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      Comprehensive analysis of the potential cuproptosis-related biomarker LIAS that regulates prognosis and immunotherapy of pan-cancers

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          Abstract

          Lipoic acid synthetase (LIAS) has been demonstrated to play a crucial role in the progression of cancer. Exploring the underlying mechanisms and biological functions of LIAS could have potential therapeutic guidance for cancer treatment. Our study has explored the expression levels and prognostic values of LIAS in pan-cancer through several bioinformatics platforms, including TIMER2.0, Gene Expression Profiling Interactive Analysis, version 2 (GEPIA2.0), and Human Protein Atlas (HPA). We found that a high LIAS expression was related to the good prognosis in patients with kidney renal clear cell carcinoma (KIRC), rectum adenocarcinoma (READ), breast cancer, and ovarian cancer. Inversely, a high LIAS expression showed unfavorable prognosis in lung cancer patients. In addition, the genetic alteration, methylation levels, and immune analysis of LIAS in pan-cancer have been evaluated. To elucidate the underlying molecular mechanism of LIAS, we conduct the single-cell sequencing to implicate that LIAS expression was related to hypoxia, angiogenesis, and DNA repair. Thus, these comprehensive pan-cancer analyses have conveyed that LIAS could be potentially significant in the progression of various cancers. Moreover, the LIAS expression could predict the efficacy of immunotherapy in cancer patients.

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          Most cited references34

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          Robust enumeration of cell subsets from tissue expression profiles

          We introduce CIBERSORT, a method for characterizing cell composition of complex tissues from their gene expression profiles. When applied to enumeration of hematopoietic subsets in RNA mixtures from fresh, frozen, and fixed tissues, including solid tumors, CIBERSORT outperformed other methods with respect to noise, unknown mixture content, and closely related cell types. CIBERSORT should enable large-scale analysis of RNA mixtures for cellular biomarkers and therapeutic targets (http://cibersort.stanford.edu).
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            The cBio cancer genomics portal: an open platform for exploring multidimensional cancer genomics data.

            The cBio Cancer Genomics Portal (http://cbioportal.org) is an open-access resource for interactive exploration of multidimensional cancer genomics data sets, currently providing access to data from more than 5,000 tumor samples from 20 cancer studies. The cBio Cancer Genomics Portal significantly lowers the barriers between complex genomic data and cancer researchers who want rapid, intuitive, and high-quality access to molecular profiles and clinical attributes from large-scale cancer genomics projects and empowers researchers to translate these rich data sets into biologic insights and clinical applications. © 2012 AACR.
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              GEPIA: a web server for cancer and normal gene expression profiling and interactive analyses

              Abstract Tremendous amount of RNA sequencing data have been produced by large consortium projects such as TCGA and GTEx, creating new opportunities for data mining and deeper understanding of gene functions. While certain existing web servers are valuable and widely used, many expression analysis functions needed by experimental biologists are still not adequately addressed by these tools. We introduce GEPIA (Gene Expression Profiling Interactive Analysis), a web-based tool to deliver fast and customizable functionalities based on TCGA and GTEx data. GEPIA provides key interactive and customizable functions including differential expression analysis, profiling plotting, correlation analysis, patient survival analysis, similar gene detection and dimensionality reduction analysis. The comprehensive expression analyses with simple clicking through GEPIA greatly facilitate data mining in wide research areas, scientific discussion and the therapeutic discovery process. GEPIA fills in the gap between cancer genomics big data and the delivery of integrated information to end users, thus helping unleash the value of the current data resources. GEPIA is available at http://gepia.cancer-pku.cn/.
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                Author and article information

                Contributors
                Journal
                Front Oncol
                Front Oncol
                Front. Oncol.
                Frontiers in Oncology
                Frontiers Media S.A.
                2234-943X
                02 August 2022
                2022
                : 12
                : 952129
                Affiliations
                [1] 1 Department of Pathology, Xiangya Hospital, Central South University , Changsha, China
                [2] 2 Department of Pathology, Xiangya Changde Hospital , Changde, China
                [3] 3 Department of Emergency, Xiangya Hospital, Central South University , Changsha, China
                [4] 4 Department of Emergency, Xiangya Changde Hospital , Changde, China
                [5] 5 Department of Orthopedic Surgery, The Second Hospital University of South China , Hengyang, China
                [6] 6 Department of Pharmacy, Xiangya Hospital, Central South University , Changsha, China
                [7] 7 National Clinical Research Center for Geriatric Disorders, Xiangya Hospital, Central South University , Changsha, China
                [8] 8 Department of General Surgery, Xiangya Hospital, Central South University , Changsha, China
                Author notes

                Edited by: David Wald, Case Western Reserve University, United States

                Reviewed by: Shinya Hasegawa, Hoshi University, Japan; Guangzhen Wu, First Affiliated Hospital, Dalian Medical University, China

                *Correspondence: Ning Bai, baining@ 123456csu.edu.cn ; Jinwu Peng, jinwupeng@ 123456csu.edu.cn

                †These authors have contributed equally to this work and share first authorship

                This article was submitted to Cancer Immunity and Immunotherapy, a section of the journal Frontiers in Oncology

                Article
                10.3389/fonc.2022.952129
                9379260
                35982953
                2e257003-e82b-45ba-9d3d-4accb5138fd8
                Copyright © 2022 Cai, He, Liu, Liang, Peng, Li, Zhang, Kang, Hong, Yan, Peng, Xu and Bai

                This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.

                History
                : 07 June 2022
                : 11 July 2022
                Page count
                Figures: 9, Tables: 1, Equations: 0, References: 34, Pages: 12, Words: 3623
                Categories
                Oncology
                Original Research

                Oncology & Radiotherapy
                cuproptosis,lias,immunity,prognosis,pan-cancer
                Oncology & Radiotherapy
                cuproptosis, lias, immunity, prognosis, pan-cancer

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