Browse COL13A1

Summary
SymbolCOL13A1
Namecollagen, type XIII, alpha 1
Aliases COLXIIIA1; Collagen alpha-1(XIII) chain
Chromosomal Location10q22
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 Cell membrane Single-pass type II membrane protein Cell junction, synapse, postsynaptic cell membrane
Domain PF01391 Collagen triple helix repeat (20 copies)
Function

Involved in cell-matrix and cell-cell adhesion interactions that are required for normal development. May participate in the linkage between muscle fiber and basement membrane. May play a role in endochondral ossification of bone and branching morphogenesis of lung. Binds heparin. At neuromuscular junctions, may play a role in acetylcholine receptor clustering (PubMed:26626625).

> Gene Ontology
 
Biological Process GO:0001501 skeletal system development
GO:0001503 ossification
GO:0001763 morphogenesis of a branching structure
GO:0001958 endochondral ossification
GO:0007160 cell-matrix adhesion
GO:0030198 extracellular matrix organization
GO:0030574 collagen catabolic process
GO:0031589 cell-substrate adhesion
GO:0032963 collagen metabolic process
GO:0036075 replacement ossification
GO:0043062 extracellular structure organization
GO:0044236 multicellular organism metabolic process
GO:0044243 multicellular organism catabolic process
GO:0044259 multicellular organismal macromolecule metabolic process
GO:0048705 skeletal system morphogenesis
GO:0060348 bone development
GO:0060349 bone morphogenesis
GO:0060350 endochondral bone morphogenesis
Molecular Function GO:0005539 glycosaminoglycan binding
GO:0008201 heparin binding
GO:1901681 sulfur compound binding
Cellular Component GO:0005581 collagen trimer
GO:0005600 collagen type XIII trimer
GO:0005788 endoplasmic reticulum lumen
GO:0030936 transmembrane collagen trimer
GO:0045211 postsynaptic membrane
GO:0097060 synaptic membrane
GO:0098794 postsynapse
> KEGG and Reactome Pathway
 
KEGG hsa04974 Protein digestion and absorption
Reactome R-HSA-1650814: Collagen biosynthesis and modifying enzymes
R-HSA-8948216: Collagen chain trimerization
R-HSA-1442490: Collagen degradation
R-HSA-1474290: Collagen formation
R-HSA-1474228: Degradation of the extracellular matrix
R-HSA-1474244: Extracellular matrix organization
R-HSA-216083: Integrin cell surface interactions
Summary
SymbolCOL13A1
Namecollagen, type XIII, alpha 1
Aliases COLXIIIA1; Collagen alpha-1(XIII) chain
Chromosomal Location10q22
External Links HGNC, NCBI, Ensembl, Uniprot, GeneCards
Content Literatures that report relations between COL13A1 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
SymbolCOL13A1
Namecollagen, type XIII, alpha 1
Aliases COLXIIIA1; Collagen alpha-1(XIII) chain
Chromosomal Location10q22
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 COL13A1 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
SymbolCOL13A1
Namecollagen, type XIII, alpha 1
Aliases COLXIIIA1; Collagen alpha-1(XIII) chain
Chromosomal Location10q22
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 COL13A1 in various data sets.
No PMID Cancer type Group Drug # Res # NRes Log2 (Fold Change) P value Anno
126997480MelanomaallAnti-PD-1 (pembrolizumab and nivolumab)1412-1.2230.0466
226997480MelanomaMAPKiAnti-PD-1 (pembrolizumab and nivolumab)65-1.6370.156
326997480Melanomanon-MAPKiAnti-PD-1 (pembrolizumab and nivolumab)87-0.9110.31
428552987Urothelial cancerallAnti-PD-L1 (atezolizumab) 916-0.7090.0577
528552987Urothelial cancersmokingAnti-PD-L1 (atezolizumab) 59-0.680.665
628552987Urothelial cancernon-smokingAnti-PD-L1 (atezolizumab) 47-0.7540.668
729033130MelanomaallAnti-PD-1 (nivolumab) 2623-0.020.97
829033130MelanomaNIV3-PROGAnti-PD-1 (nivolumab) 15110.0130.987
929033130MelanomaNIV3-NAIVEAnti-PD-1 (nivolumab) 11120.0120.989
1029301960Clear cell renal cell carcinoma (ccRCC)allAnti-PD-1 (nivolumab) 481.1460.368
1129301960Clear cell renal cell carcinoma (ccRCC)VEGFRiAnti-PD-1 (nivolumab) 2001
1229301960Clear cell renal cell carcinoma (ccRCC)non-VEGFRiAnti-PD-1 (nivolumab) 281.9690.248
1329443960Urothelial cancerallAnti-PD-L1 (atezolizumab) 68230-0.2490.0996
> Mutation difference between responders and non-responders
 
Points in the above scatter plot represent the mutation difference of COL13A1 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) 14177.107.10.452
225765070Non-small cell lung cancer (NSCLC)smokingAnti-PD-1 (pembrolizumab) 103100101
325765070Non-small cell lung cancer (NSCLC)non-smokingAnti-PD-1 (pembrolizumab) 4140001
426359337MelanomaallAnti-CTLA-4 (ipilimumab) 27733.72.711
526359337MelanomaBRAFiAnti-CTLA-4 (ipilimumab) 0140001
626359337Melanomanon-BRAFiAnti-CTLA-4 (ipilimumab) 27593.73.40.31
726997480MelanomaallAnti-PD-1 (pembrolizumab and nivolumab)211728.611.816.80.257
826997480MelanomaMAPKiAnti-PD-1 (pembrolizumab and nivolumab)86500500.0849
926997480Melanomanon-MAPKiAnti-PD-1 (pembrolizumab and nivolumab)131115.418.2-2.81
1028552987Urothelial cancerallAnti-PD-L1 (atezolizumab) 9160001
1128552987Urothelial cancersmokingAnti-PD-L1 (atezolizumab) 590001
1228552987Urothelial cancernon-smokingAnti-PD-L1 (atezolizumab) 470001
1329033130MelanomaallAnti-PD-1 (nivolumab) 382703.7-3.70.415
1429033130MelanomaNIV3-PROGAnti-PD-1 (nivolumab) 22130001
1529033130MelanomaNIV3-NAIVEAnti-PD-1 (nivolumab) 161407.1-7.10.467
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
SymbolCOL13A1
Namecollagen, type XIII, alpha 1
Aliases COLXIIIA1; Collagen alpha-1(XIII) chain
Chromosomal Location10q22
External Links HGNC, NCBI, Ensembl, Uniprot, GeneCards
Content Relations between abundance of tumor-infiltrating lymphocytes (TILs) and expression, copy number, methylation, or mutation of COL13A1. 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
SymbolCOL13A1
Namecollagen, type XIII, alpha 1
Aliases COLXIIIA1; Collagen alpha-1(XIII) chain
Chromosomal Location10q22
External Links HGNC, NCBI, Ensembl, Uniprot, GeneCards
Content Relations between three kinds of immunomodulators and expression, copy number, methylation, or mutation of COL13A1. These immunomo-dulators were collected from Charoentong's study. In this tab, users can examine which immunomodulators might be regulated by COL13A1.
> Immunoinhibitor
> Immunostimulator
> MHC molecule
> Immunoinhibitor
 
> Immunostimulator
 
> MHC molecule
 
Summary
SymbolCOL13A1
Namecollagen, type XIII, alpha 1
Aliases COLXIIIA1; Collagen alpha-1(XIII) chain
Chromosomal Location10q22
External Links HGNC, NCBI, Ensembl, Uniprot, GeneCards
Content Relations between chemokines (or receptors) and expression, copy number, methylation, or mutation of COL13A1. In this tab, users can examine which chemokines (or receptors) might be regulated by the current gene.
> Chemokine
> Receptor
> Chemokine
 
> Receptor
 
Summary
SymbolCOL13A1
Namecollagen, type XIII, alpha 1
Aliases COLXIIIA1; Collagen alpha-1(XIII) chain
Chromosomal Location10q22
External Links HGNC, NCBI, Ensembl, Uniprot, GeneCards
Content Distribution of COL13A1 expression across immune and molecular subtypes.
> Immune subtype
> Molecular subtype
> Immune subtype
 
> Molecular subtype
 
Summary
SymbolCOL13A1
Namecollagen, type XIII, alpha 1
Aliases COLXIIIA1; Collagen alpha-1(XIII) chain
Chromosomal Location10q22
External Links HGNC, NCBI, Ensembl, Uniprot, GeneCards
Content Associations between COL13A1 and clinical features.
> Overall survival analysis
> Cancer stage
> Tumor grade
> Overall survival
 
> Stage
 
> Grade
 
Summary
SymbolCOL13A1
Namecollagen, type XIII, alpha 1
Aliases COLXIIIA1; Collagen alpha-1(XIII) chain
Chromosomal Location10q22
External Links HGNC, NCBI, Ensembl, Uniprot, GeneCards
Content Drugs targeting COL13A1 collected from DrugBank database.
> Drugs from DrugBank database
 

There is no record.