A Comparative in Silico Analysis of CD24’s Prognostic Value in Human and Canine Prostate Cancer

CD24 is a cell surface molecule anchored by glycosyl-phosphatidyl-inositol and expressed by different human cancers, including prostate cancer (PC). Some studies have demonstrated that CD24 expression is associated with poor patient outcome; however, few studies have investigated CD24 expression in spontaneous animal models of human PC, such as canine PC. This study aimed to evaluate the expression of CD24 in human PC using the in silico analysis of the data obtained from The Cancer Genome Atlas (TCGA) and comparing it with the previously published prostatic canine transcriptome data. In addition, CD24 expression was confirmed by immunohistochemistry in an independent cohort of canine prostatic samples and its prognostic significance assessed. The systematic review identified 10 publications fitting with the inclusion criteria of this study. Of the 10 manuscripts, 5 demonstrated a direct correlation between CD24 overexpression and patient prognoses. CD24 expression was also associated with PSA relapse (2/5) and tumor progression (1/5). However, the in silico analysis did not validate CD24 as a prognostic factor of human PC. Regarding canine PC, 10 out of 30 normal prostates and 27 out of 40 PC samples were positive for CD24. As in humans, there was no association with overall survival. Overall, our results demonstrated a significant CD24 overexpression in human and canine prostate cancer, although its prognostic value may be questionable. However, tumors overexpressing CD24 may be a reliable model for new target therapies and dogs could be used of a unique preclinical model for these studies.

Download Full-text

In silico analysis of non-synonymous single nucleotide polymorphism in a human KLK-2 gene associated with prostate cancer

Meta Gene ◽

10.1016/j.mgene.2019.100578 ◽

2019 ◽

Vol 21 ◽

pp. 100578

Author(s):

Tooba Yousefi ◽

Seyed Mostafa Mir ◽

Jahanbakhsh Asadi ◽

Mehdi Tourani ◽

Ansar Karimian ◽

...

Keyword(s):

Prostate Cancer ◽

Single Nucleotide Polymorphism ◽

In Silico ◽

In Silico Analysis ◽

Nucleotide Polymorphism ◽

Single Nucleotide ◽

Silico Analysis

Download Full-text

In silico analysis and DHPLC screening strategy identifies novel apoptotic gene targets of aberrant promoter hypermethylation in prostate cancer

The Prostate ◽

10.1002/pros.21212 ◽

2010 ◽

Vol 71 (1) ◽

pp. 1-17 ◽

Cited By ~ 10

Author(s):

Therese M. Murphy ◽

Linda Sullivan ◽

Caroline Lane ◽

Lisa O'Connor ◽

Ciara Barrett ◽

...

Keyword(s):

Prostate Cancer ◽

In Silico ◽

In Silico Analysis ◽

Promoter Hypermethylation ◽

Screening Strategy ◽

Apoptotic Gene ◽

Silico Analysis

Download Full-text

Clinical Significance and Underlying Mechanisms of CELSR3 in Metastatic Prostate Cancer Based on Immunohistochemistry, Data Mining, and In Silico Analysis

Cancer Biotherapy & Radiopharmaceuticals ◽

10.1089/cbr.2021.0178 ◽

2021 ◽

Author(s):

Yu Sun ◽

Gang Chen ◽

Juan He ◽

Jing-Xiao Li ◽

Xiang-Yu Gan ◽

...

Keyword(s):

Prostate Cancer ◽

Data Mining ◽

Clinical Significance ◽

In Silico ◽

Metastatic Prostate Cancer ◽

In Silico Analysis ◽

Underlying Mechanisms ◽

Silico Analysis

Download Full-text

Proapoptosis Effect of Root of Eurycoma longifolia (Pasak Bumi) on the Prostate Cancer: In Silico Analysis

BIO Web of Conferences ◽

10.1051/bioconf/20202003003 ◽

2020 ◽

Vol 20 ◽

pp. 03003

Author(s):

Eka Yudha Rahman ◽

Mulyohadi Ali ◽

Basuki Bambang Purnomo ◽

Nia Kania

Keyword(s):

Prostate Cancer ◽

In Silico ◽

Caspase 3 ◽

In Silico Analysis ◽

Data Bank ◽

Active Ingredients ◽

Caspase 9 ◽

Active Compounds ◽

Eurycoma Longifolia ◽

Silico Analysis

This study aimed to predict the proapoptosis effect of E. longifolia active compounds on prostate cancer by in silico analysis. Protein data such as BCL-2 (GI: 2506216), Caspase 3 (GI: 6978605), Caspase 8(GI: 11560103), data quassinoid (ID: 5459060 and chantin (ID: 97176) were collected from GenBank of NCBI. Protein BCL-2 collected from NCBI compare with Protein Data Bank (PDB) and UNIPROT. The docking process was carried out using software HEX 8.0. to compute the binding affinity between ligands (active compounds of Pasak Bumi) and protein target. The interaction between quassinoid and chantin was strongest and stable against caspase-9, indicating that the active ingredient in E. longifolia triggered caspase-9 activity after activation of BH3 domains in Bcl-2 in prostate cancer. The low energy binding between quassinoid and chantin with caspase-3 indicates the interaction between the active ingredients is not strong with caspase-3. E. longifolia active ingredients that are potentially used in the treatment of prostate cancer are quassinoid and chantin by inducing apoptotic mechanisms via both extrinsic and intrinsic pathways. The combination of active ingredients of E. longifolia that is quassinoid and chantin can be used as a strategy of prostate cancer therapy both through extrinsic and intrinsic pathways.

Download Full-text

Abstract 5736: In silico analysis shows that PTEN loss and AR overexpression are associated with increased CD8+ T-cell and Treg density and earlier disease recurrence in prostate cancer

10.1158/1538-7445.am2018-5736 ◽

2018 ◽

Author(s):

Thiago Vidotto ◽

Madhuri Koti ◽

Jeremy A. Squire

Keyword(s):

Prostate Cancer ◽

T Cell ◽

In Silico ◽

In Silico Analysis ◽

Cd8 T Cell ◽

Disease Recurrence ◽

Pten Loss ◽

Silico Analysis

Download Full-text

In silico analysis of the prognostic value of FAS mRNA in malignancies

Journal of Cancer ◽

10.7150/jca.35614 ◽

2020 ◽

Vol 11 (3) ◽

pp. 542-550

Author(s):

Zhigang Chen ◽

Jun Wu ◽

Hailin Xu ◽

Xiuyan Yu ◽

Ke Wang

Keyword(s):

In Silico ◽

Prognostic Value ◽

In Silico Analysis ◽

Fas Mrna ◽

Silico Analysis

Download Full-text

Pseudogene Transcripts in Head and Neck Cancer: Literature Review and In Silico Analysis

Genes ◽

10.3390/genes12081254 ◽

2021 ◽

Vol 12 (8) ◽

pp. 1254

Author(s):

Juliana Carron ◽

Rafael Della Coletta ◽

Gustavo Jacob Lourenço

Keyword(s):

Head And Neck Cancer ◽

Head And Neck ◽

Neck Cancer ◽

In Silico ◽

Cancer Biology ◽

Regulation Of Gene Expression ◽

In Silico Analysis ◽

Genetic Alterations ◽

The Cancer Genome Atlas ◽

Silico Analysis

Once considered nonfunctional, pseudogene transcripts are now known to provide valuable information for cancer susceptibility, including head and neck cancer (HNC), a serious health problem worldwide, with about 50% unimproved overall survival over the last decades. The present review focuses on the role of pseudogene transcripts involved in HNC risk and prognosis. We combined current literature and in silico analyses from The Cancer Genome Atlas (TCGA) database to identify the most deregulated pseudogene transcripts in HNC and their genetic variations. We then built a co-expression network and performed gene ontology enrichment analysis to better understand the pseudogenes’ interactions and pathways in HNC. In the literature, few pseudogenes have been studied in HNC. Our in silico analysis identified 370 pseudogene transcripts associated with HNC, where SPATA31D5P, HERC2P3, SPATA31C2, MAGEB6P1, SLC25A51P1, BAGE2, DNM1P47, SPATA31C1, ZNF733P and OR2W5 were found to be the most deregulated and presented several genetic alterations. NBPF25P, HSP90AB2P, ZNF658B and DPY19L2P3 pseudogenes were predicted to interact with 12 genes known to participate in HNC, DNM1P47 was predicted to interact with the TP53 gene, and HLA-H pseudogene was predicted to interact with HLA-A and HLA-B genes. The identified pseudogenes were associated with cancer biology pathways involving cell communication, response to stress, cell death, regulation of the immune system, regulation of gene expression, and Wnt signaling. Finally, we assessed the prognostic values of the pseudogenes with the Kaplan–Meier Plotter database, and found that expression of SPATA31D5P, SPATA31C2, BAGE2, SPATA31C1, ZNF733P and OR2W5 pseudogenes were associated with patients’ survival. Due to pseudogene transcripts’ potential for cancer diagnosis, progression, and as therapeutic targets, our study can guide new research to HNC understanding and development of new target therapies.

Download Full-text