Volume 13 Supplement 16

Statistical mass spectrometry-based proteomics

Research and reviews

Edited by Predrag Radivojac and Olga Vitek

This supplement did not receive any external funding

  1. Research

    False discovery rates in spectral identification

    Automated database search engines are one of the fundamental engines of high-throughput proteomics enabling daily identifications of hundreds of thousands of peptides and proteins from tandem mass (MS/MS) spec...

    Kyowon Jeong, Sangtae Kim and Nuno Bandeira

    BMC Bioinformatics 2012 13(Suppl 16):S2

    Published on: 5 November 2012

  2. Review

    Computational approaches to protein inference in shotgun proteomics

    Shotgun proteomics has recently emerged as a powerful approach to characterizing proteomes in biological samples. Its overall objective is to identify the form and quantity of each protein in a high-throughput...

    Yong Fuga Li and Predrag Radivojac

    BMC Bioinformatics 2012 13(Suppl 16):S4

    Published on: 5 November 2012

  3. Research

    Normalization and missing value imputation for label-free LC-MS analysis

    Shotgun proteomic data are affected by a variety of known and unknown systematic biases as well as high proportions of missing values. Typically, normalization is performed in an attempt to remove systematic b...

    Yuliya V Karpievitch, Alan R Dabney and Richard D Smith

    BMC Bioinformatics 2012 13(Suppl 16):S5

    Published on: 5 November 2012

  4. Research

    In silico design of targeted SRM-based experiments

    Selected reaction monitoring (SRM)-based proteomics approaches enable highly sensitive and reproducible assays for profiling of thousands of peptides in one experiment. The development of such assays involves ...

    Sven Nahnsen and Oliver Kohlbacher

    BMC Bioinformatics 2012 13(Suppl 16):S8

    Published on: 5 November 2012

  5. Review

    Knowledge-based analysis of proteomics data

    As it is the case with any OMICs technology, the value of proteomics data is defined by the degree of its functional interpretation in the context of phenotype. Functional analysis of proteomics profiles is in...

    Marina Bessarabova, Alexander Ishkin, Lellean JeBailey, Tatiana Nikolskaya and Yuri Nikolsky

    BMC Bioinformatics 2012 13(Suppl 16):S13

    Published on: 5 November 2012