Browse CIRBP

Summary
SymbolCIRBP
Namecold inducible RNA binding protein
Aliases CIRP; Cold-inducible RNA-binding protein; glycine-rich RNA binding protein; cold inducible RNA-binding prote ......
Chromosomal Location19p13.3
External Links HGNC, NCBI, Ensembl, Uniprot, GeneCards
Content Basic function annotation.
> Subcellular Location, Domain and Function
> Gene Ontology
> KEGG and Reactome Pathway
> Subcellular Location, Domain and Function
 
Subcellular Location Nucleus, nucleoplasm Cytoplasm Note=Translocates from the nucleus to the cytoplasm after exposure to UV radiation. Translocates from the nucleus to the cytoplasm into stress granules upon various cytoplasmic stresses, such as osmotic and heat shocks. Its recruitment into stress granules occurs in the absence of TIAR proteins (By similarity).
Domain PF00076 RNA recognition motif. (a.k.a. RRM
Function

Cold-inducible mRNA binding protein that plays a protective role in the genotoxic stress response by stabilizing transcripts of genes involved in cell survival. Acts as a translational activator. Seems to play an essential role in cold-induced suppression of cell proliferation. Binds specifically to the 3'-untranslated regions (3'-UTRs) of stress-responsive transcripts RPA2 and TXN. Acts as a translational repressor (By similarity). Promotes assembly of stress granules (SGs), when overexpressed.

> Gene Ontology
 
Biological Process GO:0006417 regulation of translation
GO:0009266 response to temperature stimulus
GO:0009314 response to radiation
GO:0009409 response to cold
GO:0009411 response to UV
GO:0009416 response to light stimulus
GO:0010608 posttranscriptional regulation of gene expression
GO:0017148 negative regulation of translation
GO:0022613 ribonucleoprotein complex biogenesis
GO:0022618 ribonucleoprotein complex assembly
GO:0034063 stress granule assembly
GO:0034248 regulation of cellular amide metabolic process
GO:0034249 negative regulation of cellular amide metabolic process
GO:0034250 positive regulation of cellular amide metabolic process
GO:0043487 regulation of RNA stability
GO:0043488 regulation of mRNA stability
GO:0043489 RNA stabilization
GO:0045727 positive regulation of translation
GO:0048255 mRNA stabilization
GO:0071826 ribonucleoprotein complex subunit organization
Molecular Function GO:0003729 mRNA binding
GO:0003730 mRNA 3'-UTR binding
GO:0019843 rRNA binding
GO:0030371 translation repressor activity
GO:0045182 translation regulator activity
GO:0070181 small ribosomal subunit rRNA binding
Cellular Component GO:0010494 cytoplasmic stress granule
GO:0035770 ribonucleoprotein granule
GO:0036464 cytoplasmic ribonucleoprotein granule
> KEGG and Reactome Pathway
 
KEGG -
Reactome -
Summary
SymbolCIRBP
Namecold inducible RNA binding protein
Aliases CIRP; Cold-inducible RNA-binding protein; glycine-rich RNA binding protein; cold inducible RNA-binding prote ......
Chromosomal Location19p13.3
External Links HGNC, NCBI, Ensembl, Uniprot, GeneCards
Content Literatures that report relations between CIRBP and anti-tumor immunity. The specific mechanism were also collected if the literature reports that a gene specifically promotes or inhibits the infiltration or function of T/NK cells.
> Text Mining
 
  Literatures describing the relation between CIRBP and anti-tumor immunity in human cancer.
PMID Cancer type Relation to immunity Evidence sentences
29632721B16 Malignant MelanomaPromote immunity (T cell function); increase the efficacy of immunotherapyIn vitro, CIRP induced dendritic cell activation, migration and enhanced presentation of CIRP-bound antigens to T-cells.
Summary
SymbolCIRBP
Namecold inducible RNA binding protein
Aliases CIRP; Cold-inducible RNA-binding protein; glycine-rich RNA binding protein; cold inducible RNA-binding prote ......
Chromosomal Location19p13.3
External Links HGNC, NCBI, Ensembl, Uniprot, GeneCards
Content High-throughput screening data (e.g. CRISPR-Cas9, shRNA and RNAi) for T cell-mediated killing. Genetic screen techniques can identify mechanisms of tumor cell resistance (e.g., PTPN2) and sensitivity (e.g., APLNR) to killing by cytotoxic T cells, the central effectors of anti-tumor immunity. After comprehensively searching, eight groups of screening data sets were collected in the current database. In this tab, users can check whether their selected genes cause resistance or increase sensitivity to T cell-mediated killing in various data sets.
> High-throughput Screening
  Statistical results of CIRBP in screening data sets for detecting immune reponses.
PMID Screening System Cancer Type Cell Line Data Set Statistical Results Relation to immunity
29301958CRISPR-Cas9 melanomaB16F10Pmel-1 T cell NA/NSNA/NS
29301958CRISPR-Cas9 melanomaB16F10OT-1 T cell NA/NSNA/NS
28783722CRISPR-Cas9 melanomaMel6242CT-CRISPR NA/NSNA/NS
28723893CRISPR-Cas9 melanomaB16GVAX+Anti-PD1 NA/NSNA/NS
28723893CRISPR-Cas9 melanomaB16GVAX NA/NSNA/NS
25691366RNAiBreast cancerMCF7Luc-CTL assay NA/NSNA/NS
24476824shRNAmelanomaB16Primary screen NA/NSNA/NS
24476824shRNAmelanomaB16Secondary screen NA/NSNA/NS
Summary
SymbolCIRBP
Namecold inducible RNA binding protein
Aliases CIRP; Cold-inducible RNA-binding protein; glycine-rich RNA binding protein; cold inducible RNA-binding prote ......
Chromosomal Location19p13.3
External Links HGNC, NCBI, Ensembl, Uniprot, GeneCards
Content Transcriptomic and genomic profiling of pre-treated tumor biopsies from responders and non-responders to immunotherapy. These data were used to identify signatures and mechanisms of response to checkpoint blockade (e.g., anti-PDL1 and anti-PD1). One example is that mutations in the gene PBRM1 benefit clinical survival of patients with clear cell renal cell carcinoma. After comprehensively searching, we collected 5 and 6 of transcriptomic and genomic data sets, respectively. In this tab, users can check whether their selected genes have significant difference of expression or mutation between responders and non-responders in various data sets.
> Expression difference between responders and non-responders
> Mutation difference between responders and non-responders
> Expression difference between responders and non-responders
 
Points in the above scatter plot represent the expression difference of CIRBP in various data sets.
No PMID Cancer type Group Drug # Res # NRes Log2 (Fold Change) P value Anno
126997480MelanomaallAnti-PD-1 (pembrolizumab and nivolumab)14120.4850.121
226997480MelanomaMAPKiAnti-PD-1 (pembrolizumab and nivolumab)65-0.1790.96
326997480Melanomanon-MAPKiAnti-PD-1 (pembrolizumab and nivolumab)870.9740.705
428552987Urothelial cancerallAnti-PD-L1 (atezolizumab) 9160.3820.376
528552987Urothelial cancersmokingAnti-PD-L1 (atezolizumab) 590.0870.969
628552987Urothelial cancernon-smokingAnti-PD-L1 (atezolizumab) 470.7560.796
729033130MelanomaallAnti-PD-1 (nivolumab) 2623-0.310.468
829033130MelanomaNIV3-PROGAnti-PD-1 (nivolumab) 1511-0.1460.945
929033130MelanomaNIV3-NAIVEAnti-PD-1 (nivolumab) 1112-0.5470.821
1029301960Clear cell renal cell carcinoma (ccRCC)allAnti-PD-1 (nivolumab) 48-0.0470.987
1129301960Clear cell renal cell carcinoma (ccRCC)VEGFRiAnti-PD-1 (nivolumab) 2001
1229301960Clear cell renal cell carcinoma (ccRCC)non-VEGFRiAnti-PD-1 (nivolumab) 280.6330.879
1329443960Urothelial cancerallAnti-PD-L1 (atezolizumab) 68230-0.1210.0898
> Mutation difference between responders and non-responders
 
Points in the above scatter plot represent the mutation difference of CIRBP in various data sets.
No PMID Cancer type Group Drug # Res # NRes % Mut/Res % Mut/NRes % Diff (R vs NR) Pval Anno
125765070Non-small cell lung cancer (NSCLC)allAnti-PD-1 (pembrolizumab) 14170001
225765070Non-small cell lung cancer (NSCLC)smokingAnti-PD-1 (pembrolizumab) 1030001
325765070Non-small cell lung cancer (NSCLC)non-smokingAnti-PD-1 (pembrolizumab) 4140001
426359337MelanomaallAnti-CTLA-4 (ipilimumab) 27733.71.42.30.469
526359337MelanomaBRAFiAnti-CTLA-4 (ipilimumab) 0140001
626359337Melanomanon-BRAFiAnti-CTLA-4 (ipilimumab) 27593.71.720.532
726997480MelanomaallAnti-PD-1 (pembrolizumab and nivolumab)21170001
826997480MelanomaMAPKiAnti-PD-1 (pembrolizumab and nivolumab)860001
926997480Melanomanon-MAPKiAnti-PD-1 (pembrolizumab and nivolumab)13110001
1028552987Urothelial cancerallAnti-PD-L1 (atezolizumab) 9160001
1128552987Urothelial cancersmokingAnti-PD-L1 (atezolizumab) 590001
1228552987Urothelial cancernon-smokingAnti-PD-L1 (atezolizumab) 470001
1329033130MelanomaallAnti-PD-1 (nivolumab) 38270001
1429033130MelanomaNIV3-PROGAnti-PD-1 (nivolumab) 22130001
1529033130MelanomaNIV3-NAIVEAnti-PD-1 (nivolumab) 16140001
1629301960Clear cell renal cell carcinoma (ccRCC)allAnti-PD-1 (nivolumab) 11130001
1729301960Clear cell renal cell carcinoma (ccRCC)VEGFRiAnti-PD-1 (nivolumab) 610001
1829301960Clear cell renal cell carcinoma (ccRCC)non-VEGFRiAnti-PD-1 (nivolumab) 5120001
Summary
SymbolCIRBP
Namecold inducible RNA binding protein
Aliases CIRP; Cold-inducible RNA-binding protein; glycine-rich RNA binding protein; cold inducible RNA-binding prote ......
Chromosomal Location19p13.3
External Links HGNC, NCBI, Ensembl, Uniprot, GeneCards
Content Relations between abundance of tumor-infiltrating lymphocytes (TILs) and expression, copy number, methylation, or mutation of CIRBP. The immune-related signatures of 28 TIL types from Charoentong's study, which can be viewed in the download page. For each cancer type, the relative abundance of TILs were inferred by using gene set variation analysis (GSVA) based on gene expression profile. In this tab, users can examine which kinds of TILs might be regulated by the current gene.
> Lymphocyte
 
Summary
SymbolCIRBP
Namecold inducible RNA binding protein
Aliases CIRP; Cold-inducible RNA-binding protein; glycine-rich RNA binding protein; cold inducible RNA-binding prote ......
Chromosomal Location19p13.3
External Links HGNC, NCBI, Ensembl, Uniprot, GeneCards
Content Relations between three kinds of immunomodulators and expression, copy number, methylation, or mutation of CIRBP. These immunomo-dulators were collected from Charoentong's study. In this tab, users can examine which immunomodulators might be regulated by CIRBP.
> Immunoinhibitor
> Immunostimulator
> MHC molecule
> Immunoinhibitor
 
> Immunostimulator
 
> MHC molecule
 
Summary
SymbolCIRBP
Namecold inducible RNA binding protein
Aliases CIRP; Cold-inducible RNA-binding protein; glycine-rich RNA binding protein; cold inducible RNA-binding prote ......
Chromosomal Location19p13.3
External Links HGNC, NCBI, Ensembl, Uniprot, GeneCards
Content Relations between chemokines (or receptors) and expression, copy number, methylation, or mutation of CIRBP. In this tab, users can examine which chemokines (or receptors) might be regulated by the current gene.
> Chemokine
> Receptor
> Chemokine
 
> Receptor
 
Summary
SymbolCIRBP
Namecold inducible RNA binding protein
Aliases CIRP; Cold-inducible RNA-binding protein; glycine-rich RNA binding protein; cold inducible RNA-binding prote ......
Chromosomal Location19p13.3
External Links HGNC, NCBI, Ensembl, Uniprot, GeneCards
Content Distribution of CIRBP expression across immune and molecular subtypes.
> Immune subtype
> Molecular subtype
> Immune subtype
 
> Molecular subtype
 
Summary
SymbolCIRBP
Namecold inducible RNA binding protein
Aliases CIRP; Cold-inducible RNA-binding protein; glycine-rich RNA binding protein; cold inducible RNA-binding prote ......
Chromosomal Location19p13.3
External Links HGNC, NCBI, Ensembl, Uniprot, GeneCards
Content Associations between CIRBP and clinical features.
> Overall survival analysis
> Cancer stage
> Tumor grade
> Overall survival
 
> Stage
 
> Grade
 
Summary
SymbolCIRBP
Namecold inducible RNA binding protein
Aliases CIRP; Cold-inducible RNA-binding protein; glycine-rich RNA binding protein; cold inducible RNA-binding prote ......
Chromosomal Location19p13.3
External Links HGNC, NCBI, Ensembl, Uniprot, GeneCards
Content Drugs targeting CIRBP collected from DrugBank database.
> Drugs from DrugBank database
 

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