SERPING1, a biomarker for colorectal liver metastasis, promotes colorectal cancer cell proliferation, migration, and invasion DOI
Wenhao Yu,

Boyuan Gu,

Zhiwei Huang

et al.

Research Square (Research Square), Journal Year: 2024, Volume and Issue: unknown

Published: Sept. 24, 2024

Abstract Colorectal liver metastasis (CRLM) is a major cause of mortality in colorectal cancer (CRC) patients, but its precise etiology remains unclear. Identifying genes associated with CRLM and understanding their molecular mechanisms crucial. Here, we identified SERPING1 as hub gene causing by WGCNA, differentially expressed analysis K-M survival analysis. In addition, confirmed the high expression using human samples. Furthermore, our vitro experiments showed that promotes proliferation, migration invasion cells activates EMT pathway cells. Finally, to explore role tumour microenvironment, performed single-cell sequencing found was enriched cancer-associated fibroblasts (CAFs) immune infiltration CAFs. Collectively, these studies promising target for control CRLM.

Language: Английский

Qingre Huayu Jianpi prescription alleviates the inflammatory transformation of colitis-associated colorectal cancer by inhibiting the IL-17RA/ACT1/NF-κB axis DOI

Yilin Duan,

Yao Lü,

Zhenglin Liu

et al.

Journal of Ethnopharmacology, Journal Year: 2025, Volume and Issue: 345, P. 119554 - 119554

Published: March 3, 2025

Language: Английский

Citations

1
A systematic review of graph-based explorations of PPI networks: methods, resources, and best practices DOI
Trilochan Rout,

Anjali Mohapatra,

Madhabananda Kar

et al.

Network Modeling Analysis in Health Informatics and Bioinformatics, Journal Year: 2024, Volume and Issue: 13(1)

Published: May 30, 2024

Language: Английский

Citations

5
Analysis of the potential pyroptosis mechanism in psoriasis and experimental validation of NLRP3 in vitro and in vivo DOI
Chen Zhang, Bin Tang,

Xuwei Zheng

et al.

International Immunopharmacology, Journal Year: 2023, Volume and Issue: 124, P. 110811 - 110811

Published: Aug. 28, 2023

Language: Английский

Citations

12
Precision Prediction of Alzheimer’s Disease: Integrating Mitochondrial Energy Metabolism and Immunological Insights DOI
Wenlong Du,

Shihui Yu,

Ruiyao Liu

et al.

Journal of Molecular Neuroscience, Journal Year: 2025, Volume and Issue: 75(1)

Published: Jan. 14, 2025

Language: Английский

Citations

0
Transcriptome Analysis of Onobrychis viciifolia During Seed Germination Reveals GA3-Inducible Genes Associated with Phenylpropanoid and Hormone Pathways DOI Open Access

Yanyan Luo,

Kun Wang, Jiao Cheng

et al.

International Journal of Molecular Sciences, Journal Year: 2025, Volume and Issue: 26(5), P. 2335 - 2335

Published: March 6, 2025

Sainfoin (Onobrychis viciifolia) is a type of leguminous plant with high feeding value. It contains concentration tannins at all growth stages, which can precipitate soluble proteins and form large number persistent foams in the rumen, so that ruminant livestock will not develop dilatation disease during green grazing. The germination rate O. viciifolia seeds very low under natural conditions. preliminary experiment showed 600 mg/L GA3 treatment significantly improved seed vitality sainfoin seeds. In comparison to CK, decreased relative content endogenous inhibitors, most notable reduction observed 4-nitroso-N-phenyl-benzenamine. Therefore, we selected dry stage (GZ), imbibition (XZ), split (LK), radicle emergence (MF) four different stages treated for transcriptome analysis. RNA-seq identified 1392, 2534 4284 differentially expressed genes (DEGs) GZ vs. XZ, XZ LK, LK MF, respectively. During germination, DEGs are mainly enriched hormone signaling phenylalanine biosynthesis pathways, up-down-regulation these may alter secondary metabolite levels promote germination. results weighted gene co-expression network construction (WGCNA) also indicate signal transduction phenylpropanoid play dominant role GA3-induced conclusion, combined analysis transcriptomic physiological indicators provided new insights into theoretical basis further study candidate genes.

Language: Английский

Citations

0
Network pharmacological approach combined with weighted gene co-expression network analysis identifies CDKN2A as the keg target of Changweiqing against colorectal cancer DOI Creative Commons

Ma Zushuai,

Yanrong Ji,

Zhao Chengdu

et al.

Hereditas, Journal Year: 2025, Volume and Issue: 162(1)

Published: March 10, 2025

Language: Английский

Citations

0
Construction and Value Analysis of a Prognostic Assessment Model Based on Radiomics and Genetic Data for Colorectal Cancer DOI Creative Commons

Yongna Cheng,

Zi‐Ming Feng, Xiangming Wang

et al.

British Journal of Hospital Medicine, Journal Year: 2025, Volume and Issue: 86(3), P. 1 - 18

Published: March 26, 2025

Aims/Background Colorectal cancer (CRC) is one of the major global health problems, with high morbidity and mortality, underscoring need for new diagnostic prognostic tools. Therefore, this study aims to evaluate significance integrating radiomics genetic data in CRC assessment improve accuracy prognosis prediction. Methods This included computed tomography (CT) images from 225 patients RNA-seq information 654 patients, obtained TICA database. Key features genes were identified through feature extraction, least absolute shrinkage selection operator (LASSO) regression analysis, Kaplan-Meier survival analysis. Furthermore, a model was constructed using these key features. Results 170 Out them, five significantly associated prognosis. Transcriptome analysis 8 genes, among which expressions Inhibin Subunit Beta B (INHBB), Potassium Voltage-Gated Channel Subfamily Q Member 2 (KCNQ2), Ubiquilin Like (UBQLNL) correlated poor Age, tumor stage, pathological T N stage determined as independent factors. Moreover, immune infiltration demonstrated that score low-risk group higher than high-risk group, significant differences some cells, cells. Additionally, incorporating three INHBB, KCNQ2, UBQLNL, exhibited prediction validation set, area under curve (AUC) values 0.80, 0.87, 0.84 at 1-year, 3-year, 5-year, respectively, indicating good performance reliability model. Conclusion The multimodal combining gene expression can assessment, providing valuable tool clinical practice helping guide optimization treatment regimens.

Language: Английский

Citations

0
Transcriptome-Wide Analysis and Experimental Validation from FFPE Tissue Identifies Stage-Specific Gene Expression Profiles Differentiating Adenoma, Carcinoma In-Situ and Adenocarcinoma in Colorectal Cancer Progression DOI Open Access
Faisal Alhosani, Reem Sami Alhamidi,

Burcu Yener Ilce

et al.

International Journal of Molecular Sciences, Journal Year: 2025, Volume and Issue: 26(9), P. 4194 - 4194

Published: April 28, 2025

Colorectal cancer (CRC) progression occurs through three stages: adenoma (pre-cancerous lesion), carcinoma in situ (CIS) and adenocarcinoma, with tumor stage playing a pivotal role the prognosis treatment outcomes. Despite therapeutic advancements, lack of stage-specific biomarkers hinders development accurate diagnostic tools effective strategies. This study aims to identify gene expression profiles key molecular mechanisms CRC providing insights into alterations across disease progression. Our methodological approach integrates use absolute set enrichment analysis (absGSEA) on formalin-fixed paraffin-embedded (FFPE)-derived transcriptomic data, combined large-scale clinical validation experimental confirmation. A comparative whole (RNA-seq) was performed FFPE samples including (n = 10), 8) adenocarcinoma 11) samples. Using absGSEA, we identified significant cellular pathways putative associated each Key findings were then validated large independent patient cohort 1926), survival conducted from 1336 patients assess prognostic relevance candidate biomarkers. The differentially expressed genes experimentally using real-time PCR (RT-qPCR). Pathway revealed that CIS, apoptotic processes Wnt signaling more prominent than samples, while transcriptional co-regulatory protein kinase activity, which are critical for growth metastasis, significantly enriched compared adenoma. Additionally, extracellular matrix organization CIS. Distinct signatures stages differentiate between adenoma, CIS adenocarcinoma. In ARRB1, CTBP1 CTBP2 overexpressed, suggesting their involvement early tumorigenesis, whereas RPS3A COL4A5 transition benign malignant stage. COL1A2, CEBPZ, MED10 PAWR advanced Functional confirmed ARRB1 CTBP1/2 development, COL1A2 CEBPZ involved remodeling regulation, respectively. Experimental RT-qPCR differential (ARRB1, RPS3A, COL4A5, MED10) reinforcing potential as These provide foundation distinguish biomarkers, helps strategies CRC.

Language: Английский

Citations

0
Potential Signature Therapeutic Biomarkers TOP2A, MAD2L1, and CDK1 in Colorectal Cancer: A Systems Biomedicine-Based Approach DOI
P. Priyamvada, Sudha Ramaiah

Biochemical Genetics, Journal Year: 2023, Volume and Issue: 62(3), P. 2166 - 2194

Published: Oct. 26, 2023

Language: Английский

Citations

10
Prediction of novel biomarkers for gastric intestinal metaplasia and gastric adenocarcinoma using bioinformatics analysis DOI Creative Commons
Mohammad Reza Eskandarion, Sharareh Eskandarieh, Abbas Shakoori

et al.

Heliyon, Journal Year: 2024, Volume and Issue: 10(9), P. e30253 - e30253

Published: April 25, 2024

Highlights•ECM interaction in GC and PPAR signaling pathway intestinal metaplasia may play key roles the progression of GC.•COL1A2, COL4A1, COL6A3 were significantly correlated with overexpression, poor prognosis, highest mutation rates GC.•FABP1, APOC3, APOA1, HMGCS2, PPARA, PCK1 are important biomarkers that have received little attention IM.•Developing forecasting via regulating hub genes be affected by hsa-miR-29.AbstractBackground & aimThe histologic molecular changes from (IM) to gastric cancer (GC) not been fully characterized. The present study sought identify potential alterations pathways IM predict disease progression; these can considered therapeutic targets.Materials methodsSeven gene expression profiles selected GEO database. Discriminate differentially expressed (DEGs) analyzed EnrichR. STRING database, Cytoscape, Gene Expression Profiling Interactive Analysis (GEPIA), cBioPortal, NetworkAnalyst, MirWalk OncomiR, bipartite miRNA‒mRNA correlation network was used for downstream analyses module genes.ResultsAnalyses revealed extracellular matrix-receptor interactions (ITGB1, COL1A1, COL1A2, FN1, COL6A3, THBS2) (FABP1, PPARA PCK1) both carcinogenesis underlying metaplasia. enrichment indicated this is closely related digestion absorption. TF-hub regulatory AR, TCF4, SALL4, ESR1 more expression. It development prediction hsa-miR-29. found PTGR1, C1orf115, CRYL1, ALDOB, SULT1B1 downregulated upregulated IM. Therefore, they might tumor suppressor activity progression.ConclusionNew involved identified transformation adenocarcinoma targets GC.

Language: Английский

Citations

3