RNA-binding Proteins Part C

Erscheinungsjahr 2027
ISBN: 978-0-443-47432-3
Verlag: Elsevier Science & Technology

Buch, Englisch, Format (B × H): 152 mm x 229 mm

This volume of Methods in Enzymology presents a practical and multidisciplinary collection of contemporary methods for investigating RNA biology, RNA-binding proteins (RBPs), RNA–protein interactions, ribonucleoprotein (RNP) complexes, biomolecular condensates, liquid–liquid phase separation, RNA processing, translation, and RNA-mediated regulation. The chapters integrate complementary experimental and computational approaches, including biochemical reconstitution, quantitative microscopy, transcriptomics, proteomics, interactomics, NMR spectroscopy, structural biology, computational analysis, and tissue-based techniques.

Together, these methods provide a versatile framework for elucidating how RNA and RBPs regulate cellular organization, gene expression, RNA metabolism, RNA processing, translation, and biomolecular phase behavior. Particular emphasis is placed on emerging applications in disease-associated molecular pathways, including neurodegeneration and neurological disorders, with coverage of topics relevant to Alzheimer’s disease, Tau biology, and HIV-associated neurocognitive disorders. This volume provides researchers with practical methodological strategies for dissecting RNA–protein interactions and defining RBP function across molecular, cellular, and disease contexts. The collection is designed to serve as a valuable methodological resource for researchers investigating the mechanisms by which RNA–protein networks govern cellular processes and contribute to human disease.

Autoren/Hrsg.

Weitere Mitwirkende

Christianson, David

Allen, Karen N.

Chinnathambi, Subashchandrabose

Fachgebiete

• Naturwissenschaften Biowissenschaften Molekularbiologie
• Naturwissenschaften Physik Angewandte Physik Biophysik
• Naturwissenschaften Biowissenschaften Biochemie (nichtmedizinisch)

Inhaltsverzeichnis

1. Intrinsically disordered RNA-binding motifs cooperate to catalyze RNA folding and drive phase separation
Dierk Niessing and Thomas Monecke
2. Imaging protocols and quantitative analysis of biomolecular condensates formed by RNA binding proteins
Graciela Lidia Boccaccio
3. Integration of Protein-Protein and RNA-Protein Interactions to Identify RNP complexes
Ruthrotha Selvi Bharathavikru, Nishad Gosavi and Sourav Dey
4. Isolation and functional characterisation of Tau containing phagosomes in human iPSC-derived microglia
Subashchandrabose Chinnathambi and Tanu Suma Narayanappa
5. Microexon Identification and Splicing Regulation through RNA transcriptome Analysis
Bikash Choudhary
6. Computational predictions and analysis of RBP interaction with coding and noncoding RNAs
Amaresh Chandra Panda
7. Histoblotting the brain: mapping regional protein expression in unfixed neural tissue
Rafael Lujan
8. A quantitative analysis to determine heterogeneity of stress granules in arsenite-induced oxidative stress
Chandrama Mukherjee and Anakshi Gayen
9. Aminoacyl-tRNA synthetases
Amit Sharma, Bipasa Dey and Nachiappan Mutharasappan
10. Liquid-liquid phase separation of the microtubule-binding repeats of the Alzheimer-related protein Tau
Susmitha Ambadipudi
11. Predictions of disordered RNA-binding regions with one of our state-of-the-art tools Hybrid RNA bind or DeepDISObind
Lukasz Kurgan
12. RNA-binding proteins in AD
Mireya Plass

13. Self-demixing of mRNA copies buffers mRNA:mRNA and mRNA:regulator stoichiometries
Arnaud Hubstenberger
14. Regulatory RNAs and its gene expression
Vidisha Tripathi
15. mRNA Tethered Ribosome Interactome Profiling (mTRIP): A method for Identifying Trans-Acting Factors on Ribosome-Bound mRNA in Yeast
Pankaj V. Alone and Tanaya Kole
16. Thioredoxin regulates the redox state and the activity of the human tRNA ligase complex
Javier Martinez
17. Systematic Identification of RNA-Binding Proteins in Mammalian Tissues
Joel Ignacio Perez-Perri and André Balsinha
18. Protein-Nucleic acids Interaction by NMR
Sai Chaitanya Chiliveri
19. Densitometric Quantification of RNA-Binding Protein Expression in Brightfield Immunohistochemical Tissue Sections
Verónica Fuentes-Santamaría and Juan Carlos Alvarado
20. Engineering 3' tRNA Termini: Strategies, Protocols, and Applications Using the CCA-Adding Enzyme
Krishna K. Inampudi
21. Epitranscriptomic and RNA-Binding Protein Mechanisms in HIV-Associated Neurocognitive Disorders: From Molecular Regulation to Experimental Approaches
Samikkannu Thangavel and Karthick Chennakesavan

Über Autor(innen)

Chinnathambi, Subashchandrabose
Subashchandrabose Chinnathambi is Additional Professor at the Department of Neurochemistry, National Institute of Mental Health and Neurosciences Hospital Bangalore, Karnataka, India. His scientific interests include physiopathology of neurodegenerative disorders, Tau Cytoskeleton, Tau-GPCR, purinergic and chemokine receptors, Tau stem cells, animal models, neuropharmacology, therapeutic approaches targeting Tau oligomers, and biomarkers for neurodegeneration. He serves on the editorial board for various international cell biology journals and is also a regular invited speaker at a number of meetings and workshops. Dr. Chinnathambi has more than 16 years of research experience in the area of neuroscience and Tau-related research in Alzheimer’s Disease.

Christianson, David
After completing studies for the A.B., A.M., and Ph.D. degrees in chemistry at Harvard University, David W. Christianson joined the faculty of the University of Pennsylvania, where he is currently the Roy and Diana Vagelos Professor in Chemistry and Chemical Biology. At Penn, Christianson’s research focuses on the structural and chemical biology of the zinc-dependent histone deacetylases as well as enzymes of terpene biosynthesis. His research accomplishments have been recognized by several awards, including the Pfizer Award in Enzyme Chemistry and the Repligen Award in Chemistry of Biological Processes from the American Chemical Society, a Guggenheim Fellowship, and the Elizabeth S. and Richard M. Cashin Fellowship from the Radcliffe Institute for Advanced Study at Harvard University. Christianson is also a dedicated classroom teacher, and his accomplishments in this regard have been recognized by the Lindback Award for Distinguished Teaching at Penn and a Rhodes Trust Inspirational Educator Award from Oxford University. Christianson has also held visiting professorships in the Department of Biochemistry at Cambridge University and the Department of Chemistry and Chemical Biology at Harvard University. Christianson has served with Prof. Anna Pyle as Co-Editor-in-Chief of Methods in Enzymology since 2015.

Allen, Karen N.
Dr. Karen N. Allen works at the Department of Chemistry of the Boston University, the Metcalf Center for Science and Engineering