Analysis of potential genes and pathways associated with the colorectal normal mucosa-adenoma-carcinoma sequence.
Analysis of potential genes and pathways associated with the colorectal normal mucosa-adenoma-carcinoma sequence.
复制标题
DOI：
10.1002/cam4.1484
复制
发表时间：
2018-06
期刊：
影响因子：
4
通讯作者：
Han W
中科院分区：
文献类型：
--
作者：
Wu Z;Liu Z;Ge W;Shou J;You L;Pan H;Han W
本研究旨在利用生物信息学分析方法筛选与大肠正常黏膜-腺瘤-癌序列相关的差异表达基因。原始数据文件从Gene Expression Omnibus（GEO）下载，并进行质量评估和预处理。通过R软件（R版本3.3.2）中的limma包分析DEG。用大卫在线工具进行基因本体（GO）富集分析和京都基因和基因组百科全书（KEGG）途径分析。在结直肠腺瘤（n = 20）和结直肠癌（CRC）I期（n = 31），II期（n = 38），III期（n = 45）和IV期（n = 62）与正常结直肠粘膜（n = 19）的比较中，我们确定了336个常见的DEG。其中，7个DEG与患者预后相关。7个基因中的5个（HEPACAM 2、ITLN 1、LGALS 2、MUC 12和NXPE 1）呈现随肿瘤进展表达顺序下降的趋势。TIMP 1则呈序贯上升趋势。与正常粘膜相比，GCG基因表达水平持续下调。显著富集的GO术语包括细胞外区域、细胞外空间、蛋白质结合和碳水化合物结合。KEGG类别包括HIF-1信号通路、胰岛素分泌和胰高血糖素信号通路。我们在正常结直肠粘膜-腺瘤-癌序列中发现了7个与结直肠癌患者预后相关的DEG。监测这些基因表达水平的变化可能是评估疾病进展、评价治疗效果和预测预后的策略。
This study aimed to identify differentially expressed genes (DEGs) related to the colorectal normal mucosa–adenoma–carcinoma sequence using bioinformatics analysis. Raw data files were downloaded from Gene Expression Omnibus (GEO) and underwent quality assessment and preprocessing. DEGs were analyzed by the limma package in R software (R version 3.3.2). Gene Ontology (GO) enrichment analysis and Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway analysis were performed with the DAVID online tool. In a comparison of colorectal adenoma (n = 20) and colorectal cancer (CRC) stage I (n = 31), II (n = 38), III (n = 45), and IV (n = 62) with normal colorectal mucosa (n = 19), we identified 336 common DEGs. Among them, seven DEGs were associated with patient prognosis. Five (HEPACAM2, ITLN1, LGALS2, MUC12, and NXPE1) of the seven genes presented a sequentially descending trend in expression with tumor progression. In contrast, TIMP1 showed a sequentially ascending trend. GCG was constantly downregulated compared with the gene expression level in normal mucosa. The significantly enriched GO terms included extracellular region, extracellular space, protein binding, and carbohydrate binding. The KEGG categories included HIF‐1 signaling pathway, insulin secretion, and glucagon signaling pathway. We discovered seven DEGs in the normal colorectal mucosa–adenoma–carcinoma sequence that was associated with CRC patient prognosis. Monitoring changes in these gene expression levels may be a strategy to assess disease progression, evaluate treatment efficacy, and predict prognosis.
登录
查看更多内容
DOI：
10.1097/pai.0000000000000509
发表时间：
2018-10-01
影响因子：
1.6
作者：
Hewedi, Iman H.;Farid, Rola M.;Mostafa, Rabab G.
通讯作者：
Mostafa, Rabab G.
DOI：
10.3233/clo-2009-0458
发表时间：
2009
期刊：
Cellular oncology : the official journal of the International Society for Cellular Oncology
影响因子：
--
作者：
Galamb O;Sipos F;Spisák S;Galamb B;Krenács T;Valcz G;Tulassay Z;Molnár B
通讯作者：
Molnár B
影响因子：
64.8
作者：
Alizadeh, AA;Eisen, MB;Staudt, LM
通讯作者：
Staudt, LM
影响因子：
8.4
作者：
Holten-Andersen, Mads Nikolaj;Nielsen, Hans Jorgen;Christensen, Ib Jarle
通讯作者：
Christensen, Ib Jarle
影响因子：
2.1
作者：
Irizarry, RA;Hobbs, B;Speed, TP
通讯作者：
Speed, TP