SZGR2

Summary ?

GeneID	55588
Symbol	MED29
Synonyms	IXL\|MED2
Description	mediator complex subunit 29
Reference	MIM:612914\|HGNC:HGNC:23074\|Ensembl:ENSG00000063322\|HPRD:13748\|Vega:OTTHUMG00000182969
Gene type	protein-coding
Map location	19q13.2
Pascal p-value	0.053
Sherlock p-value	0.23
Fetal beta	-1.153
eGene	Myers' cis & trans
Support	CompositeSet

Gene in Data Sources

Gene set name	Method of gene set	Description	Info
DNM:Fromer_2014	Whole Exome Sequencing analysis	This study reported a WES study of 623 schizophrenia trios, reporting DNMs using genomic DNA.
Network	Shortest path distance of core genes in the Human protein-protein interaction network	Contribution to shortest path in PPI network: 0.1318

Section I. Genetics and epigenetics annotation

DNM table

Gene	Chromosome	Position	Ref	Alt	Transcript	AA change	Mutation type	Sift	CG46	Trait	Study
MED29	chr19	39882166	C	T	NM_017592	p.56P>L	missense			Schizophrenia	DNM:Fromer_2014

eQTL annotation

SNP ID	Chromosome	Position	eGene	Gene Entrez ID	pvalue	qvalue	TSS distance	eQTL type
rs4865087	chr4	57194928	MED29	55588		0.16		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
S100A13	0.78	0.79
PSMB10	0.76	0.65
GUK1	0.75	0.67
CXCL14	0.75	0.81
SELM	0.74	0.73
MYL3	0.74	0.78
NDUFB1	0.74	0.42
AC044839.2	0.73	0.74
TMEM141	0.72	0.70
SEPW1	0.72	0.71

Top 10 negatively co-expressed genes
Gene	Pearson's Correlation	Spearman's Correlation
SART3	-0.63	-0.77
SLC39A7	-0.63	-0.78
SUPT6H	-0.63	-0.71
SMG6	-0.63	-0.76
SUPT5H	-0.63	-0.77
C17orf85	-0.63	-0.78
MCM3AP	-0.63	-0.74
CIDEB	-0.63	-0.75
GPATCH1	-0.63	-0.78
GTPBP1	-0.63	-0.80

Section III. Gene Ontology annotation

Molecular function	GO term	Evidence	Neuro keywords	PubMed ID
GO:0005515	protein binding	IPI		14576168
Biological process	GO term	Evidence	Neuro keywords	PubMed ID
GO:0006355	regulation of transcription, DNA-dependent	IEA		-
GO:0006350	transcription	IEA		-
Cellular component	GO term	Evidence	Neuro keywords	PubMed ID
GO:0005634	nucleus	IEA		-

Section IV. Protein-protein interaction annotation

Interactors	Aliases B	Official full name B	Experimental	Source	PubMed ID
CBX4	NBP16 \| PC2 \| hPC2	chromobox homolog 4 (Pc class homolog, Drosophila)	-	HPRD	14576168
CCNC	CycC	cyclin C	Affinity Capture-MS	BioGRID	15175163
CCNC	CycC	cyclin C	-	HPRD	14576168
CDC2L6	CDK11 \| KIAA1028 \| bA346C16.3	cell division cycle 2-like 6 (CDK8-like)	Affinity Capture-MS	BioGRID	15175163
CDK8	K35 \| MGC126074 \| MGC126075	cyclin-dependent kinase 8	Affinity Capture-MS	BioGRID	15175163
CDK8	K35 \| MGC126074 \| MGC126075	cyclin-dependent kinase 8	-	HPRD	14576168
MED1	CRSP1 \| CRSP200 \| DRIP205 \| DRIP230 \| MGC71488 \| PBP \| PPARBP \| PPARGBP \| RB18A \| TRAP220 \| TRIP2	mediator complex subunit 1	-	HPRD	14576168
MED1	CRSP1 \| CRSP200 \| DRIP205 \| DRIP230 \| MGC71488 \| PBP \| PPARBP \| PPARGBP \| RB18A \| TRAP220 \| TRIP2	mediator complex subunit 1	Affinity Capture-MS Affinity Capture-Western	BioGRID	14638676 \|15175163
MED10	L6 \| MGC5309 \| NUT2 \| TRG20	mediator complex subunit 10	Affinity Capture-MS Affinity Capture-Western	BioGRID	14576168 \|14638676 \|15175163
MED11	HSPC296 \| MGC88387	mediator complex subunit 11	-	HPRD,BioGRID	14576168
MED12	CAGH45 \| HOPA \| KIAA0192 \| OPA1 \| TNRC11 \| TRAP230	mediator complex subunit 12	-	HPRD	14576168
MED12	CAGH45 \| HOPA \| KIAA0192 \| OPA1 \| TNRC11 \| TRAP230	mediator complex subunit 12	Affinity Capture-MS	BioGRID	15175163
MED13	ARC250 \| DRIP250 \| HSPC221 \| KIAA0593 \| THRAP1 \| TRAP240	mediator complex subunit 13	Affinity Capture-MS	BioGRID	15175163
MED13	ARC250 \| DRIP250 \| HSPC221 \| KIAA0593 \| THRAP1 \| TRAP240	mediator complex subunit 13	-	HPRD	14576168
MED13L	DKFZp781D0112 \| FLJ21627 \| KIAA1025 \| PROSIT240 \| THRAP2 \| TRAP240L	mediator complex subunit 13-like	Affinity Capture-MS	BioGRID	15175163
MED14	CRSP150 \| CRSP2 \| CSRP \| CXorf4 \| DRIP150 \| EXLM1 \| MGC104513 \| RGR1 \| TRAP170	mediator complex subunit 14	-	HPRD	14576168
MED14	CRSP150 \| CRSP2 \| CSRP \| CXorf4 \| DRIP150 \| EXLM1 \| MGC104513 \| RGR1 \| TRAP170	mediator complex subunit 14	Affinity Capture-MS	BioGRID	15175163
MED15	ARC105 \| CAG7A \| CTG7A \| DKFZp686A2214 \| DKFZp762B1216 \| FLJ42282 \| FLJ42935 \| PCQAP \| TIG-1 \| TIG1 \| TNRC7	mediator complex subunit 15	Affinity Capture-MS	BioGRID	15175163
MED16	DRIP92 \| THRAP5 \| TRAP95	mediator complex subunit 16	Affinity Capture-MS	BioGRID	15175163
MED16	DRIP92 \| THRAP5 \| TRAP95	mediator complex subunit 16	-	HPRD	14576168
MED17	CRSP6 \| CRSP77 \| DRIP80 \| FLJ10812 \| TRAP80	mediator complex subunit 17	-	HPRD,BioGRID	14576168
MED18	FLJ20045 \| p28b	mediator complex subunit 18	-	HPRD,BioGRID	14576168
MED19	DT2P1G7 \| LCMR1	mediator complex subunit 19	-	HPRD,BioGRID	14576168
MED20	DKFZp586D2223 \| MGC29869 \| PRO0213 \| TRFP	mediator complex subunit 20	TRFP interacts with hIntersex. TRFP and hIntersex were isolated as components of the Mediator complex.	BIND	14576168
MED20	DKFZp586D2223 \| MGC29869 \| PRO0213 \| TRFP	mediator complex subunit 20	Affinity Capture-MS Affinity Capture-Western	BioGRID	14576168 \|15175163
MED21	SRB7 \| SURB7	mediator complex subunit 21	Affinity Capture-MS	BioGRID	15175163
MED21	SRB7 \| SURB7	mediator complex subunit 21	-	HPRD	14576168
MED22	MED24 \| MGC48682 \| SURF5	mediator complex subunit 22	-	HPRD	14576168
MED22	MED24 \| MGC48682 \| SURF5	mediator complex subunit 22	Affinity Capture-MS	BioGRID	15175163
MED23	CRSP130 \| CRSP133 \| CRSP3 \| DKFZp434H0117 \| DRIP130 \| SUR2	mediator complex subunit 23	-	HPRD	14576168
MED23	CRSP130 \| CRSP133 \| CRSP3 \| DKFZp434H0117 \| DRIP130 \| SUR2	mediator complex subunit 23	Affinity Capture-MS	BioGRID	15175163
MED24	ARC100 \| CRSP100 \| CRSP4 \| DRIP100 \| KIAA0130 \| MGC8748 \| THRAP4 \| TRAP100	mediator complex subunit 24	Affinity Capture-MS	BioGRID	15175163
MED24	ARC100 \| CRSP100 \| CRSP4 \| DRIP100 \| KIAA0130 \| MGC8748 \| THRAP4 \| TRAP100	mediator complex subunit 24	-	HPRD	14576168
MED25	ACID1 \| ARC92 \| DKFZp434K0512 \| MGC70671 \| P78 \| PTOV2 \| TCBAP0758	mediator complex subunit 25	Affinity Capture-MS Affinity Capture-Western	BioGRID	14638676 \|15175163
MED25	ACID1 \| ARC92 \| DKFZp434K0512 \| MGC70671 \| P78 \| PTOV2 \| TCBAP0758	mediator complex subunit 25	-	HPRD	14576168
MED26	CRSP7 \| CRSP70	mediator complex subunit 26	-	HPRD	14576168
MED26	CRSP7 \| CRSP70	mediator complex subunit 26	Affinity Capture-MS	BioGRID	15175163
MED27	CRAP34 \| CRSP34 \| CRSP8 \| MGC11274 \| TRAP37	mediator complex subunit 27	-	HPRD	14576168
MED27	CRAP34 \| CRSP34 \| CRSP8 \| MGC11274 \| TRAP37	mediator complex subunit 27	Affinity Capture-MS	BioGRID	15175163
MED28	1500003D12Rik \| DKFZp434N185 \| EG1 \| magicin	mediator complex subunit 28	Affinity Capture-MS	BioGRID	15175163
MED29	DKFZp434H247 \| IXL	mediator complex subunit 29	Affinity Capture-MS Affinity Capture-Western	BioGRID	14576168 \|14638676 \|15175163
MED30	MGC9890 \| THRAP6 \| TRAP25	mediator complex subunit 30	-	HPRD	14576168
MED30	MGC9890 \| THRAP6 \| TRAP25	mediator complex subunit 30	Affinity Capture-MS	BioGRID	15175163
MED31	3110004H13Rik \| CGI-125 \| FLJ27436 \| FLJ36714 \| Soh1	mediator complex subunit 31	-	HPRD,BioGRID	14576168
MED4	DRIP36 \| FLJ10956 \| HSPC126 \| RP11-90M2.2 \| TRAP36 \| VDRIP	mediator complex subunit 4	-	HPRD	14576168
MED4	DRIP36 \| FLJ10956 \| HSPC126 \| RP11-90M2.2 \| TRAP36 \| VDRIP	mediator complex subunit 4	Affinity Capture-MS Affinity Capture-Western	BioGRID	14638676 \|15175163
MED6	NY-REN-28	mediator complex subunit 6	-	HPRD,BioGRID	14576168
MED7	CRSP33 \| CRSP9 \| MGC12284	mediator complex subunit 7	-	HPRD	14576168
MED7	CRSP33 \| CRSP9 \| MGC12284	mediator complex subunit 7	Affinity Capture-MS	BioGRID	15175163
MED8	ARC32 \| MGC17544 \| MGC19641	mediator complex subunit 8	-	HPRD,BioGRID	14576168
MED9	FLJ10193 \| MED25 \| MGC138234	mediator complex subunit 9	-	HPRD	14638676
MED9	FLJ10193 \| MED25 \| MGC138234	mediator complex subunit 9	Affinity Capture-MS	BioGRID	15175163
POLR2A	MGC75453 \| POLR2 \| POLRA \| RPB1 \| RPBh1 \| RPO2 \| RPOL2 \| RpIILS \| hRPB220 \| hsRPB1	polymerase (RNA) II (DNA directed) polypeptide A, 220kDa	Affinity Capture-MS	BioGRID	15175163
POLR2B	POL2RB \| RPB2 \| hRPB140 \| hsRPB2	polymerase (RNA) II (DNA directed) polypeptide B, 140kDa	Affinity Capture-MS	BioGRID	15175163
POLR2C	RPB3 \| RPB31 \| hRPB33 \| hsRPB3	polymerase (RNA) II (DNA directed) polypeptide C, 33kDa	Affinity Capture-MS	BioGRID	15175163
POLR2D	HSRBP4 \| HSRPB4 \| RBP4	polymerase (RNA) II (DNA directed) polypeptide D	Affinity Capture-MS	BioGRID	15175163
POLR2E	RPABC1 \| RPB5 \| XAP4 \| hRPB25 \| hsRPB5	polymerase (RNA) II (DNA directed) polypeptide E, 25kDa	Affinity Capture-MS	BioGRID	15175163
POLR2F	HRBP14.4 \| POLRF \| RPABC2 \| RPB14.4 \| RPB6	polymerase (RNA) II (DNA directed) polypeptide F	Affinity Capture-MS	BioGRID	15175163
POLR2G	MGC138367 \| MGC138369 \| RPB7 \| hRPB19 \| hsRPB7	polymerase (RNA) II (DNA directed) polypeptide G	Affinity Capture-MS	BioGRID	15175163
POLR2H	RPABC3 \| RPB17 \| RPB8 \| hsRPB8	polymerase (RNA) II (DNA directed) polypeptide H	Affinity Capture-MS	BioGRID	15175163
POLR2I	RPB9 \| hRPB14.5	polymerase (RNA) II (DNA directed) polypeptide I, 14.5kDa	Affinity Capture-MS	BioGRID	15175163
POLR2J	MGC71910 \| POLR2J1 \| RPB11 \| RPB11A \| RPB11m \| hRPB14	polymerase (RNA) II (DNA directed) polypeptide J, 13.3kDa	Affinity Capture-MS	BioGRID	15175163
POLR2L	RBP10 \| RPABC5 \| RPB10 \| RPB10beta \| RPB7.6 \| hRPB7.6 \| hsRPB10b	polymerase (RNA) II (DNA directed) polypeptide L, 7.6kDa	Affinity Capture-MS	BioGRID	15175163
USP47	DKFZp686C13257 \| FLJ20727 \| TRFP	ubiquitin specific peptidase 47	-	HPRD	14576168

Section V. Pathway annotation

Pathway name	Pathway size	# SZGR 2.0 genes in pathway	Info
REACTOME DEVELOPMENTAL BIOLOGY	396	292	All SZGR 2.0 genes in this pathway
REACTOME PPARA ACTIVATES GENE EXPRESSION	104	72	All SZGR 2.0 genes in this pathway
REACTOME METABOLISM OF LIPIDS AND LIPOPROTEINS	478	302	All SZGR 2.0 genes in this pathway
REACTOME FATTY ACID TRIACYLGLYCEROL AND KETONE BODY METABOLISM	168	115	All SZGR 2.0 genes in this pathway
REACTOME TRANSCRIPTIONAL REGULATION OF WHITE ADIPOCYTE DIFFERENTIATION	72	53	All SZGR 2.0 genes in this pathway
RODRIGUES THYROID CARCINOMA POORLY DIFFERENTIATED DN	805	505	All SZGR 2.0 genes in this pathway
KUUSELO PANCREATIC CANCER 19Q13 AMPLIFICATION	35	22	All SZGR 2.0 genes in this pathway
QI PLASMACYTOMA DN	100	63	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
miR-25/32/92/363/367	764	770	m8	hsa-miR-25^brain	CAUUGCACUUGUCUCGGUCUGA
				hsa-miR-32	UAUUGCACAUUACUAAGUUGC
				hsa-miR-92	UAUUGCACUUGUCCCGGCCUG
				hsa-miR-367	AAUUGCACUUUAGCAAUGGUGA
				hsa-miR-92b^SZ	UAUUGCACUCGUCCCGGCCUC
miR-370	122	128	m8	hsa-miR-370^brain	GCCUGCUGGGGUGGAACCUGG

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: MED29