Forkhead box D subfamily genes in colorectal cancer: potential biomarkers and therapeutic targets.

IF 2.3 3区生物学 Q2 MULTIDISCIPLINARY SCIENCES

PeerJ Pub Date : 2024-10-29 eCollection Date: 2024-01-01 DOI:10.7717/peerj.18406

Ying Chen, Haiyan Qiao, Ruiqi Zhong, Lei Sun, Bingbing Shang

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引用次数: 0

Abstract

Background: The forkhead box (FOX) family members regulate gene transcription and expression. FOX family members regulate various biological processes, such as cell proliferation and tumorigenesis. FOXD, a FOX protein subfamily, is associated with poor prognosis for various cancers. However, the potential clinical value of FOXD subfamily members in colorectal cancer (CRC) has not yet been elucidated. Therefore, in this study, we aimed to determine the role of the FOXD subfamily members in CRC development.

Methods: Using HTSeq-count data, clinical data, and single-nucleotide polymorphisms (obtained from The Cancer Genome Atlas Project), and bioinformatics analyses (using DESEQ2 software), we identified differentially expressed genes (DEGs) in CRC. Next, each DEG expression was validated in vitro using reverse transcription-quantitative polymerase chain reaction, western blotting, and immunohistochemistry (IHC).

Results: Among the FOXD subfamily members, the area under the receiver operating characteristic curve of FOXD3 was 0.949, indicating that FOXD3 has a high overall diagnostic accuracy for CRC. Gene Set Enrichment Analysis revealed that FOXD-DEGs were mainly related to pathways such as cytokine, cytokine, and extracellular matrix receptor interactions. Kaplan-Meier curves and nomograms showed that FOXD1, FOXD3, and FOXD4 were prognostically significant. In conclusion, FOXD subfamily members (especially FOXD3) could serve as diagnostic and prognostic biomarkers for CRC and an immunotherapy target in patients with CRC.

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结直肠癌中的叉头框 D 亚家族基因：潜在的生物标记物和治疗靶点。

背景：叉头盒（FOX）家族成员调控基因转录和表达。FOX 家族成员调控各种生物过程，如细胞增殖和肿瘤发生。FOX蛋白亚家族中的FOXD与多种癌症的不良预后有关。然而，FOXD 亚家族成员在结直肠癌（CRC）中的潜在临床价值尚未得到阐明。因此，在本研究中，我们旨在确定 FOXD 亚家族成员在 CRC 发展过程中的作用：利用HTSeq计数数据、临床数据和单核苷酸多态性（从癌症基因组图谱项目中获得），以及生物信息学分析（使用DESEQ2软件），我们确定了CRC中的差异表达基因（DEGs）。然后，利用反转录-定量聚合酶链反应、Western 印迹和免疫组织化学（IHC）对每个 DEG 的表达进行了体外验证：结果：在FOXD亚家族成员中，FOXD3的接收者工作特征曲线下面积为0.949，表明FOXD3对CRC的总体诊断准确率较高。基因组富集分析显示，FOXD-DEGs主要与细胞因子、细胞因子和细胞外基质受体相互作用等通路有关。Kaplan-Meier曲线和提名图显示，FOXD1、FOXD3和FOXD4对预后具有重要意义。总之，FOXD亚家族成员（尤其是FOXD3）可作为CRC的诊断和预后生物标志物，也可作为CRC患者的免疫治疗靶点。

本文章由计算机程序翻译，如有差异，请以英文原文为准。

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来源期刊

PeerJ MULTIDISCIPLINARY SCIENCES-

CiteScore

4.70

自引率

3.70%

发文量

1665

审稿时长

10 weeks

期刊介绍： PeerJ is an open access peer-reviewed scientific journal covering research in the biological and medical sciences. At PeerJ, authors take out a lifetime publication plan (for as little as $99) which allows them to publish articles in the journal for free, forever. PeerJ has 5 Nobel Prize Winners on the Board; they have won several industry and media awards; and they are widely recognized as being one of the most interesting recent developments in academic publishing.