杨磊｜哈尔滨医科大学｜学者主页

2026

Landscape of Cell States and Multicellular Ecotypes in Non-Small Cell Lung Cancer

Honghao Li, Yan Jiang, Zhengchun Huo, Shaokang Li, Xu Luo, Yumeng Xie, Qilemuge Xi, Shiyuan Wang, Lei Yang

International Journal of Molecular Sciences

DOI

2026

Metabolic splicing subtypes elucidate metastatic trajectories and clinical biomarkers in adrenocortical carcinoma

Min Zou, Rifang Lan, Zhengchun Huo, Shaokang Li, Yingli Lv, Lei Yang

Computer Methods and Programs in Biomedicine

DOI

2026

IRDRM: Exploring Biological Traits and Clinical Significance in Breast Cancer Through Gene Pairs and Somatic Mutation Profiles

Dongqing Su, Xu Luo, Yuqiang Xiong, Xinpeng Zhang, Honghao Li, Min Zou, Shaoran Wen, Qilemuge Xi, Lei Yang

Interdisciplinary Sciences Computational Life Sciences

DOI

2025

Deep Clustering-Based Metabolic Stratification of Non-Small Cell Lung Cancer Patients Through Integration of Somatic Mutation Profile and Network Propagation Algorithm

Luo Xu, Xinpeng Zhang, Dongqing Su, Honghao Li, Min Zou, Yuqiang Xiong, Lei Yang

Interdisciplinary Sciences Computational Life Sciences

DOI

2025

基于生物信息学与机器学习识别阳虚质强直性脊柱炎关键基因

崔家伟，杨磊，史相钦，高轩，朱言，张红星

《亚太传统医药》

2024

Machine learning-based prediction of diabetic patients using blood routine data

Honghao Li, Dongqing Su, Xinpeng Zhang, Yuanyuan He, Xu Luo, Yuqiang Xiong, Min Zou, Huiyan Wei, Shaoran Wen, Qilemuge Xi, Yongchun Zuo, Lei Yang

Methods

DOI

2024

Integrated Machine Learning Algorithms for Stratification of Patients with Bladder Cancer

Yuanyuan He, Haodong Wei, Siqing Liao, Ruiming Ou, Yuqiang Xiong, Yongchun Zuo, Yongchun Zuo, Lei Yang

Current Bioinformatics

DOI

2023

Integrating somatic mutation profiles with structural deep clustering network for metabolic stratification in pancreatic cancer: a comprehensive analysis of prognostic and genomic landscapes

Min Zou, Honghao Li, Dongqing Su, Yuqiang Xiong, Haodong Wei, Shiyuan Wang, Hongmei Sun, Tao Wang, Qilemuge Xi, Yongchun Zuo, Lei Yang

Briefings in Bioinformatics

DOI

2023

Structural deep clustering network for stratification of breast cancer patients through integration of somatic mutation profiles

Dongqing Su, Yuqiang Xiong, Shiyuan Wang, Haodong Wei, Jiawei Ke, Honghao Li, Tao Wang, Yongchun Zuo, Lei Yang

Computer Methods and Programs in Biomedicine

DOI

2023

Prediction of immune and targeted drug efficacy in pain-related risk subtypes for bladder cancer patients

Yan Wang, Qingling Kong, Mingming Li, Jing Gu, Jing Chen, Lei Yang, Meng Chi

Heliyon

DOI

2023

Integrated analysis of ovarian cancer patients from prospective transcription factor activity reveals subtypes of prognostic significance

Dongqing Su, Yuqiang Xiong, Haodong Wei, Shiyuan Wang, Jiawei Ke, Pengfei Liang, Haoxin Zhang, Yao Ting Yu, Yongchun Zuo, Lei Yang

Heliyon

DOI

2023

Stratification of ovarian cancer patients from the prospect of drug target-related transcription factor protein activity: the prognostic and genomic landscape analyses

Dongqing Su, Haoxin Zhang, Yuqiang Xiong, Haodong Wei, Yao Yu, Honghao Li, Tao Wang, Yongchun Zuo, Lei Yang

Briefings in Functional Genomics

DOI

2023

A cost-effective machine learning-based method for preeclampsia risk assessment and driver genes discovery

Hao Wang, Zhao‐Yue Zhang, Haicheng Li, Jinzhao Li, Hanshuang Li, Mingzhu Liu, Pengfei Liang, Qilemuge Xi, Yongqiang Xing, Lei Yang, Yongchun Zuo

Cell & Bioscience

DOI

2023

A computational framework of routine test data for the cost-effective chronic disease prediction

Mingzhu Liu, Jian Zhou, Qilemuge Xi, Yuchao Liang, Haicheng Li, Pengfei Liang, Yuting Guo, Min Liu, Temuqile Temuqile, Lei Yang, Yongchun Zuo

Briefings in Bioinformatics

DOI

2022

A random forest-based metabolic risk model to assess the prognosis and metabolism-related drug targets in ovarian cancer

Haoxin Zhang, Meng Chi, Dongqing Su, Yuqiang Xiong, Haodong Wei, Yu Yao, Yongchun Zuo, Lei Yang

Computers in Biology and Medicine

DOI

2022

Deep learning-based transcription factor activity for stratification of breast cancer patients

Yuqiang Xiong, Shiyuan Wang, Haodong Wei, Hanshuang Li, Yingli Lv, Meng Chi, Dongqing Su, Qianzi Lu, Yu Yao, Yongchun Zuo, Lei Yang

Biochimica et Biophysica Acta (BBA) - Gene Regulatory Mechanisms

DOI

2022

The Immune-based Prognostic Score for the Immunogenomic Landscape Aanalysis and Application of Chemotherapy in Breast Cancer

Qianzi Lu, Shiyuan Wang, Yi Pan, Yu Yao, Yuqiang Xiong, Haodong Wei, Dongqing Su, Yongchun Zuo, Lei Yang

Current Bioinformatics

DOI

2022

Integrated multi-cohorts for characterizing the immunogenomic landscape and predicting drug response in triple-negative breast cancer

Dongqing Su, Meng Chi, Shiyuan Wang, Shuhong Di, Haoxing Zhang, Qianzi Lu, Yao Yu, Yuqiang Xiong, Haodong Wei, Yingli Lv, Yongchun Zuo, Lei Yang

Briefings in Functional Genomics

DOI

2022

Characterized the diversity of ABCB1 subtypes in immunogenomic landscape for predicting the drug response in breast cancer

Meng Chi, Qilemuge Xi, Dongqing Su, Hanshuang Li, Na Wei, Xiaoding Shi, Shiyuan Wang, Yongchun Zuo, Lei Yang

Methods

DOI

2022

Research progress of reduced amino acid alphabets in protein analysis and prediction

Yuchao Liang, Siqi Yang, Lei Zheng, Hao Wang, Jianzhong Zhou, Shenghui Huang, Lei Yang, Yongchun Zuo

Computational and Structural Biotechnology Journal

DOI

2021

Prognostic and predictive value of a metabolic risk score model in breast cancer: an immunogenomic landscape analysis

Dongqing Su, Shiyuan Wang, Qilemuge Xi, Lin Lin, Qianzi Lu, Yu Yao, Yuqiang Xiong, Haodong Wei, Pengfei Liang, Yingli Lv, Yongchun Zuo, Lei Yang

Briefings in Functional Genomics

DOI

2021

Immune-related Gene-based Prognostic Signature for the Risk Stratification Analysis of Breast Cancer

Dongqing Su, Qianzi Lu, Yi Pan, Yao Yu, Shiyuan Wang, Yongchun Zuo, Lei Yang

Current Bioinformatics

DOI

2021

HelPredictor models single-cell transcriptome to predict human embryo lineage allocation

Pengfei Liang, Lei Zheng, Chunshen Long, Wuritu Yang, Lei Yang, Yongchun Zuo

Briefings in Bioinformatics

DOI

2021

A Comparison for Dimensionality Reduction Methods of Single-Cell RNA-seq Data

Ruizhi Xiang, Wencan Wang, Lei Yang, Shiyuan Wang, Chaohan Xu, Xiaowen Chen

Frontiers in Genetics

DOI

2020

Clinical significance and immunogenomic landscape analyses of the immune cell signature based prognostic model for patients with breast cancer

Shiyuan Wang, Yuqiang Xiong, Qi Zhang, Dongqing Su, Chunlu Yu, Yiyin Cao, Yi Pan, Qianzi Lu, Yongchun Zuo, Lei Yang

Briefings in Bioinformatics

DOI

2020

Using Reduced Amino Acid Alphabet and Biological Properties to Analyze and Predict Animal Neurotoxin Protein

Yao Yu, Shiyuan Wang, Yakun Wang, Yiyin Cao, Chunlu Yu, Yi Pan, Dongqing Su, Qianzi Lu, Yongchun Zuo, Lei Yang

Current Drug Metabolism

DOI

2020

RaacLogo: a new sequence logo generator by using reduced amino acid clusters

Lei Zheng, Dongyang Liu, Wuritu Yang, Lei Yang, Yongchun Zuo

Briefings in Bioinformatics

DOI

2020

Characterization of the relationship between FLI1 and immune infiltrate level in tumour immune microenvironment for breast cancer

Shiyuan Wang, Yakun Wang, Chunlu Yu, Yiyin Cao, Yu Yao, Yi Pan, Dongqing Su, Qianzi Lu, Wuritu Yang, Yongchun Zuo, Lei Yang

Journal of Cellular and Molecular Medicine

DOI

2020

Immune cell infiltration-based signature for prognosis and immunogenomic analysis in breast cancer

Shiyuan Wang, Qi Zhang, Chunlu Yu, Yiyin Cao, Yongchun Zuo, Lei Yang

Briefings in Bioinformatics

DOI

2019

Identifying FL11 subtype by characterizing tumor immune microenvironment in prostate adenocarcinoma via Chou's 5-steps rule

Lei Yang, Yingli Lv, Shiyuan Wang, Qi Zhang, Yi Pan, Dongqing Su, Qianzi Lu, Yongchun Zuo

Genomics

DOI

2019

EmExplorer: a database for exploring time activation of gene expression in mammalian embryos

Bosu Hu, Lei Zheng, Chunshen Long, Mingmin Song, Tao Li, Lei Yang, Yongchun Zuo

Open Biology

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, Siyao Liu, Jie Li, Qian Song, Jie Wu, Weida Wang, Lei Yang, Yun Xiao, Chaohan Xu

International Journal of Molecular Sciences

DOI

2019

RAACBook: a web server of reduced amino acid alphabet for sequence-dependent inference by using Chou’s five-step rule

Lei Zheng, Shenghui Huang, Nengjiang Mu, Haoyue Zhang, Jiayu Zhang, Yu Chang, Lei Yang, Yongchun Zuo

Database

DOI

2019

The spatial binding model of the pioneer factor Oct4 with its target genes during cell reprogramming

Hanshuang Li, Na Ta, Chunshen Long, Qiu-Tang Zhang, Siyu Li, Shuai Liu, Lei Yang, Yongchun Zuo

Computational and Structural Biotechnology Journal

DOI

2019

iDEF-PseRAAC: Identifying the Defensin Peptide by Using Reduced Amino Acid Composition Descriptor

Yongchun Zuo, Yu Chang, Shenghui Huang, Lei Zheng, Lei Yang, Guifang Cao

Evolutionary Bioinformatics

DOI

2018

Characterization of human proteins with different subcellular localizations by topological and biological properties

Dongqing Su, Qianzi Lu, Qi Zhang, Shiyuan Wang, Yi Pan, Yongchun Zuo, Lei Yang

Genomics

DOI

2018

Analysis and prediction of animal toxins by various Chou's pseudo components and reduced amino acid compositions

Yi Pan, Shiyuan Wang, Qi Zhang, Qianzi Lu, Dongqing Su, Yongchun Zuo, Lei Yang

Journal of Theoretical Biology

DOI

2018

Characterize the difference between TMPRSS2-ERG and non-TMPRSS2-ERG fusion patients by clinical and biological characteristics in prostate cancer

Shiyuan Wang, Qi Zhang, Dandan Xu, Yi Pan, Yingli Lv, Xiaowen Chen, Yongchun Zuo, Lei Yang

Gene

DOI

2018

Clinical significance of the immune microenvironment in ovarian cancer patients

Lei Yang, Shiyuan Wang, Qi Zhang, Yi Pan, Yingli Lv, Xiaowen Chen, Yongchun Zuo, Dapeng Hao

Molecular Omics

DOI

2018

Characterization of proteins in different subcellular localizations for Escherichia coli K12

Qi Zhang, Shiyuan Wang, Yi Pan, Dongqing Su, Qianzi Lu, Yongchun Zuo, Lei Yang

Genomics

DOI

2017

Prediction of conotoxin superfamilies by the Naive Bayes classifier

Haiyan Huo, Lei Yang

International Congress on Image and Signal Processing, BioMedical Engineering and Informatics (CISP-BMEI)

DOI

2017

Prediction of presynaptic and postsynaptic neurotoxins by combining various Chou’s pseudo components

Haiyan Huo, Tao Li, Shiyuan Wang, Yingli Lv, Yongchun Zuo, Lei Yang

Scientific Reports

DOI

2017

Molecular classification of prostate adenocarcinoma by the integrated somatic mutation profiles and molecular network

Lei Yang, Shiyuan Wang, Meng Zhou, Xiaowen Chen, Wei Jiang, Yongchun Zuo, Yingli Lv

Scientific Reports

DOI

2016

Exploring timing activation of functional pathway based on differential co-expression analysis in preimplantation embryogenesis

Yongchun Zuo, Guanghua Su, Shanshan Wang, Lei Yang, Mingzhi Liao, Zhuying Wei, Chunling Bai, Guangpeng Li

Oncotarget

DOI

2016

Identification of novel prognostic indicators for triple-negative breast cancer patients through integrative analysis of cancer genomics data and protein interactome data

Fan Zhang, Chunyan Ren, Hengqiang Zhao, Lei Yang, Fei Su, Ming‐Ming Zhou, Junwei Han, Eric A. Sobie, Martin J. Walsh

Oncotarget

DOI

2016

Characterize the relationship between essential and TATA-containing genes for S. cerevisiae by network topologies in the perturbation sensitivity network

Lei Yang, Shiyuan Wang, Meng Zhou, Xiaowen Chen, Yongchun Zuo, Yingli Lv

Genomics

DOI

2016

PseKRAAC: a flexible web server for generating pseudo K-tuple reduced amino acids composition

Yongchun Zuo, Yuan Li, Yingli Chen, Guangpeng Li, Zhen-He Yan, Lei Yang

Bioinformatics

DOI

2016

Characterization of BioPlex network by topological properties

Lei Yang, Shiyuan Wang, Meng Zhou, Xiaowen Chen, Yongchun Zuo, Yingli Lv

Journal of Theoretical Biology

DOI

2016

Discovery of potential prognostic long non-coding RNA biomarkers for predicting the risk of tumor recurrence of breast cancer patients

Meng Zhou, Lei Zhong, Wanying Xu, Yifan Sun, Zhaoyue Zhang, Hengqiang Zhao, Lei Yang, Jie Sun

Scientific Reports

DOI

2016

Comparative analysis of housekeeping and tissue-selective genes in human based on network topologies and biological properties

Lei Yang, Shiyuan Wang, Meng Zhou, Xiaowen Chen, Yongchun Zuo, Dianjun Sun, Yingli Lv

Molecular Genetics and Genomics

DOI

2015

iDPF-PseRAAAC: A Web-Server for Identifying the Defensin Peptide Family and Subfamily Using Pseudo Reduced Amino Acid Alphabet Composition

Yongchun Zuo, Yang Lv, Zhuying Wei, Lei Yang, Guangpeng Li, Guo-Liang Fan

PLoS ONE

DOI

2015

Identification and validation of potential prognostic lncRNA biomarkers for predicting survival in patients with multiple myeloma

Meng Zhou, Hengqiang Zhao, Zhenzhen Wang, Liang Cheng, Lei Yang, Hongbo Shi, Haixiu Yang, Jie Sun

Journal of Experimental & Clinical Cancer Research

DOI

2015

Characterization of proteins in S. cerevisiae with subcellular localizations

Lei Yang, Dapeng Hao, Jizhe Wang, Xudong Xing, Yingli Lv, Yongchun Zuo, Wei Jiang

Molecular BioSystems

DOI

2015

Genome-wide characterization of essential, toxicity-modulating and no-phenotype genes in S. cerevisiae

Lei Yang, Dapeng Hao, Yingli Lv, Yongchun Zuo, Wei Jiang

Gene

DOI

2015

Discrimination of membrane transporter protein types using K -nearest neighbor method derived from the similarity distance of total diversity measure

Yongchun Zuo, Wenxia Su, Shihua Zhang, Shan-Shan Wang, Chengyan Wu, Lei Yang, Guangpeng Li

Molecular BioSystems

DOI

2014

Analysis and identification of essential genes in humans using topological properties and biological information

Lei Yang, Jizhe Wang, Huiping Wang, Yingli Lv, Yongchun Zuo, Xiang Li, Wei Jiang

Gene

DOI

2014

Human proteins characterization with subcellular localizations

Lei Yang, Yingli Lv, Tao Li, Yongchun Zuo, Wei Jiang

Journal of Theoretical Biology

DOI

2014

Predicting peroxidase subcellular location by hybridizing different descriptors of Chou’ pseudo amino acid patterns

Yongchun Zuo, Yong Peng, Li Liu, Wei Chen, Lei Yang, Guo-Liang Fan

Analytical Biochemistry

DOI

2014

Characterization of essential genes by topological properties in the perturbation sensitivity network

Lei Yang, Jizhe Wang, Huiping Wang, Yingli Lv, Yongchun Zuo, Wei Jiang

Biochemical and Biophysical Research Communications

DOI

2014

Analysis and identification of toxin targets by topological properties in protein–protein interaction network

Lei Yang, Jizhe Wang, Huiping Wang, Yingli Lv, Yongchun Zuo, Wei Jiang

Journal of Theoretical Biology

DOI

2014

System Analysis of LWDH Related Genes Based on Text Mining in Biological Networks

Mingzhi Liao, Yingbo Miao, Liangcai Zhang, Yang Wang, Rennan Feng, Lei Yang, Shihua Zhang, Yongshuai Jiang, Guiyou Liu

BioMed Research International

DOI

精选作品

期刊论文

Landscape of Cell States and Multicellular Ecotypes in Non-Small Cell Lung Cancer

Metabolic splicing subtypes elucidate metastatic trajectories and clinical biomarkers in adrenocortical carcinoma

IRDRM: Exploring Biological Traits and Clinical Significance in Breast Cancer Through Gene Pairs and Somatic Mutation Profiles

Deep Clustering-Based Metabolic Stratification of Non-Small Cell Lung Cancer Patients Through Integration of Somatic Mutation Profile and Network Propagation Algorithm

基于生物信息学与机器学习识别阳虚质强直性脊柱炎关键基因

Machine learning-based prediction of diabetic patients using blood routine data

Integrated Machine Learning Algorithms for Stratification of Patients with Bladder Cancer

Integrating somatic mutation profiles with structural deep clustering network for metabolic stratification in pancreatic cancer: a comprehensive analysis of prognostic and genomic landscapes

Structural deep clustering network for stratification of breast cancer patients through integration of somatic mutation profiles

Prediction of immune and targeted drug efficacy in pain-related risk subtypes for bladder cancer patients

Integrated analysis of ovarian cancer patients from prospective transcription factor activity reveals subtypes of prognostic significance

Stratification of ovarian cancer patients from the prospect of drug target-related transcription factor protein activity: the prognostic and genomic landscape analyses

A cost-effective machine learning-based method for preeclampsia risk assessment and driver genes discovery

A computational framework of routine test data for the cost-effective chronic disease prediction

A random forest-based metabolic risk model to assess the prognosis and metabolism-related drug targets in ovarian cancer

Deep learning-based transcription factor activity for stratification of breast cancer patients

The Immune-based Prognostic Score for the Immunogenomic Landscape Aanalysis and Application of Chemotherapy in Breast Cancer

Integrated multi-cohorts for characterizing the immunogenomic landscape and predicting drug response in triple-negative breast cancer

Characterized the diversity of ABCB1 subtypes in immunogenomic landscape for predicting the drug response in breast cancer

Research progress of reduced amino acid alphabets in protein analysis and prediction

Prognostic and predictive value of a metabolic risk score model in breast cancer: an immunogenomic landscape analysis

Immune-related Gene-based Prognostic Signature for the Risk Stratification Analysis of Breast Cancer

HelPredictor models single-cell transcriptome to predict human embryo lineage allocation

A Comparison for Dimensionality Reduction Methods of Single-Cell RNA-seq Data

Clinical significance and immunogenomic landscape analyses of the immune cell signature based prognostic model for patients with breast cancer

Using Reduced Amino Acid Alphabet and Biological Properties to Analyze and Predict Animal Neurotoxin Protein

RaacLogo: a new sequence logo generator by using reduced amino acid clusters

Characterization of the relationship between FLI1 and immune infiltrate level in tumour immune microenvironment for breast cancer

Immune cell infiltration-based signature for prognosis and immunogenomic analysis in breast cancer

Identifying FL11 subtype by characterizing tumor immune microenvironment in prostate adenocarcinoma via Chou's 5-steps rule

EmExplorer: a database for exploring time activation of gene expression in mammalian embryos

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

RAACBook: a web server of reduced amino acid alphabet for sequence-dependent inference by using Chou’s five-step rule

The spatial binding model of the pioneer factor Oct4 with its target genes during cell reprogramming

iDEF-PseRAAC: Identifying the Defensin Peptide by Using Reduced Amino Acid Composition Descriptor

Characterization of human proteins with different subcellular localizations by topological and biological properties

Analysis and prediction of animal toxins by various Chou's pseudo components and reduced amino acid compositions

Characterize the difference between TMPRSS2-ERG and non-TMPRSS2-ERG fusion patients by clinical and biological characteristics in prostate cancer

Clinical significance of the immune microenvironment in ovarian cancer patients

Characterization of proteins in different subcellular localizations for Escherichia coli K12

Prediction of conotoxin superfamilies by the Naive Bayes classifier

Prediction of presynaptic and postsynaptic neurotoxins by combining various Chou’s pseudo components

Molecular classification of prostate adenocarcinoma by the integrated somatic mutation profiles and molecular network

Exploring timing activation of functional pathway based on differential co-expression analysis in preimplantation embryogenesis

Identification of novel prognostic indicators for triple-negative breast cancer patients through integrative analysis of cancer genomics data and protein interactome data

Characterize the relationship between essential and TATA-containing genes for S. cerevisiae by network topologies in the perturbation sensitivity network

PseKRAAC: a flexible web server for generating pseudo K-tuple reduced amino acids composition

Characterization of BioPlex network by topological properties

Discovery of potential prognostic long non-coding RNA biomarkers for predicting the risk of tumor recurrence of breast cancer patients

Comparative analysis of housekeeping and tissue-selective genes in human based on network topologies and biological properties

iDPF-PseRAAAC: A Web-Server for Identifying the Defensin Peptide Family and Subfamily Using Pseudo Reduced Amino Acid Alphabet Composition

Identification and validation of potential prognostic lncRNA biomarkers for predicting survival in patients with multiple myeloma

Characterization of proteins in S. cerevisiae with subcellular localizations

Genome-wide characterization of essential, toxicity-modulating and no-phenotype genes in S. cerevisiae

Discrimination of membrane transporter protein types using K -nearest neighbor method derived from the similarity distance of total diversity measure

Analysis and identification of essential genes in humans using topological properties and biological information

Human proteins characterization with subcellular localizations

Predicting peroxidase subcellular location by hybridizing different descriptors of Chou’ pseudo amino acid patterns

Characterization of essential genes by topological properties in the perturbation sensitivity network

Analysis and identification of toxin targets by topological properties in protein–protein interaction network

System Analysis of LWDH Related Genes Based on Text Mining in Biological Networks