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Potential Applications of DNA, RNA and Protein Biomarkers in Diagnosis, Therapy and Prognosis for Colorectal Cancer: A Study from Databases to AI-Assisted Verification
Orebro Univ, Sweden; Soochow Univ, Peoples R China.
Linköping University, Department of Clinical and Experimental Medicine, Division of Surgery, Orthopedics and Oncology. Linköping University, Faculty of Medicine and Health Sciences. Region Östergötland, Center for Surgery, Orthopaedics and Cancer Treatment, Department of Oncology.
Soochow Univ, Peoples R China.
Orebro Univ, Sweden.
2019 (English)In: Cancers, ISSN 2072-6694, Vol. 11, no 2, article id 172Article in journal (Refereed) Published
Abstract [en]

In order to find out the most valuable biomarkers and pathways for diagnosis, therapy and prognosis in colorectal cancer (CRC) we have collected the published CRC biomarkers and established a CRC biomarker database (CBD: http://sysbio.suda.edu.cn/CBD/index.html). In this study, we analysed the single and multiple DNA, RNA and protein biomarkers as well as their positions in cancer related pathways and protein-protein interaction (PPI) networks to describe their potential applications in diagnosis, therapy and prognosis. CRC biomarkers were collected from the CBD. The RNA and protein biomarkers were matched to their corresponding DNAs by the miRDB database and the PubMed Gene database, respectively. The PPI networks were used to investigate the relationships between protein biomarkers and further detect the multiple biomarkers. The Kyoto Encyclopaedia of Genes and Genomes (KEGG) pathway enrichment analysis and Gene Ontology (GO) annotation were used to analyse biological functions of the biomarkers. AI classification techniques were utilized to further verify the significances of the multiple biomarkers in diagnosis and prognosis for CRC. We showed that a large number of the DNA, RNA and protein biomarkers were associated with the diagnosis, therapy and prognosis in various degrees in the CRC biomarker networks. The CRC biomarkers were closely related to the CRC initiation and progression. Moreover, the biomarkers played critical roles in cellular proliferation, apoptosis and angiogenesis and they were involved in Ras, p53 and PI3K pathways. There were overlaps among the DNA, RNA and protein biomarkers. AI classification verifications showed that the combined multiple protein biomarkers played important roles to accurate early diagnosis and predict outcome for CRC. There were several single and multiple CRC protein biomarkers which were associated with diagnosis, therapy and prognosis in CRC. Further, AI-assisted analysis revealed that multiple biomarkers had potential applications for diagnosis and prognosis in CRC.

Place, publisher, year, edition, pages
MDPI , 2019. Vol. 11, no 2, article id 172
Keywords [en]
DNA; RNA; protein; single-biomarkers; multiple-biomarkers; cancer-related pathways; colorectal cancer
National Category
Cancer and Oncology
Identifiers
URN: urn:nbn:se:liu:diva-155944DOI: 10.3390/cancers11020172ISI: 000460747200046PubMedID: 30717315OAI: oai:DiVA.org:liu-155944DiVA, id: diva2:1301293
Note

Funding Agencies|Swedish Cancer Foundation; Swedish Research Council

Available from: 2019-04-01 Created: 2019-04-01 Last updated: 2019-04-01

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Sun, Xiao-Feng
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Division of Surgery, Orthopedics and OncologyFaculty of Medicine and Health SciencesDepartment of Oncology
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