GSE59682-GSM1442814-GPL14548-PMID:25456064.tsv 1.81 KB
"The reads were processed using BWA software."	"data_processing.1"
"Mapped reads per annotated gene were counted by Bam2readcount."	"data_processing.2"
"Reads per kilobase of gene per million mapped sequence reads (RPKM) were calculated for normalization."	"data_processing.3"
"Genome_build: Escherichia coli K-12 substr. DH10B ASM1942v1"	"data_processing.4"
"Supplementary_files_format_and_content: txt: tab-delimited text files include RPKM values for each Sample"	"data_processing.5"
"1 ml of each culture with the mycotoxin was centrifuged and total RNA was prepared using Hybrid-RTM kit (Gene All, Seoul, Korea) according to the manufacturer’s protocols. A MICOBExpressTM bacterial mRNA enrichment kit (Ambion, Texas, USA) was used to remove bacterial rRNA from the total RNA samples."	"extract_protocol_ch1.1"
"RNA libraries were prepared for sequencing using standard Illumina protocols"	"extract_protocol_ch1.2"
"E. coli K-12 was incubated in 5 ml LB liquid for 16 h at 37°C with constant shaking, and then 100 µl of each myxotoxin dissolved in acetonitrile was added to each culture to a final concentration of 0.2, and 2 ppm. Additional incubation was performed for 2 h."	"growth_protocol_ch1.1"
"Escherichia coli"	"organism_ch1.1"
"Bacterial culture with acetonitrile"	"source_name_ch1.1"
"acetonitrile"	"title.1"
"RNA-Seq"	"library_strategy.1"
"strain: K-12 substr. DH10B"	"characteristics_ch1.1"
"condition: acetonitrile (control)"	"characteristics_ch1.2"
"E. coli K-12 was incubated in 5 ml LB liquid for 16 h at 37°C with constant shaking, and then 100 µl of each myxotoxin dissolved in acetonitrile was added to each culture to a final concentration of 0.2, and 2 ppm. Additional incubation was performed for 2 h."	"growth_protocol_ch1.1"
"Escherichia coli"	"organism_ch1.1"
"Bacterial culture with acetonitrile"	"source_name_ch1.1"