Yu Liang

China Medical University

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Dong‐Qiu Dai

China Medical University

Chun‐Dong Zhang

China Medical University

Ming-Hui Ma

Wuhan National Laboratory for Optoelectronics

Hao Sun

Chinese Academy of Medical Sciences & Peking Union Medical College

Cheng Zhang

Anhui Agricultural University

Jia‐Xiang An

Wenzhou Medical University

Zhen Zhang

Fudan University Shanghai Cancer Center

Jie Liu

Zunyi Medical University

Lei Shi

Harbin Medical University

Jiayou Chu

Peking Union Medical College Hospital

Cooperative Institutions

Monash University

Chinese Academy of Medical Sciences & Peking Union Medical College

Harbin Medical University

Hudson Institute of Medical Research

China Medical University

University of Melbourne

Second Affiliated Hospital of Harbin Medical University

Shanghai Jiao Tong University

Monash Institute of Medical Research

Walter and Eliza Hall Institute of Medical Research

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Identification and Validation of a m6A‐Related Long Noncoding RNA Prognostic Model in Colorectal Cancer

Journal of Cellular and Molecular Medicine (2025)

Jiang Peng Mon‐Li Chu Yu Liang

Accumulating research indicates that N6-methyladenosine (m6A) modification plays a pivotal role in colorectal cancer (CRC). Hence, investigating the m6A-related long noncoding RNAs (lncRNAs) significantly improves therapeutic strategies and prognostic assessments. This study aimed to develop and validate a prognostic model based on m6A-related lncRNAs to improve the prediction of clinical outcomes and identify potential immunological mechanisms in CRC. We obtained high-throughput CRC data from The Cancer Genome Atlas to identify a prognostic model based on m6A-related lncRNAs. Then, the model was constructed and validated through LASSO analysis and Cox regression using R software. The clinical applicability was enhanced by developing a nomogram. We further conducted experiments to reveal the biological function of LINC00543. The prognostic model based on eight m6A-related lncRNAs exhibited impressive accuracy, achieving an area under the receiver-operating curve value of 0.753, 0.682 and 0.706 for predictions after 1, 3 and 5 years, respectively. The Kaplan-Meier analysis confirmed the consistency of the model across different pathological characteristics, with a high-risk group showing a poorer prognosis. Furthermore, the model was linked to immune function, particularly the type I interferon response, through gene set enrichment analysis and experimental validation. Our study presented a m6A-related lncRNA prognostic model for CRC with potential clinical utility. The model not only provided improved accuracy over traditional staging but also offered insights into the immunological mechanisms of CRC, facilitating personalised medicine approaches.

Nomogram

10.1111/jcmm.70376

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Clinical Utility of a STAT3-Regulated miRNA-200 Family Signature with Prognostic Potential in Early Gastric Cancer

Clinical Cancer Research (2018)

Yu Liang Di Wu Hugh Gao Jesse J. Balic Anna Tsykin

Purpose: The majority of gastric cancer patients are diagnosed with late-stage disease, for which distinct molecular subtypes have been identified that are potentially amenable to targeted therapies. However, there exists no molecular classification system with prognostic power for early-stage gastric cancer (EGC) because the molecular events promoting gastric cancer initiation remain ill-defined.Experimental Design: miRNA microarrays were performed on gastric tissue from the gp130F/F preclinical EGC mouse model, prior to tumor initiation. Computation prediction algorithms were performed on multiple data sets and independent gastric cancer patient cohorts. Quantitative real-time PCR expression profiling was undertaken in gp130F/F-based mouse strains and human gastric cancer cells genetically engineered for suppressed activation of the oncogenic latent transcription factor STAT3. Human gastric cancer cells with modulated expression of the miR-200 family member miR-429 were also assessed for their proliferative response.Results: Increased expression of miR-200 family members is associated with both tumor initiation in a STAT3-dependent manner in gp130F/F mice and EGC (i.e., stage IA) in patient cohorts. Overexpression of miR-429 also elicited contrasting pro- and antiproliferative responses in human gastric cancer cells depending on their cellular histologic subtype. We also identified a miR-200 family-regulated 15-gene signature that integrates multiple key current indicators of EGC, namely tumor invasion depth, differentiation, histology, and stage, and provides superior predictive power for overall survival compared with each EGC indicator alone.Conclusions: Collectively, our discovery of a STAT3-regulated, miR-200 family-associated gene signature specific for EGC, with predictive power, provides a molecular rationale to classify and stratify EGC patients for endoscopic treatment. Clin Cancer Res; 24(6); 1459-72. ©2018 AACR.

Gene signature

Tissue microarray

10.1158/1078-0432.ccr-17-2485

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MOESM6 of ZEB1-AS1 initiates a miRNA-mediated ceRNA network to facilitate gastric cancer progression

Figshare (2019)

Ming-Hui Ma Jia‐Xiang An Cheng Zhang Jie Liu Yu Liang

Additional file 7. 576 consensus genes targeted by miR-610, miR-149 and miR-204.

Competing Endogenous RNA

10.6084/m9.figshare.7686326

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Additional file 5 of Characterization of non-specific lipid transfer protein (nsLtp) gene families in the Brassica napus pangenome reveals abundance variation

Figshare (2022)

Yu Liang Yang Huang Kang Chen Xiangdong Kong Maoteng Li

Additional file 5: Supplymentary Table S4: The differentially expression analysis results of BnLTP genes that responses to Sclerotinia sclerotiorum

10.6084/m9.figshare.18070811

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Development and validation of a novel classification scheme for combining pathological T stage and log odds of positive lymph nodes for colon cancer

European Journal of Surgical Oncology (2021)

Jun‐Peng Pei Zhe‐Ming Zhao Zhe Sun Wan‐Jie Gu Jiang Zhu

T-stage

Nomogram

10.1016/j.ejso.2021.09.005

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HLA‐A, HLA‐B, and HLA‐DRB1 alleles and haplotypes in Naxi and Han populations in southwestern China (Yunnan province)

Tissue Antigens (2005)

Li Shi Shiqian Xu Jun Ohashi Hao Sun Jiankun Yu

Abstract The frequencies of the human leukocyte antigen alleles HLA‐A, HLA‐B, and HLA‐DRB1 and the A‐B‐DRB1, A‐B, and B‐DRB1 haplotypes were studied in Naxi and Yunnan Han populations using polymerase chain reaction (PCR)‐sequence‐specific amplification for alleles A and B and a PCR‐microtiter plate hybridization method for the DRB1 allele. A total of 8 A, 19 B, and 30 DRB1 alleles were found in the Naxi population, and 15 A, 21 B, and 36 DRB1 alleles were found in Yunnan Han population. The common A‐B‐DRB1 haplotypes in the Naxi population were A*24‐B*15‐DRB1*1202, A*11‐B*15‐DRB1*0405, A*11‐B*15‐DRB1*1202, A*11‐B*38‐DRB1*08032, and A*11‐B*55‐DRB1*0405; the common A‐B haplotypes were A*11‐B*15, A*11‐B*38, and A*24‐B*15; and the common B‐DRB1 haplotypes were B*15‐DRB1*1202, B*38‐DRB1*08032, and B*48‐DRB1*1201. In the Yunnan Han population, the common A‐B‐DRB1 haplotypes were A*24‐B*15‐DRB1*1501, A*24‐B*46‐DRB1*08032, and A*24‐B*15‐DRB1*1201; the common A‐B haplotypes were A*24‐B*15, A*24‐B*46, and A*34‐B*46; and the common B‐DRB1 haplotypes were B*15‐DRB1*1501, B*46‐DRB1*09012, and B*46‐DRB1*1401. Phylogenetic tree and principal component analyzes based on HLA‐A, HLA‐B, and DRB1 allele frequencies suggested that the Naxi ethnic group belongs to the southern Chinese groups, while the Yunnan Han population is a characteristic population located intermediate between northern and southern Chinese groups, although they live in the southwest of China.

HLA-B

HLA-A

HLA-DRB1

HLA-B Antigens

10.1111/j.1399-0039.2005.00526.x

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Citations (43)

RNA sequencing data from mouse liver samples

Figshare (2023)

Yu Liang Yibo Wang

Liver samples were obtained from 3 control wild-type mice (sample numbers ND-1, ND-2, ND-3), 3 obese mice with normal insulin sensitivity (sample numbers H4-1, H4-2, H4-3), and 3 metabolic syndrome mice with impaired insulin sensitivity (sample numbers H12-1, H12-2, H12-3). RNA was extracted from mouse liver tissue samples and sequenced to analyze the expression levels of different genes.

10.6084/m9.figshare.24145449

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Polymorphic Alu insertions and their associations with MHC class I alleles and haplotypes in Han and Jinuo populations in Yunnan Province, southwest of China

Journal of genetics and genomics/Journal of Genetics and Genomics (2009)

Yufeng Yao Li Shi Lei Shi Keqin Lin Yufen Tao

Linkage Disequilibrium

10.1016/s1673-8527(09)60006-0

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[Killer immunoglobulin-like receptor gene genotype and expression pattern in healthy people].

PubMed (2010)

Dou Lp Da Wm Huang Wr Li Hh Yang Zhao

The aim of study was to clarify the repertoire of killer immunoglobulin-like receptor (KIR) at the level of DNA and RNA in healthy persons and to compare KIR on genotypes and expression patterns. KIR genotypes including KIR2DL1, 2DL2, 2DL3, 2DL4, 2DL5, 2DS1, 2DS2, 2DS3, 2DS4, 2DS5, 3DL1, 3DL2, 3DL3, 3DS1, 2DP1 and 3DP1 were analyzed by PCR. The phenotypes including KIR2DL1, KIR2DL2, KIR2DL3, KIR3DL1, KIR2DS1, KIR2DS3, KIR2DS2/4 gene were determined by RT-PCR. The results showed that the genes of KIR2DL1, KIR2DL3, KIR2DL4, KIR3DL2, KIR3DL3 and KIR3DP1 could be detected in all healthy persons, NK-92MI cells and Molt4 cells, but all corresponding receptors were not expressed by Molt4 T cells. Only partial transcripts of KIR2DL1, KIR2DL3 and KIR2DS2/4 were detectable in NK-92MI cells. If genotypes of KIR2DL1, 2DL2, 2DL3, 2DS1, 2DS2, 2DS3 and 2DS4 were detected in healthy persons, almost all transcripts of corresponding receptors were expressed in peripheral blood NK cells. The expression levels of KIR were different. In conclusion, the repertoires of KIR are individually specific. The expression pattern of KIR is also specific, the expression levels of different KIRs are different in one individual, and the expression levels of the same KIR are also different in different individuals.

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Silymarin suppresses proliferation of human hepatocellular carcinoma cells under hypoxia through downregulation of the HIF-1α/VEGF pathway.

PubMed (2023)

Yu Liang Ting Li Heng Zhang Zhenhua Ma Shengli Wu

Hypoxia is a significant feature of many solid tumors and can activate hypoxia-inducible factor 1α (HIF-1α)/vascular epidermal growth factor (VEGF) signaling pathway, which is closely related to the occurrence and development of primary liver cancer (PLC). Silymarin (SM) had been used as a traditional liver protective drug for decades. Recent studies have found that SM has chemopreventive and chemosensitizing effects on multiple cancers. In this study, we investigated the effects of SM on HIF-1α/VEGF signaling in human hepatocellular carcinoma cells under hypoxia conditions.HepG2 and Hep3B cells were divided into different experimental groups according to different culture conditions (aerobic or anaerobic) and the concentration of SM in the culture medium. The cellular proliferation, migration, invasion, colony formation, and apoptosis were observed by using methyl thiazolyl tetrazolium (MTT) assay, cell migration assay, in vitro invasion assay, soft agar colony formation assay, and Annexin V apoptosis assay, respectively. The cellular expressions of HIF-1α and VEGF were determined by real-time reverse transcription-polymerase chain reaction (RT-PCR) and western blot (WB) analyses.SM reduced cellular proliferation, migration, invasion, and colony formation, but induced apoptosis in HepG2 and Hep3B cells under hypoxia conditions. The half inhibitory concentrations (IC50) of SM on HepG2 and Hep3B cells were 58.46 and 75.13 umol/L, respectively. SM also suppressed cellular expressions of HIF-1α and VEGF in HepG2 and Hep3B cells under hypoxia conditions at the mRNA and protein levels. All these effects of SM were dose dependent.The inhibitory effect of SM on HepG2 and Hep3B cells under hypoxia is partially via downregulating HIF-1α/VEGF signaling, which may serve as a potential drug therapy target for liver cancer based on SM.

Hypoxia

MTT assay

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