GEO Series: GSE137844
Summary
Xenopus is uniquely suited for addressing the question of whether a core gene expression program for successful CNS axon regeneration exists, because parts of its CNS (e.g., eye), regenerate axons throughout life, whereas others (e.g., hindbrain) do so only as tadpoles. We performed RNA-Seq after optic nerve and spinal cord injury to identify trauma-induced genes shared between two regenerative CNS regions, but not shared with a non-regenerative one. We provide these data as a resource for new avenues of investigation into the molecular basis of tissue regeneration.
Contributors: Ben Szaro, Ben Szaro, Kurt Gibbs, Jamie Belrose
Experiment Type: RNA-seq (30 million nominal reads per sample) was performed on 51 samples: operated juvenile frog eye and contralateral unoperated eye after optic nerve injury at three different timepoints (3 days, 11 days, 3 weeks), plus surgiically naïve frog eyes, with 6 pooled eyes for each sample; tadpole hindbrain after spinal cord transection plus age-matched unoperated controls at three timepoints (3 days, 7 days, 3 weeks), with 5 pooled hindbrains for each sample; juvenile frog hindbrain after spinal cord transection at 3 timepoints (3 days, 7 days, 3 weeks), plus unoperated hindbrain control, with 5 pooled hindbrains for each sample.
Phenotypes:
Xla Wt + optic nerve amputation + eye juvenile 11 day post amp. (RNA-Seq (RNA))
Xla Wt + optic nerve amputation + eye juvenile 3 day post amp. (RNA-Seq (RNA))
Xla Wt + optic nerve amputation + eye juvenile 3 week post amp. (RNA-Seq (RNA))
Xla Wt + spinal cord amputation + hindbrain 1 week post amp. NF53 (RNA-Seq (RNA))
Xla Wt + spinal cord amputation + hindbrain 3 day post amp. NF53 (RNA-Seq (RNA))
Xla Wt + spinal cord amputation + hindbrain 3 week post amp. NF53 (RNA-Seq (RNA))
Xla Wt + spinal cord amputation + hindbrain juvenile 1 week post amp. (RNA-Seq (RNA))
Xla Wt + spinal cord amputation + hindbrain juvenile 3 day post amp. (RNA-Seq (RNA))
Xla Wt + spinal cord amputation + hindbrain juvenile 3 week post amp. (RNA-Seq (RNA))
Xla Wt + optic nerve amputation + eye juvenile 3 week post amp. (RNA-Seq (RNA))
Xla Wt + spinal cord amputation + hindbrain 1 week post amp. NF53 (RNA-Seq (RNA))
Xla Wt + spinal cord amputation + hindbrain 3 day post amp. NF53 (RNA-Seq (RNA))
Xla Wt + spinal cord amputation + hindbrain 3 week post amp. NF53 (RNA-Seq (RNA))
Xla Wt + spinal cord amputation + hindbrain juvenile 1 week post amp. (RNA-Seq (RNA))
Xla Wt + spinal cord amputation + hindbrain juvenile 3 day post amp. (RNA-Seq (RNA))
Xla Wt + spinal cord amputation + hindbrain juvenile 3 week post amp. (RNA-Seq (RNA))
Article: XB-ART-57252, PubMed
Source: NCBI GEO, Xenbase Download
Samples: (DEG = Differentially Expressed Genes; GSM = GEO Sample Number)
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