Pan-cancer transcriptomic data of ABI1 transcript variants and molecular constitutive elements identifies novel cancer metastatic and prognostic biomarkers.

IF 2.2 4区医学 Q3 ONCOLOGY

Cancer Biomarkers Pub Date : 2024-01-01 DOI:10.3233/CBM-220348

Tingru Lin, Jingzhu Guo, Yifan Peng, Mei Li, Yulan Liu, Xin Yu, Na Wu, Weidong Yu

{"title":"Pan-cancer transcriptomic data of ABI1 transcript variants and molecular constitutive elements identifies novel cancer metastatic and prognostic biomarkers.","authors":"Tingru Lin, Jingzhu Guo, Yifan Peng, Mei Li, Yulan Liu, Xin Yu, Na Wu, Weidong Yu","doi":"10.3233/CBM-220348","DOIUrl":null,"url":null,"abstract":"Background: Abelson interactor 1 (ABI1) is associated with the metastasis and prognosis of many malignancies. The association between ABI1 transcript spliced variants, their molecular constitutive exons and exon-exon junctions (EEJs) in 14 cancer types and clinical outcomes remains unsolved.Objective: To identify novel cancer metastatic and prognostic biomarkers from ABI1 total mRNA, TSVs, and molecular constitutive elements.Methods: Using data from TCGA and TSVdb database, the standard median of ABI1 total mRNA, TSV, exon, and EEJ expression was used as a cut-off value. Kaplan-Meier analysis, Chi-squared test (X2) and Kendall's tau statistic were used to identify novel metastatic and prognostic biomarkers, and Cox regression analysis was performed to screen and identify independent prognostic factors.Results: A total of 35 ABI1-related factors were found to be closely related to the prognosis of eight candidate cancer types. A total of 14 ABI1 TSVs and molecular constitutive elements were identified as novel metastatic and prognostic biomarkers in four cancer types. A total of 13 ABI1 molecular constitutive elements were identified as independent prognostic biomarkers in six cancer types.Conclusions: In this study, we identified 14 ABI1-related novel metastatic and prognostic markers and 21 independent prognostic factors in total 8 candidate cancer types.","PeriodicalId":56320,"journal":{"name":"Cancer Biomarkers","volume":" ","pages":"49-62"},"PeriodicalIF":2.2000,"publicationDate":"2024-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10977443/pdf/","citationCount":"0","resultStr":null,"platform":"Semanticscholar","paperid":null,"PeriodicalName":"Cancer Biomarkers","FirstCategoryId":"3","ListUrlMain":"https://doi.org/10.3233/CBM-220348","RegionNum":4,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":null,"EPubDate":"","PubModel":"","JCR":"Q3","JCRName":"ONCOLOGY","Score":null,"Total":0}

引用次数: 0

Abstract

Background: Abelson interactor 1 (ABI1) is associated with the metastasis and prognosis of many malignancies. The association between ABI1 transcript spliced variants, their molecular constitutive exons and exon-exon junctions (EEJs) in 14 cancer types and clinical outcomes remains unsolved.

Objective: To identify novel cancer metastatic and prognostic biomarkers from ABI1 total mRNA, TSVs, and molecular constitutive elements.

Methods: Using data from TCGA and TSVdb database, the standard median of ABI1 total mRNA, TSV, exon, and EEJ expression was used as a cut-off value. Kaplan-Meier analysis, Chi-squared test (X2) and Kendall's tau statistic were used to identify novel metastatic and prognostic biomarkers, and Cox regression analysis was performed to screen and identify independent prognostic factors.

Results: A total of 35 ABI1-related factors were found to be closely related to the prognosis of eight candidate cancer types. A total of 14 ABI1 TSVs and molecular constitutive elements were identified as novel metastatic and prognostic biomarkers in four cancer types. A total of 13 ABI1 molecular constitutive elements were identified as independent prognostic biomarkers in six cancer types.

Conclusions: In this study, we identified 14 ABI1-related novel metastatic and prognostic markers and 21 independent prognostic factors in total 8 candidate cancer types.

查看原文本刊更多论文

ABI1 转录本变异和分子组成元素的泛癌症转录组数据确定了新型癌症转移和预后生物标志物。

背景：阿贝尔森互作因子1（ABI1）与许多恶性肿瘤的转移和预后有关。14种癌症类型中的ABI1转录本剪接变体、其分子组成外显子和外显子-外显子连接（EEJs）与临床结果之间的关联仍未解决：从 ABI1 总 mRNA、TSVs 和分子组成元件中识别新型癌症转移和预后生物标志物：方法：利用 TCGA 和 TSVdb 数据库的数据，将 ABI1 总 mRNA、TSV、外显子和 EEJ 表达的标准中值作为临界值。利用Kaplan-Meier分析、Chi-squared检验（X2）和Kendall's tau统计来确定新的转移和预后生物标志物，并进行Cox回归分析来筛选和确定独立的预后因素：结果：共发现35个ABI1相关因子与8种候选癌症类型的预后密切相关。在四种癌症类型中，共有14个ABI1 TSVs和分子构成元素被鉴定为新型转移和预后生物标志物。在六种癌症类型中，共有13个ABI1分子组成元素被鉴定为独立的预后生物标志物：在这项研究中，我们在8种候选癌症类型中发现了14个与ABI1相关的新型转移和预后标志物以及21个独立的预后因素。

本文章由计算机程序翻译，如有差异，请以英文原文为准。

求助全文

约1分钟内获得全文求助全文

来源期刊

Cancer Biomarkers ONCOLOGY-

CiteScore

5.20

自引率

3.20%

发文量

195

审稿时长

3 months

期刊介绍： Concentrating on molecular biomarkers in cancer research, Cancer Biomarkers publishes original research findings (and reviews solicited by the editor) on the subject of the identification of markers associated with the disease processes whether or not they are an integral part of the pathological lesion. The disease markers may include, but are not limited to, genomic, epigenomic, proteomics, cellular and morphologic, and genetic factors predisposing to the disease or indicating the occurrence of the disease. Manuscripts on these factors or biomarkers, either in altered forms, abnormal concentrations or with abnormal tissue distribution leading to disease causation will be accepted.