Gene Page: CAPN9

Summary ?
GeneID10753
SymbolCAPN9
SynonymsGC36|nCL-4
Descriptioncalpain 9
ReferenceMIM:606401|HGNC:HGNC:1486|Ensembl:ENSG00000135773|HPRD:05909|Vega:OTTHUMG00000037779
Gene typeprotein-coding
Map location1q42.11-q42.3
TADA p-value0.013
Fetal beta-0.136
eGeneCaudate basal ganglia
Cerebellum
Cortex
Frontal Cortex BA9
Putamen basal ganglia
Meta
SupportCompositeSet

Gene in Data Sources
Gene set name Method of gene setDescriptionInfo
CV:PGCnpGenome-wide Association StudyGWAS
DNM:Fromer_2014Whole Exome Sequencing analysisThis study reported a WES study of 623 schizophrenia trios, reporting DNMs using genomic DNA.

Section I. Genetics and epigenetics annotation

@DNM table

GeneChromosomePositionRefAltTranscriptAA changeMutation typeSiftCG46TraitStudy
CAPN9chr1230903336AGNM_006615
NM_016452		p.196M>V
p.196M>V		missense
missense		SchizophreniaDNM:Fromer_2014

@eQTL annotation

SNP IDChromosomePositioneGeneGene Entrez IDpvalueqvalueTSS distanceeQTL type
rs115794201230896238CAPN9ENSG00000135773.82.40106E-70.0113108gtex_brain_putamen_basal

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
CHRNA10.560.28
METTL7B0.480.29
KCNJ130.470.27
CP0.470.31
CLIC60.460.31
F50.460.34
AQP10.460.38
TMEM270.460.18
PLBD10.450.29
SLC5A50.440.31
Top 10 negatively co-expressed genes
GenePearson's Correlation Spearman's Correlation
SH2D2A-0.26-0.41
SEMA4C-0.26-0.34
ZBTB12-0.25-0.30
KIAA1949-0.25-0.28
SH2B2-0.24-0.36
SH3BP2-0.24-0.36
FAM129B-0.24-0.36
SLC16A13-0.24-0.33
FBXO46-0.24-0.31
C21orf30-0.24-0.29

Section V. Pathway annotation

Pathway namePathway size# SZGR 2.0 genes in pathwayInfo
SENGUPTA NASOPHARYNGEAL CARCINOMA DN 349157All SZGR 2.0 genes in this pathway
CHARAFE BREAST CANCER LUMINAL VS BASAL UP 380215All SZGR 2.0 genes in this pathway
VECCHI GASTRIC CANCER ADVANCED VS EARLY DN 13870All SZGR 2.0 genes in this pathway
DODD NASOPHARYNGEAL CARCINOMA UP 1821933All SZGR 2.0 genes in this pathway
GOZGIT ESR1 TARGETS DN 781465All SZGR 2.0 genes in this pathway
FARMER BREAST CANCER BASAL VS LULMINAL 330215All SZGR 2.0 genes in this pathway
JAZAG TGFB1 SIGNALING UP 10869All SZGR 2.0 genes in this pathway
ABBUD LIF SIGNALING 1 DN 2617All SZGR 2.0 genes in this pathway
SANSOM APC TARGETS DN 366238All SZGR 2.0 genes in this pathway
CREIGHTON ENDOCRINE THERAPY RESISTANCE 5 482296All SZGR 2.0 genes in this pathway
SMID BREAST CANCER RELAPSE IN BONE UP 9761All SZGR 2.0 genes in this pathway
SMID BREAST CANCER BASAL DN 701446All SZGR 2.0 genes in this pathway
MARTENS TRETINOIN RESPONSE UP 857456All SZGR 2.0 genes in this pathway
FEVR CTNNB1 TARGETS UP 682433All SZGR 2.0 genes in this pathway
WAKABAYASHI ADIPOGENESIS PPARG RXRA BOUND 8D 882506All SZGR 2.0 genes in this pathway
ZWANG TRANSIENTLY UP BY 2ND EGF PULSE ONLY 1725838All SZGR 2.0 genes in this pathway