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Association Linkage Expression Literature GO_Annotation Gene Network miRNA Targets

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Association Linkage Expression Literature GO_Annotation Gene Network miRNA Targets Datasets Gene Ranking

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Gene Page: SMARCA4

Summary

GeneID

6597

Symbol

SMARCA4

Synonyms

BAF190|BRG1|FLJ39786|SNF2|SNF2-BETA|SNF2L4|SNF2LB|SWI2|hSNF2b

Description

SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4

Locus tag

Gene type

protein-coding

Map location

19p13.2

Gene in Data Sources

Gene set name

Method of gene set

Evidence

Info

GO_Annotation

Mapping neuro-related keywords to Gene Ontology annotations

Hits with neuro-related keywords: 3

Network

Shortest path distance of core genes in the Human protein-protein interaction network

Contribution to shortest path in PPI network: 0.0172

General Gene Expression (microarray) ?

Gene Expression in Brain Regions (new)

Top co-expressed genes in Brain Regions (new)

Gene

Pearson's Correlation

Spearman's Correlation

Top 10 positively co-expressed genes

TPRKB

0.89

0.81

CETN3

0.85

0.76

RPL35A

0.84

0.83

CCDC58

0.81

0.68

PSMA2

0.81

0.73

SNRPE

0.81

0.66

TBCA

0.81

0.73

RPL23

0.80

0.82

RPL24

0.80

0.76

TPT1

0.79

0.77

Top 10 negatively co-expressed genes

ZBTB47

-0.54

-0.63

TMEM184B

-0.53

-0.68

PK4P

-0.53

-0.64

BCL2L2

-0.52

-0.69

ATP10A

-0.52

-0.65

VASN

-0.51

-0.65

GAS2L1

-0.50

-0.57

TNS1

-0.50

-0.70

SYNM

-0.50

-0.67

PEAR1

-0.50

-0.64

Gene Ontology

Molecular function

GO term

Evidence

Neuro keywords

PubMed ID

GO:0000166

nucleotide binding

IEA

GO:0003677

DNA binding

IEA

GO:0003682

chromatin binding

IEA

GO:0003700

transcription factor activity

TAS

8208605

GO:0003713

transcription coactivator activity

TAS

8208605

GO:0005524

ATP binding

IEA

GO:0004386

helicase activity

IEA

GO:0004386

helicase activity

TAS

8208605

GO:0016787

hydrolase activity

IEA

GO:0008134

transcription factor binding

IEA

GO:0042802

identical protein binding

IPI

12917342

GO:0047485

protein N-terminus binding

IPI

12917342

Biological process

GO term

Evidence

Neuro keywords

PubMed ID

GO:0007403

glial cell fate determination

IEA

Glial (GO term level: 10)

GO:0030902

hindbrain development

IEA

Brain (GO term level: 8)

GO:0030900

forebrain development

IEA

Brain (GO term level: 8)

GO:0000122

negative regulation of transcription from RNA polymerase II promoter

IEA

GO:0001835

blastocyst hatching

IEA

GO:0001832

blastocyst growth

IEA

GO:0006357

regulation of transcription from RNA polymerase II promoter

TAS

8208605

GO:0006350

transcription

IEA

GO:0006346

methylation-dependent chromatin silencing

IEA

Cellular component

GO term

Evidence

Neuro keywords

PubMed ID

GO:0000792

heterochromatin

IEA

GO:0005634

nucleus

IEA

GO:0005634

nucleus

TAS

8232556

GO:0005654

nucleoplasm

TAS

8208605

Protein-protein Interactions

Shown by network

Interactors	Aliases B	Official full name B	Experimental	Source	PubMed ID
ACTB	PS1TP5BP1	actin, beta	-	HPRD,BioGRID	9845365
ACTL6A	ACTL6 \| Arp4 \| BAF53A \| INO80K \| MGC5382	actin-like 6A	-	HPRD,BioGRID	9845365
AHR	-	aryl hydrocarbon receptor	-	HPRD,BioGRID	11805098
ALB	DKFZp779N1935 \| PRO0883 \| PRO0903 \| PRO1341	albumin	Brg-1 interactis with the Albumin gene.	BIND	15616580
AR	AIS \| DHTR \| HUMARA \| KD \| NR3C4 \| SBMA \| SMAX1 \| TFM	androgen receptor	Affinity Capture-Western	BioGRID	14966121
ARID1A	B120 \| BAF250 \| BAF250a \| BM029 \| C1orf4 \| P270 \| SMARCF1	AT rich interactive domain 1A (SWI-like)	Affinity Capture-Western Co-purification	BioGRID	8895581 \|9845365
ARID1B	6A3-5 \| BAF250b \| BRIGHT \| DAN15 \| ELD/OSA1 \| KIAA1235 \| p250R	AT rich interactive domain 1B (SWI1-like)	ELD/OSA1 interacts with BRG1.	BIND	11988099
ARID1B		AT rich interactive domain 1B (SWI1-like)	-	HPRD,BioGRID	11988099 \|12200431
BAZ1B	WBSCR10 \| WBSCR9 \| WSTF	bromodomain adjacent to zinc finger domain, 1B	-	HPRD	12837248
BRCA1	BRCAI \| BRCC1 \| IRIS \| PSCP \| RNF53	breast cancer 1, early onset	-	HPRD,BioGRID	10943845
BRWD1	C21orf107 \| FLJ43918 \| N143 \| WDR9	bromodomain and WD repeat domain containing 1	-	HPRD	12889071
CBX5	HP1 \| HP1A	chromobox homolog 5 (HP1 alpha homolog, Drosophila)	-	HPRD,BioGRID	12411497
CCNE1	CCNE	cyclin E1	-	HPRD,BioGRID	9891079
CDKN1A	CAP20 \| CDKN1 \| CIP1 \| MDA-6 \| P21 \| SDI1 \| WAF1 \| p21CIP1	cyclin-dependent kinase inhibitor 1A (p21, Cip1)	BRG1 interacts with p21 promoter.	BIND	15780937
CEBPB	C/EBP-beta \| CRP2 \| IL6DBP \| LAP \| MGC32080 \| NF-IL6 \| TCF5	CCAAT/enhancer binding protein (C/EBP), beta	-	HPRD	10619021
CREBBP	CBP \| KAT3A \| RSTS	CREB binding protein	Phenotypic Enhancement	BioGRID	11003650
CSF1	MCSF \| MGC31930	colony stimulating factor 1 (macrophage)	BRG1 interacts with CSF1 promoter.	BIND	15780937
CTNNB1	CTNNB \| DKFZp686D02253 \| FLJ25606 \| FLJ37923	catenin (cadherin-associated protein), beta 1, 88kDa	-	HPRD,BioGRID	11532957
ESR1	DKFZp686N23123 \| ER \| ESR \| ESRA \| Era \| NR3A1	estrogen receptor 1	-	HPRD,BioGRID	9099865
ETS2	ETS2IT1	v-ets erythroblastosis virus E26 oncogene homolog 2 (avian)	ETS2 (Ets-2) interacts with SMARCA4 (Brg-1). This interaction was modeled on a demonstrated interaction between ETS2 from an unspecified species and SMARCA4 from an unspecified species.	BIND	12637547
FANCA	FA \| FA-H \| FA1 \| FAA \| FACA \| FAH \| FANCH \| MGC75158	Fanconi anemia, complementation group A	-	HPRD,BioGRID	11726552
GATA1	ERYF1 \| GF-1 \| GF1 \| NFE1	GATA binding protein 1 (globin transcription factor 1)	Reconstituted Complex	BioGRID	11018012
GRM2	GLUR2 \| GPRC1B \| MGLUR2 \| mGlu2	glutamate receptor, metabotropic 2	BRG1 interacts with mGluR2 promoter.	BIND	15035981
H3F3A	H3.3A \| H3F3 \| MGC87782 \| MGC87783	H3 histone, family 3A	H3F3A (Histone 3) interacts with SMARCA4 (BRG-1).	BIND	15616580
HDAC2	RPD3 \| YAF1	histone deacetylase 2	Co-purification	BioGRID	11238380
HDAC3	HD3 \| RPD3 \| RPD3-2	histone deacetylase 3	-	HPRD	10944117
HNF1A	HNF1 \| LFB1 \| MODY3 \| TCF1	HNF1 homeobox A	Brg-1 interacts with the HNF-1 gene.	BIND	15616580
HNF4A	FLJ39654 \| HNF4 \| HNF4a7 \| HNF4a8 \| HNF4a9 \| MODY \| MODY1 \| NR2A1 \| NR2A21 \| TCF \| TCF14	hepatocyte nuclear factor 4, alpha	Brg-1 interacts with the HNF-4 gene.	BIND	15616580
HSF1	HSTF1	heat shock transcription factor 1	Affinity Capture-Western in vitro	BioGRID	8856972 \|11486022
HSF1	HSTF1	heat shock transcription factor 1	-	HPRD	8856972 \|9222609 \|11486022
HSP90B1	ECGP \| GP96 \| GRP94 \| TRA1	heat shock protein 90kDa beta (Grp94), member 1	Affinity Capture-Western	BioGRID	11726552
ING1	p24ING1c \| p33 \| p33ING1 \| p33ING1b \| p47 \| p47ING1a	inhibitor of growth family, member 1	Affinity Capture-MS Affinity Capture-Western	BioGRID	11784859
KLF1	EKLF	Kruppel-like factor 1 (erythroid)	Reconstituted Complex	BioGRID	11018012
MED17	CRSP6 \| CRSP77 \| DRIP80 \| FLJ10812 \| TRAP80	mediator complex subunit 17	Co-purification	BioGRID	12154023
MPHOSPH6	MPP \| MPP-6 \| MPP6	M-phase phosphoprotein 6	-	HPRD	15231747
MPP6	PALS2 \| VAM-1 \| VAM1 \| p55T	membrane protein, palmitoylated 6 (MAGUK p55 subfamily member 6)	-	HPRD,BioGRID	15231747
MYC	bHLHe39 \| c-Myc	v-myc myelocytomatosis viral oncogene homolog (avian)	Affinity Capture-MS Affinity Capture-Western	BioGRID	11839798 \|17353931
NCOA1	F-SRC-1 \| KAT13A \| MGC129719 \| MGC129720 \| NCoA-1 \| RIP160 \| SRC-1 \| SRC1 \| bHLHe42	nuclear receptor coactivator 1	Phenotypic Enhancement	BioGRID	11003650
NCOR1	KIAA1047 \| MGC104216 \| N-CoR \| TRAC1 \| hCIT529I10 \| hN-CoR	nuclear receptor co-repressor 1	Co-purification	BioGRID	11013263
NCOR2	CTG26 \| SMRT \| SMRTE \| SMRTE-tau \| TNRC14 \| TRAC-1 \| TRAC1	nuclear receptor co-repressor 2	Co-fractionation	BioGRID	10944117
NR3C1	GCCR \| GCR \| GR \| GRL	nuclear receptor subfamily 3, group C, member 1 (glucocorticoid receptor)	Affinity Capture-Western Reconstituted Complex	BioGRID	10688647 \|12917342
PABPN1	OPMD \| PAB2 \| PABP2	poly(A) binding protein, nuclear 1	Two-hybrid	BioGRID	11371506
PHB	PHB1	prohibitin	-	HPRD,BioGRID	12065415
PHB	PHB1	prohibitin	Prohibitin interacts with Brg-1	BIND	12065415
POLR2A	MGC75453 \| POLR2 \| POLRA \| RPB1 \| RPBh1 \| RPO2 \| RPOL2 \| RpIILS \| hRPB220 \| hsRPB1	polymerase (RNA) II (DNA directed) polypeptide A, 220kDa	Affinity Capture-Western Co-purification in vitro	BioGRID	8895581 \|9443979 \|9845365 \|11238380
POLR2A		polymerase (RNA) II (DNA directed) polypeptide A, 220kDa	-	HPRD	9443979 \|12154023
RB1	OSRC \| RB \| p105-Rb \| pRb \| pp110	retinoblastoma 1	-	HPRD,BioGRID	7923370
RBBP4	NURF55 \| RBAP48	retinoblastoma binding protein 4	Co-purification	BioGRID	11238380
RELB	I-REL \| IREL	v-rel reticuloendotheliosis viral oncogene homolog B	Affinity Capture-MS	BioGRID	14743216
SIN3A	DKFZp434K2235 \| FLJ90319 \| KIAA0700	SIN3 homolog A, transcription regulator (yeast)	Affinity Capture-Western Co-purification Reconstituted Complex	BioGRID	11238380 \|11784859
SMARCB1	BAF47 \| INI1 \| RDT \| SNF5 \| SNF5L1 \| Sfh1p \| Snr1 \| hSNFS	SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily b, member 1	-	HPRD,BioGRID	8895581
SMARCC1	BAF155 \| CRACC1 \| Rsc8 \| SRG3 \| SWI3	SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily c, member 1	Affinity Capture-Western Co-purification	BioGRID	8895581 \|9845365 \|11238380 \|11726552
SMARCC1	BAF155 \| CRACC1 \| Rsc8 \| SRG3 \| SWI3		-	HPRD	9891079
SMARCC2	BAF170 \| CRACC2 \| Rsc8	SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily c, member 2	Affinity Capture-Western Co-purification	BioGRID	8895581 \|9845365 \|11726552
SMARCD1	BAF60A \| CRACD1 \| Rsc6p	SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily d, member 1	Affinity Capture-Western	BioGRID	12917342
SMARCE1	BAF57	SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily e, member 1	Affinity Capture-Western Co-purification	BioGRID	8895581 \|9845365
SP1	-	Sp1 transcription factor	Reconstituted Complex	BioGRID	11018012
SS18	MGC116875 \| SSXT \| SYT \| SYT-SSX1 \| SYT-SSX2	synovial sarcoma translocation, chromosome 18	-	HPRD	11734557\|14603256
STAT2	ISGF-3 \| MGC59816 \| P113 \| STAT113	signal transducer and activator of transcription 2, 113kDa	-	HPRD,BioGRID	12244326
STK11	LKB1 \| PJS	serine/threonine kinase 11	-	HPRD,BioGRID	11445556
STMN2	SCG10 \| SCGN10 \| SGC10	stathmin-like 2	BRG1 interacts with SCG10 promoter.	BIND	15035981
TP53	FLJ92943 \| LFS1 \| TRP53 \| p53	tumor protein p53	Affinity Capture-Western Co-fractionation Reconstituted Complex	BioGRID	11950834
VDR	NR1I1	vitamin D (1,25- dihydroxyvitamin D3) receptor	Affinity Capture-Western	BioGRID	12837248

Pathway annotation

Pathway name	Pathway size	# SZGR genes in pathway	Info
PID_REG_GR_PATHWAY	82	60	All SZGR genes in this pathway
PID_ERB_GENOMIC_PATHWAY	15	8	All SZGR genes in this pathway
PID_P53_DOWNSTREAM_PATHWAY	137	94	All SZGR genes in this pathway
PID_BETA_CATENIN_NUC_PATHWAY	80	60	All SZGR genes in this pathway
PID_RB_1PATHWAY	65	46	All SZGR genes in this pathway
LIU_SOX4_TARGETS_DN	309	191	All SZGR genes in this pathway
ONKEN_UVEAL_MELANOMA_UP	783	507	All SZGR genes in this pathway
GAZDA_DIAMOND_BLACKFAN_ANEMIA_PROGENITOR_DN	66	42	All SZGR genes in this pathway
VECCHI_GASTRIC_CANCER_EARLY_UP	430	232	All SZGR genes in this pathway
GINESTIER_BREAST_CANCER_ZNF217_AMPLIFIED_DN	335	193	All SZGR genes in this pathway
HOEBEKE_LYMPHOID_STEM_CELL_UP	95	64	All SZGR genes in this pathway
TONKS_TARGETS_OF_RUNX1_RUNX1T1_FUSION_MONOCYTE_UP	204	140	All SZGR genes in this pathway
HUMMEL_BURKITTS_LYMPHOMA_UP	43	27	All SZGR genes in this pathway
WAMUNYOKOLI_OVARIAN_CANCER_LMP_UP	265	158	All SZGR genes in this pathway
MAYBURD_RESPONSE_TO_L663536_UP	29	18	All SZGR genes in this pathway
DODD_NASOPHARYNGEAL_CARCINOMA_DN	1375	806	All SZGR genes in this pathway
LINDGREN_BLADDER_CANCER_CLUSTER_1_DN	378	231	All SZGR genes in this pathway
NADERI_BREAST_CANCER_PROGNOSIS_UP	50	26	All SZGR genes in this pathway
VANHARANTA_UTERINE_FIBROID_WITH_7Q_DELETION_UP	67	37	All SZGR genes in this pathway
MCBRYAN_PUBERTAL_BREAST_5_6WK_DN	137	97	All SZGR genes in this pathway
MCBRYAN_PUBERTAL_BREAST_6_7WK_UP	197	135	All SZGR genes in this pathway
MATTIOLI_MGUS_VS_PCL	116	62	All SZGR genes in this pathway
MATTIOLI_MULTIPLE_MYELOMA_SUBGROUPS	16	7	All SZGR genes in this pathway
PATIL_LIVER_CANCER	747	453	All SZGR genes in this pathway
SPIELMAN_LYMPHOBLAST_EUROPEAN_VS_ASIAN_UP	479	299	All SZGR genes in this pathway
PUJANA_BREAST_CANCER_LIT_INT_NETWORK	101	73	All SZGR genes in this pathway
PUJANA_BRCA1_PCC_NETWORK	1652	1023	All SZGR genes in this pathway
PUJANA_BRCA2_PCC_NETWORK	423	265	All SZGR genes in this pathway
PUJANA_CHEK2_PCC_NETWORK	779	480	All SZGR genes in this pathway
WEI_MYCN_TARGETS_WITH_E_BOX	795	478	All SZGR genes in this pathway
BENPORATH_ES_CORE_NINE_CORRELATED	100	68	All SZGR genes in this pathway
MORI_LARGE_PRE_BII_LYMPHOCYTE_UP	86	49	All SZGR genes in this pathway
MORI_IMMATURE_B_LYMPHOCYTE_DN	90	55	All SZGR genes in this pathway
MORI_MATURE_B_LYMPHOCYTE_DN	75	43	All SZGR genes in this pathway
MORI_EMU_MYC_LYMPHOMA_BY_ONSET_TIME_UP	110	69	All SZGR genes in this pathway
GOLUB_ALL_VS_AML_UP	24	20	All SZGR genes in this pathway
CHANG_POU5F1_TARGETS_UP	15	10	All SZGR genes in this pathway
TARTE_PLASMA_CELL_VS_PLASMABLAST_DN	309	206	All SZGR genes in this pathway
GILDEA_METASTASIS	30	14	All SZGR genes in this pathway
MUNSHI_MULTIPLE_MYELOMA_DN	11	6	All SZGR genes in this pathway
HADDAD_B_LYMPHOCYTE_PROGENITOR	293	193	All SZGR genes in this pathway
MOREAUX_MULTIPLE_MYELOMA_BY_TACI_DN	172	107	All SZGR genes in this pathway
IVANOVA_HEMATOPOIESIS_EARLY_PROGENITOR	532	309	All SZGR genes in this pathway
RHODES_CANCER_META_SIGNATURE	64	47	All SZGR genes in this pathway
HENDRICKS_SMARCA4_TARGETS_UP	56	35	All SZGR genes in this pathway
LEE_AGING_CEREBELLUM_DN	86	66	All SZGR genes in this pathway
MEDINA_SMARCA4_TARGETS	44	29	All SZGR genes in this pathway
MCCLUNG_COCAIN_REWARD_4WK	75	47	All SZGR genes in this pathway
WELCSH_BRCA1_TARGETS_DN	141	92	All SZGR genes in this pathway
MONNIER_POSTRADIATION_TUMOR_ESCAPE_UP	393	244	All SZGR genes in this pathway
HOWLIN_CITED1_TARGETS_2_UP	17	10	All SZGR genes in this pathway
MARTINEZ_RB1_TARGETS_UP	673	430	All SZGR genes in this pathway
MARTINEZ_TP53_TARGETS_DN	593	372	All SZGR genes in this pathway
MARTINEZ_RB1_AND_TP53_TARGETS_DN	591	366	All SZGR genes in this pathway
WEST_ADRENOCORTICAL_TUMOR_UP	294	199	All SZGR genes in this pathway
YOSHIMURA_MAPK8_TARGETS_DN	366	257	All SZGR genes in this pathway
HOFFMANN_SMALL_PRE_BII_TO_IMMATURE_B_LYMPHOCYTE_DN	50	33	All SZGR genes in this pathway
SHEDDEN_LUNG_CANCER_GOOD_SURVIVAL_A5	70	32	All SZGR genes in this pathway
ZHANG_TLX_TARGETS_60HR_DN	277	166	All SZGR genes in this pathway
FOURNIER_ACINAR_DEVELOPMENT_LATE_2	277	172	All SZGR genes in this pathway
CAIRO_HEPATOBLASTOMA_UP	207	143	All SZGR genes in this pathway
CAIRO_HEPATOBLASTOMA_CLASSES_UP	605	377	All SZGR genes in this pathway
YAO_TEMPORAL_RESPONSE_TO_PROGESTERONE_CLUSTER_14	143	86	All SZGR genes in this pathway
SASSON_RESPONSE_TO_GONADOTROPHINS_DN	87	66	All SZGR genes in this pathway
SASSON_RESPONSE_TO_FORSKOLIN_UP	90	58	All SZGR genes in this pathway
KIM_ALL_DISORDERS_OLIGODENDROCYTE_NUMBER_CORR_UP	756	494	All SZGR genes in this pathway
BILANGES_SERUM_SENSITIVE_VIA_TSC2	39	25	All SZGR genes in this pathway
PECE_MAMMARY_STEM_CELL_UP	146	75	All SZGR genes in this pathway

miRNA Targets ?

miRNA family	Target position			miRNA ID	miRNA seq
miRNA family	UTR start	UTR end	Match method	miRNA ID	miRNA seq
miR-1/206	7	14	1A,m8	hsa-miR-1	UGGAAUGUAAAGAAGUAUGUA
				hsa-miR-206^SZ	UGGAAUGUAAGGAAGUGUGUGG
				hsa-miR-613	AGGAAUGUUCCUUCUUUGCC
miR-101	358	364	1A	hsa-miR-101	UACAGUACUGUGAUAACUGAAG
miR-139	313	319	m8	hsa-miR-139^brain	UCUACAGUGCACGUGUCU
miR-144	358	364	1A	hsa-miR-144	UACAGUAUAGAUGAUGUACUAG
miR-155	204	211	1A,m8	hsa-miR-155	UUAAUGCUAAUCGUGAUAGGGG
miR-199	417	423	1A	hsa-miR-199a	CCCAGUGUUCAGACUACCUGUUC
miR-199	417	423	1A	hsa-miR-199b	CCCAGUGUUUAGACUAUCUGUUC
miR-324-5p	328	334	1A	hsa-miR-324-5p	CGCAUCCCCUAGGGCAUUGGUGU

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.