Li Lab

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2024

• Dan Liu, Tianyu Zhang, Hangfan Zhou, Chuanji Wu, Taiwen Li(*), Lu Jiang(*). Malignant transformation of white sponge nevus: a case report of a novel keratin 4 mutation. BMC Oral Health. 2024;24(1):588. [PMID]
• Yunmei Dong(#), Kan Zeng(#), Ruixue Ai, Chengli Zhang, Fei Mao, Hongxia Dan, Xin Zeng, Ning Ji, Jing Li, Xin Jin, Qianming Chen, Yu Zhou(*), Taiwen Li(*). Single-cell transcriptome dissecting the microenvironment remodeled by PD1 blockade combined with photodynamic therapy in a mouse model of oral carcinogenesis. MedComm. 2024;5(7):e636. [PMID]
• Yunmei Dong, Chengli Zhang, Fei Mao, Hongxia Dan, Xin Zeng, Ning Ji, Jing Li, Qianming Chen, Yu Zhou(*), Taiwen Li(*). Mass cytometry and transcriptomic profiling reveal PD1 blockade induced alterations in oral carcinogenesis. Molecular Carcinogenesis. 2024;63(4):563-576. [PMID]
• Shumin Duan, Qionghua Li, Fei Wang, Wenjing Kuang, Yunmei Dong, Dan Liu, Jiongke Wang, Wei Li, Qianming Chen, Xin Zeng(*), Taiwen Li(*). Single-Cell Transcriptomes and Immune Repertoires Reveal the Cell State and Molecular Changes in Pemphigus Vulgaris. The Journal of Immunology. 2024;212(3):375-388. [PMID]
• Liang Zhong, Fei Wang, Dan Liu, Wenjing Kuang, Ning Ji, Jing Li, Xin Zeng, Taiwen Li(*), Hongxia Dan(*), Qianming Chen(*). Single-cell transcriptomics dissects premalignant progression in proliferative verrucous leukoplakia. Oral Diseases. 2024;30(2):172-186. [PMID]

2023

• Pengfei Ren(#), Xiaoying Shi(#), Zhiguang Yu, Xin Dong, Xuanxin Ding, Jin Wang, Liangdong Sun, Yilv Yan, Junjie Hu, Peng Zhang, Qianming Chen, Jing Zhang(*), Taiwen Li(*), Chenfei Wang(*). SELINA: Single-Cell Assignment Using Multiple-Adversarial Domain Adaptation Network with Large-Scale References. Cell Reports Methods. 2023;3(9):100577. [PMID]
• Yang Yang(#), Teng Ma(#), Jun Zhang, Yu Tang, Miao Tang, Chaoyu Zou, Yige Zhang, Mingbo Wu, Xueli Hu, Huan Liu, Qianhua Zhang, Yilin Liu, Hongliang Li, Jing Shirley Li, Zhuochong Liu, Jing Li(*), Taiwen Li(*), Xikun Zhou(*). An integrated multi-omics analysis of identifies distinct molecular characteristics in pulmonary infections of Pseudomonas aeruginosa. PLoS pathogens. 2023;19(8):e1011570. [PMID]
• Qionghua Li(#), Fei Wang(#), Yujie Shi, Liang Zhong, Shumin Duan, Wenjing Kuang, Na Liu, En Luo, Yu Zhou, Lu Jiang, Hongxia Dan, Xiaobo Luo, Dunfang Zhang, Qianming Chen, Xin Zeng(*), Taiwen Li(*). Single-cell immune profiling reveals immune responses in oral lichen planus. Front Immunol. 2023;14:1182732. [PMID]

2022

• Xueli Hu(#), Mingbo Wu(#), Teng Ma, Yige Zhang, Chaoyu Zou, Ruihuan Wang, Yongxin Zhang, Yuan Ren, Qianqian Li, Huan Liu, Heyue Li, Taolin Wang, Xiaolong Sun, Yang Yang, Miao Tang, Xuefeng Li, Jing Li, Xiang Gao, Taiwen Li(*), Xikun Zhou(*). Single-cell transcriptomics reveals distinct cell response between acute and chronic pulmonary infection of Pseudomonas aeruginosa. MedComm. 2022;3(4):e193. [PMID]
• Ya Han(#), Yuting Wang(#), Xin Dong(#), Dongqing Sun, Zhaoyang Liu, Jiali Yue, Haiyun Wang, Taiwen Li(*), Chenfei Wang(*). TISCH2: expanded datasets and new tools for single-cell transcriptome analyses of the tumor microenvironment. Nucleic Acids Research. 2022;51(D1):D1425-D1431. [PMID]
• Xiaoying Shi(#), Zhiguang Yu(#), Pengfei Ren, Xin Dong, Xuanxin Ding, Jiaming Song, Jing Zhang, Taiwen Li(*), Chenfei Wang(*). HUSCH: an integrated single-cell transcriptome atlas for human tissue gene expression visualization and analyses. Nucleic Acids Research. 2022;51(D1):D1029-D1037. [PMID]
• Chengli Zhang, Dan Pan, Ying Li, Yuting Hu, Taiwen Li(*), Yu Zhou(*). The risk factors associated with geographic tongue in a southwestern Chinese population. Oral Surg. Oral Med. Oral Pathol. Oral Radiol. 2022; 134(3):342-346. [PMID]
• Xie C, Li Z, Hua Y, et al. Identification of a BRAF/PA28γ/MEK1 signaling axis and its role in epithelial-mesenchymal transition in oral submucous fibrosis. Cell Death Dis. 2022;13(8):1-12. [PMID]
• Sun D, Liu Z, Li T, Wu Q, Wang C. STRIDE: accurately decomposing and integrating spatial transcriptomics using single-cell RNA sequencing. Nucleic Acids Research. 2022;50(7):e42-e42. [PMID]

2021

• Fei Mao, Yunmei Dong, Zhen Wang, Luyao Cai, Dan Pan, Chengli Zhang, Taiwen Li(*), Yu Zhou(*). Direct immunofluorescence and immune function in patients with oral lichen planus. J Dent Sci. 2021;17(2):795-801. [PMID]
• Yunmei Dong(#), Zhen Wang(#), Fei Mao, Luyao Cai, Hongxia Dan, Lu Jiang, Xin Zeng, Taiwen Li(*), Yu Zhou(*), Qianming Chen. PD-1 blockade prevents the progression of oral carcinogenesis. Carcinogenesis. 2021;42(6):891-902. [PMID]
• Jiao Lin, Guangcheng Ni, Tingting Ding, Shangxue Lei, Liang Zhong, Na Liu, Keran Pan, Ting Chen, Xin Zeng, Hao Xu, Taiwen Li(*), Hongxia Dan(*). Photodynamic Therapy for Oral Squamous Cell Carcinoma: A Systematic Review and Meta-Analysis. Int J Photoenergy. 2021;2021:6641358. [Fulltext]
• Dongqing Sun(#), Jin Wang(#), Ya Han(#), Xin Dong, Jun Ge, Rongbin Zheng, Xiaoying Shi, Binbin Wang, Ziyi Li, Pengfei Ren, Liangdong Sun, Yilv Yan, Peng Zhang, Fan Zhang(*), Taiwen Li(*), Chenfei Wang(*). TISCH: a comprehensive web resource enabling interactive single-cell transcriptome visualization of tumor microenvironment. Nucleic Acids Res. 2021;49(D1): D1420-D1430. [PMID]
• Luo X, Jiang Y, Chen F, et al. ORAOV1-B Promotes OSCC Metastasis via the NF-κB-TNFα Loop. J Dent Res. 2021;100(8):858-867. [PMID]
• Na Liu, Liang Zhong, Guangcheng Ni, Jiao Lin, Liang Xie, Taiwen Li, Hongxia Dan(*), and Qianming Chen(*). High Matrix Metalloproteinase 28 Expression Is Associated with Poor Prognosis in Pancreatic Adenocarcinoma. OncoTargets and Therapy. 2021;14:4391-4406. [PMID]

2020

• Taiwen Li(#), Jingxin Fu(#), Zexian Zeng, David Cohen, Jing Li, Qianming Chen, Bo Li, X. Shirley Liu(*). TIMER2.0 for analysis of tumor-infiltrating immune cells. Nucleic Acids Res. 2020;48(W1):W509-W514. [PMID]
• Hao Xu(#), Liang Zhong(#), Jiaxin Deng(#), Jiakuan Peng, Hongxia Dan, Xin Zeng, Taiwen Li(*), Qianming Chen(*). High expression of ACE2 receptor of 2019-nCoV on the epithelial cells of oral mucosa. Int J Oral Sci. 2020; 12(8):1:5. [PMID]
• Zihao Wei(#), Yun Wang(#), Lu Jiang(#), Ning Ji, Ying Wang, Fangman Chen, Taiwen Li, Jing Li, Hao Xu, Xin Zeng(*), Qianming Chen(*). miR-223 regulates oral squamous cell carcinoma metastasis through the Wnt/β-catenin signaling pathway. Oral Oncology. 2020;109:104941. [PMID]
• Sarah Abou Alaiwi, Amin H. Nassar, et al. Mammalian SWI/SNF Complex Genomic Alterations and Immune Checkpoint Blockade in Solid Tumors. Cancer Immunol Res. 2020;8(8):1075-1084. [PMID]
• Bo Li(*), Taiwen Li, Jun S. Liu, X. Shirley Liu. (2020) Computational Deconvolution of Tumor-Infiltrating Immune Components with Bulk Tumor Gene Expression Data. In: Boegel S. (eds) Bioinformatics for Cancer Immunotherapy. Methods in Molecular Biology. vol 2120. Humana, New York, NY [PMID]

Before 2020

• Yaxin Xie, Liang Zhong, Dingyu Duan(*), Taiwen Li(*). Casticin inhibits invasion and proliferation via downregulation of β-catenin and reversion of EMT in oral squamous cell carcinoma. J Oral Pathol Med. 2019; 48(10):897-905. [PMID]
• Xihao Hu(#), Jian Zhang(#), Jin Wang, Jingxin Fu, Taiwen Li, Xiaoqi Zheng, Binbin Wang, Shengqing Gu, Peng Jiang, Jingyu Fan, Xiaomin Ying, Jing Zhang, Michael C. Carroll, Kai W. Wucherpfennig, Nir Hacohen, Fan Zhang, Peng Zhang, Jun S. Liu(*), Bo Li(*), X. Shirley Liu(*). Landscape of B cell immunity and related immune evasion in human cancers. Nat Genet. 2019;51(3):560-567. [PMID]
• MacIntosh Cornwell(#), Mahesh Vangala(#), Len Taing(#), Zachary Herbert, Johannes Köster, Bo Li, Hanfei Sun, Taiwen Li, Jian Zhang, Xintao Qiu, Matthew Pun, Rinath Jeselsohn, Myles Brown, X. Shirley Liu, Henry W. Long(*). VIPER: Visualization Pipeline for RNA-seq, a Snakemake workflow for efficient and complete RNA-seq analysis, BMC Bioinformatics. 2018;19(1):135. [PMID]
• Taiwen Li, Jinyu Fan, Binbin Wang, Nicole Traugh, Qianming Chen, Jun S. Liu, Bo Li(*), X. Shirley Liu(*). TIMER: A Web Server for Comprehensive Analysis of Tumor-Infiltrating Immune Cells. Cancer Res. 2017;77(21):e108-e110. [PMID]
• Bo Li, Taiwen Li, Binbin Wang, Ruoxu Dou, Jian Zhang, Jun S Liu, X. Shirley Liu(*). Ultrasensitive detection of TCR hypervariable-region sequences in solid-tissue RNA-seq data. Nat Genet. 2017;49(4):482-483. [PMID]
• Xin Jin, Hao Xu, Xingyu Wu, Taiwen Li, Jing Li, Yu Zhou, Hongxia Dan, Lu Jiang, Xin Zeng, Ping Ji(*), Qianming Chen(*). KDM4A as a prognostic marker of oral squamous cell carcinoma: Evidence from tissue microarray studies in a multicenter cohort. Oncotarget. 2017;8(46):80348–80357 [PMID]
• Bo Li(#), Taiwen Li(#),Jean-Christophe Pignon, Binbin Wang, Jinzeng Wang, Sachet A Shukla, Ruoxu Dou, Qianming Chen, F Stephen Hodi, Toni K Choueiri, Catherine Wu, Nir Hacohen, Sabina Signoretti, Jun S Liu(*), X Shirley Liu(*). Landscape of tumor-infiltrating T cell repertoire of human cancers. Nat Genet. 2016;48(7):725-732. [PMID]
• Bo Li(#), Eric Severson(#), Jean-Christophe Pignon(#), Haoquan Zhao, Taiwen Li, Jesse Novak, Peng Jiang, Hui Shen, Jon C. Aster, Scott Rodig, Sabina Signoretti, Jun S. Liu(*), X. Shirley Liu(*). Comprehensive analyses of tumor immunity: implications for cancer immunotherapy. Genome Biol. 2016;17(1):174. [PMID]
• Jing Li(#), Xiaodong Feng(#), Chongkun Sun(#), Xin Zeng(#), et al. Associations between proteasomal activator PA28γ and outcome of oral squamous cell carcinoma: Evidence from cohort studies and functional analyses. EBioMedicine. 2015;2(8):851-858. [PMID]
• Xiaoping Xu(#), Dongjuan Liu(#), Ning Ji, Taiwen Li, Longjiang Li, Lu Jiang, Jing Li(*), Ping Zhang(*), Xin Zeng, Qianming Chen. A novel transcript variant of proteasome activator 28γ: Identification and function in oral cancer cells. Int J Oncol. 2015;47(1):188-194. [PMID]
• Yun Wang(#), Long Long(#), Taiwen Li, Yu Zhou, Lu Jiang, Xin Zeng, Hongxia Dan, Ga Liao, Gang Luo, Hui Wang, Min Zhou, Yi Xu(*), Jing Li(*), Qianming Chen. Polymorphisms of microRNA-binding sites in integrin genes are associated with oral squamous cell carcinoma susceptibility and progression. Tohoku J Exp Med. 2014;233(1):33-41. [PMID]
• Yun Wang(#), Chongkui Sun(#), Taiwen Li, Hao Xu, Yu Zhou, Hongxia Dan, Lu Jiang, Xin Zeng, Longjiang Li, Jing Li(*), Ga Liao(*), Qianming Chen. Integrative approach detected association between genetic variants of microRNA binding sites of TLRs pathway genes and OSCC susceptibility in Chinese Han population. PloS one. 2014;9(7):e101695. [PMID]
• Yun Wang(#), Lin Lin(#), Hao Xu, Taiwen Li, Yu Zhou, Hongxia Dan, Lu Jiang, Ga Liao, Min Zhou, Longjiang Li, Xin Zeng(*), Jing Li(*), Qianming Chen. Genetic variants in AKT1 gene were associated with risk and survival of OSCC in Chinese Han Population. J Oral Pathol Med. 2014;44(1):45-50. [PMID]