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      Smad3‐mediated lncRNA HSALR1 enhances the non‐classic signalling pathway of TGF‐β1 in human bronchial fibroblasts by binding to HSP90AB1

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          Abstract

          Background

          Chronic obstructive pulmonary disease (COPD) is one of the diseases with high mortality and morbidity with complex pathogenesis. Airway remodeling is an unavoidable pathological characteristic. However, the molecular mechanisms of airway remodeling are incompletely defined.

          Methods

          lncRNAs highly correlated with transforming growth factor beta 1(TGF–β1) expression were chosen, the lncRNA ENST00000440406 (named HSP90AB1 Assoicated LncRNA 1, HSALR1) was chosen for further functional experiments. Dual luciferase and ChIP assay were used to detect the upstream of HSALR1, transcriptome sequencing, Cck–8, Edu, cell proliferation, cell cycle assay, and WB detection of pathway levels confirmed the effect of HSALR1 on fibroblast proliferation and phosphorylation levels of related pathways. Mice was infected with adeno–associated virus (AAV) to express HSALR1 by intratracheal instillation under anesthesia and was exposure to cigarette smoke, then mouse lung function was performed and the pathological sections of lung tissues were analyzed.

          Results

          Herein, lncRNA HSALR1 was identified as highly correlated with the TGF–β1 and mainly expressed in human lung fibroblasts. HSALR1 was induced by Smad3 and promoted fibroblasts proliferation. Mechanistically, it could directly bind to HSP90AB1 protein, and acted as a scaffold to stabilize the binding between Akt and HSP90AB1 to promote Akt phosphorylation. In vivo, mice expressed HSALR1 by AAV was exposure to cigarette smoke (CS) for COPD modeling. We found that lung function was worse and airway remodeling was more pronounced in HSLAR1 mice compare to wild type (WT) mice.

          Conclusion

          Our results suggest that lncRNA HSALR1 binds to HSP90AB1 and Akt complex component, and enhances activity of the TGF–β1 smad3–independent pathway. This finding described here suggest that lncRNA can participate in COPD development, and HSLAR1 is a promising molecular target of COPD therapy.

          Abstract

          The study provides the evidence that a novel lncRNA HSALR1 is highly expressed in chronic obstructive pulmonary disease and is associated with human bronchial fibroblasts proliferation. HSALR1 acts as a scaffold and promotes stabilization of the HSP90AB1‐CDC37‐Akt protein complex. HSALR1‐expressing mice by intratracheal injection of adeno‐associated virus showed increasing severity of COPD after cigarette smoke exposure.

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          Most cited references48

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          The STRING database in 2021: customizable protein–protein networks, and functional characterization of user-uploaded gene/measurement sets

          Abstract Cellular life depends on a complex web of functional associations between biomolecules. Among these associations, protein–protein interactions are particularly important due to their versatility, specificity and adaptability. The STRING database aims to integrate all known and predicted associations between proteins, including both physical interactions as well as functional associations. To achieve this, STRING collects and scores evidence from a number of sources: (i) automated text mining of the scientific literature, (ii) databases of interaction experiments and annotated complexes/pathways, (iii) computational interaction predictions from co-expression and from conserved genomic context and (iv) systematic transfers of interaction evidence from one organism to another. STRING aims for wide coverage; the upcoming version 11.5 of the resource will contain more than 14 000 organisms. In this update paper, we describe changes to the text-mining system, a new scoring-mode for physical interactions, as well as extensive user interface features for customizing, extending and sharing protein networks. In addition, we describe how to query STRING with genome-wide, experimental data, including the automated detection of enriched functionalities and potential biases in the user's query data. The STRING resource is available online, at https://string-db.org/.
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            KEGG: new perspectives on genomes, pathways, diseases and drugs

            KEGG (http://www.kegg.jp/ or http://www.genome.jp/kegg/) is an encyclopedia of genes and genomes. Assigning functional meanings to genes and genomes both at the molecular and higher levels is the primary objective of the KEGG database project. Molecular-level functions are stored in the KO (KEGG Orthology) database, where each KO is defined as a functional ortholog of genes and proteins. Higher-level functions are represented by networks of molecular interactions, reactions and relations in the forms of KEGG pathway maps, BRITE hierarchies and KEGG modules. In the past the KO database was developed for the purpose of defining nodes of molecular networks, but now the content has been expanded and the quality improved irrespective of whether or not the KOs appear in the three molecular network databases. The newly introduced addendum category of the GENES database is a collection of individual proteins whose functions are experimentally characterized and from which an increasing number of KOs are defined. Furthermore, the DISEASE and DRUG databases have been improved by systematic analysis of drug labels for better integration of diseases and drugs with the KEGG molecular networks. KEGG is moving towards becoming a comprehensive knowledge base for both functional interpretation and practical application of genomic information.
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              GEPIA2: an enhanced web server for large-scale expression profiling and interactive analysis

              Abstract Introduced in 2017, the GEPIA (Gene Expression Profiling Interactive Analysis) web server has been a valuable and highly cited resource for gene expression analysis based on tumor and normal samples from the TCGA and the GTEx databases. Here, we present GEPIA2, an updated and enhanced version to provide insights with higher resolution and more functionalities. Featuring 198 619 isoforms and 84 cancer subtypes, GEPIA2 has extended gene expression quantification from the gene level to the transcript level, and supports analysis of a specific cancer subtype, and comparison between subtypes. In addition, GEPIA2 has adopted new analysis techniques of gene signature quantification inspired by single-cell sequencing studies, and provides customized analysis where users can upload their own RNA-seq data and compare them with TCGA and GTEx samples. We also offer an API for batch process and easy retrieval of the analysis results. The updated web server is publicly accessible at http://gepia2.cancer-pku.cn/.
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                Author and article information

                Contributors
                zhouyumin410@126.com
                pxran@gzhmu.edu.cn
                Journal
                Clin Transl Med
                Clin Transl Med
                10.1002/(ISSN)2001-1326
                CTM2
                Clinical and Translational Medicine
                John Wiley and Sons Inc. (Hoboken )
                2001-1326
                14 June 2023
                June 2023
                : 13
                : 6 ( doiID: 10.1002/ctm2.v13.6 )
                : e1292
                Affiliations
                [ 1 ] Guangzhou Institute of Respiratory Health & State Key Laboratory of Respiratory Disease & National Clinical Research Center for Respiratory Disease & National Center for Respiratory Medicine The First Affiliated Hospital of Guangzhou Medical University Guangzhou Guangdong China
                [ 2 ] GMU‐GIBH Joint School of Life Sciences Guangzhou Medical University Guangzhou Guangdong China
                [ 3 ] Guangzhou Laboratory Bioland Guangzhou Guangdong China
                Author notes
                [*] [* ] Correspondence

                Pixin Ran, Guangzhou Institute of Respiratory Health & State Key Laboratory of Respiratory Disease & National Clinical Research Center for Respiratory Disease & National Center for Respiratory Medicine, The First Affiliated Hospital of Guangzhou Medical University, 195 Dongfeng Xi Road, Guangzhou, Guangdong 510182, China.

                Email: pxran@ 123456gzhmu.edu.cn

                Yumin Zhou, Guangzhou Institute of Respiratory Health & State Key Laboratory of Respiratory Disease & National Clinical Research Center for Respiratory Disease & National Center for Respiratory Medicine, The First Affiliated Hospital of Guangzhou Medical University, 195 Dongfeng Xi Road, Guangzhou, Guangdong 510182, China.

                Email: zhouyumin410@ 123456126.com

                Author information
                https://orcid.org/0000-0002-1018-6641
                https://orcid.org/0000-0002-6575-4423
                https://orcid.org/0000-0002-0555-8391
                https://orcid.org/0000-0001-6651-634X
                Article
                CTM21292
                10.1002/ctm2.1292
                10267427
                37317677
                bc70c677-13d2-457b-9392-60d1f749a88b
                © 2023 The Authors. Clinical and Translational Medicine published by John Wiley & Sons Australia, Ltd on behalf of Shanghai Institute of Clinical Bioinformatics.

                This is an open access article under the terms of the http://creativecommons.org/licenses/by/4.0/ License, which permits use, distribution and reproduction in any medium, provided the original work is properly cited.

                History
                : 17 May 2023
                : 07 March 2023
                : 27 May 2023
                Page count
                Figures: 9, Tables: 0, Pages: 19, Words: 9857
                Funding
                Funded by: National Natural Science Foundation of China , doi 10.13039/501100001809;
                Award ID: 82200045
                Award ID: 82270043
                Award ID: 82203883
                Award ID: 82000045
                Award ID: 82000044
                Funded by: China Postdoctoral Science Foundation , doi 10.13039/501100002858;
                Award ID: 2022M710900
                Funded by: Youth Foundation of the National Key Laboratory of Respiratory Diseases
                Award ID: SKLRD‐Z‐202326
                Award ID: SKLRD‐Z‐202315
                Funded by: Local Innovative and Research Teams Project of Guangdong Pearl River Talents Program
                Award ID: 2017BT01S155
                Funded by: Characteristic Innovation Projects of Universities in Guangdong Province
                Award ID: 2019KTSCX139
                Funded by: Nanshan Medical Development Foundation of Guangdong Province
                Award ID: ZNSA‐2020013
                Funded by: Postdoctoral Startup Foundation of Guangzhou City
                Award ID: No. E. K. Y
                Award ID: No. J. J
                Funded by: Guangzhou Scinence and Technology Plans
                Award ID: 202201020372
                Funded by: Basic and Applied Basic Research Fund of Guangdong Province
                Award ID: 2020A1515110915
                Categories
                Research Article
                Research Articles
                Custom metadata
                2.0
                June 2023
                Converter:WILEY_ML3GV2_TO_JATSPMC version:6.2.9 mode:remove_FC converted:15.06.2023

                Medicine
                akt pathway,cell proliferation,chronic obstructive pulmonary disease,heat shock protein ab1,lncrna hsalr1,smad3

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