Proteome informatics

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Bringing together world experts to provide clear explanations of the key algorithms, workflows and analysis frameworks, Proteome Informatics will provide a detailed introduction to the main informatics topics that underpin the various LC-MS/MS protocols used for protein identification and quantitation.

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Title Statements

Full title :Proteome informatics / editor: Conrad Bessant.

Summary

Edition Statements

Publication Date:2017

Publication Statements

Publisher(s):Royal Society of Chemistry
Place of Publication:England
Language:eng
Publication Date:2017

The Physical Object

Description:1 online resource

Edition Identifiers

ISBN:9781782626732, 1782626735, 9781782629573, 1782629572
oclc:ocn967095486
LC Classification:QP551
Dewey Decimal:572.6

Cover; Proteome Informatics; Acknowledgements; Contents; Chapter 1 -- Introduction to Proteome Informatics; 1.1 Introduction; 1.2 Principles of LC-MS/MS Proteomics; 1.2.1 Protein Fundamentals; 1.2.2 Shotgun Proteomics; 1.2.3 Separation of Peptides by Chromatography; 1.2.4 Mass Spectrometry; 1.3 Identification of Peptides and Proteins; 1.4 Protein Quantitation; 1.5 Applications and Downstream Analysis; 1.6 Proteomics Software; 1.6.1 Proteomics Data Standards and Databases; 1.7 Conclusions; Acknowledgements; References; Section I -- Protein Identification; Chapter 2 -- De novo Peptide Sequencing

2.1 Introduction2.2 Manual De novo Sequencing; 2.3 Computer Algorithms; 2.3.1 Search Tree Pruning; 2.3.2 Spectrum Graph; 2.3.3 PEAKS Algorithm; 2.4 Scoring Function; 2.4.1 Likelihood Ratio; 2.4.2 Utilization of Many Ion Types; 2.4.3 Combined Use of Different Fragmentations; 2.4.4 Machine Learning; 2.4.5 Amino Acid Score; 2.5 Computer Software; 2.5.1 Lutefisk; 2.5.2 Sherenga; 2.5.3 PEAKS; 2.5.4 PepNovo; 2.5.5 DACSIM; 2.5.6 NovoHMM; 2.5.7 MSNovo; 2.5.8 PILOT; 2.5.9 pNovo; 2.5.10 Novor; 2.6 Conclusion: Applications and Limitations of De novo Sequencing

2.6.1 Sequencing Novel Peptides and Dete…

Subjects

Computational Biology -- methods Peptides -- Analysis Proteome -- analysis Proteomics Proteomics -- methods Protéomique SCIENCE -- Life Sciences Tandem Mass Spectrometry -- methods