scholarly journals Comprehensive Analysis of Prognostic Value and Immune Infiltration of Chromobox Family Members in Colorectal Cancer

2020 ◽  
Vol 10 ◽  
Author(s):  
Qingshang Li ◽  
Yi Pan ◽  
Zhijun Cao ◽  
Shuliang Zhao
Keyword(s):  
Colorectal Cancer ◽  
Prognostic Value ◽  
Family Members ◽  
Comprehensive Analysis ◽  
Immune Infiltration

scholarly journals Comprehensive Analysis of the Expression, Prognostic Value and Correlations with Immune Infiltration of PBX Family Members in Colorectal Cancer

2021 ◽  
Author(s):  
Yanping Hu ◽  
Yihang Shen
Keyword(s):  
Colorectal Cancer ◽  
T Cells ◽  
Cancer Patients ◽  
Prognostic Value ◽  
Interaction Analysis ◽  
Family Members ◽  
Disease Free Survival ◽  
Tumor Stage ◽  
Immune Infiltration ◽  
Colorectal Cancer Patients

Abstract Background: Colorectal cancer is the third commonest cancer and the second leading cause of cancer deaths globally. The Pre-B-cell leukemia transcription factor (PBX) family plays an essential biological role in the growth and development of the organism. PBX genes have been found to be implicated in the tumorigenesis of a variety of human tumors through multiple pathways, but its function in colorectal cancer is unclear. Methods: The expression pattern, prognostic value and relationship with immune infiltration of PBX genes in patients with colorectal cancer were investigated using the Oncomine, GEPIA, Kaplan-Meier Plotter and TIMER databases. In addition, gene mutation and interaction analysis of PBX family members in colorectal cancer patients using cBioPortal and GeneMANIA databases, respectively.Results: We revealed that a significantly lower expression level of PBX1, PBX2 and PBX3 in colorectal cancer tissues than in normal tissues, and the expression levels of PBX1 and PBX2 were significantly correlated with clinical tumor stage. Furthermore, survival analysis showed that high transcript levels of PBX4 were associated with overall survival in colon cancer patients, while low levels of PBX2 predicted improved disease-free survival in rectal cancer patients. In addition, in colon and rectal cancers, PBX proteins were notably associated with infiltration of multiple immune cells, including CD4+ T cells, CD8+ T cells, macrophages, neutrophils, B cells, and dendritic cells.Conclusion: These findings implies that PBX1 and PBX3 are potential targets for precision therapy of colorectal cancer patients and that PBX2 and PBX4 may be new prognostic markers for colorectal cancer patients.

scholarly journals Interferon regulatory factor family influences tumor immunity and prognosis of patients with colorectal cancer

2021 ◽  
Vol 19 (1) ◽  
Author(s):  
Yan-Jie Chen ◽  
Shu-Neng Luo ◽  
Ling Dong ◽  
Tao-Tao Liu ◽  
Xi-Zhong Shen ◽  
...  
Keyword(s):  
Gene Expression ◽  
Colorectal Cancer ◽  
Noncoding Rna ◽  
Immune Cell ◽  
Family Members ◽  
Interferon Regulatory Factor ◽  
The Cancer Genome Atlas ◽  
Regulatory Factor ◽  
Clinical Prognosis ◽  
Immune Infiltration

Abstract Background Since interferon regulatory factor (IRF) family functions in immune response to viral infection, its role in colorectal cancer (CRC) has not been inspected before. This study tries to investigate members of IRF family using bioinformatics approaches in aspect of differential expressions, biological function, tumor immune infiltration and clinical prognostic value for patients with CRC. Methods Transcriptome profiles data, somatic mutations and clinical information of CRC were obtained from COAD/READ dataset of The Cancer Genome Atlas (TCGA) as a training set. Gene expression data (GSE17536 and GSE39582) were downloaded from the Gene Expression Omnibus as a validating set. A random forest algorithm was used to score the risk for every case. Analyzing gene and function enrichment, constructing protein–protein interaction and noncoding RNA network, identifying hub-gene, characterizing tumor immune infiltration, evaluating differences in tumor mutational burden (TMB) and sensitivity to chemotherapeutics or immunotherapy were performed by a series of online tools and R packages. Immunohistochemical (IHC) examinations were carried out validation in tissue samples. Results Principal-component analysis (PCA) suggested that the transcript expression levels of nine members of IRF family differed between normal colorectum and CRC. The risk score constructed by IRF family not only acted as an independent factor for predicting survival in CRC patients with different biological processes, signaling pathways and TMB, but also indicated different immunotherapy response with diverse immune and stromal cells infiltration. IRF3 and IRF7 were upregulated in CRC and suggested a shorter survival time in patients with CRC. Differentially expressed members of IRF family exhibited varying degrees of immune cell infiltration. IHC analysis showed a positive association between IRF3 and IRF7 expression and tumor-infiltrating immune cells, including CD4+ T cell and CD68+ macrophages. Conclusions On account of differential expression, IRF family members can help to predict both response to immunotherapy and clinical prognosis of patients with CRC. Our bioinformatic investigation not only gives a preliminary picture of the genetic features as well as tumor microenvironment, but it may provide a clue for further experimental exploration and verification on IRF family members in CRC.

scholarly journals Prognostic Value of the Pretreatment Systemic Immune-Inflammation Index in Patients with Colorectal Cancer

2020 ◽  
Vol 2020 ◽  
pp. 1-8
Author(s):  
Jing Li ◽  
Jingjing Shao ◽  
Xunlei Zhang ◽  
Xin Chen ◽  
Wenjing Zhao ◽  
...  
Keyword(s):  
Colorectal Cancer ◽  
Prognostic Value ◽  
Disease Free Survival ◽  
Progression Free Survival ◽  
Comprehensive Analysis ◽  
Cochrane Library ◽  
Free Survival ◽  
Immune Inflammation ◽  
The Cochrane Library ◽  
Disease Free

Background. Multiple studies have reported the significance of the systemic immune-inflammation index (SII) in the prognosis of colorectal cancer (CRC), but no consensus has yet been reached. The purpose of this study was to systematically assess the prognostic value of SII in patients with CRC. Materials and Methods. We performed a systematic literature search in PubMed, Embase, and the Cochrane Library for eligible studies. The correlation between pretreatment SII and overall survival (OS), disease-free survival (DFS), and progression-free survival (PFS) in CRC patients was evaluated by combining the hazard ratio (HR) and 95% confidence interval (CI). Results. Twelve studies involving 3919 patients were included. Comprehensive analysis results showed that high SII indicated poor OS in CRC patients ( HR = 1.777 , 95% CI: 1.328-2.376). Compared with patients with low SII values, patients with high SII had lower PFS ( HR = 1.658 , 95% CI: 1.189-2.311). Subgroup analysis further verified the above results. Conclusions. SII may be a noninvasive and powerful tool for predicting survival outcomes in CRC patients. However, more well-designed studies are needed to validate our findings.

scholarly journals Comprehensive analysis of the prognosis and immune infiltration for CXC chemokines in colorectal cancer

Aging ◽  
2021 ◽  
Author(s):  
Xi Yang ◽  
Yuanfeng Wei ◽  
Feng Sheng ◽  
Yirong Xu ◽  
Jiao Liu ◽  
...  
Keyword(s):  
Colorectal Cancer ◽  
Comprehensive Analysis ◽  
Immune Infiltration

Comprehensive analysis of the expression and prognostic value of CXC chemokines in colorectal cancer

2020 ◽  
Vol 89 ◽  
pp. 107077
Author(s):  
Li Yu ◽  
Xinmei Yang ◽  
Chuchu Xu ◽  
Jiachun Sun ◽  
Zhipeng Fang ◽  
...  
Keyword(s):  
Colorectal Cancer ◽  
Prognostic Value ◽  
Comprehensive Analysis

scholarly journals Integrative analysis of prognostic value and immune infiltration of spindle and kinetochore-associated family members in breast cancer

Bioengineered ◽  
2021 ◽  
Vol 12 (2) ◽  
pp. 10905-10923
Author(s):  
Jianfeng Ding ◽  
Xiaobo He ◽  
Jinkun Wang ◽  
Guodong Cao ◽  
Sihan Chen ◽  
...  
Keyword(s):  
Breast Cancer ◽  
Prognostic Value ◽  
Family Members ◽  
Integrative Analysis ◽  
Immune Infiltration ◽  
Associated Family

scholarly journals Comprehensive Analysis of Prognostic Significance and Immune Infiltration for FAM83 Family in Cervical Cancer

2021 ◽  
Author(s):  
Yue Qi ◽  
Yue Wang
Keyword(s):  
Cervical Cancer ◽  
Targeted Therapy ◽  
Signaling Pathway ◽  
Prognostic Value ◽  
Family Members ◽  
High Expression ◽  
Biological Behavior ◽  
Peptidase Activity ◽  
Immune Infiltration ◽  
Tumor Stages

Abstract Background: This study aimed to explore the expression of Family with sequence similarity 83 (FAM83) members in cervical cancer, its prognostic value, related signaling pathways, regulatory mechanisms, and immune infiltration. It’s of great value to explore the potential role of FAM83 family in cervical cancer and provide a new scientific basis for targeted therapy.Methods: The expression, gene mutations and prognostic value of FAM83 family members in cervical cancer were analyzed by various bioinformatics tools and databases. We further explored the interaction regulation network and immune infiltration between FAM83 family members and their closely related genes through a series of databases. Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes pathways (KEGG) enrichment were also conducted.Results: This study showed that the expression levels of FAM83A/B/C/D/E/F/G/H gene were upregulated in cervical cancer, the expression of FAM83B/C/D/E/F/G/H were related to tumor stages of cervical cancer, and the promoter methylation of FAM83A/D/E/F/G genes in cervical cancer were lower than those in normal tissues. What’s more, high expression of FAM83A, FAM83B, and FAM83H mRNA was associated with shortened overall survival. GO results showed that FAM83A, FAM83B, and FAM83H and their closely related genes can play an important role in cell-cell junction, calcium-dependent protein binding, regulation of peptidase activity, inflammatory response. KEGG analysis results showed that FAM83A, FAM83B, and FAM83H and their closely related genes were significantly enriched in cancer pathways, estrogen signaling pathway, MAPK signaling pathway. Furthermore, FAM83A, FAM83B, and FAM83H are all closely related to lymphocytes (Tcm_CD4, Tcm_CD8, and neutrophils) and immunomodulators (TGFBR1, TGFB1, and TNFSF9).Conclusions: With multiple databases, we found that the high expression of FAM83A, FAM83B, and FAM83H were associated with the shortened survival time and poor prognosis in patients with cervical cancer, and also closely correlated with lymphocytes and immune infiltration, suggesting that FAM83A, FAM83B, and FAM83H played an important role in the occurrence, development, malignant biological behavior, and immune infilatration of cervical cancer, which provides an important theoretical basis for early diagnosis and targeted therapy for cervical cancer.

scholarly journals Comprehensive analysis of prognostic value and immune infiltration of calpains in pancreatic cancer

2021 ◽  
Vol 12 (6) ◽  
pp. 2600-2621
Author(s):  
Chuan Lan ◽  
Haoyou Tang ◽  
Sheng Liu ◽  
Lin Ma ◽  
Jianshui Li ◽  
...  
Keyword(s):  
Pancreatic Cancer ◽  
Prognostic Value ◽  
Comprehensive Analysis ◽  
Immune Infiltration
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