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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: SMARCD1

Summary

GeneID

6602

Symbol

SMARCD1

Synonyms

BAF60A|CRACD1|Rsc6p

Description

SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily d, member 1

Locus tag

Gene type

protein-coding

Map location

12q13-q14

Gene in Data Sources

Gene set name

Method of gene set

Evidence

Info

Network

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

Contribution to shortest path in PPI network: 0.1006

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

DENND5A

0.82

0.77

CYTSB

0.82

0.81

RNF130

0.80

0.76

SPG20

0.79

0.80

JAM3

0.79

0.76

COL4A5

0.78

0.79

GLTP

0.77

0.80

LASS2

0.77

0.75

CHD1L

0.77

0.75

MOSPD2

0.76

0.77

Top 10 negatively co-expressed genes

AC087071.1

-0.43

-0.38

FAM159B

-0.43

-0.40

RP9P

-0.41

-0.37

AF347015.21

-0.38

-0.14

AC135724.1

-0.37

-0.30

IL32

-0.37

-0.24

SPDYA

-0.37

-0.33

AC027807.2

-0.36

-0.31

AC120053.1

-0.34

-0.28

SPINK8

-0.32

-0.31

Gene Ontology

Molecular function

GO term

Evidence

Neuro keywords

PubMed ID

GO:0003713

transcription coactivator activity

TAS

8804307

GO:0032947

protein complex scaffold

IDA

12917342

Biological process

GO term

Evidence

Neuro keywords

PubMed ID

GO:0006357

regulation of transcription from RNA polymerase II promoter

TAS

8804307

GO:0048096

chromatin-mediated maintenance of transcription

IMP

12917342

Cellular component

GO term

Evidence

Neuro keywords

PubMed ID

GO:0005634

nucleus

IEA

GO:0005654

nucleoplasm

TAS

8804307

GO:0005730

nucleolus

IDA

18029348

GO:0016585

chromatin remodeling complex

IDA

12917342

Protein-protein Interactions

Shown by network

Interactors	Aliases B	Official full name B	Experimental	Source	PubMed ID
BAZ1B	WBSCR10 \| WBSCR9 \| WSTF	bromodomain adjacent to zinc finger domain, 1B	-	HPRD,BioGRID	12837248
CALCOCO2	MGC17318 \| NDP52	calcium binding and coiled-coil domain 2	Two-hybrid	BioGRID	16189514
CCDC85B	DIPA	coiled-coil domain containing 85B	Two-hybrid	BioGRID	16189514
ESR1	DKFZp686N23123 \| ER \| ESR \| ESRA \| Era \| NR3A1	estrogen receptor 1	Reconstituted Complex	BioGRID	12917342
FOS	AP-1 \| C-FOS	v-fos FBJ murine osteosarcoma viral oncogene homolog	-	HPRD	11053448
GATA1	ERYF1 \| GF-1 \| GF1 \| NFE1	GATA binding protein 1 (globin transcription factor 1)	Reconstituted Complex	BioGRID	11018012
ING1	p24ING1c \| p33 \| p33ING1 \| p33ING1b \| p47 \| p47ING1a	inhibitor of growth family, member 1	Affinity Capture-MS	BioGRID	11784859
JUN	AP-1 \| AP1 \| c-Jun	jun oncogene	-	HPRD	11053448
KLF1	EKLF	Kruppel-like factor 1 (erythroid)	Reconstituted Complex	BioGRID	11018012
KRT15	CK15 \| K15 \| K1CO	keratin 15	Two-hybrid	BioGRID	16189514
LDOC1	BCUR1 \| Mar7 \| Mart7	leucine zipper, down-regulated in cancer 1	Two-hybrid	BioGRID	16189514
NR1H4	BAR \| FXR \| HRR-1 \| HRR1 \| MGC163445 \| RIP14	nuclear receptor subfamily 1, group H, member 4	Reconstituted Complex	BioGRID	12917342
NR3C1	GCCR \| GCR \| GR \| GRL	nuclear receptor subfamily 3, group C, member 1 (glucocorticoid receptor)	-	HPRD,BioGRID	12917342
PGR	NR3C3 \| PR	progesterone receptor	Reconstituted Complex	BioGRID	12917342
SMARCA4	BAF190 \| BRG1 \| FLJ39786 \| SNF2 \| SNF2-BETA \| SNF2L4 \| SNF2LB \| SWI2 \| hSNF2b	SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4	Affinity Capture-Western	BioGRID	12917342
SMARCC1	BAF155 \| CRACC1 \| Rsc8 \| SRG3 \| SWI3	SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily c, member 1	Affinity Capture-Western	BioGRID	12917342
SMARCC2	BAF170 \| CRACC2 \| Rsc8	SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily c, member 2	Affinity Capture-Western	BioGRID	12917342
TNIP2	ABIN-2 \| ABIN2 \| FLIP1 \| KLIP \| MGC4289	TNFAIP3 interacting protein 2	-	HPRD	12753905
TNIP2	ABIN-2 \| ABIN2 \| FLIP1 \| KLIP \| MGC4289	TNFAIP3 interacting protein 2	ABIN-2 interacts with BAF60a.	BIND	12753905
USHBP1	AIEBP \| FLJ38709 \| FLJ90681 \| MCC2	Usher syndrome 1C binding protein 1	Two-hybrid	BioGRID	16189514

Pathway annotation

Pathway name	Pathway size	# SZGR genes in pathway	Info
PID_REG_GR_PATHWAY	82	60	All SZGR genes in this pathway
PARENT_MTOR_SIGNALING_UP	567	375	All SZGR genes in this pathway
GINESTIER_BREAST_CANCER_ZNF217_AMPLIFIED_DN	335	193	All SZGR genes in this pathway
GINESTIER_BREAST_CANCER_20Q13_AMPLIFICATION_DN	180	101	All SZGR genes in this pathway
PUJANA_BRCA1_PCC_NETWORK	1652	1023	All SZGR genes in this pathway
PUJANA_ATM_PCC_NETWORK	1442	892	All SZGR genes in this pathway
PUJANA_CHEK2_PCC_NETWORK	779	480	All SZGR genes in this pathway
LOPEZ_MBD_TARGETS	957	597	All SZGR genes in this pathway
LIU_NASOPHARYNGEAL_CARCINOMA	70	38	All SZGR genes in this pathway
GOTZMANN_EPITHELIAL_TO_MESENCHYMAL_TRANSITION_UP	69	55	All SZGR genes in this pathway
BENPORATH_CYCLING_GENES	648	385	All SZGR genes in this pathway
FAELT_B_CLL_WITH_VH3_21_UP	44	30	All SZGR genes in this pathway
BANDRES_RESPONSE_TO_CARMUSTIN_WITHOUT_MGMT_24HR_UP	14	10	All SZGR genes in this pathway
BLALOCK_ALZHEIMERS_DISEASE_UP	1691	1088	All SZGR genes in this pathway
BANDRES_RESPONSE_TO_CARMUSTIN_WITHOUT_MGMT_48HR_UP	18	13	All SZGR genes in this pathway
BANDRES_RESPONSE_TO_CARMUSTIN_MGMT_48HR_UP	18	13	All SZGR genes in this pathway
KRIGE_RESPONSE_TO_TOSEDOSTAT_6HR_UP	953	554	All SZGR genes in this pathway
KRIGE_RESPONSE_TO_TOSEDOSTAT_24HR_DN	1011	592	All SZGR genes in this pathway
YAUCH_HEDGEHOG_SIGNALING_PARACRINE_UP	149	85	All SZGR genes in this pathway
YAGI_AML_WITH_T_8_21_TRANSLOCATION	368	247	All SZGR genes in this pathway
SETLUR_PROSTATE_CANCER_TMPRSS2_ERG_FUSION_UP	67	48	All SZGR genes in this pathway
HOSHIDA_LIVER_CANCER_SUBCLASS_S1	237	159	All SZGR genes in this pathway
BANDRES_RESPONSE_TO_CARMUSTIN_MGMT_24HR_UP	9	5	All SZGR genes in this pathway
SASSON_RESPONSE_TO_GONADOTROPHINS_DN	87	66	All SZGR genes in this pathway
SASSON_RESPONSE_TO_FORSKOLIN_DN	88	68	All SZGR genes in this pathway
WHITFIELD_CELL_CYCLE_G2_M	216	124	All SZGR genes in this pathway
PURBEY_TARGETS_OF_CTBP1_NOT_SATB1_DN	448	282	All SZGR genes in this pathway
DELACROIX_RAR_BOUND_ES	462	273	All SZGR genes in this pathway
RATTENBACHER_BOUND_BY_CELF1	467	251	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-101	1592	1598	m8	hsa-miR-101	UACAGUACUGUGAUAACUGAAG
miR-122	846	852	1A	hsa-miR-122a	UGGAGUGUGACAAUGGUGUUUGU
miR-122	846	852	1A	hsa-miR-122a	UGGAGUGUGACAAUGGUGUUUGU
miR-133	1575	1581	1A	hsa-miR-133a	UUGGUCCCCUUCAACCAGCUGU
miR-133	1575	1581	1A	hsa-miR-133b	UUGGUCCCCUUCAACCAGCUA
miR-148/152	974	980	1A	hsa-miR-148a	UCAGUGCACUACAGAACUUUGU
				hsa-miR-152^brain	UCAGUGCAUGACAGAACUUGGG
				hsa-miR-148b	UCAGUGCAUCACAGAACUUUGU
miR-150	1242	1248	1A	hsa-miR-150	UCUCCCAACCCUUGUACCAGUG
miR-150	1242	1248	1A	hsa-miR-150	UCUCCCAACCCUUGUACCAGUG
miR-199	1448	1455	1A,m8	hsa-miR-199a	CCCAGUGUUCAGACUACCUGUUC
miR-199	1448	1455	1A,m8	hsa-miR-199b	CCCAGUGUUUAGACUAUCUGUUC
miR-200bc/429	634	640	m8	hsa-miR-200b	UAAUACUGCCUGGUAAUGAUGAC
				hsa-miR-200c	UAAUACUGCCGGGUAAUGAUGG
				hsa-miR-429	UAAUACUGUCUGGUAAAACCGU
miR-21	425	432	1A,m8	hsa-miR-21^brain	UAGCUUAUCAGACUGAUGUUGA
miR-21	425	432	1A,m8	hsa-miR-590	GAGCUUAUUCAUAAAAGUGCAG
miR-214	591	597	m8	hsa-miR-214^brain	ACAGCAGGCACAGACAGGCAG
miR-214	591	597	m8	hsa-miR-214^brain	ACAGCAGGCACAGACAGGCAG
miR-223	1300	1307	1A,m8	hsa-miR-223	UGUCAGUUUGUCAAAUACCCC
miR-370	1104	1111	1A,m8	hsa-miR-370^brain	GCCUGCUGGGGUGGAACCUGG
miR-490	1182	1188	m8	hsa-miR-490	CAACCUGGAGGACUCCAUGCUG
miR-491	1319	1325	m8	hsa-miR-491^brain	AGUGGGGAACCCUUCCAUGAGGA
miR-7	1178	1184	1A	hsa-miR-7^SZ	UGGAAGACUAGUGAUUUUGUUG
miR-7	1178	1184	1A	hsa-miR-7^SZ	UGGAAGACUAGUGAUUUUGUUG
miR-99/100	897	903	1A	hsa-miR-99a^brain	AACCCGUAGAUCCGAUCUUGUG
				hsa-miR-100^brain	AACCCGUAGAUCCGAACUUGUG
				hsa-miR-99b^brain	CACCCGUAGAACCGACCUUGCG

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.