Proteomics, Multi-Omics and Systems Biology in Optic Nerve Regeneration is a comprehensive reference that covers all vistas of standardization of axon regeneration, as well as all multi-omics and system level data and integration tools. By adopting a translational approach, the book bridges current research in the field to clinical applications, and readers can expect to learn standardization approaches for axon regeneration, multi-omics datasets, different databases, search engines, multiple dataset integrative tools, pathway convergence approaches and tools, outcome and outcome measures that unify bench research with clinical outcome.
The axon regeneration from existing neurons in central nervous system (CNS) have become a potential possibility in the last decade. The potential possibility of long-distance axon growth has opened the possibility of re-connectivity of axons of retinal ganglion cell neurons within the lateral geniculate nucleus in the brain. The long-distance axon regeneration and re-connectivity is a promise to restore lost vision in the optic nerve. Further, long-distance regeneration and re-innervation is equally helpful for other fields such as spinal cord injuries.
1. Title of Book - p. i 2. Cover image - p. i 3. Title page - p. ii 4. Table of Contents - p. iii 5. Copyright - p. iv 6. Dedication - p. v 7. Contributors - p. xiii 8. About the editor - p. xvii 9. Preface - p. xix 10. Acknowledgments - p. xxi 11. Section I. Historic accounts of neuron regeneration - p. 1 12. Chapter 1. Historic accounts of neuron regeneration - p. 3 13. Section II. Reagents for neuron regeneration structural studies - p. 13 14. Chapter 2. Imaging methods for monitoring optic nerve regeneration - p. 15 15. Chapter 3. Multimodal translational imaging of central nervous system structure and function and its integrative value in neuroregeneration strategies - p. 37 16. Chapter 4. Staining reagents for neuronal degeneration and axon regeneration studies - p. 51 17. Chapter 5. Single cell resolution imaging techniques in optic nerve models in vivo and in vitro - p. 57 18. Section III. Assessments for functional regeneration - p. 69 19. Chapter 6. In vitro methods for assessment of retinal ganglion cell (RGC) axon growth: primary RGC isolation, culture, and high-content screening - p. 71 20. Chapter 7. Double-edge sword: Positive and negative effects of inflammation on axonal regeneration - p. 85 21. Section IV. In vivo models and pharmacological reagents - p. 103 22. Chapter 8. Invertebrate models of nervous system regeneration - p. 105 23. Chapter 9. Optic nerve regeneration in regeneration-capable vertebrates: Lessons from high-throughput genomic studies - p. 125 24. Chapter 10. Electrostimulation-based strategies for axon regeneration in the central nervous system - p. 143 25. Chapter 11. Electroceuticals and optogenetics for neuroprotection, vision preservation and restoration - p. 163 26. Section V. Systems biology approaches - p. 179 27. Chapter 12. Proteome of axon transport - p. 181 28. Chapter 13. Transcriptomics of optic nerve regeneration - p. 201 29. Chapter 14. Single-cell transcriptomics-enabled advances in experimental optic nerve axon regeneration research - p. 207 30. Chapter 15. Lessons from proteomics and phosphoproteomics on axon growth and regeneration - p. 225 31. Chapter 16. Phosphoproteomic and bioinformatic methods for analyzing axon growth and regeneration - p. 233 32. Section VI. Standardization approaches: Application of machine learning and artificial intelligence - p. 243 33. Chapter 17. Axon regeneration: Standardization of quantification using optic nerve as a system - p. 245 34. Section VII. Reconnectivity and new approaches - p. 253 35. Chapter 18. Subtype-specific reconnection of regenerated retinal ganglion cell axons: Lessons learned from mouse models - p. 255 36. Chapter 19. Axon pathfinding, ipsi- and contralateral projections - p. 265 37. Chapter 20. Axon guidance, genes, proteins and beyond - p. 275 38. Section VIII. Regeneration applicable in other fields - p. 289 39. Chapter 21. The use of stereological and electron microscopic techniques in the assessment of peripheral nerve regeneration success - p. 291 40. Chapter 22. Optic nerve as a regeneration model for spinal cord injury - p. 301 41. Chapter 23. Axon regeneration after spinal cord and brain injuries - p. 315 42. Section IX. Regulatory approval processes and clinical relevant aspects - p. 347 43. Chapter 24. A primer on food and drug administration's approval process - p. 349 44. Chapter 25. Strategic approaches for antiglaucoma drug discovery—Successes and some failures - p. 359 45. Section X. Protocols and miscellaneous topics - p. 385 46. Chapter 26. Optic nerve crush as a model system for axon regeneration studies - p. 387 47. Chapter 27. Protocol for quantitative metabolomics analysis of axon regeneration samples - p. 395 48. Chapter 28. Retinal/optic nerve gene expression data analysis for nonbioinformaticians - p. 403 49. Chapter 29. Protocol for the comparison of RNA transcriptome between the optic nerve and spinal cord axonal regeneration in zebrafish - p. 411 50. Chapter 30. A comparison of axon regeneration in Xenopus and Danio rerio - p. 417 51. Chapter 31. An overview of single-cell omics, spatial omics, and omics integration in axon regeneration - p. 425 52. Index - p. 439
Proteomics, Multi-Omics and Systems Biology in Optic Nerve Regeneration is a comprehensive reference that covers all vistas of standardization of axon regeneration, as well as all multi-omics and system level data and integration tools. By adopting a translational approach, the book bridges current research in the field to clinical applications, and readers can expect to learn standardization approaches for axon regeneration, multi-omics datasets, different databases, search engines, multiple dataset integrative tools, pathway convergence approaches and tools, outcome and outcome measures that unify bench research with clinical outcome.
The axon regeneration from existing neurons in central nervous system (CNS) have become a potential possibility in the last decade. The potential possibility of long-distance axon growth has opened the possibility of re-connectivity of axons of retinal ganglion cell neurons within the lateral geniculate nucleus in the brain. The long-distance axon regeneration and re-connectivity is a promise to restore lost vision in the optic nerve. Further, long-distance regeneration and re-innervation is equally helpful for other fields such as spinal cord injuries.
1. Title of Book - p. i 2. Cover image - p. i 3. Title page - p. ii 4. Table of Contents - p. iii 5. Copyright - p. iv 6. Dedication - p. v 7. Contributors - p. xiii 8. About the editor - p. xvii 9. Preface - p. xix 10. Acknowledgments - p. xxi 11. Section I. Historic accounts of neuron regeneration - p. 1 12. Chapter 1. Historic accounts of neuron regeneration - p. 3 13. Section II. Reagents for neuron regeneration structural studies - p. 13 14. Chapter 2. Imaging methods for monitoring optic nerve regeneration - p. 15 15. Chapter 3. Multimodal translational imaging of central nervous system structure and function and its integrative value in neuroregeneration strategies - p. 37 16. Chapter 4. Staining reagents for neuronal degeneration and axon regeneration studies - p. 51 17. Chapter 5. Single cell resolution imaging techniques in optic nerve models in vivo and in vitro - p. 57 18. Section III. Assessments for functional regeneration - p. 69 19. Chapter 6. In vitro methods for assessment of retinal ganglion cell (RGC) axon growth: primary RGC isolation, culture, and high-content screening - p. 71 20. Chapter 7. Double-edge sword: Positive and negative effects of inflammation on axonal regeneration - p. 85 21. Section IV. In vivo models and pharmacological reagents - p. 103 22. Chapter 8. Invertebrate models of nervous system regeneration - p. 105 23. Chapter 9. Optic nerve regeneration in regeneration-capable vertebrates: Lessons from high-throughput genomic studies - p. 125 24. Chapter 10. Electrostimulation-based strategies for axon regeneration in the central nervous system - p. 143 25. Chapter 11. Electroceuticals and optogenetics for neuroprotection, vision preservation and restoration - p. 163 26. Section V. Systems biology approaches - p. 179 27. Chapter 12. Proteome of axon transport - p. 181 28. Chapter 13. Transcriptomics of optic nerve regeneration - p. 201 29. Chapter 14. Single-cell transcriptomics-enabled advances in experimental optic nerve axon regeneration research - p. 207 30. Chapter 15. Lessons from proteomics and phosphoproteomics on axon growth and regeneration - p. 225 31. Chapter 16. Phosphoproteomic and bioinformatic methods for analyzing axon growth and regeneration - p. 233 32. Section VI. Standardization approaches: Application of machine learning and artificial intelligence - p. 243 33. Chapter 17. Axon regeneration: Standardization of quantification using optic nerve as a system - p. 245 34. Section VII. Reconnectivity and new approaches - p. 253 35. Chapter 18. Subtype-specific reconnection of regenerated retinal ganglion cell axons: Lessons learned from mouse models - p. 255 36. Chapter 19. Axon pathfinding, ipsi- and contralateral projections - p. 265 37. Chapter 20. Axon guidance, genes, proteins and beyond - p. 275 38. Section VIII. Regeneration applicable in other fields - p. 289 39. Chapter 21. The use of stereological and electron microscopic techniques in the assessment of peripheral nerve regeneration success - p. 291 40. Chapter 22. Optic nerve as a regeneration model for spinal cord injury - p. 301 41. Chapter 23. Axon regeneration after spinal cord and brain injuries - p. 315 42. Section IX. Regulatory approval processes and clinical relevant aspects - p. 347 43. Chapter 24. A primer on food and drug administration's approval process - p. 349 44. Chapter 25. Strategic approaches for antiglaucoma drug discovery—Successes and some failures - p. 359 45. Section X. Protocols and miscellaneous topics - p. 385 46. Chapter 26. Optic nerve crush as a model system for axon regeneration studies - p. 387 47. Chapter 27. Protocol for quantitative metabolomics analysis of axon regeneration samples - p. 395 48. Chapter 28. Retinal/optic nerve gene expression data analysis for nonbioinformaticians - p. 403 49. Chapter 29. Protocol for the comparison of RNA transcriptome between the optic nerve and spinal cord axonal regeneration in zebrafish - p. 411 50. Chapter 30. A comparison of axon regeneration in Xenopus and Danio rerio - p. 417 51. Chapter 31. An overview of single-cell omics, spatial omics, and omics integration in axon regeneration - p. 425 52. Index - p. 439
