Evidence map›Paper›PMID 41288794›Full record

ArticleDiscover oncology2025

Using single cell sequencing to investigate tumor microenvironment differences in left and right colon cancer and prognosis-related core genes.

Yuhuan Jiang, Ziying Li, Ziqian Liu, Wanqian Xu, Xiajing Yu, Zhiwen Cheng, Linfeng Jin, Wenqing Zhu, Yi Lin, Zhenfang Xiong

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PubMed Full text at PMC Publisher
In one paragraph

Article in Discover oncology, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Not yet cited in PubMed.

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4 · The record

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5 · Who and what money

Authors and funding

10 authors.

Yuhuan Jiang *Department of Clinical Laboratory, The First Affiliated Hospital, Jiangxi Medical College, Nanchang University, No.17 Yongwaizheng Street, Nanchang, 330006, Jiangxi, China.
Ziying Li *Queen Mary College, Nanchang University, Nanchang, 330006, Jiangxi, China.
Ziqian Liu *The First Clinical Medical College, Jiangxi Medical College, Nanchang University, Nanchang, 330006, Jiangxi, China.
Wanqian Xu *Queen Mary College, Nanchang University, Nanchang, 330006, Jiangxi, China.
Xiajing YuSchool of Public Health, Jiangxi Medical College, Nanchang University, Nanchang, 330006, Jiangxi, China.
Zhiwen ChengThe Second Clinical Medical College, Jiangxi Medical College, Nanchang University, Nanchang, 330006, Jiangxi, China.
Linfeng JinSchool of Public Health, Jiangxi Medical College, Nanchang University, Nanchang, 330006, Jiangxi, China.
Wenqing ZhuThe First Clinical Medical College, Jiangxi Medical College, Nanchang University, Nanchang, 330006, Jiangxi, China.
Yi LinThe First Clinical Medical College, Jiangxi Medical College, Nanchang University, Nanchang, 330006, Jiangxi, China.
Zhenfang XiongJiangxi Provincial Key Laboratory for Precision Pathology and Intelligent Diagnosis, Department of Pathology, The First Affiliated Hospital, Jiangxi Medical College, Nanchang University, No.17 Yongwaizheng Street, Nanchang, 330006, Jiangxi, China. ndyfy02303@ncu.edu.cn.

Funding

Applied Research Incubation Program of Jiangxi Province 2021BAG70046Science and Technology Plan Project of Jiangxi Provincial Health Care Commission 202210346
6 · The paper itself

Abstract

backgroundColon cancer is a common intestinal malignancy and previous studies reported many differences between left (LCC) and right colon cancer (RCC). Traditional research methods are unable to compare differences within tumors at the single-cell level.

methodsWe downloaded single-cell RNA sequencing (scRNA seq) data from GEO database. After quality control we conducted cell clustering, annotation and pseudotime analysis to identify the differentially expressed genes (DEGs) in RCC compared to LCC. Gene set enrichment analysis (GSEA) was undertaken to explore the pathways these DEGs involved. Based on the expression of these DEGs, we divided patients from TCGA (The Cancer Genome Atlas) database. The differences of tumor microenvironment and immune infiltration in different clusters were also analyzed. WGCNA was performed to select the survival-related genes. Survival-related DEGs were selected and univariate Cox regression analysis was conducted to further identify independent prognostic genes. A nomogram model was established for risk prediction and its accuracy was verified by calibration curve and immunohistochemistry (IHC) analysis.

resultsWe found significant differences of tumor microenvironment and immune infiltration among three patient clusters. The patients with high infiltration of memory B cells were associated with poorer survival. We eventually obtained seven prognosis-related genes: S100P, LGALS4, TIMP1, DNASE1L3, BGN, TPM2 and LY6E, based on which a risk model was constructed, which was an accurate independent predictor for CRC patients. IHC stanning confirmed that the expression levels of these prognostic genes in tumor versus adjacent non-tumor tissues were consistent with our risk model.

conclusionsOur prognosis-related risk model based on DEGs between RCC and LCC may provide better prediction of clinical outcomes for patients with colon cancer.

Indexed as

Left and right colon cancerPrognostic modelSingle-cell sequencingTumor microenvironment

Identifiers

PMID41288794
PMCPMC12705519

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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.