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      Adenylate cyclase activates the cAMP signalling pathway to enhance platelet-rich plasma-treated Achilles tendon disease, a theoretical bioinformatics-based study

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          Abstract

          The effectiveness of platelet-rich plasma (PRP) for the treatment of Achilles tendon disorders still needs to be evaluated through a series of prospective studies, but genomic analysis can reveal the existence of complementary PRP treatment options. Based on the 96 platelet activation-related genes in the Kyoto Encyclopedia of Genes and Genomes (KEGG) database, we performed Gene Ontology functional enrichment analysis and KEGG enrichment analysis, pathway correlation analysis, and enrichment mapping to determine the enrichment results of the gene set enrichment analysis and found that the cAMP signalling pathway may be the key to enhancing the effectiveness of PRP treatment. The cAMP signalling pathway interacts with the Rap1 signalling pathway and cGMP-PKG signalling pathway to mediate the entire pathophysiological process of Achilles tendon disease. Moreover, ADCY1-9 may be the key to the activation of the cAMP signalling network. Further based on the data in the Gene Expression Omnibus database, it was found that ADCY4 and ADCY7 may be the players that play a major role, associated with the STAT4-ADCY4-LAMA5 axis and the GRbeta-ADCY7-SEMA3C axis, which is expected to be a complementary target for enhancing the efficacy of PRP in the treatment of Achilles tendon disease.

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          Most cited references22

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          clusterProfiler 4.0: A universal enrichment tool for interpreting omics data

          Summary Functional enrichment analysis is pivotal for interpreting high-throughput omics data in life science. It is crucial for this type of tool to use the latest annotation databases for as many organisms as possible. To meet these requirements, we present here an updated version of our popular Bioconductor package, clusterProfiler 4.0. This package has been enhanced considerably compared with its original version published 9 years ago. The new version provides a universal interface for functional enrichment analysis in thousands of organisms based on internally supported ontologies and pathways as well as annotation data provided by users or derived from online databases. It also extends the dplyr and ggplot2 packages to offer tidy interfaces for data operation and visualization. Other new features include gene set enrichment analysis and comparison of enrichment results from multiple gene lists. We anticipate that clusterProfiler 4.0 will be applied to a wide range of scenarios across diverse organisms.
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            PROMO: detection of known transcription regulatory elements using species-tailored searches.

            We have developed a set of tools to construct positional weight matrices from known transcription factor binding sites in a species or taxon-specific manner, and to search for matches in DNA sequences.
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              Identification of patterns in biological sequences at the ALGGEN server: PROMO and MALGEN.

              In this paper we present several web-based tools to identify conserved patterns in sequences. In particular we present details on the functionality of PROMO version 2.0, a program for the prediction of transcription factor binding site in a single sequence or in a group of related sequences and, of MALGEN, a tool to visualize sequence correspondences among long DNA sequences. The web tools and associated documentation can be accessed at http://www.lsi.upc.es/~alggen (RESEARCH link).
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                Author and article information

                Contributors
                Journal
                World J Orthop
                WJO
                World Journal of Orthopedics
                Baishideng Publishing Group Inc
                2218-5836
                18 February 2024
                18 February 2024
                : 15
                : 2
                : 192-200
                Affiliations
                College of Basic Medical Science, Qilu Medical University, Zibo 255300, Shandong Province, China
                College of Basic Medical Science, Qilu Medical University, Zibo 255300, Shandong Province, China
                Department of Gastroenterological Surgery, Shandong Provincial Hospital of Shandong First Medical University, Jinan 250021, Shandong Province, China. sdudfy@ 123456126.com
                Author notes

                Author contributions: Du FY designed the study; Du FY and Sun JY performed the research; Du FY and Sun JY analysed the data; Sun JY and Li C wrote the manuscript; Du FY and Li C revised the manuscript.

                Corresponding author: Feng-Ying Du, MD, Doctor, Department of Gastroenterological Surgery, Shandong Provincial Hospital of Shandong First Medical University, No. 324 Jingwu Road, Jinan 250021, Shandong Province, China. sdudfy@ 123456126.com

                Article
                jWJO.v15.i2.pg192 89263
                10.5312/wjo.v15.i2.192
                10921184
                38464349
                510e0ba5-887f-4d6d-8b3b-8dbdcfc01f27
                ©The Author(s) 2024. Published by Baishideng Publishing Group Inc. All rights reserved.

                This article is an open-access article that was selected by an in-house editor and fully peer-reviewed by external reviewers. It is distributed in accordance with the Creative Commons Attribution NonCommercial (CC BY-NC 4.0) license, which permits others to distribute, remix, adapt, build upon this work non-commercially, and license their derivative works on different terms, provided the original work is properly cited and the use is non-commercial. See: https://creativecommons.org/Licenses/by-nc/4.0/

                History
                : 26 October 2023
                : 29 December 2023
                : 16 January 2024
                Categories
                Letter to the Editor

                platelet-rich plasma,achilles tendon disease,camp,adenylate cyclase,complementary target

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