A Regularized Regression Method for Peptide Quantification

(1) Source codes:

    PeptideQuant

    Simulation
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(2) Protein database we use in simulation:

    The database (UniProtKB/Swiss-Prot) is downloaded from UniProt (http://www.uniprot.org/downloads) on April 20th, 2009. The format of the database is fasta. We share the database here.

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(3) Calculate the overlapping ratios of peptides in standard protein mixture data:

    18 protein mixture: the raw data of this protein mixture can be accessed through http://regis-web.systemsbiology.net/PublicDatasets/. The dataset we use is "Mix_2/QTOF1".

    7 protein mixture