Table 3 Description of datasets used to validate CANEapp performance to estimate differential gene expression
From: CANEapp: a user-friendly application for automated next generation transcriptomic data analysis
Name | Organism | Experimental groups | N of samples | RNA selection protocol | Library preparation | Single or paired-end | GEO |
|---|---|---|---|---|---|---|---|
Transcriptomic changes in hippocampi of Alzheimer’s disease patients | Homo sapiens | Alzheimer’s disease vs age- and sex-matched neurologically normal controls | 4 vs 4 | Ribo-depletion | Illumina directional small RNA prep | single | GSE67333 |
Transcriptomic changes in embryonic and adult mouse cortex | Mus musculus | E17 cortex vs adult cortex | 4 vs 3 | Poly-A selection | Illumina mRNA-Seq prep | paired | GSE39866 |
SEQC Rat liver toxicogenomics study | Rattus norvegicus | N-Nitrosodimethylamine, Aflatoxin B1 vs Vehicle treatments | 3 vs 3 | Poly-A selection | Illumina TruSeq RNA | paired | GSE55347 |
3 vs 4 |