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Using RNA-Seq to Explore TranscriptionAl Changes During Axon Regeneration

This project grew out of the PNS vs CNS Regeneration project. Instead of using subtractive hybridization to explore the transcriptomic differences between two cell types, we are now using the newer technology of RNA-Seq. We first applied this method as an extension of the subtractive hybridization experiment to look at the transcriptional and isoform differences between Dorsal Root Ganglion (DRG) neurons and Cerebellar Granule Neurons (CGN) in culture (Lerch JK, et al. 2012). Next, we performed RNA-Seq on RNA that had been isolated by laser capture microdissection (LCM) from DRGs that had either undergone a sciatic nerve crush or a sham surgery in order to observe what transcriptional changes occurred in DRGs as they responded to injury and regenerated their axons. Utilization of these cutting edge techniques allows us to answer questions about development and regeneration on a scale never before possible. 
Picture
Figure from Zeng, W & Mortazavi, A (2012) Nature Immunology 13, 802-807.

References:
Lerch JK, Kuo F, Motti D, Morris R, Bixby JL, Lemmon VP. 
Isoform diversity and regulation in peripheral and central neurons revealed through RNA-Seq. PLoS One. 2012;7:e30417. doi: 10.1371/journal.pone.0030417.
plos_one_2012_lerch.pdf
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  • Research
    • LemBix News
    • High Content Screening
    • Kinases and regeneration
    • PNS vs CNS Regeneration
    • RNA-Seq
    • Master Nodes
    • Light Sheet Fluorescent Microscopy
    • MIASCI: a reporting standard
    • RegenBase
    • Assay Guidance Manual
    • BioAssay Ontology
  • Bixby
    • John Bixby PubMed Serch
  • Lemmon
    • BLM
    • Xiao-Ming Xu
    • Miami Project SCI Course
    • Vance's Papers
    • Back in the day
    • SBI2
    • Growth Cone Videos
    • Bike Safety
    • Miscellaneous
  • Ali
  • Lab Members
    • Group Photos >
      • PAMM 160728
      • ProjectRock 190524
      • Escape Room 210524
    • Abdiel Badillo-Martinez
    • Yania Martinez, VVC Core >
      • Yania's Monarch
    • Yan Shi, M.S. Imaging and HCA Core
    • Macarena Vergara
    • Former Lab Members >
      • Sam Beckerman, MD/PhD student
      • Julia Brzac
      • Willi Buchser, PhD
      • Nathaniel Cleri
      • Danny Cooper, Ph.D.
      • Danny Cabrera
      • Pingping Chen, MD/PhD, Viral Vector Core
      • Matt Danzi, PhD student
      • Ellie Dawson
      • Roberto E Diaz
      • Kireeti Dulla
      • Laetitia Francelle, Ph.D.
      • Nathan Fox
      • Jared Gans, M.D.
      • Juliana Hemela
      • Pingping Jai, M.S. Viral Vector Core
      • Victor Jann
      • Danny L. John, MS1
      • Ryohei Kurosawa
      • Lyndah Lovell
      • Jeffrey Lowell
      • Nick O'Neill, PhD student
      • Kim Madhwani
      • Kar Men Mah, Ph.D.
      • Dario Motti, PhD
      • Melissa Munoz
      • Maya Murry: Computer Science REU
      • Michael Ortega
      • Marcos Rivas: HHMI SURF
      • Saloni Mehta, PhD student
      • Sevika Singh
      • Tatiana Slepak, M.S.
      • Robin Smith, PhD
      • Moya Tomlin, MS2
      • Enjolie Vadella
      • Eli Weaver, Lab Manager
      • Giulia Zunino, Ph.D.
  • Resources
    • Forms