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| Status |
Public on Nov 08, 2021 |
| Title |
Next Generation Sequencing of zebrafish intraspinal serotonergic neurons in the injury segment and distal segments after spinal cord injury |
| Organism |
Danio rerio |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
The goals of this study is to compare transcriptome profiles (RNA-seq) of zebrafish intraspinal serotonergic neurons in the injury segment and distal segments after spinal cord injury. Bulk RNA-Seq samples of ISNs from the injury area and residual segments respectively were FAC-sorted from Tg(tph2:GFP) line. Total RNA was isolated using SMART-SeqTM v4 UltraTM Low Input RNA Kit for Sequencing (Clontech). Sequencing libraries (N=5-6) were generated using NEBNext UltraTM RNA Library Prep Kit for Illumina following the manufacturer’s instructions (NEB). We mapped about 50-60 million sequence reads per sample to the zebrafish genome and identified 39,714 transcripts in the zebrafish intraspinal serotonergic neurons. Our study represents the detailed analysis of transcriptomes of zebrafish intraspinal serotonergic neurons in the injury segment and distal segments after spinal cord injury.
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| Overall design |
Bulk RNA-Seq samples of intraspinal serotonergic neurons from the injury area and residual segments respectively were FAC-sorted from Tg(tph2:GFP) line. Total RNA was extracted and cDNA libraries (N=5-6) were subjected to Illumina sequencing according to the manufacturer’s protocol.
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| Contributor(s) |
Song J, Guan N, Huang C |
| Citation(s) |
34876587 |
| Submission date |
Aug 26, 2021 |
| Last update date |
Jan 10, 2022 |
| Contact name |
Chun-Xiao Huang |
| Phone |
13419650633
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| Organization name |
42508444-9
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| Department |
School of Medcine, Tongji University
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| Lab |
Neuroscience
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| Street address |
65 Chifeng Road, Yangpu District
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| City |
Shanghai |
| ZIP/Postal code |
200092 |
| Country |
China |
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| Platforms (1) |
| GPL14875 |
Illumina HiSeq 2000 (Danio rerio) |
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| Samples (11)
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| This SubSeries is part of SuperSeries: |
| GSE182911 |
Specialized injury-induced serotonergic neurons promote circuit reorganization and function restoration after spinal cord injury in zebrafish |
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| Relations |
| BioProject |
PRJNA758087 |
| SRA |
SRP334274 |
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