Summary ?
GeneID22984
SymbolPDCD11
SynonymsALG-4|ALG4|NFBP|RRP5
Descriptionprogrammed cell death 11
ReferenceMIM:612333|HGNC:HGNC:13408|Ensembl:ENSG00000148843|HPRD:18752|Vega:OTTHUMG00000018988
Gene typeprotein-coding
Map location10q24.33
Pascal p-value0.002
Sherlock p-value0.184
Fetal beta0.752
DMG1 (# studies)
SupportCompositeSet
Ascano FMRP targets

Gene in Data Sources
Gene set name Method of gene setDescriptionInfo
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. 2
DMG:Wockner_2014Genome-wide DNA methylation analysisThis dataset includes 4641 differentially methylated probes corresponding to 2929 unique genes between schizophrenia patients (n=24) and controls (n=24). 2
DNM:Fromer_2014Whole Exome Sequencing analysisThis study reported a WES study of 623 schizophrenia trios, reporting DNMs using genomic DNA.
LK:YESGenome-wide Association StudyThis data set included 99 genes mapped to the 22 regions. The 24 leading SNPs were also included in CV:Ripke_2013

Section I. Genetics and epigenetics annotation

@DNM table

GeneChromosomePositionRefAltTranscriptAA changeMutation typeSiftCG46TraitStudy
PDCD11chr10105184868GANM_014976p.964R>HmissenseSchizophreniaDNM:Fromer_2014

@Differentially methylated gene

ProbeChromosomePositionNearest geneP (dis)Beta (dis)FDR (dis)Study
cg0416584010105156204USMG5;PDCD114.025E-4-0.1830.044DMG:Wockner_2014
cg2671902410105156444PDCD118.57E-10-0.0141.08E-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
SMAP20.930.90
SGIP10.920.92
FBXO340.920.89
CNKSR20.910.89
MAPK90.910.89
PARK20.900.88
CAP20.900.89
NMT10.900.88
FAM179B0.900.88
CDC400.890.89
Top 10 negatively co-expressed genes
GenePearson's Correlation Spearman's Correlation
AF347015.21-0.51-0.35
RAB34-0.50-0.55
AF347015.18-0.48-0.32
C1orf61-0.48-0.53
DBI-0.47-0.51
AP002478.3-0.47-0.45
C1orf54-0.47-0.45
RHOC-0.47-0.53
GNG11-0.46-0.41
IL32-0.46-0.40

Section V. Pathway annotation

Pathway namePathway size# SZGR 2.0 genes in pathwayInfo
COLDREN GEFITINIB RESISTANCE UP 8557All SZGR 2.0 genes in this pathway
LAU APOPTOSIS CDKN2A UP 5540All SZGR 2.0 genes in this pathway
WELCSH BRCA1 TARGETS DN 14192All SZGR 2.0 genes in this pathway
KRIGE RESPONSE TO TOSEDOSTAT 6HR UP 953554All SZGR 2.0 genes in this pathway
KRIGE RESPONSE TO TOSEDOSTAT 6HR DN 911527All SZGR 2.0 genes in this pathway
KRIGE RESPONSE TO TOSEDOSTAT 24HR DN 1011592All SZGR 2.0 genes in this pathway
MONNIER POSTRADIATION TUMOR ESCAPE UP 393244All SZGR 2.0 genes in this pathway
MARZEC IL2 SIGNALING UP 11580All SZGR 2.0 genes in this pathway
GRADE METASTASIS DN 4531All SZGR 2.0 genes in this pathway
MILI PSEUDOPODIA HAPTOTAXIS DN 668419All SZGR 2.0 genes in this pathway
CAIRO HEPATOBLASTOMA CLASSES UP 605377All SZGR 2.0 genes in this pathway
DUTERTRE ESTRADIOL RESPONSE 6HR UP 229149All SZGR 2.0 genes in this pathway
ACOSTA PROLIFERATION INDEPENDENT MYC TARGETS UP 8451All SZGR 2.0 genes in this pathway
LEE BMP2 TARGETS DN 882538All SZGR 2.0 genes in this pathway
ALFANO MYC TARGETS 239156All SZGR 2.0 genes in this pathway
ROESSLER LIVER CANCER METASTASIS DN 5329All SZGR 2.0 genes in this pathway