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2014 (1) 2011 (1) 2007 (1) 2006 (1) 2005 (1) 2004 (2) 2003 and before (17) Books (1)

2014

    LocTree3 prediction of localization.
    Goldberg T, Hecht M, Hamp T, Karl T, Yachdav G, Ahmed N, Altermann U, Angerer P, Ansorge S, Balasz K, Bernhofer M, Betz A, Cizmadija L, Do KT, Gerke J, Greil R, Joerdens V, Hastreiter M, Hembach K, Herzog M, Kalemanov M, Kluge M, Meier A, Nasir H, Neumaier U, Prade V, Reeb J, Sorokoumov A, Troshani I, Vorberg S, Waldraff S, Zierer J, Nielsen H, Rost B
    Nucleic Acids Research. 2014 Jul;42(Web Server issue):W350-5., 2014
    PubMed

2011

    SignalP 4.0: discriminating signal peptides from transmembrane regions
    Petersen TN, Brunak S, von Heijne G, Nielsen H
    Nature Methods 8(10):785-6 doi:10.1038/nmeth.1701, 2011
    PubMed
    Relevant URL

2007

    Locating proteins in the cell using TargetP, SignalP and related tools
    Emanuelsson O, Brunak S, von Heijne G, Nielsen H
    Nature Protoc. 2, 953-971, 2007
    PubMed

2006

    An overabundance of phase 0 introns immediately after the start codon in eukaryotic genes
    Nielsen H, Wernersson R
    BMC Genomics 7:256, 2006
    PubMed
    Web

2005

    Prediction of twin-arginine signal peptides
    Bendtsen JD, Nielsen H, Widdick D, Palmer T, Brunak S
    BMC Bioinformatics 6:167, 2005
    PubMed

2004

    Improved prediction of signal peptides: SignalP 3,0
    Bendtsen JD, Nielsen H, von Heijne G, Brunak S
    J. Mol. Biol. 340(4):783-95, 2004
    PubMed
    Blood cell gene expression profiling in rheumatoid arthritis; Discriminative genes and effect of rheumatoid factor
    Bovin LF, Rieneck K, Workman C, Nielsen H, Sorensen SF, Skjodt H, Florescu A, Brunak S, Bendtzen K
    Immunol. Lett. 93:217-26, 2004
    PubMed

2003

    Prediction of lipoprotein signal peptides in Gram-negative bacteria
    Juncker AS, Willenbrock H, Von Heijne G, Brunak S, Nielsen H, Krogh A
    Protein Sci. 12(8):1652-62, 2003
    PubMed

2002

    Prediction of human protein function from post-translational modifications and localization features
    Jensen LJ, Gupta R, Blom N, Devos D, Tamames J, Kesmir C, Nielsen H, Stærfeldt HH, Rapacki K, Workman C, Andersen CAF, Knudsen S, Krogh A, Valencia A, Brunak S
    J. Mol. Biol. 319(5):1257-65, 2002
    PubMed

2000

    Predicting subcellular localization of proteins based on their N-terminal amino acid sequence
    Emmanuelsson O, Nielsen H, Brunak S, von Heijne G
    J. Mol. Biol. 300(4):1005-16, 2000
    PubMed
    Assessing the Accuracy of Prediction Algorithms for Classification: An Overview
    Baldi P, Brunak S, Chauvin Y, Nielsen H, Andersen CAF
    Bioinformatics 16(5):412-24, 2000
    PubMed

1999

    From sequence to sorting: Prediction of signal peptides
    Nielsen H
    PhD thesis, 1999
    ChloroP, a neural network-based method for predicting chloroplast transit peptides and their cleavage sites
    Emanuelsson O, Nielsen H, von Heijne G
    Protein Sci. 8(5):978-84, 1999
    PubMed
    Competition between Sec- and TAT-dependent protein translocation in Escherichia coli
    Cristóbal S, de Gier J-W, Nielsen H, von Heijne G
    The EMBO Journal . 18(11):2982-90, 1999
    PubMed
    Measures on Hidden Markov Models
    Lyngsø RB, Pedersen CNS, Nielsen H
    BRICS Report Series, RS-99-6, February, 1999
    Metrics and Similarity Measures for Hidden Markov Models
    Lyngsø RB, Pedersen CNS, Nielsen H
    Proc Int Conf Intell Syst Mol Biol:178-86, 1999
    PubMed
    Machine learning approaches to the prediction of signal peptides and other protein sorting signal (review)
    Nielsen H, Brunak S, von Heijne G
    Protein Eng. 12(1):3-9, 1999
    PubMed

1998

    Prediction of signal peptides and signal anchors by a hidden Markov model
    Nielsen H, Krogh A
    Proc Int Conf Intell Syst Mol Biol 6:122-30, 1998
    PubMed

1997

    A neural network method for identification of prokaryotic and eukaryotic signal peptides and prediction of their cleavage sites
    Nielsen H, Engelbrecht J, Brunak S, von Heijne G
    Int J Neural Syst 8:581-99, 1997
    PubMed
    Neural Network Prediction of Translation Initiation Sites in Eukaryotes: Perspectives for EST and Genome analysis
    Pedersen AG, Nielsen H
    Proc Int Conf Intell Syst Mol Biol 5:226-33, 1997
    PubMed
    Publication download
    Identification of prokaryotic and eukaryotic signal peptides and prediction of their cleavage sites
    Nielsen H, Engelbrecht J, Brunak S, von Heijne G
    Protein Eng. 10(1):1-6, 1997
    PubMed

1996

    Defining a similarity threshold for a functional protein sequence pattern: The signal peptide cleavage site
    Nielsen H, Engelbrecht J, von Heijne G, Brunak S
    Proteins 24(2):165-77, 1996
    PubMed
    The gntP Gene of Escherichia coli Involved in Gluconate Uptake
    Klemm P, Tong S, Nielsen H, Conway T
    J. Bacteriol. 178(1):61-7, 1996
    PubMed

1993

    Predictive Recognition of Signal Peptides Using Artificial Neural Networks
    Nielsen H
    M.Sc. thesis, 1993


Books

    Signal peptides and protein localization prediction
    Nielsen H
    Encyclopedia of Genetics, Genomics, Proteomics and Bioinformatics, M.J. Dunn, L.B. Jorde, P.F.R. Little, S. Subramaniam (eds.), Wiley, 2005

2014 (1) 2011 (1) 2007 (1) 2006 (1) 2005 (1) 2004 (2) 2003 and before (17) Books (1)