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Table 2 Fold-changes between thrombin-treated samples and control samples (SRA: SRP008482).

From: Assessing the impact of human genome annotation choice on RNA-seq expression estimates

  RNA-seq data with TPM Expression Estimates (OSA Pipeline)
Gene RT-qPCR AceView H-InvDB Ensembl Vega UCSC RefSeq
TRAF1 2.862 3.029 3.034 3.025 2.998 2.934 2.922
FANCD2 -1.050 -0.782 -0.687 -0.888 -0.856 -0.840 -0.840
CELF1 -0.202 -0.138 -0.202 -0.098 -0.098 -0.239 -0.275
Average Absolute Deviation from RT-qPCR 0.166 0.178 0.143 0.145 0.106 0.114
  RNA-seq data with FPKM Expression Estimates (TopHat/Cufflinks Pipeline)
Gene RT-qPCR AceView H-InvDB Ensembl Vega UCSC RefSeq
TRAF1 2.862 3.874 3.845 3.797 3.719 3.677 3.674
FANCD2 -1.050 0.057 0.057 -0.345 -0.322 -0.202 -0.151
CELF1 -0.202 0.642 0.516 0.595 0.585 0.390 0.356
Average Absolute Deviation from RT-qPCR 0.987 0.936 0.812 0.791 0.751 0.756