SZGR2

Summary ?

GeneID	10858
Symbol	CYP46A1
Synonyms	CP46\|CYP46
Description	cytochrome P450 family 46 subfamily A member 1
Reference	MIM:604087\|HGNC:HGNC:2641\|Ensembl:ENSG00000036530\|HPRD:04970\|Vega:OTTHUMG00000171510
Gene type	protein-coding
Map location	14q32.1
Pascal p-value	0.545
Sherlock p-value	0.287
Fetal beta	-1.65
eGene	Cerebellar Hemisphere Cerebellum

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,schizophrenias	Click to show details
GO_Annotation	Mapping neuro-related keywords to Gene Ontology annotations	Hits with neuro-related keywords: 1

Section I. Genetics and epigenetics annotation

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
SP1	0.87	0.88
CTDSP2	0.85	0.84
EIF2C1	0.84	0.86
SS18	0.84	0.84
EIF2C3	0.83	0.83
CRTC3	0.83	0.84
ARNT	0.82	0.82
GPATCH8	0.82	0.83
H6PD	0.81	0.79
NUP98	0.81	0.80

Top 10 negatively co-expressed genes
Gene	Pearson's Correlation	Spearman's Correlation
AF347015.21	-0.60	-0.67
AF347015.31	-0.56	-0.60
MT-CO2	-0.56	-0.60
IL32	-0.55	-0.66
IFI27	-0.55	-0.58
C1orf54	-0.54	-0.64
HIGD1B	-0.53	-0.57
CXCL14	-0.52	-0.57
AF347015.8	-0.51	-0.55
AF347015.27	-0.50	-0.56

Section III. Gene Ontology annotation

Molecular function	GO term	Evidence	Neuro keywords	PubMed ID
GO:0005506	iron ion binding	IEA		-
GO:0004497	monooxygenase activity	IEA		-
GO:0020037	heme binding	IEA		-
GO:0008395	steroid hydroxylase activity	TAS		10377398
GO:0009055	electron carrier activity	IEA		-
GO:0033781	cholesterol 24-hydroxylase activity	IEA		-
GO:0046872	metal ion binding	IEA		-
Biological process	GO term	Evidence	Neuro keywords	PubMed ID
GO:0007399	nervous system development	TAS	neurite (GO term level: 5)	10377398
GO:0008202	steroid metabolic process	IEA		-
GO:0006707	cholesterol catabolic process	TAS		10377398
GO:0006629	lipid metabolic process	IEA		-
GO:0055114	oxidation reduction	IEA		-
Cellular component	GO term	Evidence	Neuro keywords	PubMed ID
GO:0005792	microsome	IEA		-
GO:0005789	endoplasmic reticulum membrane	IEA		-
GO:0005783	endoplasmic reticulum	TAS		10377398
GO:0016020	membrane	IEA		-
GO:0016021	integral to membrane	IEA		-

Section V. Pathway annotation

Pathway name	Pathway size	# SZGR 2.0 genes in pathway	Info
KEGG PRIMARY BILE ACID BIOSYNTHESIS	16	9	All SZGR 2.0 genes in this pathway
REACTOME BILE ACID AND BILE SALT METABOLISM	27	11	All SZGR 2.0 genes in this pathway
REACTOME SYNTHESIS OF BILE ACIDS AND BILE SALTS VIA 24 HYDROXYCHOLESTEROL	10	6	All SZGR 2.0 genes in this pathway
REACTOME SYNTHESIS OF BILE ACIDS AND BILE SALTS	19	9	All SZGR 2.0 genes in this pathway
REACTOME BIOLOGICAL OXIDATIONS	139	91	All SZGR 2.0 genes in this pathway
REACTOME CYTOCHROME P450 ARRANGED BY SUBSTRATE TYPE	51	34	All SZGR 2.0 genes in this pathway
REACTOME PHASE1 FUNCTIONALIZATION OF COMPOUNDS	70	50	All SZGR 2.0 genes in this pathway
REACTOME ENDOGENOUS STEROLS	15	10	All SZGR 2.0 genes in this pathway
REACTOME METABOLISM OF LIPIDS AND LIPOPROTEINS	478	302	All SZGR 2.0 genes in this pathway
PARENT MTOR SIGNALING UP	567	375	All SZGR 2.0 genes in this pathway
SHETH LIVER CANCER VS TXNIP LOSS PAM4	261	153	All SZGR 2.0 genes in this pathway
HELLER HDAC TARGETS UP	317	208	All SZGR 2.0 genes in this pathway
MEISSNER NPC HCP WITH H3K4ME2	491	319	All SZGR 2.0 genes in this pathway
MIKKELSEN MCV6 HCP WITH H3K27ME3	435	318	All SZGR 2.0 genes in this pathway
BRUINS UVC RESPONSE VIA TP53 GROUP B	549	316	All SZGR 2.0 genes in this pathway
PEDRIOLI MIR31 TARGETS DN	418	245	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	397	403	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-505	563	569	m8	hsa-miR-505	GUCAACACUUGCUGGUUUCCUC

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: CYP46A1