The proteomics protocols handbook /

Bibliographic Details
Other Authors:	Walker, John M., 1948-
Format:	Book
Language:	English
Published:	Totowa, N.J. : Humana Press, [2005]
Subjects:	Proteomics > methods.

Table of Contents:

Extraction and solubilization of proteins for proteomic studies
Preparation of bacterial samples for 2-D PAGE
Preparation of yeast samples for 2-D PAGE
Preparation of mammalian tissue samples for two-dimensional electrophoresis
Differential detergent fractionation of eukaryotic cells
Serum or plasma sample preparation for two-dimensional gel electrophoresis
Preparation of plant protein samples for 2-D PAGE
Laser-assisted microdissection in proteomic analyses
Purification of cellular and organelle populations by fluorescence-activated cell sorting for proteome analysis
Purification of nucleoli from lymphoma cells and solubilization of nucleolar proteins for 2-DE separation
Prefractionation of complex protein mixture for 2-D PAGE using reversed-phase liquid chromatography
Fractionation of complex proteomes by microscale solution isoelectrofocusing using ZOOM IEF fractionators to improve protein profiling
Large-format 2-D polyacrylamide gel electrophoresis
Analysis of membrane proteins by two-dimensional gels
2-D PAGE of high-molecular-mass proteins
Using ultra-zoom gels for high-resolution two-dimensional polyacrylamide gel electrophoresis
NEpHGE and pl strip proteomic 2-D gel electrophoretic mapping of lipid-rich membranes
Silver staining of 2-D gels
Zn²⁺ reverse staining technique
Multiplexed proteomics technology for the fluorescence detection of glycoprotein levels and protein expression levels using Pro-Q® Emerald and SYPRO® Ruby Dyes
Multiplexed proteomics technology for the fluorescence detection of phosphorylation and protein expression levels using Pro-Q® Diamond and SYPRO® Ruby Dyes
Sensitive quantitative fluorescence detection of proteins in gels using SYPRO® Ruby Protein Gel Stain
Rapid, sensitive detection of proteins in minigels with fluorescent dyes: coomassie fluor orange, SYPRO® Orange, SYPRO Red, and SYPRO Tangerine Protein Gel Stains
Differential In-Gel electrophoresis in a high-throughput environment
Statistical analysis of 2-D gel patterns
2-DE databases on the World Wide Web
Computer analysis of 2-D images
Comparing 2-D electrophoretic gels across internet databases: an open source application
Sample cleanup by solid-phase extraction/pipet-tip chromatography
Protein identification by in-gel digestion and mass spectrometric analysis
Peptide sequences of 2-D separated protein spots by nanoelectrospray tandem mass spectrometry
Identification of proteins by MALDI-TOF MS
Sequencing of tryptic peptides using chemically assisted fragmentation and MALDI-PSD
The In Situ characterization of membrane-immobilized 2-D PAGE-separated proteins using ink-jet technology
Protein identification by peptide mass fingerprinting
Analysis of proteomes in human tissues by in-gel isoelectric focusing and mass spectrometry
Liquid chromatography coupled to MS for proteome analysis
Quantitative analysis of proteomes and subproteomes by isotope-coded affinity tags and solid-phase glycoprotein capture
Amino acid-coded mass tagging for quantitative profiling of differentially expressed proteins and modifications in cells
Mass-coded abundance tagging for protein identification and relative abundance determination in proteomic experiments
Virtual 2-D gel electrophoresis by MALDI mass spectrometry
Identification of posttranslational modification by mass spectrometry
Approaches to the O-glycoproteome
Identification of protein phosphorylation sites by mass spectrometry
Quantitative analysis of protein phosphorylation status and protein kinase activity on microassays using Pro-Q Diamond Dye technology
New challenges and strategies for multiple sequence alignment in the proteomics era
The clustal series of programs for multiple sequence alignment
FASTA servers for sequence similarity search
Protein sequence analysis and domain identification
Mammalian genes and evolutionary genomics
Computational identification of related proteins: BLAST, PSI-BLAST, and other tools
Protein identification and analysis tools on the ExPASy server
Protein sequence databases
In silico characterization of proteins : interpro and proteome analysis
Computational prediction of protein-protein interactions
The yeast two-hybrid system for detecting interacting proteins
Antibody-affinity purification to detect interacting proteins
Biomolecular interaction analysis coupled with mass spectrometry to detect interacting proteins
Assessment of antibody-antigen interaction using SELDI technology
Protein and peptide microarray-based assay technology
Production of protein microarrays using robotic pin printing technologies
PCR-directed protein In Situ arrays
Site-specific immobilization of proteins in a microarray
A guide to protein interaction databases
Deriving function from structure: approaches and limitations
Comparative protein structure modeling
Classification of protein sequences and structures
How to use protein 1-D structure predicted by PROF-phd
Classification of protein folds
Protein threading
High-throughout crystallography for structural proteomics
Automated high-throughout protein crystallization
NMR-based structure determination of proteins in solution