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Author: Willy Vincent Bienvenut
Publisher: Springer Science & Business Media
ISBN: 9781402033186
Category : Medical
Languages : en
Pages : 324
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Book Description
At present where protein identification and characterisation using mass spectrometry is a method of choice, this book is presenting a review of basic proteomic techniques. The second part of the book is related to the novel high throughput protein identification technique called the 'molecular scanner'. Several protein identification techniques are described, especially the peptide mass fingerprint with MALDI-MS based method. E.g. ionisation process, matrix available, signal reproducibility and suppression effect, as well as date treatment for protein identification using bioinformatics tools.
Author: Willy Vincent Bienvenut
Publisher: Springer Science & Business Media
ISBN: 9781402033186
Category : Medical
Languages : en
Pages : 324
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Book Description
At present where protein identification and characterisation using mass spectrometry is a method of choice, this book is presenting a review of basic proteomic techniques. The second part of the book is related to the novel high throughput protein identification technique called the 'molecular scanner'. Several protein identification techniques are described, especially the peptide mass fingerprint with MALDI-MS based method. E.g. ionisation process, matrix available, signal reproducibility and suppression effect, as well as date treatment for protein identification using bioinformatics tools.
Author:
Publisher:
ISBN:
Category :
Languages : en
Pages :
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Book Description
Author: Mike S. Lee
Publisher: John Wiley & Sons
ISBN: 1118605195
Category : Science
Languages : en
Pages : 290
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Book Description
Presents Practical Applications of Mass Spectrometry for Protein Analysis and Covers Their Impact on Accelerating Drug Discovery and Development Covers both qualitative and quantitative aspects of Mass Spectrometry protein analysis in drug discovery Principles, Instrumentation, Technologies topics include MS of peptides, proteins, and ADCs , instrumentation in protein analysis, nanospray technology in MS protein analysis, and automation in MS protein analysis Details emerging areas from drug monitoring to patient care such as Identification and validation of biomarkers for cancer, targeted MS approaches for biomarker validation, biomarker discovery, and regulatory perspectives Brings together the most current advances in the mass spectrometry technology and related method in protein analysis
Author: Uwe M. Borghoff
Publisher: Springer Science & Business Media
ISBN: 9783540669845
Category : Business & Economics
Languages : en
Pages : 1342
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Book Description
A detailed introduction to interdisciplinary application area of distributed systems, namely the computer support of individuals trying to solve a problem in cooperation with each other but not necessarily having identical work places or working times. The book is addressed to students of distributed systems, communications, information science and socio-organizational theory, as well as to users and developers of systems with group communication and cooperation as top priorities.
Author: Lei Wang (Computer scientist)
Publisher:
ISBN:
Category : Machine learning
Languages : en
Pages : 0
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Book Description
With the rapid development of mass spectrometry technology in the past decade and the recent large-scale proteomics projects, massive and highly redundant tandem mass spectra (MS/MS) are being generated at an unprecedented speed. Hundreds of publications have been made for proteomics studies, yet computational methods which can efficiently identify and analyze the sheer amount of proteomic MS/MS data are still outstanding. The thesis aims to provide systematic approaches to studying MS/MS data from three aspects: spectral clustering, spectral library searching and validation of peptide-spectrum matchings (PSMs).I first introduce a rapid algorithm accelerated by Locality Sensitive Hashing (LSH) techniques to reduce the redundancy in proteomics datasets via clustering similar spectra. The proposed method demonstrates 7-11X performance improvement in running time while retaining superior sensitivity and accuracy when compared to the state of the art spectral clustering algorithms. In addition to the reduction of repetition of similar spectra, the time to search protein database, i.e. a commonly used technique for peptide identification, can be greatly shortened when using the consensus spectra that usually exhibit higher quality than the raw spectra. As a result, It can be demonstrated that more peptide identifications were obtained at the same low false discovery rate (FDR).The second chapter delves into spectral library searching, a complementary approach to database searching for peptide identifications on MS/MS spectra. LSH techniques ensure that similar spectra are placed into the same buckets, whereas spectra with low pairwise similarity are scattered into different buckets. Each input experimental spectrum can then be compared against a subset of highly similar spectra, thus diminishing the unnecessary spectral similarity computation between the input spectrum and all possible combinations of candidate peptides. The identified peptides overlap with those reported by other existing algorithms to a great extent. More importantly, the acceleration rate in the running time of proposed algorithm compared to existing ones increases with the growing size of spectral libraries.Redundancy in large scale proteomic datasets are exploited to further improve the searching results by eliminating the false PSMs examined through a post-processing step. Despite the success of data searching algorithms in proteomics, the peptide identification results usually contain a small fraction of incorrect peptide assignments. Target decoy approach was introduced in previous work to assess the quality of identifications, by searching spectrum against both target and decoy sequences. I formalize the method to improve peptide identifications by removing false PSMs in a probabilistic post-processing approach. As a result, as low as 0.8\\% FDR can be obtained on the remaining PSMs previously reported at 1\\% FDR level and up to 38\\% more unique peptides can be reported at the expected FDR level.I anticipate the computational methods developed in the dissertation can advance the proteomics research field by improving the protein identification through database searching, spectral library searching and validating the searching outputs in a subsequent step. Although the algorithms were evaluated for proteomics studies, they can be extended to small molecules such as natural products, lipids and glycoconjugates. These algorithms can also be generalized to the identification of experimental MS/MS spectra from a molecule of specific interest in massive omic datasets.
Author:
Publisher: Newnes
ISBN: 0080913253
Category : Science
Languages : en
Pages : 407
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Book Description
Volume 9: Historical Perspectives, Part A: The Development of Mass Spectrometry of The Encyclopedia of Mass Spectrometry describes and analyzes the development of many aspects of Mass Spectrometry. Beginning with the earliest types of Mass Analyzers, Historical Perspectives explores the development of many different forms of analytical processes and methods. The work follows various instruments and interfaces, to the current state of detectors and computerization. It traces the use of Mass Spectrometry across many different disciplines, including Organic Chemistry, Biochemistry, and Proteomics; Environmental Mass Spectrometry; Forensic Science; Imaging; Medical Monitoring and Diagnosis; Earth and Planetary Sciences; and Nuclear Science. Finally, the book covers the history of manufacturers and societies as well as the professionals who form the Mass Spectrometry community. Also available: Volume 9: Historical Perspectives, Part B: Notable People in Mass Spectrometry briefly reviews the lives and works of many of the major people who carried out this development. Preserves the history and development of Mass Spectrometry for use across scientific fields Written and edited by Mass Spectrometry experts Coordinates with Volume 9: Historical Perspectives, Part B: Notable People in Mass Spectrometry, a collection of short biographies on many of the major people who carried out this development
Author: John R. Chapman
Publisher: Springer Science & Business Media
ISBN: 1592590454
Category : Science
Languages : en
Pages : 539
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Book Description
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.
Author: Oscar Alzate
Publisher: CRC Press
ISBN: 1420076264
Category : Medical
Languages : en
Pages : 356
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Book Description
In this, the post-genomic age, our knowledge of biological systems continues to expand and progress. As the research becomes more focused, so too does the data. Genomic research progresses to proteomics and brings us to a deeper understanding of the behavior and function of protein clusters. And now proteomics gives way to neuroproteomics as we beg
Author: Michael Kinter
Publisher: John Wiley & Sons
ISBN: 0471231886
Category : Science
Languages : en
Pages : 321
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Book Description
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
Author: Chittaranjan Kole
Publisher: CRC Press
ISBN: 1578088011
Category : Science
Languages : en
Pages : 432
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Book Description
The stone fruits—including peaches, apricots, almonds, plums, and cherries—have been bred and grown for thousands of years and today are significant agricultural crops in many local economies worldwide. This volume presents a comprehensive commentary on classical genetics and breeding, molecular mapping and breeding of agronomic traits, and the cloning of genes of interest. It also explores recent advances on omics sciences including structural and functional genomics, proteomics, nd metabolomics. The book enumerates the whole genome sequencing of the model fruit plant peach and discusses bioinformatic strategies and tools for stone fruit research
