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Sample GSM5955177 Query DataSets for GSM5955177
Status Public on Mar 18, 2022
Title Teg49_mutant_3H_R1
Sample type SRA
 
Source name RNA cell extract
Organism Staphylococcus aureus
Characteristics strain: SH1000DTeg49
timepoint: transcriptome at 3h growth
genotype/variation: Teg49 mutant empty vector
Treatment protocol no treatment
Growth protocol After an overnight growth in TSB medium, OD measurement have been made and culture was grown 3h in TSB Cm 5 ug/mL
Extracted molecule total RNA
Extraction protocol Cells were lyzed with glass beads in a Fast Prep instrument and RNAs extract with Phenol/Chloroform (Trizol). Ribosomal RNAs were depleted using the Ribo-zero rRNA remmoval kit (bacteria).
NEBNext ultra directional RNA library prep kit (E7420)
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina NextSeq 500
 
Description Teg49 mutant empty vector replicate at 3h
Data processing Basecalling using Illumina Native App
Reads were mapped to the S. aureus NCTC8325 genome (NC_007795.1) using CLC Genomics Workbench 11
Reads were filtered for reads properly paired and sorted by pairs
Read pairs were mapped using CLC workbench 11
Gene expression counted using CLC workbench 11
Assembly: Staphylococcus aureus subps, aureus SH1000
Supplementary files format and content: CSV file include raw counting
 
Submission date Mar 15, 2022
Last update date Mar 19, 2022
Contact name Liviu Cengher
E-mail(s) liviu.cengher.gr@dartmouth.edu
Phone 8583548926
Organization name Geisel School of Medicine
Department Microbiology and Immunology
Lab Cheung
Street address 45 Dewey Field Rd
City Hanover
State/province NH
ZIP/Postal code 03755
Country USA
 
Platform ID GPL24034
Series (1)
GSE198695 Regulation of spn by Teg49 in S. aureus
Relations
BioSample SAMN26677384
SRA SRX14468429

Supplementary file Size Download File type/resource
GSM5955177_Teg49_mutant_3H_R1_GE.csv.gz 113.5 Kb (ftp)(http) CSV
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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