SZGR2

Summary ?

GeneID	4130
Symbol	MAP1A
Synonyms	MAP1L\|MTAP1A
Description	microtubule associated protein 1A
Reference	MIM:600178\|HGNC:HGNC:6835\|Ensembl:ENSG00000166963\|HPRD:02549\|Vega:OTTHUMG00000059756
Gene type	protein-coding
Map location	15q15.3
Pascal p-value	3.367E-4
Fetal beta	-3.219
eGene	Myers' cis & trans
Support	STRUCTURAL PLASTICITY G2Cdb.human_mGluR5 G2Cdb.humanPSD G2Cdb.humanPSP CompositeSet Darnell FMRP targets Potential synaptic genes

Gene in Data Sources

Gene set name	Method of gene set	Description	Info
CV:PGCnp	Genome-wide Association Study	GWAS
PMID:cooccur	High-throughput literature-search	Systematic search in PubMed for genes co-occurring with SCZ keywords. A total of 3027 genes were included.
Literature	High-throughput literature-search	Co-occurance with Schizophrenia keywords: schizophrenia,schizophrenic,schizophrenias	Click to show details
Network	Shortest path distance of core genes in the Human protein-protein interaction network	Contribution to shortest path in PPI network: 0.7246

Section I. Genetics and epigenetics annotation

eQTL annotation

SNP ID	Chromosome	Position	eGene	Gene Entrez ID	pvalue	qvalue	TSS distance	eQTL type
rs4634107	chr3	186341392	MAP1A	4130		0.1		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
BCAS1	0.96	0.97
MOBP	0.93	0.94
KIF1C	0.91	0.89
PAQR6	0.90	0.93
SEPT4	0.89	0.90
TP53INP2	0.87	0.86
FOXO4	0.86	0.81
PLEKHB1	0.85	0.93
ZFP57	0.85	0.87
DAAM2	0.82	0.87

Top 10 negatively co-expressed genes
Gene	Pearson's Correlation	Spearman's Correlation
PARP6	-0.67	-0.78
GSTA4	-0.67	-0.81
PPP3CC	-0.66	-0.79
SUPV3L1	-0.66	-0.78
DUSP12	-0.66	-0.79
UBE2E3	-0.66	-0.77
MED19	-0.66	-0.78
STMN1	-0.65	-0.80
MLLT11	-0.65	-0.78
CDC42	-0.65	-0.78

Section III. Gene Ontology annotation

Molecular function	GO term	Evidence	Neuro keywords	PubMed ID
GO:0005515	protein binding	IPI		12812986
GO:0005198	structural molecule activity	NAS		8812494
Cellular component	GO term	Evidence	Neuro keywords	PubMed ID
GO:0005874	microtubule	IEA		-
GO:0005875	microtubule associated complex	TAS		8812494

Section V. Pathway annotation

Pathway name	Pathway size	# SZGR 2.0 genes in pathway	Info
DODD NASOPHARYNGEAL CARCINOMA UP	1821	933	All SZGR 2.0 genes in this pathway
LINDGREN BLADDER CANCER CLUSTER 1 DN	378	231	All SZGR 2.0 genes in this pathway
CONCANNON APOPTOSIS BY EPOXOMICIN UP	239	157	All SZGR 2.0 genes in this pathway
LUI THYROID CANCER PAX8 PPARG UP	44	29	All SZGR 2.0 genes in this pathway
OUELLET CULTURED OVARIAN CANCER INVASIVE VS LMP DN	35	20	All SZGR 2.0 genes in this pathway
LINDGREN BLADDER CANCER CLUSTER 2B	392	251	All SZGR 2.0 genes in this pathway
PETRETTO BLOOD PRESSURE UP	12	8	All SZGR 2.0 genes in this pathway
SHEN SMARCA2 TARGETS DN	357	212	All SZGR 2.0 genes in this pathway
ROSS AML WITH PML RARA FUSION	77	62	All SZGR 2.0 genes in this pathway
IVANOVA HEMATOPOIESIS EARLY PROGENITOR	532	309	All SZGR 2.0 genes in this pathway
IVANOVA HEMATOPOIESIS LATE PROGENITOR	544	307	All SZGR 2.0 genes in this pathway
BLALOCK ALZHEIMERS DISEASE DN	1237	837	All SZGR 2.0 genes in this pathway
SESTO RESPONSE TO UV C2	54	39	All SZGR 2.0 genes in this pathway
KAYO AGING MUSCLE UP	244	165	All SZGR 2.0 genes in this pathway
BROWNE HCMV INFECTION 14HR DN	298	200	All SZGR 2.0 genes in this pathway
BROWNE HCMV INFECTION 18HR DN	178	121	All SZGR 2.0 genes in this pathway
LEIN LOCALIZED TO PROXIMAL DENDRITES	37	26	All SZGR 2.0 genes in this pathway
VALK AML WITH FLT3 ITD	40	22	All SZGR 2.0 genes in this pathway
BROWNE HCMV INFECTION 30MIN DN	150	99	All SZGR 2.0 genes in this pathway
BROWNE HCMV INFECTION 4HR DN	254	158	All SZGR 2.0 genes in this pathway
CHICAS RB1 TARGETS CONFLUENT	567	365	All SZGR 2.0 genes in this pathway
WIERENGA STAT5A TARGETS UP	217	131	All SZGR 2.0 genes in this pathway
WIERENGA STAT5A TARGETS GROUP1	136	76	All SZGR 2.0 genes in this pathway
BRUINS UVC RESPONSE EARLY LATE	317	190	All SZGR 2.0 genes in this pathway
GOBERT OLIGODENDROCYTE DIFFERENTIATION DN	1080	713	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-1/206	927	934	1A,m8	hsa-miR-1	UGGAAUGUAAAGAAGUAUGUA
				hsa-miR-206^SZ	UGGAAUGUAAGGAAGUGUGUGG
				hsa-miR-613	AGGAAUGUUCCUUCUUUGCC
miR-181	582	588	m8	hsa-miR-181a^brain	AACAUUCAACGCUGUCGGUGAGU
				hsa-miR-181b^SZ	AACAUUCAUUGCUGUCGGUGGG
				hsa-miR-181c^brain	AACAUUCAACCUGUCGGUGAGU
				hsa-miR-181d^brain	AACAUUCAUUGUUGUCGGUGGGUU
miR-199	962	968	m8	hsa-miR-199a	CCCAGUGUUCAGACUACCUGUUC
miR-199	962	968	m8	hsa-miR-199b	CCCAGUGUUUAGACUAUCUGUUC
miR-218	699	705	1A	hsa-miR-218^brain	UUGUGCUUGAUCUAACCAUGU
miR-26	600	606	1A	hsa-miR-26a^brain	UUCAAGUAAUCCAGGAUAGGC
miR-26	600	606	1A	hsa-miR-26b^SZ	UUCAAGUAAUUCAGGAUAGGUU
miR-34/449	876	882	m8	hsa-miR-34a^brain	UGGCAGUGUCUUAGCUGGUUGUU
				hsa-miR-34c	AGGCAGUGUAGUUAGCUGAUUGC
				hsa-miR-449	UGGCAGUGUAUUGUUAGCUGGU
				hsa-miR-449b	AGGCAGUGUAUUGUUAGCUGGC
miR-34b	877	883	m8	hsa-miR-34b	UAGGCAGUGUCAUUAGCUGAUUG
miR-377	912	918	m8	hsa-miR-377	AUCACACAAAGGCAACUUUUGU
miR-409-3p	926	932	m8	hsa-miR-409-3p	CGAAUGUUGCUCGGUGAACCCCU
miR-491	1308	1314	m8	hsa-miR-491^brain	AGUGGGGAACCCUUCCAUGAGGA
miR-9	193	199	m8	hsa-miR-9^SZ	UCUUUGGUUAUCUAGCUGUAUGA

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: MAP1A