Gene Page:NLRC5

Summary?
GeneID 84166
Symbol NLRC5
Synonyms CLR16.1|NOD27|NOD4
Description NLR family, CARD domain containing 5
Reference MIM:613537|HGNC:HGNC:29933|Ensembl:ENSG00000140853|HPRD:14831|Vega:OTTHUMG00000133470
Gene type protein-coding
Map location 16q13
Pascal p-value 0.061
TADA p-value 0.005
Fetal beta -1.074
DMG 1 (# studies)
Support CompositeSet

Gene in Data Sources
Gene set name Method of gene set Description Info
CV:GWAScat Genome-wide Association Studies This data set includes 560 SNPs associated with schizophrenia. A total of 486 genes were mapped to these SNPs within 50kb.
CV:GWASdb Genome-wide Association Studies GWASdb records for schizophrenia
CV:PGCnp Genome-wide Association Study GWAS
DMG:Wockner_2014 Genome-wide DNA methylation analysis This dataset includes 4641 differentially methylated probes corresponding to 2929 unique genes between schizophrenia patients (n=24) and controls (n=24). 1
认为:Fromer_2014 Whole Exome Sequencing analysis This study reported a WES study of 623 schizophrenia trios, reporting DNMs using genomic DNA.
认为:Xu_2012 Whole Exome Sequencing analysis 新创4基因的突变identified by exome sequencing of 795 samples in this study

Section I. Genetics and epigenetics annotation

@认为table

Gene Chromosome Position Ref Alt Transcript AA change Mutation type Sift CG46 Trait Study
NLRC5 chr16 57054730 C T NM_032206 p.36L>F missense Schizophrenia 认为:Fromer_2014
NLRC5 chr16 57074615 G A NM_032206 p.975S>N missense Schizophrenia 认为:Fromer_2014
NLRC5 chr16 57095444 G N NM_032206
NM_032206		 .
.		 intronic
splice-donor-in2		 Schizophrenia 认为:Xu_2012

@Differentially methylated gene

Probe Chromosome Position Nearest gene P (dis) Beta (dis) FDR (dis) Study
cg06181531 16 57023355 NLRC5 2.386E-4 -0.377 0.037 DMG:Wockner_2014


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.

No co-expressed genes in brain regions


Section V. Pathway annotation

Pathway name Pathway size # SZGR 2.0 genes in pathway Info
REACTOME NEGATIVE REGULATORS OF RIG I MDA5 SIGNALING 31 19 All SZGR 2.0 genes in this pathway
REACTOME RIG I MDA5 MEDIATED INDUCTION OF IFN ALPHA BETA PATHWAYS 73 57 All SZGR 2.0 genes in this pathway
REACTOME INNATE IMMUNE SYSTEM 279 178 All SZGR 2.0 genes in this pathway
REACTOME IMMUNE SYSTEM 933 616 All SZGR 2.0 genes in this pathway
WATANABE ULCERATIVE COLITIS WITH CANCER DN 14 9 All SZGR 2.0 genes in this pathway
ROYLANCE BREAST CANCER 16Q COPY NUMBER UP 63 44 All SZGR 2.0 genes in this pathway
RICKMAN METASTASIS DN 261 155 All SZGR 2.0 genes in this pathway
SANA RESPONSE TO IFNG UP 78 50 All SZGR 2.0 genes in this pathway
RODWELL AGING KIDNEY UP 487 303 All SZGR 2.0 genes in this pathway
FOSTER TOLERANT MACROPHAGE DN 409 268 All SZGR 2.0 genes in this pathway
FUJII YBX1 TARGETS UP 43 28 All SZGR 2.0 genes in this pathway
LEE EARLY T LYMPHOCYTE DN 57 36 All SZGR 2.0 genes in this pathway
YOSHIOKA LIVER CANCER EARLY RECURRENCE UP 40 23 All SZGR 2.0 genes in this pathway
SENGUPTA EBNA1 ANTICORRELATED 173 85 All SZGR 2.0 genes in this pathway
JOHNSTONE PARVB TARGETS 3 UP 430 288 All SZGR 2.0 genes in this pathway
DUAN PRDM5 TARGETS 79 52 All SZGR 2.0 genes in this pathway
TORCHIA TARGETS OF EWSR1 FLI1 FUSION DN 321 200 All SZGR 2.0 genes in this pathway