{"database": "metadata", "table": "run_metadata", "rows": [[68047, "SRR17568714", "SRX13737925", "SRS11618582", "SRP354594", "PRJNA796379", "RNA sequencing of zebrafish spinal cord tissue at 1 xxx post injury", "GSE193502", "Transcriptome Analysis", "To identify regulators of spinal cord regeneration  we  performed RNA sequencing of zebrafish spinal cord at 1 week post sham injury and post transection. Overall design: Spinal cord RNA profiles 1week post spinal cord transection and in sham injured controls.", "parent bioproject:PRJNA796373", "pubmed:37567873", null, "spinal cord  1 week post transection 3 RNA seq", "GSM5811629", null, "source name:spinal cord  1 week post transection|treatment:injured|tissue:spinal cord|geo loc name:missing|collection date:missing", "spinal cord  1 week post transection 3 RNA seq", "Reads were trimed by trim galore and them aligned to the zebrafish genome danRer10 using Tophat2 v 2.2.1 Mapped reads were filtered by samtools v 1.3.1and counted by htseq count v 0.6.0 Differential analyses were performed by Bioconductor package DESeq2 v 1.26.0 Supplementary files format and content: text file contain raw counts for genes exported by htseq counts v 0.6.0", "spinal cord  1 week post transection", null, "Sham injured and injured 2 mm rostral and caudal to the lesion site spinal cords were dissected and RNA was harvested using Trizol reagent. Genomic DNA was removed using RNA Clean and Concentrator Kit Zymo Research.  Illumina TruSeq RNA Sample Prep Kit Cat#FC 122 1001 was used with 1 ug of total RNA for the construction of sequencing libraries. RNA libraries were prepared for sequencing using Hiseq4000 50bp  SR  1 lane", null, "treatment:injured|tissue:spinal cord", "GSM5811629", "GSM5811629: spinal cord  1 week post transection 3 RNA seq; Danio rerio; RNA Seq", "GSM5811629 r1", "GSM5811629", "1", "Sham injured and injured 2 mm rostral and caudal to the lesion site spinal cords were dissected and RNA was harvested using Trizol reagent. Genomic DNA was removed using RNA Clean and Concentrator Kit Zymo Research.  Illumina TruSeq RNA Sample Prep Kit Cat#FC 122 1001 was used with 1 ug of total RNA for the construction of sequencing libraries. 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