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  1. Woldegiorgis S, Wang S, He Y, Xu Z, Chen L, Tao H, Zhang Y, Zou Y, Harrison A, Zhang L, Ai Y, Liu W, He H. Rice Stress-Resistant SNP Database. Rice 2019, 12:97.[PDF]
  2. Liu W, Lin L, Zhang Z., Liu S, Gao K, Lv Y, Tao H & He H. Gene co-expression network analysis identifies trait-related modules in Arabidopsis thaliana. Planta 2019,249 (5), 1487-1501.[PDF] [Shiny source codes] Gene network
  3. Ma S., Lin S., Wang M., Zou Y., Tao H., … & He H. Differential expression proteins contribute to race-specific resistant ability in rice (Oryza sativa L.). Plants 2019, 8(2), 29.[PDF]


  1. Liu W, Tu W, Li L, Liu Y, Wang S, Li L, Tao H, He H. Revisiting Connectivity Map from a gene co-expression network analysis. Experimental and therapeutic medicine, 2018, 16 (2): 493-500.[PDF]
  2. Liu W, Li L, Ye H, Tao H, He H. Role of COL6A3 in colorectal cancer. Oncology reports 2018, 39 (6): 2527-2536.[PDF]
  3. Liu W, Ye H, Liu Y, Xu C, Zhong Y, Tian T, Ma S, Tao H, Li L, He H. Transcriptome-derived stromal and immune scores infer clinical outcomes of patients with cancer. Oncology letters, 2018, 15 (4): 4351-4357.[PDF]
  4. Liu W, Li L, Long X, You W, Zhong Y, Wang M, Tao H, Lin S, He H. Construction and Analysis of Gene Co-Expression Networks in Escherichia coli. Cells, 2018, 7 (3): 19.[PDF] Gene network


  1. Ma S, Song Q, Tao H, Harrison A, Wang S, Liu W, Lin S, Zhang Z, Ai Y, He H. Prediction of protein–protein interactions between fungus (Magnaporthe grisea) and rice (Oryza sativa L.). Briefings in Bioinformatics, 2017, bbx132.[PDF]
  2. Yang S, Li H, He H., Zhou Y, Zhang Z. Critical assessment and performance improvement of plant–pathogen protein–protein interaction prediction methods. Briefings in Bioinformatics, 2017, bbx123.[PDF]
  3. Liu W, Li L, Ye H, Chen H, Shen W, Zhong Y, Tian T, He H. From Saccharomyces cerevisiae to human: The important gene co-expression modules. Biomedical reports, 2017, 7 (2): 153-158.[PDF]


  1. Lin S, Chen L, Tao H, Huang J, Xu C, Li L, Ma S, Tian T, Liu W, Xue L, Ai Y, He H. Impact of SNPs on Protein Phosphorylation Status in Rice (Oryza sativa L.). Int J Mol Sci 2016, 17, 1738.[PDF]
  2. Li K, Xu C, Huang J, Liu W, Zhang L, Wan W, Tao H, Li L, Lin S, Harrison A, He H. Prediction and identification of the effectors of heterotrimeric G proteins in rice (Oryza sativa L.).Briefings in Bioinformatics 2016,1-9.[PDF]


  1. Lin S, Wan W, Tian T, Wang Y, Liu Q, Zhang W, Ai Y, Xue L, He H. Protein complex and proteomic profile in the roots of Oryza sativa L. in response to cadmium toxicity. Acta Physiol Plant 2015,37:188.[PDF]
  2. Lin S, Song Q, Tao H, Wang W, Wan W, Huang J, Xu C, Chebii V, Kitony J, Que S, Harrison A, He H. Rice_Phospho 1.0: a new rice-specific SVM predictor for protein phosphorylation sites. Sci Rep.2015,5:11940.[PDF]


  1. Wang Y, Lin S, Song Q, Li K, Tao H, Huang J, Chen X, Que S, He H. Genome-wide identification of heat shock proteins (Hsps) and Hsp interactors in rice: Hsp70s as a case study. BMC Genomics, 2014, 15:344.[PDF]
  2. Chen X, Lin S, Liu Q, Huang J, Zhang W, Lin J, Wang Y, Ke Y, He H. Expression and interaction of small heat shock proteins (sHsps) in rice in response to heat stress. Biochimica et Biophysica Acta (BBA)-Proteins and Proteomics, 2014, 1844 (4): 818-828.


  1. Que S, Li K, Chen M, Wang Y, Yang Q, Zhang W, Zhang B, Xiong B, He H.,et al. PhosphoRice: a meta-predictor of rice-specific phosphorylation sites. Plant Method,2012,8:5.[PDF]
  2. Chen X, Zhang W, Zhang B, He H., et al. Phosphosproteins regulated by heat stress in rice leaves. Proteome Science, 2011, 9:37.
  3. Chen C, Han G, He H. Yield, protein, and remobilization of water soluble carbohydrate and nitrogen of three spring wheat cultivars as influenced by nitrogen input. Agronomy J. 2011, 103: 786-795.
  4. Que S, Wang Y, Chen P. X, Tang Y. R, Zhang Z. D, He H. Evaluation of Protein Phosphorylation Site Predictors. Protein & Peptide Letters, 2010, Vol. 17, No.1,64-69.
  5. Chen X, Zhuang C, He Y. F, Wang L, Han G. Q, Chen C, He H. Photosynthesis, Yield, and Chemical Composition of Tieguanyin Tea Plants (Camellia sinensis (L.) O. Kuntze) in Response to Irrigation Treatments. Agriculture Water Management 2010, 97: 419-425.[PDF]
  6. Ke Y, Han G, He H., Li J. Differential regulation of proteins and phosphoproteins in rice under drought stress. Biochemical Biophysical Research Communication 2009, 379 (1): 133-138.
  7. He H and Li J. Proteomic analysis of phosphoproteins regulated by abscisic acid in rice leaves. Biochemical Biophysical Research Communication 2008, 371 (4): 883-888.
  8. He H, Xiong J, Shen L. H, Lin W. X. Conditional Genetic Effect of Allelopathy in Rice (Oryza sativa L.) under Different Environmental Conditions. Plant Growth regulation 2004, 44 (3): 211-218.