Tuyển tập các báo cáo nghiên cứu về y học được đăng trên tạp chí y học Critical Care giúp cho các bạn có thêm kiến thức về ngành y học đề tài: Estimation and correction of non-specific binding in a large-scale spike-in experiment. | Open Access Research Estimation and correction of non-specific binding in a large-scale spike-in experiment Eugene F Schuster Eric Bland Linda Partridge and Janet M Thornton Addresses European Bioinformatics Institute Wellcome Trust Genome Campus Hinxton Cambridge CB10 1SD UK. MRC Centre for Developmental Neurobiology King s College London Guy s Hospital Campus London SE1 1UL UK. Department of Biology University College London Darwin Building Gower Street London WC1E 6BT UK. Correspondence Eugene F Schuster. Email schuster@ Published 26 June 2007 Genome Biology 2007 8 R126 doi gb-2007-8-6-rl 26 The electronic version of this article is the complete one and can be found online at http 2007 8 6 R126 Received 13 December 2007 Revised 11 May 2007 Accepted 26 June 2007 2007 Schuster et al. licensee BioMed Central Ltd. This is an open access article distributed under the terms of the Creative Commons Attribution License http licenses by which permits unrestricted use distribution and reproduction in any medium provided the original work is properly cited. Abstract Background The availability of a recently published large-scale spike-in microarray dataset helps us to understand the influence of probe sequence in non-specific binding NSB signal and enables the benchmarking of several models for the estimation of NSB. In a typical microarray experiment using Affymetrix whole genome chips 30 to 50 of the probes will apparently have absent target transcripts and show only NSB signal and these probes can have significant repercussions for normalization and the statistical analysis of the data if NSB is not estimated correctly. Results We have found that the MAS5 perfect match-mismatch PM-MM model is a poor model for estimation of NSB and that the Naef and Zhang sequence-based models can reasonably estimate NSB. In general using the GC robust multi-array average which uses Naef binding affinities to calculate NSB GC-NSB
