PubRank

Yi-Xue Li

Author PubWeight™ 80.62‹?›

Top papers

Rank Title Journal Year PubWeight™‹?›
1 Cross-host evolution of severe acute respiratory syndrome coronavirus in palm civet and human. Proc Natl Acad Sci U S A 2005 3.37
2 Systematic analysis of head-to-head gene organization: evolutionary conservation and potential biological relevance. PLoS Comput Biol 2006 2.11
3 Construction of a chloroplast protein interaction network and functional mining of photosynthetic proteins in Arabidopsis thaliana. Cell Res 2008 1.58
4 Comparison of normalization methods with microRNA microarray. Genomics 2008 1.51
5 Analysis and prediction of the metabolic stability of proteins based on their sequential features, subcellular locations and interaction networks. PLoS One 2010 1.51
6 Transcript-level annotation of Affymetrix probesets improves the interpretation of gene expression data. BMC Bioinformatics 2007 1.35
7 Hierarchical modularity of nested bow-ties in metabolic networks. BMC Bioinformatics 2006 1.33
8 Semantic search among heterogeneous biological databases based on gene ontology. Acta Biochim Biophys Sin (Shanghai) 2004 1.30
9 Prediction of pharmacological and xenobiotic responses to drugs based on time course gene expression profiles. PLoS One 2009 1.26
10 Modular co-evolution of metabolic networks. BMC Bioinformatics 2007 1.23
11 DCGL: an R package for identifying differentially coexpressed genes and links from gene expression microarray data. Bioinformatics 2010 1.23
12 Link-based quantitative methods to identify differentially coexpressed genes and gene pairs. BMC Bioinformatics 2011 1.19
13 Combinatorial network of primary and secondary microRNA-driven regulatory mechanisms. Nucleic Acids Res 2009 1.19
14 A HMM-based method to predict the transmembrane regions of beta-barrel membrane proteins. Comput Biol Chem 2003 1.18
15 In silico discovery of human natural antisense transcripts. BMC Bioinformatics 2006 1.16
16 miR-612 suppresses the invasive-metastatic cascade in hepatocellular carcinoma. J Exp Med 2013 1.10
17 Identification and target prediction of miRNAs specifically expressed in rat neural tissue. BMC Genomics 2009 1.10
18 The prediction of interferon treatment effects based on time series microarray gene expression profiles. J Transl Med 2008 1.10
19 Dynamic analysis of optimality in myocardial energy metabolism under normal and ischemic conditions. Mol Syst Biol 2006 1.10
20 Proteomics characterization of the cytotoxicity mechanism of ganoderic acid D and computer-automated estimation of the possible drug target network. Mol Cell Proteomics 2007 1.05
21 DCGL v2.0: an R package for unveiling differential regulation from differential co-expression. PLoS One 2013 1.02
22 Sys-BodyFluid: a systematical database for human body fluid proteome research. Nucleic Acids Res 2008 1.02
23 High-coverage proteome analysis reveals the first insight of protein modification systems in the pathogenic spirochete Leptospira interrogans. Cell Res 2009 1.01
24 Computational methods for protein-protein interaction and their application. Curr Protein Pept Sci 2005 0.99
25 KDE Bioscience: platform for bioinformatics analysis workflows. J Biomed Inform 2005 0.94
26 Large scale phosphoproteome profiles comprehensive features of mouse embryonic stem cells. Mol Cell Proteomics 2010 0.94
27 A negative cooperativity mechanism of human CYP2E1 inferred from molecular dynamics simulations and free energy calculations. J Chem Inf Model 2011 0.94
28 Localized-statistical quantification of human serum proteome associated with type 2 diabetes. PLoS One 2008 0.93
29 Molecular dynamics studies on the interactions of PTP1B with inhibitors: from the first phosphate-binding site to the second one. Protein Eng Des Sel 2009 0.91
30 Identifying modules of coexpressed transcript units and their organization of Saccharopolyspora erythraea from time series gene expression profiles. PLoS One 2010 0.91
31 An improved kinetic model for the acetone-butanol-ethanol pathway of Clostridium acetobutylicum and model-based perturbation analysis. BMC Syst Biol 2011 0.90
32 Prediction of beta-turns with learning machines. Peptides 2003 0.90
33 Small envelope protein E of SARS: cloning, expression, purification, CD determination, and bioinformatics analysis. Acta Pharmacol Sin 2003 0.90
34 Systems perspectives on erythromycin biosynthesis by comparative genomic and transcriptomic analyses of S. erythraea E3 and NRRL23338 strains. BMC Genomics 2013 0.89
35 Combining gene expression profiles and protein-protein interaction data to infer gene functions. J Biotechnol 2006 0.89
36 3D structure modeling of cytochrome P450 2C19 and its implication for personalized drug design. Biochem Biophys Res Commun 2007 0.89
37 Adipogenesis licensing and execution are disparately linked to cell proliferation. Cell Res 2009 0.88
38 Protein sumoylation sites prediction based on two-stage feature selection. Mol Divers 2009 0.88
39 Rig-I regulates NF-κB activity through binding to Nf-κb1 3'-UTR mRNA. Proc Natl Acad Sci U S A 2013 0.87
40 Identification of probable genomic packaging signal sequence from SARS-CoV genome by bioinformatics analysis. Acta Pharmacol Sin 2003 0.86
41 Combinatorial network of transcriptional regulation and microRNA regulation in human cancer. BMC Syst Biol 2012 0.86
42 Discovering multiple transcripts of human hepatocytes using massively parallel signature sequencing (MPSS). BMC Genomics 2007 0.86
43 Induced fit for mRNA/TIS11d complex. J Chem Phys 2009 0.86
44 Identification of p27/KIP1 expression level as a candidate biomarker of response to rapalogs therapy in human cancer. J Mol Med (Berl) 2010 0.86
45 DBH2H: vertebrate head-to-head gene pairs annotated at genomic and post-genomic levels. Database (Oxford) 2009 0.85
46 Reversal of coenzyme specificity and improvement of catalytic efficiency of Pichia stipitis xylose reductase by rational site-directed mutagenesis. Biotechnol Lett 2009 0.85
47 A high-throughput approach for subcellular proteome: identification of rat liver proteins using subcellular fractionation coupled with two-dimensional liquid chromatography tandem mass spectrometry and bioinformatic analysis. Mol Cell Proteomics 2004 0.84
48 Large number of phosphotransferase genes in the Clostridium beijerinckii NCIMB 8052 genome and the study on their evolution. BMC Bioinformatics 2010 0.84
49 A 3D model of SARS_CoV 3CL proteinase and its inhibitors design by virtual screening. Acta Pharmacol Sin 2003 0.84
50 Exploring mitochondrial evolution and metabolism organization principles by comparative analysis of metabolic networks. Genomics 2010 0.84
51 Analysis of gene expression profile in gastric cancer cells stimulated with Helicobacter pylori isogenic strains. J Med Microbiol 2004 0.84
52 Scoring hidden Markov models to discriminate beta-barrel membrane proteins. Comput Biol Chem 2004 0.84
53 The discovery of novel protein-coding features in mouse genome based on mass spectrometry data. Genomics 2011 0.83
54 Crosstissue coexpression network of aging. OMICS 2011 0.82
55 GalNAc-transferase specificity prediction based on feature selection method. Peptides 2008 0.81
56 cGRNB: a web server for building combinatorial gene regulatory networks through integrated engineering of seed-matching sequence information and gene expression datasets. BMC Syst Biol 2013 0.81
57 Negatively cooperative binding properties of human cytochrome P450 2E1 with monocyclic substrates. Curr Drug Metab 2012 0.81
58 Concurrent quantification of proteome and phosphoproteome to reveal system-wide association of protein phosphorylation and gene expression. Mol Cell Proteomics 2009 0.81
59 Prediction of protein secondary structure using improved two-level neural network architecture. Protein Pept Lett 2005 0.81
60 Predicting protein oxidation sites with feature selection and analysis approach. J Biomol Struct Dyn 2012 0.80
61 Selection of reprogramming factors of induced pluripotent stem cells based on the protein interaction network and functional profiles. Protein Pept Lett 2012 0.80
62 Exploration of conformational transition in the aryl-binding site of human FXa using molecular dynamics simulations. J Mol Model 2011 0.80
63 Comparisons of graph-structure clustering methods for gene expression data. Acta Biochim Biophys Sin (Shanghai) 2006 0.80
64 Prediction of prokaryotic promoters based on prediction of transcriptional units. Sheng Wu Hua Xue Yu Sheng Wu Wu Li Xue Bao (Shanghai) 2003 0.80
65 Molecular dynamics studies on the conformational transitions of adenylate kinase: a computational evidence for the conformational selection mechanism. Biomed Res Int 2013 0.79
66 A comparison of computational methods for identifying virulence factors. PLoS One 2012 0.79
67 Cancer classification from the gene expression profiles by Discriminant Kernel-PLS. J Bioinform Comput Biol 2010 0.79
68 Putative hAPN receptor binding sites in SARS_CoV spike protein. Acta Pharmacol Sin 2003 0.79
69 [Analysis and application of SNP and haplotype in the human genome]. Yi Chuan Xue Bao 2005 0.79
70 Analyses of copy number variation of GK rat reveal new putative type 2 diabetes susceptibility loci. PLoS One 2010 0.79
71 Global transcriptome analysis profiles metabolic pathways in traditional herb Astragalus membranaceus Bge. var. mongolicus (Bge.) Hsiao. BMC Genomics 2015 0.78
72 Computational studies on the substrate interactions of influenza A virus PB2 subunit. PLoS One 2012 0.78
73 Structural flexibility and interactions of PTP1B's S-loop. Interdiscip Sci 2009 0.78
74 Autoinhibitory mechanism for the mutation-induced impaired FGF9 signaling. J Chem Inf Model 2012 0.78
75 Structural basis for the mutation-induced dysfunction of human CYP2J2: a computational study. J Chem Inf Model 2013 0.78
76 Sorting out inherent features of head-to-head gene pairs by evolutionary conservation. BMC Bioinformatics 2010 0.78
77 Comparison of a proteomic approach with a microarray-based approach to detect exons in the mouse genome. Nat Genet 2006 0.77
78 Support vector machine for predicting alpha-turn types. Peptides 2003 0.77
79 π-π Stacking mediated drug-drug interactions in human CYP2E1. Proteins 2013 0.77
80 MPSS: an integrated database system for surveying a set of proteins. Bioinformatics 2005 0.76
81 Splice blocking of zygotic sox31 leads to developmental arrest shortly after Mid-Blastula Transition and induces apoptosis in zebrafish. FEBS Lett 2011 0.76
82 Modeling the effects of cell cycle M-phase transcriptional inhibition on circadian oscillation. PLoS Comput Biol 2008 0.75
83 EcoBrowser: a web-based tool for visualizing transcriptome data of Escherichia coli. BMC Res Notes 2011 0.75
84 Partition dataset according to amino acid type improves the prediction of deleterious non-synonymous SNPs. Biochem Biophys Res Commun 2012 0.75
85 EMMA: an efficient massive mapping algorithm using improved approximate mapping filtering. Acta Biochim Biophys Sin (Shanghai) 2006 0.75
86 [Construction of a proteomic map database]. Sheng Wu Hua Xue Yu Sheng Wu Wu Li Xue Bao (Shanghai) 2002 0.75
87 Network analysis of the protein chain tertiary structures of heterocomplexes. Protein Pept Lett 2006 0.75
88 Association between alcohol, smoking and HLA-DQA1*0201 genotype in psoriasis. Acta Biochim Biophys Sin (Shanghai) 2004 0.75