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Genome wide analysis of the upper lumbar spinal cord at 4 days after T9 hemisection injury

ABSTRACT: The goal of this study is to elucidate the influence of hemisection injury at thoracic spinal cord (T9) on the upper transcriptome of the upper lumbar spinal cord at acute phase. mRNA profiles of spinal cord at 4 days-post injury and before injury were generated. 72 Differentially Expressed Genes (DEGs) were observed. Our study represents the detailed analysis of transcriptomes of spinal cord distal to the hemisected lesion at acute phase, with biologic replicates, generated by RNA-seq technology.

ORGANISM(S): Rattus norvegicus

PROVIDER: GSE115230 | GEO | 2024/05/21

REPOSITORIES: GEO

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Genome wide analysis of the lower lumbar spinal cord at 4 days after T9 hemisection injury

Project description:The goal of this study is to elucidate the influence of hemisection injury at thoracic spinal cord (T9) on the transcriptome of the lower lumbar spinal cord at acute phase. mRNA profiles of spinal cord at 4 days-post injury and before injury were generated. 72 Differentially Expressed Genes (DEGs) were observed. Our study represents the detailed analysis of transcriptomes of spinal cord distal to the hemisected lesion at acute phase, with biologic replicates, generated by RNA-seq technology.

2024-05-21 | GSE115231 | GEO

Genome wide analysis of thoracic spinal cord at 5 days after T9 hemisection injury.

Project description:The goal of this study is to elucidate the influence of hemisection injury at thoracic spinal cord (T9) and epidural electrical spinal stimulation (L2-S1) on transcriptome of injured thoracic spinal cord. mRNA profiles of spinal cord at 5 days-post injury with or without epidural electrical spinal stimulation (L2-S1) and before injury were generated. Our study represents the detailed analysis of transcriptomes of injured spinal cord with biologic replicates, generated by RNA-seq technology.

2020-05-11 | GSE138637 | GEO

Genome wide analysis of upper spinal cords with training after spinal cord hemisection injury

Project description:The goal of this study is to elucidate the influence of treadmill training on transcriptome of the upper lumbar spinal cord after thoracic spinal cord hemisection. mRNA profiles of spinal cords at 23 days-post injury with/without treadmill training were generated. The expression levels of 650 genes in the trained animal were increased ( > 2-fold) compared to untrained animals. Our study represents the detailed analysis of transcriptomes of spinal cord distal to the hemisected lesion after treadmill training, with biologic replicates, generated by RNA-seq technology.

2019-01-15 | GSE115156 | GEO

Genome wide analysis of lower spinal cords with training after spinal cord hemisection injury

Project description:The goal of this study is to elucidate the influence of treadmill training on transcriptome of the lower lumbar spinal cord after thoracic spinal cord hemisection. mRNA profiles of spinal cords at 23 days-post injury with/without treadmill training were generated. The expression levels of 650 genes in the trained animal were increased ( > 2-fold) compared to untrained animals. Our study represents the detailed analysis of transcriptomes of spinal cord distal to the hemisected lesion after treadmill training, with biologic replicates, generated by RNA-seq technology.

2024-05-21 | GSE115229 | GEO

Genome wide analysis of thoracic spinal cord at 5 days after T9 hemisection injury.

Project description:Genome wide analysis of thoracic spinal cord at 5 days after T9 hemisection injury.

| PRJNA576646 | ENA

Genome wide analysis of upper spinal cords with training after spinal cord hemisection injury

Project description:Genome wide analysis of upper spinal cords with training after spinal cord hemisection injury

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Mature oligodendrocyte (OL) translatome changes at various times after moderate contusive spinal cord injury at the thoracic T9 level

Project description:OL translatome was determined in female RiboTag:Plp1-CreERT2 mice (C57Bl6 background) at 2, 10, and, 42 days after moderate contusive T9 SCI. Ribotag expression was induced by daily tamoxifen injections (1 mg i.p. over 8 days). Three weeks after completion of the induction protocol moderate contusive SCI was performed at T9 level (IH imactor, 50 kdyn). Uninjured mice (naive) were used as controls. At the time of surgery, animal age was 10-12 weeks. After euthanasia, RNA was isolated from a 5 mm spinal cord segment spanning the injury epicenter. OL tranlsatome was immunopurified using anti-HA antibody and protein A/G coupled magnetic beads following the Ribotag protocol. Total spinal cord RNA and OL translatome RNA samples were analyzed by RNASeq. Each biological sample was prepared by pooling material from two mice (3 biological samples representing 6 animals were used for each timepoint).

2023-12-06 | GSE225308 | GEO

Transcription profiling time series of Rattus norvegicus raphe magnus and sensorimotor cortex samples following moderate spinal cord injury

Project description:Summary: Spinal cord injury (SCI) is a damage to the spinal cord induced by trauma or disease resulting in a loss of mobility or feeling. SCI is characterized by a primary mechanical injury followed by a secondary injury in which several molecular events are altered in the spinal cord often resulting in loss of neuronal function. Analysis of the areas directly (spinal cord) and indirectly (raphe and sensorimotor cortex) affected by injury will help understanding mechanisms of SCI. Hypothesis: Areas of the brain primarily affected by spinal cord injury are the Raphe and the Sensorimotor cortex thus gene expression profiling these two areas might contribute understanding the mechanisms of spinal cord injury. Specific Aim: The project aims at finding significantly altered genes in the Raphe and Sensorimotor cortex following an induced moderate spinal cord injury in T9.

2007-10-08 | E-GEOD-2270 | biostudies-arrayexpress

Gene expression profiles in the spinal cord below the lesion level and influence of treadmill locomotor training

Project description:Traumatic spinal cord injury (SCI) often leads to loss of locomotor function. Neuroplasticity of spinal circuitry underlies some functional recovery and therefore represents a therapeutic target to improve locomotor function following SCI. However, the cellular and molecular mechanisms mediating neuroplasticity below the lesion level are not fully understood. The present study performed a gene expression profiling in the rat lumbar spinal cord at 1 and 3 weeks after contusive SCI at T9 compared to control rat that received sham injury (laminectomy). The below-level gene expression profiles were compared with those of animals that were subjected to treadmill locomotor training. Rat lumbar spinal cords were taken for the microarray analysis at 1 and 3 weeks after contusive spinal cord injury at the T9 level. Another group of rats received treadmill locomotor training for 3 weeks, and theirs spinal cords were harvested for the microarray. The changes in gene expression after spinal cord injury were analyzed at the two time points. The influence of treadmill locomotor training was evaluated by comparing gene expression profiles between animals with or without treadmill training.

2013-11-27 | E-GEOD-52763 | biostudies-arrayexpress

Differential Response Following Spinal Cord Injury in EphA4 Knockout

Project description:Mice lacking the developmental axon guidance molecule EphA4 have previously been shown to exhibit extensive axonal regeneration and functional recovery following spinal cord injury. To assess mechanisms by which EphA4 may modify the response to neural injury, a microarray was performed on spinal cord tissue from mice with spinal cord injury and sham injured controls. RNA was purified from spinal cords of adult EphA4 knockout and wild-type mice four days following lumbar spinal cord hemisection or laminectomy only and was hybridised to Affymetrix All-Exon Array 1.0 GeneChips. While subsequent analyses indicated that several pathways were altered in EphA4 knockout mice, of particular interest was the attenuated or otherwise altered expression of a number of inflammatory genes, including Arginase 1, expression of which was lower in injured EphA4 knockout compared to wild-type mice. Immunohistological analyses of different cellular components of the immune response were then performed in injured EphA4 knockout and wild-type spinal cords. While numbers of infiltrating CD3+ T cells were low in the hemisection model, a robust CD11b+ macrophage / microglial response was observed post-injury. There was no difference in the overall number or spread of macrophages / activated microglia in injured EphA4 knockout compared to wild-type spinal cords at two, four or fourteen days post-injury, however a lower proportion of Arginase-1 immunoreactive macrophages / activated microglia was observed in EphA4 knockout spinal cords at four days post-injury. Subtle alterations in the neuroinflammatory response in injured EphA4 knockout spinal cords may contribute to the regeneration and recovery observed in these mice following injury. Comparison was made between gene expression in wild-type and knockout samples both before and after injury. 3 replicates per group.

2012-05-23 | E-GEOD-34430 | biostudies-arrayexpress

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