an assessment of false discovery rates and statistical significance in label-free quantitative proteomics with combined filters错误发现率和统计学意义的评估label-free定量蛋白质组学与过滤器相结合.pdfVIP

BMC Bioinformatics BioMed Central Methodology article Open Access An assessment of false discovery rates and statistical significance in label-free quantitative proteomics with combined filters Qingbo Li*1,2 and Bryan AP Roxas1 Address: 1Center for Pharmaceutical Biotechnology, College of Pharmacy, University of Illinois at Chicago, Chicago, IL 60607, USA and 2Department of Microbiology and Immunology, College of Medicine, University of Illinois at Chicago, Chicago, IL 60612, USA Email: Qingbo Li* - qkli@; Bryan AP Roxas - baproxas@ * Corresponding author Published: 2 February 2009 Received: 6 August 2008 Accepted: 2 February 2009 BMC Bioinformatics 2009, 10:43 doi:10.1186/1471-2105-10-43 This article is available from: /1471-2105/10/43 © 2009 Li and Roxas; licensee BioMed Central Ltd. This is an Open Access article distributed under the terms of the Creative Commons Attribution License (/licenses/by/2.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited. Abstract Background: Many studies have provided algorithms or methods to assess a statistical significance in quantitative proteomics when multiple replicates for a protein sample and a LC/MS analysis are available. But, confidence is still lacking in using datasets for a biological interpretation without protein sample replicates. Although a fold-change is a conventional threshold that can be used when there are no sample replicates, it does not provide an assessment