百晓学者学者目录

肖云

教授，哈尔滨医科大学

精选作品

期刊论文

2026

高级别浆液性卵巢癌免疫微环境的空间异质性：原发与转移灶PD-L1、TIL及TAM的差异评估

杨婧，李晓璐，李然，肖云，夏金华，谭娜，杨丹，郑洪

《诊断病理学杂志》

2023

Computational Quantification of Cancer Immunoediting.

Kun Liu, Shengyuan He, Shangqin Sun, Xinxin Zhang, Yan-yan He, Fei Quan, Bo Pang, Yun Xiao

Cancer immunology research

DOI

2022

Applicability of Anticancer Drugs for the Triple-Negative Breast Cancer Based on Homologous Recombination Repair Deficiency

Gao-Ming Liao, Yiran Yang, Aimin Xie, Zedong Jiang, Jianlong Liao, M. Yan, Yao Zhou, Jiali Zhu, Jing Hu, Yun-Peng Zhang, Yun Xiao, Xia Li

Frontiers in Cell and Developmental Biology

DOI

2022

Single-Cell Transcriptomic Analysis Reveals the Crosstalk Propensity Between the Tumor Intermediate State and the CD8+ T Exhausted State to be Associated with Clinical Benefits in Melanoma

Jiali Zhu, M. Yan, Haoteng Yan, Li-Wen Xu, Zedong Jiang, Gao-Ming Liao, Yao Zhou, W. Liu, Xin Liang, Xia Li, Yun Xiao, Yun-Peng Zhang

Frontiers in Immunology

DOI

2022

Revealing the contribution of somatic gene mutations to shaping tumor immune microenvironment

Li-Wen Xu, Shiwei Zhu, Yujia Lan, M. Yan, Zedong Jiang, Jiali Zhu, Gao-Ming Liao, Y. Ping, Jinyuan Xu, Bo Pang, Yun-Peng Zhang, Yun Xiao, Xia Li

Briefings Bioinform.

DOI

2022

Identification and Characterization of Immunogene-Related Alternative Splicing Patterns and Tumor Microenvironment Infiltration Patterns in Breast Cancer

Shuang Guo, Xuepeng Wang, Hanxiao Zhou, Yue Gao, Peng Wang, Hui Zhi, Yue Sun, Yangyang Hao, Jing Gan, Yakun Zhang, Jie Sun, Wen Zheng, Xiaoxin Zhao, Yun Xiao, Shang-Wei Ning

Cancers

DOI

2021

Systematic Assessment of Transcriptomic Biomarkers for Immune Checkpoint Blockade Response in Cancer Immunotherapy

Shangqin Sun, Li-Wen Xu, Xinxin Zhang, Lin Pang, Zhilin Long, Chunyu Deng, Jiali Zhu, Shuting Zhou, Linyun Wan, Bo Pang, Yun Xiao

Cancers

DOI

2021

Analysis of Mutations and Dysregulated Pathways Unravels Carcinogenic Effect and Clinical Actionability of Mutational Processes

Zedong Jiang, Gao-Ming Liao, Yiran Yang, Yujia Lan, Li-Wen Xu, M. Yan, Yao Zhou, Jiali Zhu, Wei Liu, J. Bai, Yun Xiao, Xia Li

Frontiers in Cell and Developmental Biology

DOI

2021

Single-Cell Transcriptomic Analysis Reveals a Tumor-Reactive T Cell Signature Associated With Clinical Outcome and Immunotherapy Response In Melanoma

M. Yan, Jing Hu, Y. Ping, Li-Wen Xu, Gao-Ming Liao, Zedong Jiang, Bo Pang, Shangqin Sun, Yun-Peng Zhang, Yun Xiao, Xia Li

Frontiers in Immunology

DOI

2021

Transcriptomic heterogeneity of driver gene mutations reveals novel mutual exclusivity and improves exploration of functional associations

Yujia Lan, Wei Liu, Wanmei Zhang, Jing Hu, Xiao-Jing Zhu, Linyun Wan, S. A, Y. Ping, Yun Xiao

Cancer Medicine

DOI

2021

Dynamic regulatory networks of T cell trajectory dissect transcriptional control of T cell state transition

M. Yan, Jing Hu, Huating Yuan, Li-Wen Xu, Gao-Ming Liao, Zedong Jiang, Jiali Zhu, Bo Pang, Y. Ping, Yun-Peng Zhang, Yun Xiao, Xia Li

Molecular Therapy: Nucleic Acids

DOI

2021

Combined homologous recombination repair deficiency and immune activation analysis for predicting intensified responses of anthracycline, cyclophosphamide and taxane chemotherapy in triple-negative breast cancer

Gao-Ming Liao, Zedong Jiang, Yiran Yang, Cong Zhang, Meiting Jiang, Jiali Zhu, Li-Wen Xu, Aimin Xie, M. Yan, Yun-Peng Zhang, Yun Xiao, Xia Li

BMC Medicine

DOI

2020

Clonal tumor mutations in homologous recombination genes predict favorable clinical outcome in ovarian cancer treated with platinum-based chemotherapy.

Shang-Yi Luo, Yajing Zhang, Yiran Yang, Shiwei Zhu, Wei Liu, Jiali Zhu, Xin Liang, Zedong Jiang, Shangqin Sun, Xiaobo Hou, Yun Xiao, Xia Li

Gynecologic Oncology

DOI

2020

Dissecting the Functional Mechanisms of Somatic Copy-Number Alterations Based on Dysregulated ceRNA Networks across Cancers

Y. Ping, Yao Zhou, Jing Hu, Lin Pang, Chaohan Xu, Yun Xiao

Molecular Therapy: Nucleic Acids

DOI

2020

IDH clonal heterogeneity segregates a subgroup of non‐1p/19q codeleted gliomas with unfavourable clinical outcome

Shang-Yi Luo, Shiwei Zhu, Jianlong Liao, Yajing Zhang, Xiaobo Hou, Tao Luo, E. Zhao, Jinyuan Xu, Lin Pang, Xin Liang, Yun Xiao, Xia Li

Neuropathology and Applied Neurobiology

DOI

2020

Revealing the subtyping of non‐small cell lung cancer based on genomic evolutionary patterns by multi‐region sequencing

Gao-Ming Liao, Xin Liang, Y. Ping, Yong E. Zhang, Jianlong Liao, Yihan Wang, Xiaobo Hou, Zedong Jiang, Xiaoqiu Dong, Chaohan Xu, Yun Xiao

Cancer Medicine

DOI

2020

Transcriptome analysis reveals a reprogramming energy metabolism-related signature to improve prognosis in colon cancer

Xinxin Zhang, Jinyuan Xu, Yujia Lan, Fenghua Guo, Yun Xiao, Yixue Li, Xia Li

PeerJ

DOI

2020

Combination of multiple tumor-infiltrating immune cells predicts clinical outcome in colon cancer.

Xinxin Zhang, Fei Quan, Jinyuan Xu, Yun Xiao, Xia Li, Yixue Li

Clinical Immunology

DOI

2020

Identifying bifurcated paths with differential function impact in glioblastomas evolution

Yong E. Zhang, Aimin Xie, Fei Quan, Xiaobo Hou, Jianlong Liao, Shiwei Zhu, Lin Pang, Xin Liang, Xiao-Jing Zhu, P. Cheng, Xia Li, Yun Xiao

International Journal of Cancer

DOI

2019

小鼠结直肠癌半脾肝转移模型用于Hippo信号通路的研究

乔大伟，张蕾，李玉芳，李胜男，肖云，姜礼双，董小耘，孔桂美，卜平

《肿瘤》

2019

Database Resources of the National Genomics Data Center in 2020

Zhang Zhang, Wen-Ming Zhao, Jing-Fa Xiao, Yiming Bao, Shunmin He, Guoqing Zhang, Yi-Xue Li, Guo-Ping Zhao, Run-Sheng Chen, Yang Gao, Chao Zhang, Liyun Yuan, Shu-Hua Xu, Zhilin Ning, Yan Lu, Jing-Yao Zeng, Na Yuan, Jun-Wei Zhu, Mengyu Pan, Hao Zhang, Qi Wang, Shuo Shi, Meiye Jiang, Mingming Lu, Qi-Heng Qian, Q. Gao, Yunfei Shang, Jin-Yue Wang, Zhenglin Du, Dongmei Tian, Pei Wang, Bixia Tang, Cui-Ping Li, Xu-Fei Teng, Xiaonan Liu, Dong Zou, Shu-Hui Song, Zhuang Xiong, Meng-Wei Li, Fei Yang, Yingke Ma, Jian Sang, Zhao-Hua Li, Rujiao Li, Zhong-Huang Wang, Qianghui Zhu, Xin Li, Sisi Zhang, Hai-Long Kang, Li-Li Dong, Cui Ying, Guangya Duan, Meng-Hua Li, Xiaoyang Zhi, Yun-Chao Ling, Ruifang Cao, Zhao Jiang, Hao-Kui Zhou, Daqing Lv, Wangdao Liu, H. Klenk, Ya-Dong Zhang, Zhe-Wen Zhang, Tingting Chen, Xu Chen, Yan-Qing Wang, Song Wu, Zheng Gong, Mei-Li Chen, Shuangsang Fang, Lili Zhang, Jin-Cheng Guo, Yiwei Niu, Yang Wu, Hui Li, Lianhe Zhao, Xi-Yuan Li, X. Teng, XianHui Sun, Liang Sun, Y. Zhao, Jia-Jia Wang, Peng Zhang, Yan-Yan Li, Yu Zheng, Xiao-Min Chen, Hua Xue, Yi-Chuan Teng, Q. Kang, Ya-Jing Hao, Jiabao Cao, Lin Liu, Zhao-You Li, Qianpeng Li, Q. Du, A. A. Abbasi, Huma Shireen, Nashaiman Pervaiz, Fatima Batool, R. Raza, Lina Ma, Guangyi Niu, Yuan-Sheng Zhang, Tongtong Zhu, L. Hao, Guo-Liang Wang, Jun Yan, Chen Li, Zhen-Nan Wang, Xiang-Feng Wang, Zhong-Hai Li, Yang Zhang, Houling Wang, Yi Zhang, Xin-Li Xia, Hong-Wei Guo, Jun-Wen Zhu, Qing Zhou, Hon-Gen Kang, Li Lan, Xin Zhang, Yong-Biao Xue, Yubin Sun, S. Zhai, Lei Yu, Mingyuan Sun, Huanxin Chen, Hui Hu, An-Yuan Guo, Shao-Feng Lin, Yu Xue, Chen-Wei Wang, Wanshan Ning, Xin-Xin Zhang, Yun Xiao, Xia Li, Yiran Tu, Wanying Wu, Pei-Feng Ji, Fang-Qing Zhao, Hao Luo, F. Gao, Ya-Ping Guo, Haonan Yuan, Yong E. Zhang, Qiong Zhang, Jiaqi Zhou, Zhou Huang, Qinghua Cui, Y. Miao, Chen Ruan, C. Yuan, Ming Chen, Jingjing Jin, Feng Tian, Ge Gao, Ying Shi, Lan Yao, Xiang-Shang Li, Chuan-Yun Li, Qing Tang, Di Peng

Nucleic Acids Res.

DOI

2019

Systematical Identification of Breast Cancer-Related Circular RNA Modules for Deciphering circRNA Functions Based on the Non-Negative Matrix Factorization Algorithm

Shuyuan Wang, Peng Xia, Li Zhang, Lei Yu, Hui Liu, Qianqian Meng, Si-Yao Liu, Jie Li, Qian Song, Jie Wu, Wei-Da Wang, Lei Yang, Yun Xiao, Chaohan Xu

International Journal of Molecular Sciences

DOI

2019

Identification of Dysregulated Competitive Endogenous RNA Networks Driven by Copy Number Variations in Malignant Gliomas

Jinyuan Xu, Xiaobo Hou, Lin Pang, Shangqin Sun, Shen-Fu He, Yiran Yang, Kun Liu, Lin Xu, Wenkang Yin, Chaohan Xu, Yun Xiao

Frontiers in Genetics

DOI

2019

Correction: Integrating Multi-Omics for Uncovering the Architecture of Cross-Talking Pathways in Breast Cancer

Li Wang, Yun Xiao, Y. Ping, Jing Li, Hongying Zhao, Feng Li, Jing Hu, Hongyi Zhang, Yulan Deng, Jiawei Tian, Xia Li

PLoS ONE

DOI

2019

Revealing clonality and subclonality of driver genes for clinical survival benefits in breast cancer

Yujia Lan, E. Zhao, Shang-Yi Luo, Yun Xiao, Xia Li, Shujun Cheng

Breast Cancer Research and Treatment

DOI

2019

Single-cell RNA-seq data reveals TNBC tumor heterogeneity through characterizing subclone compositions and proportions

Wei-Da Wang, Jinyuan Xu, Shuyuan Wang, Peng Xia, Li Zhang, Lei Yu, Jie Wu, Qian Song, Bo Zhang, Chaohan Xu, Yun Xiao

bioRxiv

DOI

2019

Identifying Cancer Driver lncRNAs Bridged by Functional Effectors through Integrating Multi-omics Data in Human Cancers

Yong E. Zhang, Gao-Ming Liao, J. Bai, Xinxin Zhang, Li-Wen Xu, Chunyu Deng, M. Yan, Aimin Xie, Tao Luo, Zhilin Long, Yun Xiao, Xia Li

Molecular Therapy: Nucleic Acids

DOI

2019

Identifying mutual exclusivity across cancer genomes: computational approaches to discover genetic interaction and reveal tumor vulnerability

Yulan Deng, Shang-Yi Luo, Chunyu Deng, Tao Luo, Wenkang Yin, Hongyi Zhang, Yong E. Zhang, Xinxin Zhang, Yujia Lan, Y. Ping, Yun Xiao, Xia Li

Briefings Bioinform.

DOI

2019

LncTarD: a manually-curated database of experimentally-supported functional lncRNA–target regulations in human diseases

Hongying Zhao, Jian Shi, Yunpeng Zhang, Aimin Xie, Lei Yu, Caiyu Zhang, Jun-Jie Lei, Haotian Xu, Zhijun Leng, Tengyue Li, Waidong Huang, Shihua Lin, Li Wang, Yun Xiao, Xia Li

Nucleic Acids Res.

DOI

2019

Construction of Breast Cancer-Related LncSLGP Models for Systematically Deciphering Their Functions and Improving Prognosis

Wei-Da Wang, Xiaodan Zhao, Peng Xia, Jie Li, W. Xi, Li Zhang, Lei Yu, Qianqian Meng, Qian Song, Xu Zhu, Dan-ni He, Zhenzhen Wang, Yun Xiao, Chaohan Xu

Social Science Research Network

DOI

2019

Discovering Rare Genes Contributing to Cancer Stemness and Invasive Potential by GBM Single-Cell Transcriptional Analysis

Lin Pang, Jing Hu, Feng Li, Huating Yuan, M. Yan, Gao-Ming Liao, Li-Wen Xu, Bo Pang, Y. Ping, Yun Xiao, Xia Li

Cancers

DOI

2019

Comprehensive analysis of long noncoding RNA (lncRNA)-chromatin interactions reveals lncRNA functions dependent on binding diverse regulatory elements

Guanxiong Zhang, Yujia Lan, Aimin Xie, Jian Shi, Hongying Zhao, Li-Wen Xu, Shiwei Zhu, Tao Luo, Tingting Zhao, Yun Xiao, Xia Li

Journal of Biological Chemistry

DOI

2019

IPEV: a web server for inferring pathogenic enhancers with variants

Guanxiong Zhang, Aimin Xie, J. Bai, Tao Luo, Huating Yuan, Gao-Ming Liao, Shang-Yi Luo, Jianlong Liao, Jinyuan Xu, Jian Shi, Yong E. Zhang, Xinxin Zhang, Tingting Zhao, Yun Xiao, Xia Li

DOI

2019

Identifying functions and prognostic biomarkers of network motifs marked by diverse chromatin states in human cell lines

Li Wang, Hongying Zhao, Jing Li, Yingqi Xu, Yujia Lan, Wenkang Yin, Xiaoqin Liu, Lei Yu, Shihua Lin, M. Du, Xia Li, Yun Xiao, Yun-Peng Zhang

Oncogene

DOI

2018

Systematic identification of lincRNA‐based prognostic biomarkers by integrating lincRNA expression and copy number variation in lung adenocarcinoma

Li Wang, Hongying Zhao, Yingqi Xu, Jing Li, Chunyu Deng, Yulan Deng, J. Bai, Xia Li, Yun Xiao, Yunpeng Zhang

International Journal of Cancer

DOI

2018

Aberrant Epigenetic Modifications of Non-coding RNAs in Human Disease.

Yun Xiao, Jinyuan Xu, Wenkang Yin

Advances in Experimental Medicine and Biology

DOI

2018

CancerSEA: a cancer single-cell state atlas

Huating Yuan, M. Yan, Guanxiong Zhang, W. Liu, Chunyu Deng, Gao-Ming Liao, Li-Wen Xu, Tao Luo, Haoteng Yan, Zhilin Long, Aiai Shi, Tingting Zhao, Yun Xiao, Xia Li

Nucleic Acids Res.

DOI

2018

LnChrom: a resource of experimentally validated lncRNA–chromatin interactions in human and mouse

Fulong Yu, Guanxiong Zhang, Aiai Shi, Jing Hu, Feng Li, Xinxin Zhang, Yan Zhang, Jian Huang, Yun Xiao, Xia Li, Shujun Cheng

Database J. Biol. Databases Curation

DOI

2018

Breast cancer prognosis signature: linking risk stratification to disease subtypes

Fulong Yu, Fei Quan, Jinyuan Xu, Yan Zhang, Yi Xie, Jingyu Zhang, Yujia Lan, Huating Yuan, Hongyi Zhang, Shujun Cheng, Yun Xiao, Xia Li

Briefings Bioinform.

DOI

2018

A pan‐cancer atlas of cancer hallmark‐associated candidate driver lncRNAs

Yulan Deng, Shang-Yi Luo, Xinxin Zhang, C. Zou, Huating Yuan, Gao-Ming Liao, Li-Wen Xu, Chunyu Deng, Yujia Lan, Tingting Zhao, Xu Gao, Yun Xiao, Xia Li

Molecular Oncology

DOI

2018

Systematic Identification of Non-coding RNAs.

Yun Xiao, Jing Hu, Wenkang Yin

Advances in Experimental Medicine and Biology

DOI

2018

Accurate prediction of protein-lncRNA interactions by diffusion and HeteSim features across heterogeneous network

L. Deng, Jun-Qiang Wang, Yun Xiao, Zixiang Wang, Hui Liu

BMC Bioinformatics

DOI

2018

Functional Characterization of Non-coding RNAs Through Genomic Data Fusion.

Yun Xiao, M. Yan, Chunyu Deng, Hongying Zhao

Advances in Experimental Medicine and Biology

DOI

2018

Sex difference of mutation clonality in diffuse glioma evolution

Hongyi Zhang, Jianlong Liao, Xinxin Zhang, E. Zhao, Xin Liang, Shang-Yi Luo, Jian Shi, Fulong Yu, Jinyuan Xu, Weitao Shen, Yixue Li, Yun Xiao, Xia Li

Neuro-Oncology

DOI

2018

TIP: A Web Server for Resolving Tumor Immunophenotype Profiling.

Li-Wen Xu, Chunyu Deng, Bo Pang, Xinxin Zhang, Wei Liu, Gao-Ming Liao, Huating Yuan, P. Cheng, Feng Li, Zhilin Long, M. Yan, Tingting Zhao, Yun Xiao, Xia Li

Cancer Research

DOI

2018

Non-coding RNAs in Complex Diseases : A Bioinformatics Perspective

Xia Li, Juan Xu, Yun Xiao, Shang-Wei Ning, Yunpeng Zhang

2018

CellMarker: a manually curated resource of cell markers in human and mouse

Xinxin Zhang, Yujia Lan, Jinyuan Xu, Fei Quan, E. Zhao, Chunyu Deng, Tao Luo, Li-Wen Xu, Gao-Ming Liao, M. Yan, Y. Ping, Feng Li, Aiai Shi, J. Bai, Tingting Zhao, Xia Li, Yun Xiao

Nucleic Acids Res.

DOI

2018

Capturing functional long non-coding RNAs through integrating large-scale causal relations from gene perturbation experiments

Jinyuan Xu, Aiai Shi, Zhilin Long, Li-Wen Xu, Gao-Ming Liao, Chunyu Deng, M. Yan, Aimin Xie, Tao Luo, Jian Huang, Yun Xiao, Xia Li

EBioMedicine

DOI

2018

Transcriptome analysis reveals a long non-coding RNA signature to improve biochemical recurrence prediction in prostate cancer

Jinyuan Xu, Yujia Lan, Fulong Yu, Shiwei Zhu, Jianrong Ran, Jiali Zhu, Hongyi Zhang, Lili Li, Shujun Cheng, Yun Xiao, Xia Li

OncoTarget

DOI

2018

Identification of a five-lncRNA signature for predicting the risk of tumor recurrence in breast cancer patients

Jie Li, Wei-Da Wang, Peng Xia, Linyun Wan, Li Zhang, Lei Yu, Lily Wang, Xi Chen, Yun Xiao, Chaohan Xu

International Journal of Cancer

DOI

2018

Non-coding RNAs in Complex Diseases

Xia Li, Yun Xiao, Shang-Wei Ning, Yunpeng Zhang

Advances in Experimental Medicine and Biology

DOI

2017

Combining diffusion and HeteSim features for accurate prediction of protein-lncRNA interactions

Jun-Qiang Wang, Yun Xiao, Zixiang Wang, Weihua Zhan, L. Deng

IEEE International Conference on Bioinformatics and Biomedicine

DOI

2017

LncNetP, a systematical lncRNA prioritization approach based on ceRNA and disease phenotype association assumptions

Chaohan Xu, Y. Ping, Hongying Zhao, Shang-Wei Ning, Peng Xia, Wei-Da Wang, Linyun Wan, Jie Li, Li Zhang, Lei Yu, Yun Xiao

OncoTarget

DOI

2017

SEECancer: a resource for somatic events in evolution of cancer genome

Hongyi Zhang, Shang-Yi Luo, Xinxin Zhang, Jianlong Liao, Fei Quan, E. Zhao, Chenfen Zhou, Fulong Yu, Wenkang Yin, Yunpeng Zhang, Yun Xiao, Xia Li

Nucleic Acids Res.

DOI

2017

Optimizing prognosis-related key miRNA-target interactions responsible for cancer metastasis

Hongying Zhao, Huating Yuan, Jing Hu, Chaohan Xu, Gao-Ming Liao, Wenkang Yin, Li-Wen Xu, Li Wang, Xinxin Zhang, Aiai Shi, Jing Li, Yun Xiao

OncoTarget

DOI

2017

DiseaseEnhancer: a resource of human disease-associated enhancer catalog

Guanxiong Zhang, Jian Shi, Shiwei Zhu, Yujia Lan, Li-Wen Xu, Huating Yuan, Gao-Ming Liao, Xiaoqin Liu, Yunpeng Zhang, Yun Xiao, Xia Li

Nucleic Acids Res.

DOI

2017

Systemically identifying and prioritizing risk lncRNAs through integration of pan-cancer phenotype associations

Chaohan Xu, Rui Qi, Y. Ping, Jie Li, Hongying Zhao, Li Wang, M. Du, Yun Xiao, Xia Li

OncoTarget

DOI

2017

Prediction of lncRNA-protein interactions using HeteSim scores based on heterogeneous networks

Yun Xiao, Jing-Pu Zhang, L. Deng

Scientific Reports

DOI

2016

Cooperative genomic alteration network reveals molecular classification across 12 major cancer types

Hongyi Zhang, Yulan Deng, Yong Zhang, Y. Ping, Hongying Zhao, Lin Pang, Xinxin Zhang, Li Wang, Chaohan Xu, Yun Xiao, Xia Li

Nucleic Acids Research

DOI

2016

A comprehensive overview of lncRNA annotation resources

Jinyuan Xu, J. Bai, Xinxin Zhang, Yanling Lv, Yonghui Gong, Ling Liu, Hongying Zhao, Fulong Yu, Y. Ping, Guanxiong Zhang, Yujia Lan, Yun Xiao, Xia Li

Briefings Bioinform.

DOI

2016

'Traffic light rules': Chromatin states direct miRNA-mediated network motifs running by integrating epigenome and regulatome.

Hongying Zhao, Guanxiong Zhang, Lin Pang, Yujia Lan, Li Wang, Fulong Yu, Jing Hu, Feng Li, Tingting Zhao, Yun Xiao, Xia Li

Biochimica et Biophysica Acta

DOI

2016

Identifying the crosstalk of dysfunctional pathways mediated by lncRNAs in breast cancer subtypes.

Li Wang, Jing Li, Hongying Zhao, Jing Hu, Y. Ping, Feng Li, Yujia Lan, Chaohan Xu, Yun Xiao, Xia Li

Molecular Biosystems

DOI

2015

Computational identification of epigenetically regulated lncRNAs and their associated genes based on integrating genomic data

Ting-Ting Zhao, Jinyuan Xu, Ling Liu, J. Bai, Li-Hua Wang, Yun Xiao, Xia Li, Li-Ming Zhang

FEBS Letters

DOI

2015

MeSiC: A Model-Based Method for Estimating 5 mC Levels at Single-CpG Resolution from MeDIP-seq

Yun Xiao, Fulong Yu, Lin Pang, Hongying Zhao, Ling Liu, Guanxiong Zhang, Tingting Liu, Hongyi Zhang, Huihui Fan, Yan Zhang, Bo Pang, Xia Li

Scientific Reports

DOI

2015

Predicting the Functions of Long Noncoding RNAs Using RNA-Seq Based on Bayesian Network

Yun Xiao, Yanling Lv, Hongying Zhao, Yonghui Gong, Jing Hu, Feng Li, Jinyuan Xu, J. Bai, Fulong Yu, Xia Li

BioMed Research International

DOI

2015

Gene Perturbation Atlas (GPA): a single-gene perturbation repository for characterizing functional mechanisms of coding and non-coding genes

Yun Xiao, Yonghui Gong, Yanling Lv, Yujia Lan, Jing Hu, Feng Li, Jinyuan Xu, J. Bai, Yulan Deng, Ling Liu, Guanxiong Zhang, Fulong Yu, Xia Li

Scientific Reports

DOI

2015

Identifying core gene modules in glioblastoma based on multilayer factor-mediated dysfunctional regulatory networks through integrating multi-dimensional genomic data

Y. Ping, Yulan Deng, Li Wang, Hongyi Zhang, Yong Zhang, Chaohan Xu, Hongying Zhao, Huihui Fan, Fulong Yu, Yun Xiao, Xia Li

Nucleic Acids Research

DOI

2015

Systematically Prioritizing Functional Differentially Methylated Regions (fDMRs) by Integrating Multi-omics Data in Colorectal Cancer

Huihui Fan, Hongying Zhao, Lin Pang, Ling Liu, Guanxiong Zhang, Fulong Yu, Tingting Liu, Chaohan Xu, Yun Xiao, Xia Li

Scientific Reports

DOI

2015

Chromatin states modify network motifs contributing to cell-specific functions

Hongying Zhao, Tingting Liu, Ling Liu, Guanxiong Zhang, Lin Pang, Fulong Yu, Huihui Fan, Y. Ping, Li Wang, Chaohan Xu, Yun Xiao, Xia Li

Scientific Reports

DOI

2015

Identification of cancer-related lncRNAs through integrating genome, regulome and transcriptome features.

Tingting Zhao, Jinyuan Xu, Ling Liu, J. Bai, Chaohan Xu, Yun Xiao, Xia Li, Li-Ming Zhang

Molecular Biosystems

DOI

2014

Cancer-Risk Module Identification and Module-Based Disease Risk Evaluation: A Case Study on Lung Cancer

Xu Jia, Zhengqiang Miao, Wan Li, Liangcai Zhang, Chenchen Feng, Yuehan He, Xiao-Man Bi, Liqiang Wang, Youwen Du, Min Hou, D. Hao, Yun Xiao, Lina Chen, Kongning Li

PLoS ONE

DOI

2014

A network-based, integrative approach to identify genes with aberrant co-methylation in colorectal cancer.

Yong-Sheng Li, Juan Xu, Huan-Yu Ju, Yun Xiao, Hong Chen, Jun-Ying Lv, Ting-Ting Shao, J. Bai, Yunpeng Zhang, Li Wang, Xi-Shan Wang, H. Ren, Xia Li

Molecular Biosystems

DOI

2014

Integrating Multi-Omics for Uncovering the Architecture of Cross-Talking Pathways in Breast Cancer

Li Wang, Yun Xiao, Y. Ping, Jing Li, Hongying Zhao, Feng Li, Jing Hu, Hongyi Zhang, Yulan Deng, Jiawei Tian, Xia Li

PLoS ONE

DOI

2014

Comparison of long non-coding RNAs, microRNAs and messenger RNAs involved in initiation and progression of esophageal squamous cell carcinoma

Su-Qing Li, Feng Li, Yun Xiao, Chun-Mei Wang, Lei Tuo, Jing Hu, Xiao-Bin Yang, Jin-Song Wang, Wei-Hong Shi, Xia Li, Xiufeng Cao

Molecular Medicine Reports

DOI

2014

Integrating epigenetic marks for identification of transcriptionally active miRNAs.

Yun Xiao, Tingting Liu, Hongying Zhao, Xiang Li, Jinxia Guan, Chaohan Xu, Y. Ping, Huihui Fan, Li Wang, Tingting Zhao, Yanling Lv, Jing Hu, Xin-Nian Yu, Yan Jin, Xia Li

Genomics

DOI

2014

Prioritizing candidate disease miRNAs by integrating phenotype associations of multiple diseases with matched miRNA and mRNA expression profiles.

Chaohan Xu, Y. Ping, Xiang Li, Hongying Zhao, Li Wang, Huihui Fan, Yun Xiao, Xia Li

Molecular Biosystems

DOI

2014

IndividualizedPath: identifying genetic alterations contributing to the dysfunctional pathways in glioblastoma individuals.

Y. Ping, Hongyi Zhang, Yulan Deng, Li Wang, Hongying Zhao, Lin Pang, Huihui Fan, Chaohan Xu, Feng Li, Yong E. Zhang, Yonghui Gong, Yun Xiao, Xia Li

Molecular Biosystems

DOI

2013

Systematic Identification of Core Transcription Factors Mediating Dysregulated Links Bridging Inflammatory Bowel Diseases and Colorectal Cancer

Yun Xiao, Huihui Fan, Yunpeng Zhang, Wenjing Xing, Y. Ping, Hongying Zhao, Chaohan Xu, Yiqun Li, Li Wang, Feng Li, Jing Hu, Teng Huang, Yanling Lv, H. Ren, Xia Li

PLoS ONE

DOI

2013

Topologically inferring risk-active pathways toward precise cancer classification by directed random walk

W. Liu, Chunquan Li, Yanjun Xu, Haixiu Yang, Qianlan Yao, Junwei Han, D. Shang, Chunlong Zhang, F. Su, Xiaoxi Li, Yun Xiao, Fan Zhang, Meng Dai, Xia Li

Bioinform.

DOI

2013

Network Analysis Reveals Functional Cross-links between Disease and Inflammation Genes

Yunpeng Zhang, Huihui Fan, Juan Xu, Yun Xiao, Yanjun Xu, Yixue Li, Xia Li

Scientific Reports

DOI

2013

Identifying dysfunctional miRNA-mRNA regulatory modules by inverse activation, cofunction, and high interconnection of target genes: a case study of glioblastoma.

Yun Xiao, Y. Ping, Huihui Fan, Chaohan Xu, Jinxia Guan, Hongying Zhao, Yiqun Li, Yanling Lv, Yan Jin, Li-Hua Wang, Xia Li

Neuro-Oncology

DOI

2012

Discovering Dysfunction of Multiple MicroRNAs Cooperation in Disease by a Conserved MicroRNA Co-Expression Network

Yun Xiao, Chaohan Xu, Jinxia Guan, Y. Ping, Huihui Fan, Yiqun Li, Hongying Zhao, Xia Li

PLoS ONE

DOI

2012

Prioritising risk pathways of complex human diseases based on functional profiling

Yan Li, Teng Huang, Yun Xiao, Shang-Wei Ning, Peng Wang, Qianghu Wang, Xin Chen, Chaohan Xu, Donglin Sun, Xia Li, Yi-Xue Li

European Journal of Human Genetics

DOI

2012

Prioritizing cancer-related key miRNA–target interactions by integrative genomics

Yun Xiao, Jinxia Guan, Y. Ping, Chaohan Xu, Teng Huang, Hongying Zhao, Huihui Fan, Yiqun Li, Yanling Lv, Tingting Zhao, Yucui Dong, H. Ren, Xia Li

Nucleic Acids Research

DOI

2011

Functional Homogeneity in microRNA Target Heterogeneity—a New Sight into Human microRNomics

Ying-Ying Wang, Lei Du, Xia Li, Shao-Jun Zhang, Yun Xiao, Bin-Sheng Gong, Qianghu Wang, Meng Zhou, Chaohan Xu, Xin Chen, Sali Lv, Shao-Qi Rao

Omics

DOI

2011

Differential expression pattern-based prioritization of candidate genes through integrating disease-specific expression data.

Yun Xiao, Chaohan Xu, Y. Ping, Jinxia Guan, Huihui Fan, Yiqun Li, Xia Li

Genomics

DOI

2011

Disease-driven detection of differential inherited SNP modules from SNP network.

Chuan-Xing Li, Yong-Sheng Li, Juan Xu, Jun-Ying Lv, Ye Ma, Ting-Ting Shao, Bin-Sheng Gong, Renjie Tan, Yun Xiao, Xia Li

Gene

DOI

2011

Prioritizing Candidate Disease miRNAs by Topological Features in the miRNA Target–Dysregulated Network: Case Study of Prostate Cancer

Juan Xu, Chuan-Xing Li, Jun-Ying Lv, Yong-Sheng Li, Yun Xiao, Ting Shao, Xiao Huo, Xiang Li, Yan Zou, Qinglian Han, Xia Li, Li-Hua Wang, H. Ren

Molecular Cancer Therapeutics

DOI

2010

MiRNA–miRNA synergistic network: construction via co-regulating functional modules and disease miRNA topological features

Juan Xu, Chuan-Xing Li, Yong-Sheng Li, Jun-Ying Lv, Ye Ma, Ting Shao, Liang Xu, Ying-Ying Wang, Lei Du, Yun-Peng Zhang, Wei Jiang, Chun-Quan Li, Yun Xiao, Xia Li

Nucleic Acids Research

DOI

2008

Cell cycle-dependent gene networks relevant to cancer

Yun Xiao, Xia Li, Yueying Yang, Yadong Wang, Shao-Qi Rao

DOI

研究方向

癌症演化组学大数据研究

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