Similar protocols

Protocol publication

[…] Female CD1 mice were treated with 3 mg/kg TCPOBOP in DMSO-corn oil by gavage (), sacrificed at 3, 6, 9, 12, and 18 hr after treatment, and compared to untreated controls. Replicate libraries were made from two individual mice for each condition. RNA was purified with the Qiagen miRNeasy Mini kit. Small RNA libraries were constructed using an Illumina Truseq Small RNA Sample Prep Kit. 12 indexed libraries were multiplexed in a single flow cell lane and received 50 base single-end sequencing on an Illumina HiSeq 2500 sequencer. Sequence reads were aligned to mm9 using Tophat and quantified with Cufflinks by the FPKM method (). Data for each experimental condition represent the average values from two libraries. […]

Pipeline specifications

Software tools TopHat, Cufflinks
Application sRNA-seq analysis
Organisms Mus musculus
Diseases Liver Diseases, Liver Neoplasms, Neoplasms