GSM3244221: fliHIJ II; Salmonella enterica subsp. enterica serovar Typhimurium; RNA-Seq
Using Rneasy kit (Qiagen) plus Qiashredder columns. Customized protocol (Dötsch et al., PloS ONE, 2012). Briefly, eukariotic RNA was depleted using MICROBEnrich Kit (both for tumor samples and control sampels), subsequently bacterial rRNA was depleted using MICROBExpress kit with the Pseudomonas module (Ambion) and fragmented by sonication using Covaris Adaptive Acoustics device (Covaris). Upon ligation of barcoded adapters, reverse transcription with SuperScript II kit (Invitrogen) followed. Amplification was done by PCR using Illumina platform compatible primers. Established cDNA library was normalized by double strand specific nuclease treatment (Evrogen) according DSN Normalization Sample Preparation Guide from Illumina.
GEO Accession
GSM3244221