Browse WDR4

Summary
SymbolWDR4
NameWD repeat domain 4
Aliases TRM82; TRMT82; TRM82 tRNA methyltransferase 82 homolog (S. cerevisiae); TRM82 tRNA methyltransferase 82 homo ......
Chromosomal Location21q22.3
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
Domain PF00400 WD domain
Function

Required for the formation of N(7)-methylguanine at position 46 (m7G46) in tRNA. In the complex, it is required to stabilize and induce conformational changes of the catalytic subunit.

> Gene Ontology
 
Biological Process GO:0001510 RNA methylation
GO:0006399 tRNA metabolic process
GO:0006400 tRNA modification
GO:0008033 tRNA processing
GO:0009451 RNA modification
GO:0009452 7-methylguanosine RNA capping
GO:0030488 tRNA methylation
GO:0032259 methylation
GO:0034470 ncRNA processing
GO:0036260 RNA capping
GO:0036265 RNA (guanine-N7)-methylation
GO:0043414 macromolecule methylation
Molecular Function GO:0008168 methyltransferase activity
GO:0008173 RNA methyltransferase activity
GO:0008175 tRNA methyltransferase activity
GO:0008176 tRNA (guanine-N7-)-methyltransferase activity
GO:0008757 S-adenosylmethionine-dependent methyltransferase activity
GO:0016423 tRNA (guanine) methyltransferase activity
GO:0016741 transferase activity, transferring one-carbon groups
Cellular Component GO:0034708 methyltransferase complex
GO:0043527 tRNA methyltransferase complex
> KEGG and Reactome Pathway
 
KEGG -
Reactome R-HSA-74160: Gene Expression
R-HSA-6782315: tRNA modification in the nucleus and cytosol
R-HSA-72306: tRNA processing
Summary
SymbolWDR4
NameWD repeat domain 4
Aliases TRM82; TRMT82; TRM82 tRNA methyltransferase 82 homolog (S. cerevisiae); TRM82 tRNA methyltransferase 82 homo ......
Chromosomal Location21q22.3
External Links HGNC, NCBI, Ensembl, Uniprot, GeneCards
Content Literatures that report relations between WDR4 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 WDR4 and anti-tumor immunity in human cancer.
PMID Cancer type Relation to immunity Evidence sentences
28691927Lung CarcinomaInhibit immunityThe WDR4/PML axis induces a set of cell-surface or secreted factors, including CD73, urokinase-type plasminogen activator receptor (uPAR), and serum amyloid A2 (SAA2), which elicit paracrine effects to stimulate migration, invasion, and metastasis in multiple lung cancer models. Our study identifies WDR4 as an oncoprotein that negatively regulates PML via ubiquitination to promote lung cancer progression by fostering an immunosuppressive and prometastatic tumor microenvironment.
Summary
SymbolWDR4
NameWD repeat domain 4
Aliases TRM82; TRMT82; TRM82 tRNA methyltransferase 82 homolog (S. cerevisiae); TRM82 tRNA methyltransferase 82 homo ......
Chromosomal Location21q22.3
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 WDR4 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/NS NA/NS
29301958CRISPR-Cas9 melanomaB16F10OT-1 T cell NA/NS NA/NS
28783722CRISPR-Cas9 melanomaMel6242CT-CRISPR Second most enriched score: 0.55 Sensitive to T cell-mediated killing
28723893CRISPR-Cas9 melanomaB16GVAX+Anti-PD1 NA/NS NA/NS
28723893CRISPR-Cas9 melanomaB16GVAX NA/NS NA/NS
25691366RNAiBreast cancerMCF7Luc-CTL assay NA/NS NA/NS
24476824shRNAmelanomaB16Primary screen NA/NS NA/NS
24476824shRNAmelanomaB16Secondary screen NA/NS NA/NS
Summary
SymbolWDR4
NameWD repeat domain 4
Aliases TRM82; TRMT82; TRM82 tRNA methyltransferase 82 homolog (S. cerevisiae); TRM82 tRNA methyltransferase 82 homo ......
Chromosomal Location21q22.3
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 WDR4 in various data sets.
No PMID Cancer type Group Drug # Res # NRes Log2 (Fold Change) P value Anno
126997480MelanomaallAnti-PD-1 (pembrolizumab and nivolumab)1412-0.1270.601
226997480MelanomaMAPKiAnti-PD-1 (pembrolizumab and nivolumab)65-0.4470.777
326997480Melanomanon-MAPKiAnti-PD-1 (pembrolizumab and nivolumab)870.1020.933
428552987Urothelial cancerallAnti-PD-L1 (atezolizumab) 9160.3240.472
528552987Urothelial cancersmokingAnti-PD-L1 (atezolizumab) 590.4320.824
628552987Urothelial cancernon-smokingAnti-PD-L1 (atezolizumab) 470.1890.94
729033130MelanomaallAnti-PD-1 (nivolumab) 26230.0980.749
829033130MelanomaNIV3-PROGAnti-PD-1 (nivolumab) 1511-0.2480.811
929033130MelanomaNIV3-NAIVEAnti-PD-1 (nivolumab) 11120.5080.648
1029301960Clear cell renal cell carcinoma (ccRCC)allAnti-PD-1 (nivolumab) 480.7840.409
1129301960Clear cell renal cell carcinoma (ccRCC)VEGFRiAnti-PD-1 (nivolumab) 2001
1229301960Clear cell renal cell carcinoma (ccRCC)non-VEGFRiAnti-PD-1 (nivolumab) 281.1370.409
1329443960Urothelial cancerallAnti-PD-L1 (atezolizumab) 682300.1020.215
> Mutation difference between responders and non-responders
 
Points in the above scatter plot represent the mutation difference of WDR4 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) 27733.74.1-0.41
526359337MelanomaBRAFiAnti-CTLA-4 (ipilimumab) 0140001
626359337Melanomanon-BRAFiAnti-CTLA-4 (ipilimumab) 27593.75.1-1.41
726997480MelanomaallAnti-PD-1 (pembrolizumab and nivolumab)21174.804.81
826997480MelanomaMAPKiAnti-PD-1 (pembrolizumab and nivolumab)8612.5012.51
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) 38272.602.61
1429033130MelanomaNIV3-PROGAnti-PD-1 (nivolumab) 22134.504.51
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
SymbolWDR4
NameWD repeat domain 4
Aliases TRM82; TRMT82; TRM82 tRNA methyltransferase 82 homolog (S. cerevisiae); TRM82 tRNA methyltransferase 82 homo ......
Chromosomal Location21q22.3
External Links HGNC, NCBI, Ensembl, Uniprot, GeneCards
Content Relations between abundance of tumor-infiltrating lymphocytes (TILs) and expression, copy number, methylation, or mutation of WDR4. 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
SymbolWDR4
NameWD repeat domain 4
Aliases TRM82; TRMT82; TRM82 tRNA methyltransferase 82 homolog (S. cerevisiae); TRM82 tRNA methyltransferase 82 homo ......
Chromosomal Location21q22.3
External Links HGNC, NCBI, Ensembl, Uniprot, GeneCards
Content Relations between three kinds of immunomodulators and expression, copy number, methylation, or mutation of WDR4. These immunomo-dulators were collected from Charoentong's study. In this tab, users can examine which immunomodulators might be regulated by WDR4.
> Immunoinhibitor
> Immunostimulator
> MHC molecule
> Immunoinhibitor
 
> Immunostimulator
 
> MHC molecule
 
Summary
SymbolWDR4
NameWD repeat domain 4
Aliases TRM82; TRMT82; TRM82 tRNA methyltransferase 82 homolog (S. cerevisiae); TRM82 tRNA methyltransferase 82 homo ......
Chromosomal Location21q22.3
External Links HGNC, NCBI, Ensembl, Uniprot, GeneCards
Content Relations between chemokines (or receptors) and expression, copy number, methylation, or mutation of WDR4. In this tab, users can examine which chemokines (or receptors) might be regulated by the current gene.
> Chemokine
> Receptor
> Chemokine
 
> Receptor
 
Summary
SymbolWDR4
NameWD repeat domain 4
Aliases TRM82; TRMT82; TRM82 tRNA methyltransferase 82 homolog (S. cerevisiae); TRM82 tRNA methyltransferase 82 homo ......
Chromosomal Location21q22.3
External Links HGNC, NCBI, Ensembl, Uniprot, GeneCards
Content Distribution of WDR4 expression across immune and molecular subtypes.
> Immune subtype
> Molecular subtype
> Immune subtype
 
> Molecular subtype
 
Summary
SymbolWDR4
NameWD repeat domain 4
Aliases TRM82; TRMT82; TRM82 tRNA methyltransferase 82 homolog (S. cerevisiae); TRM82 tRNA methyltransferase 82 homo ......
Chromosomal Location21q22.3
External Links HGNC, NCBI, Ensembl, Uniprot, GeneCards
Content Associations between WDR4 and clinical features.
> Overall survival analysis
> Cancer stage
> Tumor grade
> Overall survival
 
> Stage
 
> Grade
 
Summary
SymbolWDR4
NameWD repeat domain 4
Aliases TRM82; TRMT82; TRM82 tRNA methyltransferase 82 homolog (S. cerevisiae); TRM82 tRNA methyltransferase 82 homo ......
Chromosomal Location21q22.3
External Links HGNC, NCBI, Ensembl, Uniprot, GeneCards
Content Drugs targeting WDR4 collected from DrugBank database.
> Drugs from DrugBank database
 

There is no record.