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Protein Sequencing and Identification Using Tandem Mass Spectrometry

2005-04-12 Science
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Release : 2005-04-12
Genre : Science
Kind : eBook
Book Rating : 886/5 ( reviews)

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Book Synopsis Protein Sequencing and Identification Using Tandem Mass Spectrometry by : Michael Kinter

Download or read book Protein Sequencing and Identification Using Tandem Mass Spectrometry written by Michael Kinter. This book was released on 2005-04-12. Available in PDF, EPUB and Kindle. Book excerpt: How to design, execute, and interpret experiments for protein sequencing using mass spectrometry The rapid expansion of searchable protein and DNA databases in recent years has triggered an explosive growth in the application of mass spectrometry to protein sequencing. This timely and authoritative book provides professionals and scientists in biotechnology research with complete coverage of procedures for analyzing protein sequences by mass spectrometry, including step-by-step guidelines for sample preparation, analysis, and data interpretation. Michael Kinter and Nicholas Sherman present their own high-quality, laboratory-tested protocols for the analysis of a wide variety of samples, demonstrating how to carry out specific experiments and obtain fast, reliable results with a 99% success rate. Readers will get sufficient experimental detail to apply in their own laboratories, learn about the proper selection and operation of instruments, and gain essential insight into the fundamental principles of mass spectrometry and protein sequencing. Coverage includes: * Peptide fragmentation and interpretation of product ion spectra * Basic polyacrylamide gel electrophoresis * Preparation of protein digests for sequencing experiments * Mass spectrometric analysis using capillary liquid chromatography * Techniques for protein identification by database searches * Characterization of modified peptides using tandem mass spectrometry And much more

Plant Systems Biology

2007-06-25 Science
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Release : 2007-06-25
Genre : Science
Kind : eBook
Book Rating : 39X/5 ( reviews)

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Book Synopsis Plant Systems Biology by : Sacha Baginsky

Download or read book Plant Systems Biology written by Sacha Baginsky. This book was released on 2007-06-25. Available in PDF, EPUB and Kindle. Book excerpt: This volume aims to provide a timely view of the state-of-the-art in systems biology. The editors take the opportunity to define systems biology as they and the contributing authors see it, and this will lay the groundwork for future studies. The volume is well-suited to both students and researchers interested in the methods of systems biology. Although the focus is on plant systems biology, the proposed material could be suitably applied to any organism.

Protein Identification Via Assembly of Tandem Mass Spectra

2015
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Release : 2015
Genre :
Kind : eBook
Book Rating : 584/5 ( reviews)

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Book Synopsis Protein Identification Via Assembly of Tandem Mass Spectra by : Adrian Lewis Guthals

Download or read book Protein Identification Via Assembly of Tandem Mass Spectra written by Adrian Lewis Guthals. This book was released on 2015. Available in PDF, EPUB and Kindle. Book excerpt: High-throughput proteomics is made possible by a combination of modern mass spectrometry instruments capable of generating many millions of tandem mass (MS2 or MS/MS) spectra on a daily basis and the increasingly sophisticated associated software for their automated identification. Despite the growing accumulation of collections of identified spectra and the regular generation of MS2 data from related peptides, the mainstream approach for peptide identification is still the nearly two decades old approach of matching one MS2 spectrum at a time against a database of protein sequences. These traditional approaches fail for the identification of spectra from unknown proteins such as antibodies or proteins from organisms with un-sequenced genomes. Furthermore, attempts to identify MS/MS spectra against large databases (e.g., the human microbiome or 6-frame translation of the human genome) face a search space that is 10-100 times larger than the human proteome, where it becomes increasingly challenging to separate between true and false peptide matches. First, we describe techniques to utilize networks of spectra from related peptides to rigorously compute the joint spectral probability of multiple spectra being matched to peptides with overlapping sequences, thus improving peptide identification by 30-62% against large search spaces. We then introduce methods that dramatically improve de novo sequencing of unknown proteins using novel spectral network assembly algorithms and incorporating alternative MS/MS acquisition protocols. Finally, we describe an interesting end-goal biological problem for which the described advances in de novo sequencing can usher in a new era of therapeutic drug discovery.

Mass Spectrometry of Proteins and Peptides

2008-02-05 Science
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Release : 2008-02-05
Genre : Science
Kind : eBook
Book Rating : 454/5 ( reviews)

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Book Synopsis Mass Spectrometry of Proteins and Peptides by : John R. Chapman

Download or read book Mass Spectrometry of Proteins and Peptides written by John R. Chapman. This book was released on 2008-02-05. Available in PDF, EPUB and Kindle. Book excerpt: Little more than three years down the line and I am already writing the Preface to a second volume to follow Protein and Peptide Analysis by Mass . What has happened in between these times to make this second venture worthwhile? New types of mass spectrometric instrumentation have appeared so that new techniques have become possible and existing techniques have become much more feasible. More particularly, however, the newer ionization te- niques, introduced for the analysis of high molecular weight materials, have now been thoroughly used and studied. As a result, there has been an en- mous improvement in the associated sample handling technology so that these methods are now routinely applied to much smaller sample amounts as well as to more intractable samples. Again, this particular community of mass spectrometry users has both increased in number and diversified. And, riding this wave of acceptance, leaders in the field have set their sights on more complex problems: molecular interaction, ion structures, quantitation, and kinetics are just a few of the newer areas reported in Mass Spectrometry of Proteins and Peptides. As with the first volume, one purpose of this collection, Mass Spectr- etry of Proteins and Peptides, is to show the reader what can be done by the application of mass spectrometry, and perhaps even to encourage the reader to venture down new paths.

Proteome Research: Mass Spectrometry

2000-10-26 Science
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Release : 2000-10-26
Genre : Science
Kind : eBook
Book Rating : 562/5 ( reviews)

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Book Synopsis Proteome Research: Mass Spectrometry by : Peter James

Download or read book Proteome Research: Mass Spectrometry written by Peter James. This book was released on 2000-10-26. Available in PDF, EPUB and Kindle. Book excerpt: Recent advances in large scale DNA sequencing technology have made it possible to sequence the entire genome of an organism. Attention is now turning to the analysis of the product of the genome, the proteome, which is the set of proteins being expressed by a cell. Mass spectrometry is the method of choice for the rapid large-scale identification of these proteomes and their modifications. This is the first book to extensively cover the applications of mass spectrometry to proteome research.

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