Advances in chemical proteomics

Detalles Bibliográficos
Clasificación:Libro Electrónico
Autor principal: Yao, Xudong
Formato: Electrónico eBook
Idioma:Inglés
Publicado: San Diego : Elsevier, 2021.
Colección:Developments in Organic Chemistry.
Temas:
Proteomics.
Biochemistry.
Chemistry, Organic.
Proteomics
Biochemistry
Chemistry, Organic
Prot�eomique.
Biochimie.
Chimie organique.
biochemistry.
organic chemistry.
Acceso en línea:Texto completo
Tabla de Contenidos:
  • Front Cover
  • ADVANCES IN CHEMICAL PROTEOMICS
  • ADVANCES IN CHEMICAL PROTEOMICS
  • Copyright
  • Contents
  • Contributors
  • Biography
  • 1
  • Concepts and principles
  • 1
  • Introduction to proteomics for chemical biology
  • 1.1 Multi-omics as a promising path to precision healthcare
  • 1.2 The bottom-up proteomics workflow
  • 1.2.1 Overview of proteomics
  • 1.2.2 Sample preparation
  • 1.2.2.1 Cell lysis
  • 1.2.2.2 Total protein quantitation assay
  • 1.2.2.3 Size-exclusion chromatography
  • 1.2.2.4 Gel electrophoresis
  • 1.2.2.5 Affinity capture
  • 1.2.2.6 Protein digestion
  • 1.2.2.7 Offline peptide fractionation
  • 1.2.3 Liquid chromatography
  • 1.2.4 Mass spectrometry instrumentation and implementation in proteomics
  • 1.2.4.1 Ion sources
  • 1.2.4.2 Mass analyzers
  • 1.2.4.3 Gas-phase peptide fragmentation and tandem mass spectrometry
  • 1.2.4.4 Modes of spectral data acquisition in bottom-up proteomics
  • 1.2.5 Bioinformatics of database search and peptide identification
  • 1.2.5.1 Input pre-processing
  • 1.2.5.2 In silico protein digestion
  • 1.2.5.3 Peptide mass filtering
  • 1.2.5.4 Peptide-spectrum matching and scoring
  • 1.3 Tools and strategies in chemical proteomics
  • 1.3.1 Compound-centric versus activity-based probes
  • 1.3.2 Chemical tagging on peptides
  • 1.3.3 Metabolic labeling on proteins
  • 1.4 Challenges and opportunities in chemical proteomics
  • 1.4.1 Alternative bio-orthogonal affinity tags and trypsin-resistant affinity binders
  • 1.4.2 Reactivity and selectivity of chemical probes
  • 1.4.3 Bioinformatics for modification-specific proteomics
  • 1.5 Conclusion
  • References
  • 2
  • Warheads for designing covalent inhibitors and chemical probes
  • 2.1 Definitions
  • 2.2 Foundational knowledge
  • 2.3 Recent developments
  • 2.4 Points of view/opinions
  • 2.4.1 Strategic considerations for the selection and optimization of the warheads
  • 2.5 Summary and outlook
  • References
  • 3
  • Chemical derivatization of peptides for quantitative proteomics
  • 3.1 Introduction
  • 3.2 Quantitative proteomics concepts
  • 3.2.1 Quantification methods
  • 3.2.2 Data acquisition strategies
  • 3.3 Labeling techniques for MS1-based quantification
  • 3.3.1 General considerations
  • 3.3.2 Isotope-coded affinity tag
  • 3.3.3 Reductive dimethylation
  • 3.3.4 Other MS1-based isotope labeling methods
  • 3.3.5 Labeling methods that do not use isotopic labeling
  • 3.4 Labeling techniques for MS2- and MS3-based quantification
  • 3.4.1 General considerations
  • 3.4.2 Tandem Mass Tags
  • 3.4.3 iTRAQ
  • 3.4.4 Other isobaric tagging concepts based on reporter ion quantification
  • 3.4.5 Quantification based on isobaric tagging and complementary fragment ions
  • 3.4.6 Use of isobaric tags for sample amplification: application to single-cell proteomics
  • 3.5 Achieving higher-order multiplexing by combining labeling strategies
  • 3.6 Summary and outlook
  • References
  • 4
  • Open search algorithms discover patterns of chemical modifications via LC-MS/MS

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