[1]龙海晨,廖新华,杜 丽,等.宫颈癌相关基因差异表达生物信息学初步分析[J].医学信息,2025,38(11):1-6,21.[doi:10.3969/j.issn.1006-1959.2025.11.001]
 LONG Haichen,LIAO Xinhua,DU Li,et al.Preliminary Bioinformatics Analysis of Differentially Expressed Genes Related to Cervical Cancer[J].Journal of Medical Information,2025,38(11):1-6,21.[doi:10.3969/j.issn.1006-1959.2025.11.001]
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宫颈癌相关基因差异表达生物信息学初步分析()
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医学信息[ISSN:1006-1959/CN:61-1278/R]

卷:
38卷
期数:
2025年11期
页码:
1-6,21
栏目:
生物信息学
出版日期:
2025-06-01

文章信息/Info

Title:
Preliminary Bioinformatics Analysis of Differentially Expressed Genes Related to Cervical Cancer
文章编号:
1006-1959(2025)11-0001-07
作者:
龙海晨12廖新华3杜 丽12李 英12蒋秀梅12赵 唐1
1.塔里木大学医学院,新疆 阿拉尔 843300;2.石河子大学医学院(塔里木大学)分院,新疆 阿拉尔 843300;3.石河子大学第一附属医院检验科,新疆 石河子 832000
Author(s):
LONG Haichen12 LIAO Xinhua3 DU Li12 LI Ying12 JIANG Xiumei12 ZHAO Tang1
1.School of Medicine, Tarim University, Alaer 843300, Xinjiang, China;2.Shihezi University School of Medicine (Branch College in Tarim University), Tarim University, Alaer 843300, Xinjiang, China; 3.Laboratory Department, the First Affiliated Hospital of Shihezi University, Shihezi 832000, Xinjiang, China
关键词:
宫颈癌生物信息学分析差异表达基因
Keywords:
Cervical cancer Bioinformatics analysis Differentially expressed gene
分类号:
Q33;R737.3
DOI:
10.3969/j.issn.1006-1959.2025.11.001
文献标志码:
A
摘要:
目的 通过生物信息学方法,利用R语言编程进行数据挖掘,寻找宫颈癌中有意义的基因。方法 从TCGA数据库下载宫颈癌患者临床信息以及RNA-seq数据。使用R语言limma包进行差异表达分析,筛选差异表达基因。使用STRING数据库和Cytoscape软件进行蛋白互作网络分析。使用R语言clusterProfiler包通过KEGG数据库,GO数据库进行信号通路富集分析。使用数据库GEPIA2对宫颈癌正常组织与肿瘤组织中基因表达进行分析。使用R语言survminer包进行生存分析并绘制生存曲线。结果 分析TCGA数据库中307例患者样本信息12 499个基因,发现上调基因1210个,下调基因1156个;蛋白互作网络分析得到88个相关基因,其中神经细胞粘附分子(NCAM1)基因最为关键。KEGG富集分析显示这些差异基因主要参与受体结合相关通路,GO富集分析显示这些差异基因涉及的生物学功能包括:肌肉、细胞基质、氨基酸结合这三个方面。通过生存分析发现宫颈癌患者高表达NCAM1基因有不良预后。结论 NCAM1基因在宫颈癌中高表达会造成患者预后不良。
Abstract:
Objective To find meaningful genes in cervical cancer by bioinformatics method and R language programming for data mining. Methods Clinical information and RNA-seq data of cervical cancer patients were downloaded from TCGA database. Differential expression analysis was performed using the R language limma package to screen differentially expressed genes. STRING database and Cytoscape software were used for protein interaction network analysis. The R language clusterProfiler package was used to perform signal pathway enrichment analysis through the KEGG database and the GO database. The gene expression in normal tissues and tumor tissues of cervical cancer was analyzed using the database GEPIA2. Survival analysis was performed using the R language survminer package and survival curves were plotted. Results A total of 12 499 genes from 307 patients in the TCGA database were analyzed, and 1210 genes were up-regulated and 1156 genes were down-regulated. Protein interaction network analysis obtained 88 related genes, of which nerve cell adhesion molecule (NCAM1) gene was the most critical. KEGG enrichment analysis showed that these differential genes were mainly involved in receptor binding related pathways. GO enrichment analysis showed that these differential genes involved in biological functions including muscle, cell matrix and amino acid binding. Survival analysis showed that high expression of NCAM1 gene in patients with cervical cancer had a poor prognosis. Conclusion The high expression of NCAM1 gene in cervical cancer will lead to poor prognosis of patients.

参考文献/References:

[1]Sung H,Ferlay J,Siegel RL,et al.Global cancer statistics 2020: GLOBOCAN estimates of incidence and mortality worldwide for 36 cancers in 185 countries[J].CA Cancer J Clin,2021,71(3): 209-249.[2]Siegel RL,Miller KD,Jemal A.Cancer statistics, 2019[J].CA Cancer J Clin,2019,69(1):7-34.[3]Bray F,Carstensen B,M?覬ller H,et al.Incidence trends of adenocarcinoma of the cervix in 13 European countries[J].Cancer Epidemiol Biomarkers Prev,2005,14(9):2191-2199.[4]Bray F,Loos AH,McCarron P,et al.Trends in cervical squamous cell carcinoma incidence in 13 European countries: changing risk and the effects of screening[J].Cancer Epidemiol Biomarkers Prev,2005,14(3):677-686.[5]Utada M,Chernyavskiy P,Lee WJ,et al.Increasing risk of uterine cervical cancer among young Japanese women: Comparison of incidence trends in Japan, South Korea and Japanese-Americans between 1985 and 2012[J].Int J Cancer,2019,144(9):2144-2152.[6]Castanon A,Sasieni P.Is the recent increase in cervical cancer in women aged 20-24years in England a cause for concern?[J].Prev Med,2018,107:21-28.[7]McDonald SA,Qendri V,Berkhof J,et al.Disease burden of human papillomavirus infection in the Netherlands, 1989-2014: the gap between females and males is diminishing[J].Cancer Causes Control,2017,28(3):203-214.[8]Jedy-Agba E,Joko WY,Liu B,et al.Trends in cervical cancer incidence in sub-Saharan Africa[J].Br J Cancer,2020,123(1):148-154.[9]Pilleron S,Cabasag CJ,Ferlay J,et al.Cervical cancer burden in Latin America and the Caribbean:Where are we?[J].Int J Cancer,2020,147(6):1638-1648.[10]Bray F,Lortet-Tieulent J,Znaor A,et al.Patterns and Trends in Human Papillomavirus-Related Diseases in Central and Eastern Europe and Central Asia[J].Vaccine,2013,31:H32-H45.[11]Ran Z,Wu S,Ma Z,et al.Advances in exosome biomarkers for cervical cancer[J].Cancer Med,2022,11(24):4966-4978.[12]Rajaram S,Gupta B.Screening for cervical cancer: Choices & dilemmas[J].Indian J Med Res,2021,154(2):210-220.[13]Burmeister CA,Khan SF,Sch?覿fer G,et al.Cervical cancer therapies: Current challenges and future perspectives[J].Tumour Virus Res,2022,13:200238. [14]Monk BJ,Enomoto T,Kast WM,et al.Integration of immunotherapy into treatment of cervical cancer: Recent data and ongoing trials[J].Cancer Treat Rev,2022,106:102385. [15]Bedell SL,Goldstein LS,Goldstein AR,et al.Cervical Cancer Screening: Past, Present, and Future[J].Sex Med Rev,2020,8(1):28-37. [16]Marquina G,Manzano A,Casado A.Targeted Agents in Cervical Cancer: Beyond Bevacizumab[J].Curr Oncol Rep,2018,20(5):40.[17]Chen S,Yang D,Lei C,et al.Identification of crucial genes in abdominal aortic aneurysm by WGCNA[J].PeerJ,2019,7:e7873.[18]Gallon J,Rodriguez-Calero A,Benjak A,et al.DNA Methylation Landscapes of Prostate Cancer Brain Metastasis Are Shaped by Early Driver Genetic Alterations[J].Cancer Res,2023,83(8):1203-1213. [19]Yang Y,Yang W,Su X,et al.Prognostic value and immunological role of PTPN21 in pan-cancer analysis[J].Cent Eur J Immunol,2023,48(2):111-125.[20]Momin ID,Rigler J,Chitrala KN.Analysis of Potential Biomarkers in Frontal Temporal Dementia: A Bioinformatics Approach[J].Int J Mol Sci,2023,24(19):14910.[21]Bhartiya D,Singh J.FSH-FSHR3-stem cells in ovary surface epithelium: basis for adult ovarian biology, failure, aging, and cancer[J].Reproduction,2015,149(1):R35-R48.[22]Kilanowska A,Zió?覥kowska A,Stasiak P,et al.cAMP-Dependent Signaling and Ovarian Cancer[J].Cells,2022,11(23):3835.[23]Yue W,Ma J,Xiao Y,et al.The Apoptotic Resistance of BRCA1-Deficient Ovarian Cancer Cells is Mediated by cAMP[J].Front Cell Dev Biol,2022,10:889656.[24]Stevens LE,Peluffo G,Qiu X,et al.JAK-STAT Signaling in Inflammatory Breast Cancer Enables Chemotherapy-Resistant Cell States[J].Cancer Res,2023,83(2):264-284.[25]Feng Z,Li L,Tu Y,et al.Identification of Circular RNA-Based Immunomodulatory Networks in Colorectal Cancer[J].Front Oncol,2021,11:779706.[26]Sasca D,Szybinski J,Schüler A,et al.NCAM1 (CD56) promotes leukemogenesis and confers drug resistance in AML[J].Blood,2019,133(21):2305-2319.[27]Gress V,Roussy M,Boulianne L,et al.CBFA2T3::GLIS2 pediatric acute megakaryoblastic leukemia is sensitive to BCL-XL inhibition by navitoclax and DT2216[J].Blood Adv,2024,8(1):112-129.[28]Zhao L,Wu X,Zhang Z,et al.ELF1 suppresses autophagy to reduce cisplatin resistance via the miR-152-3p/NCAM1/ERK axis in lung cancer cells[J].Cancer Sci,2023,114(6):2650-2663.[29]Yang B,Huang S,Chen H,et al.DNMT3B regulates proliferation of A549 cells through the microRNA-152-3p/NCAM1 pathway[J].Oncol Lett,2022,23(1):11.[30]Wang Z,Wang T,Wu G,et al.Clinical Significance and Tumor Microenvironment Characterization of a Novel Immune-Related Gene Signature in Bladder Cancer[J].J Clin Med,2023,12(5):1892.[31]Sarafidis M,Lambrou GI,Zoumpourlis V,et al.An Integrated Bioinformatics Analysis towards the Identification of Diagnostic, Prognostic, and Predictive Key Biomarkers for Urinary Bladder Cancer[J].Cancers (Basel),2022,14(14):3358.[32]Liu Y,Kramer JR,Sandulache VC,et al.Immunogenetic Determinants of Susceptibility to Head and Neck Cancer in the Million Veteran Program Cohort[J].Cancer Res,2023,83(3):386-397.[33]Timpanaro A,Piccand C,Uldry AC,et al.Surfaceome Profiling of Cell Lines and Patient-Derived Xenografts Confirm FGFR4, NCAM1, CD276, and Highlight AGRL2, JAM3, and L1CAM as Surface Targets for Rhabdomyosarcoma[J].Int J Mol Sci,2023,24(3):2601.[34]Odarenko KV,Salomatina OV,Chernikov IV,et al.Soloxolone Methyl Reduces the Stimulatory Effect of Leptin on the Aggressive Phenotype of Murine Neuro2a Neuroblastoma Cells via the MAPK/ERK1/2 Pathway[J].Pharmaceuticals (Basel),2023,16(10):1369.[35]Gabriele C,Aracri F,Prestagiacomo LE,et al.Development of a predictive model to distinguish prostate cancer from benign prostatic hyperplasia by integrating serum glycoproteomics and clinical variables[J].Clin Proteomics,2023,20(1):52.[36]Nakamura N,Rogers P,Eggerson R,et al.Translational Research for Identifying Potential Early-stage Prostate Cancer Biomarkers[J].Cancer Genomics Proteomics,2023,20(1):1-8.[37]Balraj AS,Muthamilselvan S,Raja R,et al.PRADclass: Hybrid Gleason Grade-Informed Computational Strategy Identifies Consensus Biomarker Features Predictive of Aggressive Prostate Adenocarcinoma[J].Technol Cancer Res Treat,2024,23:15330338231222389.[38]Cao R,Li J,Zhang L,et al.Analysis of Genes Associated with Both Neural Tube Defects and Neuroectodermal Tumors[J].Med Sci Monit,2022,28:e936079.[39]Seymour F,Cavenagh JD,Mathews J,et al.NK cells CD56bright and CD56dim subset cytokine loss and exhaustion is associated with impaired survival in myeloma[J].Blood Adv,2022,6(17):5152-5159.[40]Pánisová E,Lünemann A,Bürgler S,et al.Reduced frequency of cytotoxic CD56 CD16 NK cells leads to impaired antibody-dependent degranulation in EBV-positive classical Hodgkin lymphoma[J].Cancer ImmunolImmunother,2022,71(1):13-24.[41]Guzman De Avila J,Silvera-Redondo C,Alviz-Amador A.Bioinformatic Analysis of Plus Gene Expression Related to Progression from Leukoplakia to Oral Squamous Cell Carcinoma[J].Asian Pac J Cancer Prev,2022,23(11):3833-3842.[42]Wang ZZ,Li XH, Wen XL,et al.Integration of multi-omics data reveals a novel hybrid breast cancer subtype and its biomarkers[J].Front Oncol,2023,13:1130092.[43]Bitaraf M,Mahmanzar M,Zafari N,et al.The potential key genes and pathways associated with Wilms tumor in quest of proper candidates for diagnostic and therapeutic purposes[J].Sci Rep,2022,12(1):17906.[44]V?覿yrynen JP,Haruki K,Lau MC,et al.Spatial Organization and Prognostic Significance of NK and NKT-like Cells via Multimarker Analysis of the Colorectal Cancer Microenvironment[J].Cancer Immunol Res,2022,10(2):215-227.

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更新日期/Last Update: 1900-01-01