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Sample GSM8263623 Query DataSets for GSM8263623
Status Public on Dec 15, 2024
Title RNA_Tko_KU216_rep2
Sample type SRA
 
Source name KOD1
Organism Thermococcus kodakarensis
Characteristics cell line: KOD1
genotype: Parental strain KU216
Extracted molecule total RNA
Extraction protocol Cells were grown to mid-to-late log phase and used for RNA extraction. 23S, 16S, and 5S rRNAs were removed using complementary DNA oligos and Rnase H.
Libraries were constructed NEBNext Ultra II Directional RNA Library Prep Kit for Illumina.
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina NovaSeq 6000
 
Data processing Reads were counted using Salmon version 1.9.0 (Patro et al., 2017). Differentially expressed genes were identified using edgeR version 3.40.2 (Robinson et al., 2010).
Assembly: GCA_000009965.1
Supplementary files format and content: Tab-delimited tables showing Transcripts Per Million (TPM) values for each gene.
 
Submission date May 13, 2024
Last update date Dec 15, 2024
Contact name Naomichi Takemata
Organization name Kyoto University
Department Synthetic Chemistry and Biological Chemistry
Street address Kyoto University, Katsura, Nishikyo-ku
City Kyoto
ZIP/Postal code 615-8510
Country Japan
 
Platform ID GPL28196
Series (1)
GSE267299 Chromosomal domain formation by archaeal SMC, a roadblock protein, and DNA shape [RNA-seq]
Relations
BioSample SAMN41382080
SRA SRX24534869

Supplementary file Size Download File type/resource
GSM8263623_RNA_Tko_KU216_rep2.txt.gz 52.4 Kb (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA

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