hsa-let-7f^brain	UGAGGUAGUAGAUUGUAUAGUU
				hsa-miR-98^brain	UGAGGUAGUAAGUUGUAUUGUU
				hsa-let-7g^SZ	UGAGGUAGUAGUUUGUACAGU
				hsa-let-7i^brain	UGAGGUAGUAGUUUGUGCUGU
miR-132/212	1859	1865	m8	hsa-miR-212^SZ	UAACAGUCUCCAGUCACGGCC
miR-132/212	1859	1865	m8	hsa-miR-132^brain	UAACAGUCUACAGCCAUGGUCG
miR-182	91	98	1A,m8	hsa-miR-182	UUUGGCAAUGGUAGAACUCACA
miR-196	973	979	m8	hsa-miR-196a	UAGGUAGUUUCAUGUUGUUGG
miR-196	973	979	m8	hsa-miR-196b	UAGGUAGUUUCCUGUUGUUGG
miR-31	90	96	1A	hsa-miR-31	AGGCAAGAUGCUGGCAUAGCUG
miR-34b	1129	1135	m8	hsa-miR-34b	UAGGCAGUGUCAUUAGCUGAUUG
miR-410	2107	2113	m8	hsa-miR-410	AAUAUAACACAGAUGGCCUGU
miR-493-5p	2345	2351	1A	hsa-miR-493-5p	UUGUACAUGGUAGGCUUUCAUU
miR-96	92	98	1A	hsa-miR-96^brain	UUUGGCACUAGCACAUUUUUGC

SZ: miRNAs which differentially expressed in brain cortex of schizophrenia patients comparing with control samples using microarray. Click here to see the list of SZ related miRNAs.
Brain: miRNAs which are expressed in brain based on miRNA microarray expression studies. Click here to see the list of brain related miRNAs.

Gene Page: RDX