SILAC

ISBN-13: 9781071628652 / Angielski / Miękka / 2023

Opis

This detailed volume explores the most recent methodologies and applications of stable isotope labeling by amino acids in cell culture (SILAC). With the development of new technologies in the field of mass spectrometry and bioinformatics, SILAC-based methods have become the first tool of choice in quantitative proteomics either on its own or in combination with other more recently developed approaches, which is elucidated in the chapters of this book. Written for the highly successful Methods in Molecular Biology series, chapters include introductions to their respective topics, lists of the necessary materials and reagents, step-by-step and readily reproducible laboratory protocols, and tips on troubleshooting and avoiding known pitfalls. 

Authoritative and practical, SILAC: Methods and Protocols serves as an ideal guide for researchers working in the area of functional proteomics and other aspects of protein science.

Spis treści

1. Dynamic SILAC to Determine Protein Turnover in Neurons and Glia

            Aline R. Dörrbaum, Erin M. Schuman, and Julian D. Langer

 

2. SILAC-Based Proteomic Analysis of Meiosis in the Fission Yeast Schizosaccharomyces pombe

            Dorothea Anrather, Silvia Bagelova Polakova, Lubos Cipak, and Juraj Gregan

 

3. Identification of Protein Interaction Partners in Bacteria Using Affinity Purification and SILAC Quantitative Proteomics

            Monika Kopeckova, Marek Link, and Ivona Pavkova

 

4. pSILAC-Based Determination of Cellular Protein Sorting into Extracellular Vesicles

            So-Fong Cam Ngan, Neil E. McCarthy, and Siu Kwan Sze

 

5. Quantification of Protein Palmitoylation by Cysteine-SILAC

            Caiyun Fang, Xiaoqin Zhang, and Haojie Lu

 

6. Comparative SUMO Proteome Analysis Using Stable Isotopic Labeling by Amino Acids (SILAC)

            Georgia Chachami and Sina-Victoria Barysch

 

7. A Super-SILAC Approach for Profiling Histone Post-Translational Modifications

            Roberta Noberini, Elisa Longhi, and Tiziana Bonaldi

 

8. SILAC-Based Quantitative Phosphoproteomics in Yeast

            María Luisa Hernáez and Concha Gil

 

9. Phosphotyrosine Profiling Using SILAC

            Keshava K. Datta, Aditi Chatterjee, and Harsha Gowda

 

10. Chemoproteomic Profiling of Geranyl Pyrophosphate-Binding Proteins

            Rong Cai and Yinsheng Wang

 

11. Quantitative Analysis of the Endoplasmic Reticulum-Associated Proteins Using ER-Localizable Reactive Molecules

            Tomonori Tamura and Itaru Hamachi

 

12. Workflow for Quantitative Proteomic Analysis of Intestinal Organoids Using SILAC

            Alexis Gonneaud, Claude Asselin, Véronique Giroux, and François-Michel Boisvert

 

13. Stable Isotope Labeling by Amino Acids and Bioorthogonal Noncanonical Amino Acid Tagging in Cultured Primary Neurons

            Guoan Zhang, Katrin Deinhardt, and Thomas A. Neubert

 

14. Heavy Methyl SILAC Metabolic Labeling of Human Cell Lines for High-Confidence Identification of R/K-Methylated Peptides by High-Resolution Mass Spectrometry

            Enrico Massignani, Marianna Maniaci, and Tiziana Bonaldi

 

15. SILAC-Based Quantitative Proteomic Analysis of Drosophila Embryos

            Alistair Langlands, Hamze Beati, and H.- Arno J. Müller

 

16. Super-SILAC Quantitative Proteome Profiling of Zebrafish Larvae

            Guillermo Aragoneses-Cazorla, Andres Machuca, M. Pilar Buendia-Nacarino, Daniela S. Anunciação, Estefania Garcia-Calvo, and Jose L. Luque-Garcia

 

17. Use of Nuclear and Chromatin Enrichment Procedures for Quantitation of Yeast DNA Replication Proteins Using SILAC

            Takashi Kubota

 

18. Combination of Stable Isotope Labeling by Amino Acids in Cell Culture (SILAC) and Substrate Trapping for the Detection of Transient Protein Interactions

            Jolene M. Duda and Stefani N. Thomas

 

19. Profiling of Secreted Proteins in Serum-Containing Media Using BONCAT and Pulsed SILAC

            Jihye Shin and Cheolju Lee

 

20. Using SILAC to Develop Quantitative Data Independent Acquisition (DIA) Proteomics Methods

            Ellen P. Casavant, Jason Liang, Sumedh Sankhe, W. Rodney Mathews, and Veronica G. Anania

 

21. SILAC-IodoTMT for Assessment of the Cellular Proteome and Its Redox Status

            Marie Vajrychova, Barbora  Salovska, Kristyna Pimkova, Ivo Fabrik, and Zdenek Hodny

 

22. Targeted Absolute Protein Quantification Using SILAC Internal Standard and Full-Length Protein Calibrators (TAQSI)

            Xinwen Wang, Jian Shi, and Hao-Jie Zhu