The expression patterns and the diagnostic/prognostic roles of PTPN family members in digestive tract cancers

Abstract

Background: Non-receptor protein tyrosine phosphatases (PTPNs) are a set of enzymes involved in the tyrosyl phosphorylation. The present study intended to clarify the associations between the expression patterns of PTPN family members, and diagnosis as well as the prognosis of digestive tract cancers. Methods: Oncomine and Ualcan were used to analyze PTPN expressions. Data from The Cancer Genome Atlas (TCGA) were downloaded through UCSC Xena for validation and to explore the relationship of the PTPN expression with diagnosis, clinicopathological parameters and survival of digestive tract cancers. Gene ontology enrichment analysis was conducted using the DAVID database. The gene-gene interaction network was performed by GeneMA-NIA and the protein-protein interaction (PPI) network was built using STRING portal coupled with Cytoscape. The expression of differentially expressed PTPNs in cancer cell lines were explored using CCLE. Moreover, by histological verification, the expression of four PTPNs in digestive tract cancers were further analyzed. Results: Most PTPN family members were associated with digestive tract cancers according to Oncomine, Ualcan and TCGA data. Several PTPN members were differentially expressed in digestive tract cancers. For esophageal carcinoma (ESCA), PTPN1 and PTPN12 levels were correlated with incidence; PTPN20 was associated with poor prognosis. For stomach adenocarcinoma (STAD), PTPN2 and PTPN12 levels were correlated with incidence; PTPN3, PTPN5, PTPN7, PTPN11, PTPN13, PTPN14, PTPN18 and PTPN23 were correlated with pathological grade; PTPN20 expression was related with both TNM stage and N stage; PTPN22 was associated with T stage and pathological grade; decreased expression of PTPN5 and PTPN13 implied worse overall survival of STAD, while elevated PTPN6 expression indicated better prognosis. For colorectal cancer (CRC), PTPN2, PTPN21 and PTPN22 levels were correlated with incidence; expression of PTPN5, PTPN12, and PTPN14 was correlated with TNM stage and N stage; high PTPN5 or PTPN7 expression was associated with increased hazards of death. CCLE analyses showed that in esophagus cancer cell lines, PTPN1, PTPN4 and PTPN12 were highly expressed; in gastric cancer cell lines, PTPN2 and PTPN12 were highly expressed; in colorectal cancer cell lines, PTPN12 was highly expressed while PTPN22 was downregulated. Results of histological verification experiment showed differential expressions of PTPN22 in CRC, and PTPN12 in GC and CRC. Conclusions: Members of PTPN family were differentially expressed in digestive tract cancers. Correlations were found between PTPN genes and clinicopathological parameters of patients. Expression of PTPN12 was upregulated

Three Prognostic Biomarkers Correlate With Immunotherapy Response in Bladder Urothelial Carcinoma

“…The prognostic value of 11 identi ed hub DEGs that were analyzed using the R survival package (26). PROGgenesV2 (http://genomics.jefferson.edu/proggene/ lter.php) is a web resource that allows researchers to study the correlations between genes and overall survival (OS) in multiple cancers based on TCGA and GEO data (27).…”

“…P<0.05 was considered to be statistically signi cant. In addition, we downloaded 33 cancer expression pro les with associated mutation data from TCGA, and assessed the association between the prognosis-related hub genes and TMB (26,34).…”

“…P<0.05 was considered to be statistically signi cant. In addition, we downloaded 33 cancer expression pro les with associated mutation data from TCGA, and assessed the association between the prognosis-related hub genes and TMB (26,34). TISIDB Analysis TISIDB (http://cis.hku.hk/TISIDB) is a publicly available resource that allows the user to explore the function of a gene and its role in tumor-immune features (35).…”

Silencing of PTPN18 Induced Ferroptosis in Endometrial Cancer Cells Through p-P38-Mediated GPX4/xCT Down-Regulation

“… 11 A considerable amount of literatures indicated that PTPN18 is involved in the progression of various cancers. PTPN18 is correlated with the pathological grade in digestive tract cancers 12 and independent prognostic factors in hepatocellular carcinoma. 13 The expression of PTPN18 increased in breast tumor, illustrating that PTPN18 might be a critical mediator in oncogenesis.…”

Combination of Sodium Cantharidinate with Cisplatin Synergistically Hampers Growth of Cervical Cancer

“…9 Among them, PTP nonreceptor type 1 (PTPN1, also known as PTP1B) has been revealed to be overexpressed in esophageal carcinoma, which was closely associated with incidence. 10 PTPN1 has been reported to be strongly associated with the development of various tumors, such as non-small cell lung cancer, 11 breast cancer 12 and glioma. 13 However, it has not been intensively studied in CC.…”