LEADER 05608nam 2200673 a 450 001 9910841586903321 005 20170815095311.0 010 $a1-118-49404-0 010 $a1-299-18826-5 010 $a1-118-49378-8 010 $a1-118-49377-X 035 $a(CKB)2670000000327684 035 $a(EBL)1120718 035 $a(OCoLC)827207580 035 $a(SSID)ssj0000831532 035 $a(PQKBManifestationID)11437142 035 $a(PQKBTitleCode)TC0000831532 035 $a(PQKBWorkID)10873022 035 $a(PQKB)10952289 035 $a(MiAaPQ)EBC1120718 035 $a(DLC) 2012046813 035 $a(PPN)191455482 035 $a(EXLCZ)992670000000327684 100 $a20121107d2013 uy 0 101 0 $aeng 135 $aur|n|---||||| 181 $ctxt 182 $cc 183 $acr 200 10$aComputational and statistical methods for protein quantification by mass spectrometry$b[electronic resource] /$fIngvar Eidhammer ... [et al.] 210 $aChichester, West Sussex, U.K. $cJohn Wiley & Sons Inc.$d2013 215 $a1 online resource (356 p.) 300 $aDescription based upon print version of record. 311 $a1-119-96400-8 320 $aIncludes bibliographical references and index. 327 $aComputational and Statistical Methods for Protein Quantification by Mass Spectrometry; Contents; Preface; Terminology; Acknowledgements; 1 Introduction; 1.1 The composition of an organism; 1.1.1 A simple model of an organism; 1.1.2 Composition of cells; 1.2 Homeostasis, physiology, and pathology; 1.3 Protein synthesis; 1.4 Site, sample, state, and environment; 1.5 Abundance and expression - protein and proteome profiles; 1.5.1 The protein dynamic range; 1.6 The importance of exact specification of sites and states; 1.6.1 Biological features; 1.6.2 Physiological and pathological features 327 $a1.6.3 Input features1.6.4 External features; 1.6.5 Activity features; 1.6.6 The cell cycle; 1.7 Relative and absolute quantification; 1.7.1 Relative quantification; 1.7.2 Absolute quantification; 1.8 In vivo and in vitro experiments; 1.9 Goals for quantitative protein experiments; 1.10 Exercises; 2 Correlations of mRNA and protein abundances; 2.1 Investigating the correlation; 2.2 Codon bias; 2.3 Main results from experiments; 2.4 The ideal case for mRNA-protein comparison; 2.5 Exploring correlation across genes; 2.6 Exploring correlation within one gene; 2.7 Correlation across subsets 327 $a2.8 Comparing mRNA and protein abundances across genes from two situations2.9 Exercises; 2.10 Bibliographic notes; 3 Protein level quantification; 3.1 Two-dimensional gels; 3.1.1 Comparing results from different experiments - DIGE; 3.2 Protein arrays; 3.2.1 Forward arrays; 3.2.2 Reverse arrays; 3.2.3 Detection of binding molecules; 3.2.4 Analysis of protein array readouts; 3.3 Western blotting; 3.4 ELISA - Enzyme-Linked Immunosorbent Assay; 3.5 Bibliographic notes; 4 Mass spectrometry and protein identification; 4.1 Mass spectrometry; 4.1.1 Peptide mass fingerprinting (PMF) 327 $a4.1.2 MS/MS - tandem MS4.1.3 Mass spectrometers; 4.2 Isotope composition of peptides; 4.2.1 Predicting the isotope intensity distribution; 4.2.2 Estimating the charge; 4.2.3 Revealing isotope patterns; 4.3 Presenting the intensities - the spectra; 4.4 Peak intensity calculation; 4.5 Peptide identification by MS/MS spectra; 4.5.1 Spectral comparison; 4.5.2 Sequential comparison; 4.5.3 Scoring; 4.5.4 Statistical significance; 4.6 The protein inference problem; 4.6.1 Determining maximal explanatory sets; 4.6.2 Determining minimal explanatory sets; 4.7 False discovery rate for the identifications 327 $a4.7.1 Constructing the decoy database4.7.2 Separate or composite search; 4.8 Exercises; 4.9 Bibliographic notes; 5 Protein quantification by mass spectrometry; 5.1 Situations, protein, and peptide variants; 5.1.1 Situation; 5.1.2 Protein variants - peptide variants; 5.2 Replicates; 5.3 Run - experiment - project; 5.3.1 LC-MS/MS run; 5.3.2 Quantification run; 5.3.3 Quantification experiment; 5.3.4 Quantification project; 5.3.5 Planning quantification experiments; 5.4 Comparing quantification approaches/methods; 5.4.1 Accuracy; 5.4.2 Precision; 5.4.3 Repeatability and reproducibility 327 $a5.4.4 Dynamic range and linear dynamic range 330 $a The definitive introduction to data analysis in quantitative proteomics This book provides all the necessary knowledge about mass spectrometry based proteomics methods and computational and statistical approaches to pursue the planning, design and analysis of quantitative proteomics experiments. The author's carefully constructed approach allows readers to easily make the transition into the field of quantitative proteomics. Through detailed descriptions of wet-lab methods, computational approaches and statistical tools, this book covers the full scope of a quantitative experim 606 $aProteomics$xStatistical methods 606 $aMass spectrometry$xData processing 615 0$aProteomics$xStatistical methods. 615 0$aMass spectrometry$xData processing. 676 $a572.636 676 $a572/.636 700 $aEidhammer$b Ingvar$01728661 701 $aBarsnes$b Harald$01728662 701 $aEide$b Geir Egil$01728663 701 $aMartens$b Lennart$01728664 801 0$bMiAaPQ 801 1$bMiAaPQ 801 2$bMiAaPQ 906 $aBOOK 912 $a9910841586903321 996 $aComputational and statistical methods for protein quantification by mass spectrometry$94137493 997 $aUNINA