Identification of gene biomarkers and immune cell infiltration characteristics in rectal cancer

Wen, Lina; Han, Zongqiang; Du, Yinan

doi:10.21037/jgo-21-255

Cited by 7 publications

(2 citation statements)

References 36 publications

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“…Research had found the high expression of COL1A1 was associated with poor survival in NMIBC BLCA patients, which in line with our results 50 . Besides, COLA1A1 was correlated with immune cell in ltration in different genes, including lung cancer 51 , mesothelioma 52 , rectal cancer 53 and bladder cancer 54 . We also found different immune cell in ltration including macrophage and dendritic cells.…”

Section: Discussionmentioning

confidence: 99%

Comprehensive analysis of fatty acid metabolism-related genes in prognosis, tumor microenvironment infiltration and core gene identification of bladder cancer

Wang,

Tang,

Liu

et al. 2023

Preprint

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Bladder cancer (BLCA) is the common malignant urinary carcinoma and do not have uniformly poor prognosis. Hence, we focused on the function and prognostic value of fatty acid metabolism-related genes in bladder cancer patients. After obtained the fatty acid metabolism-related genes (FRGs), gene expression and corresponding clinical data were acquired from TCGA and GEO databases. Cox regression analysis and least absolute shrinkage and selection operator (LASSO) regression analysis were employed to establish the risk model to estimate the overall survival of BCLA patients. An eight-gene fatty acid metabolism-related risk signature was constructed to predict the overall survival (OS) of BLCA patients. Kaplan-Meier curves, tumor mutation burden, scatter diagram, ROC curves, nomogram were used to assess prognosis. The immunological features were estimated between different groups. IL6 and COL1A1 were considered to have important role in subgroups. Higher expression of IL6 and COL1A1 are positive correlation with higher grade, higher risk and poor prognosis. In conclusion, this risk model based on 8-FLGs is reliable to predict the prognosis and response to immunotherapy in BLCA patients. IL6 and COL1A1 are closely associated with higher risk score and poorer outcomes. This can provide a novel inspective in BLCA treatment.

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Section: Discussionmentioning

confidence: 99%

Comprehensive analysis of fatty acid metabolism-related genes in prognosis, tumor microenvironment infiltration and core gene identification of bladder cancer

Wang,

Tang,

Liu

et al. 2023

Preprint

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“…This process involves the aberrant regulation of signaling pathways and the crucial role of immune in ltration. At the molecular biology level, dysregulation of various signaling pathways, such as Wnt, MAPK, and PI3K/Akt, results in uncontrolled tumor cell proliferation and impaired apoptotic mechanisms, thereby exacerbating the progression of rectal cancer [28][29][30]. Furthermore, these dysregulated signaling pathways contribute to tumor invasion and migration, providing a molecular basis for metastasis.…”

Section: Discussionmentioning

confidence: 99%

Multi-dataset study on neoadjuvant treatment-related prognostic model and molecular network mechanism of locally advanced rectal cancer

Su,

Wu,

Xing

2024

Preprint

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Backgrounds Local advanced rectal cancer (LARC) is a common disease occurrence in clinical settings due to its unique anatomical location and treatment approach. The effectiveness of neoadjuvant chemoradiotherapy (nCRT) plays a crucial role in determining the appropriate treatment and prognosis for patients. Currently, there exists no universally acknowledged benchmark for prognosticating the effectiveness of neoadjuvant therapy. Our study obtained the GSE150082 dataset from the NCBI Geo Public Database, consisting of expression profile data for 39 groups of patients who either responded to nCRT or did not. Differential gene analysis was performed using the Limma package with a significance threshold of p < 0.05 and |log fold change| > 0.585. The functions and pathways associated with the differentially expressed genes were analyzed, and a protein interaction network was constructed using Cytoscape software. Additionally, the TCGA data was used to identify prognostic-related genes from the differential genes through Cox univariate regression and the lasso regression algorithm. Predictive models were then constructed and validated using both internal and external datasets. Results A total of 633 differentially expressed genes associated with nCRT were identified, comprising 238 up-regulated and 395 down-regulated genes. These genes are predominantly enriched in pathways related to innate immune response, regulation of biological stimulus-response, and cell activation. The results from gene screening and the construction of a predictive model demonstrate the model's efficacy in effectively distinguishing between high- and low-risk patients. This predictive capability was validated in both the training set and an external validation set. Additionally, an analysis of the relationship between the risk score and immune infiltration in the tumor microenvironment unveiled a potential molecular mechanism, suggesting that the risk score may impact patient prognosis by modulating specific immune cell populations and immune-related genes. Conclusions MCOLN3、CINP、HAND2 and CCDC85A might be the identified key genes and play a critical role in several pathways associated with response to nCRT. Furthermore, a risk score model was constructed based on prognosis-related genes, providing potential molecular markers and therapeutic targets for personalized strategies in nCRT. Our findings could potentially offer a fresh and innovative outlook for future treatment for patients with LARC.

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Identification of novel diagnostic biomarkers associated with liver metastasis in colon adenocarcinoma by machine learning

Yang,

Tian,

Cao

et al. 2024

Discov Onc

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Identification of gene biomarkers and immune cell infiltration characteristics in rectal cancer

Cited by 7 publications

References 36 publications

Comprehensive analysis of fatty acid metabolism-related genes in prognosis, tumor microenvironment infiltration and core gene identification of bladder cancer

Comprehensive analysis of fatty acid metabolism-related genes in prognosis, tumor microenvironment infiltration and core gene identification of bladder cancer

Multi-dataset study on neoadjuvant treatment-related prognostic model and molecular network mechanism of locally advanced rectal cancer

Identification of novel diagnostic biomarkers associated with liver metastasis in colon adenocarcinoma by machine learning

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