Gene Page: KDM4C

Summary ?
GeneID23081
SymbolKDM4C
SynonymsGASC1|JHDM3C|JMJD2C|TDRD14C
Descriptionlysine demethylase 4C
ReferenceMIM:605469|HGNC:HGNC:17071|Ensembl:ENSG00000107077|Ensembl:ENSG00000274527|Ensembl:ENSG00000282960|HPRD:12016|Vega:OTTHUMG00000019536Vega:OTTHUMG00000187508
Gene typeprotein-coding
Map location9p24.1
Pascal p-value1.313E-4
Fetal beta-0.567
DMG1 (# studies)
eGeneCerebellar Hemisphere
Cerebellum
SupportChromatin Remodeling Genes

Gene in Data Sources
Gene set name Method of gene setDescriptionInfo
CV:GWAScatGenome-wide Association StudiesThis data set includes 560 SNPs associated with schizophrenia. A total of 486 genes were mapped to these SNPs within 50kb.
CV:GWASdbGenome-wide Association StudiesGWASdb records for schizophrenia
CV:PGCnpGenome-wide Association StudyGWAS
DMG:Jaffe_2016Genome-wide DNA methylation analysisThis dataset includes 2,104 probes/CpGs associated with SZ patients (n=108) compared to 136 controls at Bonferroni-adjusted P < 0.05. 1

Section I. Genetics and epigenetics annotation

@Differentially methylated gene

ProbeChromosomePositionNearest geneP (dis)Beta (dis)FDR (dis)Study
cg1447381196757912KDM4C2.73E-9-0.0091.95E-6DMG:Jaffe_2016


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
TGFBRAP10.960.97
ZNF3980.960.96
URB10.960.97
DIP2C0.960.96
FOXK20.950.96
SEC16A0.950.96
ZNF3170.950.96
MTMR40.950.97
LDOC1L0.950.97
SEC24C0.950.96
Top 10 negatively co-expressed genes
GenePearson's Correlation Spearman's Correlation
AF347015.31-0.76-0.88
MT-CO2-0.75-0.88
AF347015.27-0.73-0.85
FXYD1-0.73-0.84
AF347015.33-0.72-0.82
MT-CYB-0.72-0.83
AF347015.8-0.72-0.86
HIGD1B-0.72-0.85
S100B-0.71-0.81
IFI27-0.70-0.81

Section V. Pathway annotation

Pathway namePathway size# SZGR 2.0 genes in pathwayInfo
PID AR PATHWAY 6146All SZGR 2.0 genes in this pathway
DAVICIONI MOLECULAR ARMS VS ERMS UP 332228All SZGR 2.0 genes in this pathway
RODRIGUES NTN1 TARGETS DN 158102All SZGR 2.0 genes in this pathway
PROVENZANI METASTASIS UP 194112All SZGR 2.0 genes in this pathway
SNIJDERS AMPLIFIED IN HEAD AND NECK TUMORS 3727All SZGR 2.0 genes in this pathway
DACOSTA UV RESPONSE VIA ERCC3 DN 855609All SZGR 2.0 genes in this pathway
NUYTTEN NIPP1 TARGETS UP 769437All SZGR 2.0 genes in this pathway
NUYTTEN EZH2 TARGETS UP 1037673All SZGR 2.0 genes in this pathway
PARK HSC VS MULTIPOTENT PROGENITORS DN 1812All SZGR 2.0 genes in this pathway
MENSE HYPOXIA UP 9871All SZGR 2.0 genes in this pathway
SU SALIVARY GLAND 169All SZGR 2.0 genes in this pathway
CUI TCF21 TARGETS 2 DN 830547All SZGR 2.0 genes in this pathway
BROWNE HCMV INFECTION 48HR UP 180125All SZGR 2.0 genes in this pathway
BROWNE HCMV INFECTION 18HR UP 178111All SZGR 2.0 genes in this pathway