Gene Page: CHST12

Summary ?
GeneID55501
SymbolCHST12
SynonymsC4S-2|C4ST-2|C4ST2
Descriptioncarbohydrate (chondroitin 4) sulfotransferase 12
ReferenceMIM:610129|HGNC:HGNC:17423|Ensembl:ENSG00000136213|HPRD:13056|
Gene typeprotein-coding
Map location7p22
Pascal p-value0.002
Sherlock p-value0.896
Fetal beta0.118
DMG2 (# studies)
eGeneMyers' cis & trans
Meta

Gene in Data Sources
Gene set name Method of gene setDescriptionInfo
CV:GWASdbGenome-wide Association StudiesGWASdb records for schizophrenia
CV:PGCnpGenome-wide Association StudyGWAS
DMG:Montano_2016Genome-wide DNA methylation analysisThis dataset includes 172 replicated associations between CpGs with schizophrenia. 2
DMG:vanEijk_2014Genome-wide DNA methylation analysisThis dataset includes 432 differentially methylated CpG sites corresponding to 391 unique transcripts between schizophrenia patients (n=260) and unaffected controls (n=250). 2

Section I. Genetics and epigenetics annotation

@Differentially methylated gene

ProbeChromosomePositionNearest geneP (dis)Beta (dis)FDR (dis)Study
cg1261926272480493CHST122.85E-60.0160.024DMG:Montano_2016
cg2474328372884365CHST124.572E-45.744DMG:vanEijk_2014

@eQTL annotation

SNP IDChromosomePositioneGeneGene Entrez IDpvalueqvalueTSS distanceeQTL type
rs16829545chr2151977407CHST12555012.377E-4trans
rs6797307chr38601563CHST12555010.12trans
rs6997759chr81184045CHST12555010.19trans
rs2766987chr9113667956CHST12555010.13trans
rs16955618chr1529937543CHST12555017.045E-6trans

Section II. Transcriptome annotation

General gene expression (GTEx)

Not available

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
GenePearson's Correlation Spearman's Correlation
C3orf570.860.81
AC112491.30.860.76
BTBD110.860.81
GRIA40.850.82
C1orf2010.830.79
STS0.830.78
TPD520.820.83
KCNC20.810.79
MAP7D20.800.82
OLFM30.800.86
Top 10 negatively co-expressed genes
GenePearson's Correlation Spearman's Correlation
SIGIRR-0.41-0.50
NME4-0.40-0.53
CDC42EP4-0.39-0.45
WDR86-0.38-0.40
EFEMP2-0.38-0.43
SMTN-0.37-0.45
SEMA4B-0.36-0.34
RPL23A-0.35-0.41
GPR125-0.35-0.32
C6orf48-0.35-0.29

Section V. Pathway annotation

Pathway namePathway size# SZGR 2.0 genes in pathwayInfo
KEGG GLYCOSAMINOGLYCAN BIOSYNTHESIS CHONDROITIN SULFATE 2216All SZGR 2.0 genes in this pathway
KEGG SULFUR METABOLISM 138All SZGR 2.0 genes in this pathway
REACTOME CHONDROITIN SULFATE BIOSYNTHESIS 2115All SZGR 2.0 genes in this pathway
REACTOME CHONDROITIN SULFATE DERMATAN SULFATE METABOLISM 4933All SZGR 2.0 genes in this pathway
REACTOME GLYCOSAMINOGLYCAN METABOLISM 11169All SZGR 2.0 genes in this pathway
REACTOME METABOLISM OF CARBOHYDRATES 247154All SZGR 2.0 genes in this pathway
HUTTMANN B CLL POOR SURVIVAL UP 276187All SZGR 2.0 genes in this pathway
TONKS TARGETS OF RUNX1 RUNX1T1 FUSION HSC DN 187115All SZGR 2.0 genes in this pathway
GROSS HYPOXIA VIA ELK3 UP 209139All SZGR 2.0 genes in this pathway
GEORGES TARGETS OF MIR192 AND MIR215 893528All SZGR 2.0 genes in this pathway
NIKOLSKY BREAST CANCER 7P22 AMPLICON 3827All SZGR 2.0 genes in this pathway
TOYOTA TARGETS OF MIR34B AND MIR34C 463262All SZGR 2.0 genes in this pathway
BLUM RESPONSE TO SALIRASIB DN 342220All SZGR 2.0 genes in this pathway
CHEN METABOLIC SYNDROM NETWORK 1210725All SZGR 2.0 genes in this pathway
MILI PSEUDOPODIA CHEMOTAXIS DN 457302All SZGR 2.0 genes in this pathway
VALK AML CLUSTER 9 3526All SZGR 2.0 genes in this pathway
WIERENGA STAT5A TARGETS DN 213127All SZGR 2.0 genes in this pathway
ACOSTA PROLIFERATION INDEPENDENT MYC TARGETS DN 11674All SZGR 2.0 genes in this pathway
ZWANG TRANSIENTLY UP BY 2ND EGF PULSE ONLY 1725838All SZGR 2.0 genes in this pathway