Gene Page:CAPN9

Summary?
GeneID 10753
Symbol CAPN9
Synonyms GC36|nCL-4
Description calpain 9
Reference MIM:606401|HGNC:HGNC:1486|Ensembl:ENSG00000135773|HPRD:05909|Vega:OTTHUMG00000037779
Gene type protein-coding
Map location 1q42.11-q42.3
TADA p-value 0.013
Fetal beta -0.136
eGene Caudate basal ganglia
Cerebellum
Cortex
Frontal Cortex BA9
Putamen basal ganglia
元
Support CompositeSet

Gene in Data Sources
Gene set name Method of gene set Description Info
CV:PGCnp Genome-wide Association Study GWAS
DNM:Fromer_2014 Whole Exome Sequencing analysis This study reported a WES study of 623 schizophrenia trios, reporting DNMs using genomic DNA.

Section I. Genetics and epigenetics annotation

@DNM table

Gene Chromosome Position Ref Alt Transcript AA change Mutation type Sift CG46 Trait Study
CAPN9 chr1 230903336 A G NM_006615
NM_016452		 p.196M>V
p.196M>V		 missense
missense		 Schizophrenia DNM:Fromer_2014

@eQTL annotation

SNP ID Chromosome Position eGene Gene Entrez ID pvalue qvalue TSS distance eQTL type
rs11579420 1 230896238 CAPN9 ENSG00000135773.8 2.40106E-7 0.01 13108 gtex_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
死神:胎儿(13 - 26 postconception周),圣2: 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
CHRNA1 0.56 0.28
METTL7B 0.48 0.29
KCNJ13 0.47 0.27
CP 0.47 0.31
CLIC6 0.46 0.31
F5 0.46 0.34
AQP1 0.46 0.38
TMEM27 0.46 0.18
PLBD1 0.45 0.29
SLC5A5 0.44 0.31
Top 10 negatively co-expressed genes
Gene Pearson'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 name Pathway size # SZGR 2.0 genes in pathway Info
SENGUPTA NASOPHARYNGEAL CARCINOMA DN 349 157 All SZGR 2.0 genes in this pathway
CHARAFE BREAST CANCER LUMINAL VS BASAL UP 380 215 All SZGR 2.0 genes in this pathway
VECCHI GASTRIC CANCER ADVANCED VS EARLY DN 138 70 All SZGR 2.0 genes in this pathway
DODD NASOPHARYNGEAL CARCINOMA UP 1821 933 All SZGR 2.0 genes in this pathway
GOZGIT ESR1 TARGETS DN 781 465 All SZGR 2.0 genes in this pathway
FARMER BREAST CANCER BASAL VS LULMINAL 330 215 All SZGR 2.0 genes in this pathway
JAZAG TGFB1 SIGNALING UP 108 69 All SZGR 2.0 genes in this pathway
ABBUD LIF SIGNALING 1 DN 26 17 All SZGR 2.0 genes in this pathway
SANSOM APC TARGETS DN 366 238 All SZGR 2.0 genes in this pathway
CREIGHTON ENDOCRINE THERAPY RESISTANCE 5 482 296 All SZGR 2.0 genes in this pathway
SMID BREAST CANCER RELAPSE IN BONE UP 97 61 All SZGR 2.0 genes in this pathway
SMID BREAST CANCER BASAL DN 701 446 All SZGR 2.0 genes in this pathway
MARTENS TRETINOIN RESPONSE UP 857 456 All SZGR 2.0 genes in this pathway
FEVR CTNNB1 TARGETS UP 682 433 All SZGR 2.0 genes in this pathway
WAKABAYASHI ADIPOGENESIS PPARG RXRA BOUND 8D 882 506 All SZGR 2.0 genes in this pathway
ZWANG TRANSIENTLY UP BY 2ND EGF PULSE ONLY 1725 838 All SZGR 2.0 genes in this pathway