Browse TDP1

Summary
SymbolTDP1
Nametyrosyl-DNA phosphodiesterase 1
Aliases FLJ11090; tyr-DNA phosphodiesterase 1
Chromosomal Location14q32.11
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 Cytoplasm
Domain PF06087 Tyrosyl-DNA phosphodiesterase
Function

DNA repair enzyme that can remove a variety of covalent adducts from DNA through hydrolysis of a 3'-phosphodiester bond, giving rise to DNA with a free 3' phosphate. Catalyzes the hydrolysis of dead-end complexes between DNA and the topoisomerase I active site tyrosine residue. Hydrolyzes 3'-phosphoglycolates on protruding 3' ends on DNA double-strand breaks due to DNA damage by radiation and free radicals. Acts on blunt-ended double-strand DNA breaks and on single-stranded DNA. Has low 3'exonuclease activity and can remove a single nucleoside from the 3'end of DNA and RNA molecules with 3'hydroxyl groups. Has no exonuclease activity towards DNA or RNA with a 3'phosphate.

> Gene Ontology
 
Biological Process GO:0000012 single strand break repair
GO:0006302 double-strand break repair
GO:0090305 nucleic acid phosphodiester bond hydrolysis
Molecular Function GO:0003697 single-stranded DNA binding
GO:0004518 nuclease activity
GO:0004527 exonuclease activity
GO:0008081 phosphoric diester hydrolase activity
GO:0017005 3'-tyrosyl-DNA phosphodiesterase activity
GO:0042578 phosphoric ester hydrolase activity
GO:0070259 tyrosyl-DNA phosphodiesterase activity
Cellular Component -
> KEGG and Reactome Pathway
 
KEGG -
Reactome R-HSA-5693532: DNA Double-Strand Break Repair
R-HSA-73894: DNA Repair
R-HSA-5693571: Nonhomologous End-Joining (NHEJ)
Summary
SymbolTDP1
Nametyrosyl-DNA phosphodiesterase 1
Aliases FLJ11090; tyr-DNA phosphodiesterase 1
Chromosomal Location14q32.11
External Links HGNC, NCBI, Ensembl, Uniprot, GeneCards
Content Literatures that report relations between TDP1 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
 

There is no record.

Summary
SymbolTDP1
Nametyrosyl-DNA phosphodiesterase 1
Aliases FLJ11090; tyr-DNA phosphodiesterase 1
Chromosomal Location14q32.11
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 TDP1 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
SymbolTDP1
Nametyrosyl-DNA phosphodiesterase 1
Aliases FLJ11090; tyr-DNA phosphodiesterase 1
Chromosomal Location14q32.11
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 TDP1 in various data sets.
No PMID Cancer type Group Drug # Res # NRes Log2 (Fold Change) P value Anno
126997480MelanomaallAnti-PD-1 (pembrolizumab and nivolumab)14120.0220.915
226997480MelanomaMAPKiAnti-PD-1 (pembrolizumab and nivolumab)650.3790.733
326997480Melanomanon-MAPKiAnti-PD-1 (pembrolizumab and nivolumab)87-0.2420.782
428552987Urothelial cancerallAnti-PD-L1 (atezolizumab) 9160.0840.78
528552987Urothelial cancersmokingAnti-PD-L1 (atezolizumab) 59-0.1790.901
628552987Urothelial cancernon-smokingAnti-PD-L1 (atezolizumab) 470.4240.833
729033130MelanomaallAnti-PD-1 (nivolumab) 2623-0.1280.635
829033130MelanomaNIV3-PROGAnti-PD-1 (nivolumab) 1511-0.2950.814
929033130MelanomaNIV3-NAIVEAnti-PD-1 (nivolumab) 11120.1030.938
1029301960Clear cell renal cell carcinoma (ccRCC)allAnti-PD-1 (nivolumab) 480.3490.735
1129301960Clear cell renal cell carcinoma (ccRCC)VEGFRiAnti-PD-1 (nivolumab) 2001
1229301960Clear cell renal cell carcinoma (ccRCC)non-VEGFRiAnti-PD-1 (nivolumab) 280.910.536
1329443960Urothelial cancerallAnti-PD-L1 (atezolizumab) 682300.1030.102
> Mutation difference between responders and non-responders
 
Points in the above scatter plot represent the mutation difference of TDP1 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) 277311.1011.10.0181
526359337MelanomaBRAFiAnti-CTLA-4 (ipilimumab) 0140001
626359337Melanomanon-BRAFiAnti-CTLA-4 (ipilimumab) 275911.1011.10.0286
726997480MelanomaallAnti-PD-1 (pembrolizumab and nivolumab)21174.804.81
826997480MelanomaMAPKiAnti-PD-1 (pembrolizumab and nivolumab)860001
926997480Melanomanon-MAPKiAnti-PD-1 (pembrolizumab and nivolumab)13117.707.71
1028552987Urothelial cancerallAnti-PD-L1 (atezolizumab) 91606.2-6.21
1128552987Urothelial cancersmokingAnti-PD-L1 (atezolizumab) 59011.1-11.11
1228552987Urothelial cancernon-smokingAnti-PD-L1 (atezolizumab) 470001
1329033130MelanomaallAnti-PD-1 (nivolumab) 38272.602.61
1429033130MelanomaNIV3-PROGAnti-PD-1 (nivolumab) 22130001
1529033130MelanomaNIV3-NAIVEAnti-PD-1 (nivolumab) 16146.206.21
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
SymbolTDP1
Nametyrosyl-DNA phosphodiesterase 1
Aliases FLJ11090; tyr-DNA phosphodiesterase 1
Chromosomal Location14q32.11
External Links HGNC, NCBI, Ensembl, Uniprot, GeneCards
Content Relations between abundance of tumor-infiltrating lymphocytes (TILs) and expression, copy number, methylation, or mutation of TDP1. 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
SymbolTDP1
Nametyrosyl-DNA phosphodiesterase 1
Aliases FLJ11090; tyr-DNA phosphodiesterase 1
Chromosomal Location14q32.11
External Links HGNC, NCBI, Ensembl, Uniprot, GeneCards
Content Relations between three kinds of immunomodulators and expression, copy number, methylation, or mutation of TDP1. These immunomo-dulators were collected from Charoentong's study. In this tab, users can examine which immunomodulators might be regulated by TDP1.
> Immunoinhibitor
> Immunostimulator
> MHC molecule
> Immunoinhibitor
 
> Immunostimulator
 
> MHC molecule
 
Summary
SymbolTDP1
Nametyrosyl-DNA phosphodiesterase 1
Aliases FLJ11090; tyr-DNA phosphodiesterase 1
Chromosomal Location14q32.11
External Links HGNC, NCBI, Ensembl, Uniprot, GeneCards
Content Relations between chemokines (or receptors) and expression, copy number, methylation, or mutation of TDP1. In this tab, users can examine which chemokines (or receptors) might be regulated by the current gene.
> Chemokine
> Receptor
> Chemokine
 
> Receptor
 
Summary
SymbolTDP1
Nametyrosyl-DNA phosphodiesterase 1
Aliases FLJ11090; tyr-DNA phosphodiesterase 1
Chromosomal Location14q32.11
External Links HGNC, NCBI, Ensembl, Uniprot, GeneCards
Content Distribution of TDP1 expression across immune and molecular subtypes.
> Immune subtype
> Molecular subtype
> Immune subtype
 
> Molecular subtype
 
Summary
SymbolTDP1
Nametyrosyl-DNA phosphodiesterase 1
Aliases FLJ11090; tyr-DNA phosphodiesterase 1
Chromosomal Location14q32.11
External Links HGNC, NCBI, Ensembl, Uniprot, GeneCards
Content Associations between TDP1 and clinical features.
> Overall survival analysis
> Cancer stage
> Tumor grade
> Overall survival
 
> Stage
 
> Grade
 
Summary
SymbolTDP1
Nametyrosyl-DNA phosphodiesterase 1
Aliases FLJ11090; tyr-DNA phosphodiesterase 1
Chromosomal Location14q32.11
External Links HGNC, NCBI, Ensembl, Uniprot, GeneCards
Content Drugs targeting TDP1 collected from DrugBank database.
> Drugs from DrugBank database
 

There is no record.