Published in Database (Oxford) on July 11, 2013
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Reorganizing the protein space at the Universal Protein Resource (UniProt). Nucleic Acids Res (2011) 18.50
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BioMediator data integration: beyond genomics to neuroscience data. AMIA Annu Symp Proc (2005) 1.34
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Protein fold similarity estimated by a probabilistic approach based on C(alpha)-C(alpha) distance comparison. J Mol Biol (2002) 1.56
Vicinal disulfide turns. Protein Eng (2003) 1.50
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DPX: for the analysis of the protein core. Bioinformatics (2003) 1.29
Atom depth as a descriptor of the protein interior. Biophys J (2003) 1.24
Multiple weak hits confuse complex systems: a transcriptional regulatory network as an example. Phys Rev E Stat Nonlin Soft Matter Phys (2005) 1.19
ProGMap: an integrated annotation resource for protein orthology. Nucleic Acids Res (2009) 1.17
Co-swarming and local collapse: quorum sensing conveys resilience to bacterial communities by localizing cheater mutants in Pseudomonas aeruginosa. PLoS One (2010) 1.13
Vicinal disulfide bridge conformers by experimental methods and by ab initio and DFT molecular computations. Proteins (2004) 1.13
Atom depth in protein structure and function. Trends Biochem Sci (2003) 1.09
Application of compression-based distance measures to protein sequence classification: a methodological study. Bioinformatics (2005) 1.06
Fragmentation pathways of N(G)-methylated and unmodified arginine residues in peptides studied by ESI-MS/MS and MALDI-MS. J Am Soc Mass Spectrom (2004) 1.03
Efficient recognition of folds in protein 3D structures by the improved PRIDE algorithm. Bioinformatics (2005) 1.02
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Benchmarking protein classification algorithms via supervised cross-validation. J Biochem Biophys Methods (2007) 1.01
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The evolution of structural databases. Trends Biotechnol (2002) 0.99
Alanine-scanning mutagenesis of the predicted rRNA-binding domain of ErmC' redefines the substrate-binding site and suggests a model for protein-RNA interactions. Nucleic Acids Res (2003) 0.99
Repair of a minimal DNA double-strand break by NHEJ requires DNA-PKcs and is controlled by the ATM/ATR checkpoint. Nucleic Acids Res (2003) 0.98
Mutational analysis defines the roles of conserved amino acid residues in the predicted catalytic pocket of the rRNA:m6A methyltransferase ErmC'. J Mol Biol (2003) 0.97
A simple model for the early events of quorum sensing in Pseudomonas aeruginosa: modeling bacterial swarming as the movement of an "activation zone". Biol Direct (2009) 0.97
Lack of correlation between phenotypic techniques and PCR-based genotypic methods for identification of Enterococcus spp. Diagn Microbiol Infect Dis (2004) 0.96
The virtue of temperance: built-in negative regulators of quorum sensing in Pseudomonas. Mol Microbiol (2011) 0.94
The intracellular region of Notch ligands: does the tail make the difference? Biol Direct (2007) 0.93
Repeats with variations: accelerated evolution of the Pin2 family of proteinase inhibitors. Trends Genet (2002) 0.92
Classifying the topology of AHL-driven quorum sensing circuits in proteobacterial genomes. Sensors (Basel) (2012) 0.91
Computational proteomics pitfalls and challenges: HavanaBioinfo 2012 workshop report. J Proteomics (2013) 0.89
The SBASE domain sequence resource, release 12: prediction of protein domain-architecture using support vector machines. Nucleic Acids Res (2005) 0.89
The organization of the quorum sensing luxI/R family genes in Burkholderia. Int J Mol Sci (2013) 0.89
The "first in-last out" hypothesis on protein folding revisited. Proteins (2005) 0.88
Chromosomal Arrangement of AHL-Driven Quorum Sensing Circuits in Pseudomonas. ISRN Microbiol (2012) 0.88
Functional aspects of cHH C-terminal amidation in crayfish species. Regul Pept (2008) 0.88
IS: a web-site for intron statistics. Bioinformatics (2003) 0.87
Stability of multispecies bacterial communities: signaling networks may stabilize microbiomes. PLoS One (2013) 0.87
Locality versus globality in bacterial signalling: can local communication stabilize bacterial communities? Biol Direct (2010) 0.87
Prevalence of intrinsic disorder in the intracellular region of human single-pass type I proteins: the case of the notch ligand Delta-4. J Proteome Res (2008) 0.86
Evolution of robust and efficient system topologies. Cell Immunol (2007) 0.85
The SBASE domain sequence library, release 10: domain architecture prediction. Nucleic Acids Res (2003) 0.85
CX, DPX and PRIDE: WWW servers for the analysis and comparison of protein 3D structures. Nucleic Acids Res (2005) 0.84
Exon 6 of human Jagged-1 encodes an autonomously folding unit. FEBS Lett (2004) 0.84
Efficient synthesis and comparative studies of the arginine and Nomega,Nomega-dimethylarginine forms of the human nucleolin glycine/arginine rich domain. J Pept Sci (2005) 0.84
The tetralogy of Fallot-associated G274D mutation impairs folding of the second epidermal growth factor repeat in Jagged-1. FEBS J (2009) 0.84
Identifying novel biomarkers through data mining-a realistic scenario? Proteomics Clin Appl (2015) 0.84
Identification of a novel immunogenic HLA-A*0201-binding epitope of HER-2/neu with potent antitumor properties. J Immunol (2008) 0.83
A novel quantitative flow cytometric method for measuring glucocorticoid receptor (GR) in cell lines: correlation with the biochemical determination of GR. J Immunol Methods (2007) 0.82
Description of a nosocomial outbreak of infection caused by a vanA-containing strain of Enterococcus faecalis in La Coruna, Spain. J Antimicrob Chemother (2004) 0.81
Application of a simple likelihood ratio approximant to protein sequence classification. Bioinformatics (2006) 0.80
The SBASE protein domain library, release 9.0: an online resource for protein domain identification. Nucleic Acids Res (2002) 0.80
Gene synthesis, expression, purification, and characterization of human Jagged-1 intracellular region. Protein Expr Purif (2005) 0.80
The intracellular region of the Notch ligand Jagged-1 gains partial structure upon binding to synthetic membranes. FEBS J (2007) 0.79
Novel protocol for the chemical synthesis of crustacean hyperglycemic hormone analogues--an efficient experimental tool for studying their functions. PLoS One (2012) 0.79
The interaction of Jagged-1 cytoplasmic tail with afadin PDZ domain is local, folding-independent, and tuned by phosphorylation. J Mol Recognit (2011) 0.79
Balanced ROC analysis (BAROC) protocol for the evaluation of protein similarities. J Biochem Biophys Methods (2007) 0.78
Jagged-1 juxtamembrane region: biochemical characterization and cleavage by ADAM17 (TACE) catalytic domain. Biochem Biophys Res Commun (2013) 0.78
Multi-netclust: an efficient tool for finding connected clusters in multi-parametric networks. Bioinformatics (2010) 0.78
Detecting atypical examples of known domain types by sequence similarity searching: the SBASE domain library approach. Curr Protein Pept Sci (2010) 0.78
Exon 6 of human JAG1 encodes a conserved structural unit. BMC Struct Biol (2009) 0.78
Effectively addressing complex proteomic search spaces with peptide spectrum matching. Bioinformatics (2013) 0.78
The proteome profile of two cell lines and their xenografts isolated from a patient with clear cell sarcoma (soft tissue melanoma). Cancer Genomics Proteomics (2008) 0.78
Graph-representation of oxidative folding pathways. BMC Bioinformatics (2005) 0.77
Folding of epidermal growth factor-like repeats from human tenascin studied through a sequence frame-shift approach. Eur J Biochem (2004) 0.77
Applying fuzzy technologies to equivalence learning in protein classification. J Comput Biol (2009) 0.77
DNA-mediated assembly of weakly interacting DNA-binding protein subunits: in vitro recruitment of phage 434 repressor and yeast GCN4 DNA-binding domains. Nucleic Acids Res (2004) 0.77
Oxidative folding of Amaranthus alpha-amylase inhibitor: disulfide bond formation and conformational folding. J Biol Chem (2004) 0.77
Different degrees of structural order in distinct regions of the transcriptional repressor HES-1. Biochim Biophys Acta (2010) 0.77
Probing dynamic protein ensembles with atomic proximity measures. Curr Protein Pept Sci (2010) 0.77
Fast protein fold estimation from NMR-derived distance restraints. Bioinformatics (2007) 0.76
SCX charge state selective separation of tryptic peptides combined with 2D-RP-HPLC allows for detailed proteome mapping. J Proteomics (2013) 0.76
Flexibility of the PDZ-binding motif in the micelle-bound form of Jagged-1 cytoplasmic tail. Biochim Biophys Acta (2012) 0.76
Automated processing of whole blood units: operational value and in vitro quality of final blood components. Blood Transfus (2011) 0.75
Protein classification based on propagation of unrooted binary trees. Protein Pept Lett (2008) 0.75
Translating immunity into cancer therapy: new findings from the first conference of the European Society for Cancer Immunology and Immunotherapy, an ESMO-EIS held in Athens, 15-17 November 2007. Cancer Immunol Immunother (2008) 0.75
Feedback-controlled laser fabrication of micromirror substrates. Rev Sci Instrum (2011) 0.75
Incidence and management of isolated renal injury and polytrauma patients. Arch Esp Urol (2014) 0.75
Selective isolation of multiply charged peptides: a confident strategy for protein identification using a linear trap quadrupole mass spectrometer. Eur J Mass Spectrom (Chichester, Eng) (2012) 0.75
Editorial: Genomics and proteomics behind drug design. Curr Top Med Chem (2014) 0.75
Kalman filtering for disease-state estimation from microarray data. Bioinformatics (2006) 0.75
The basic helix-loop-helix region of the transcriptional repressor hairy and enhancer of split 1 is preorganized to bind DNA. Proteins (2014) 0.75
Non-random features of loop-size chromatin fragmentation. J Cell Biochem (2003) 0.75
Prediction of new abiotic stress genes in Arabidopsis thaliana and Oryza sativa according to enumeration-based statistical analysis. Mol Genet Genomics (2011) 0.75
Selective isolation-detection of two different positively charged peptides groups by strong cation exchange chromatography and matrix-assisted laser desorption/ionization mass spectrometry: application to proteomics studies. Eur J Mass Spectrom (Chichester, Eng) (2010) 0.75
Multi-netclust: an efficient tool for finding connected clusters in multi-parametric networks. Bioinformatics (2015) 0.75
Modeling bacterial quorum sensing in open and closed environments: potential discrepancies between agar plate and culture flask experiments. J Mol Model (2014) 0.75
PTMTreeSearch: a novel two-stage tree-search algorithm with pruning rules for the identification of post-translational modification of proteins in MS/MS spectra. Bioinformatics (2013) 0.75
Chemical rule-based filtering of MS/MS spectra. Bioinformatics (2013) 0.75