Hi all,
Does anyone know of any papers directly comparing RNA-Seq to Tag-Seq results? (Ideally, DpnII digital expression count data in yeast, but I'd take what I could get.)
The situation: We have some old data using DpnII tag profiling to compare our homemade microarrays with Illumina digital gene expression counts. Its a rich dataset using two different priming methods to compare across platforms (microarrays vs digital Tag-Seq). Now, I have an additional RNA-seq dataset prepared with random fragmentation, not restriction endonuclease-generated tags. I'd love to be able to use the work we've already done to robustly compare my new RNA-Seq data to the same microarrays, but I'm aware that the Tag-Seq results are not directly comparable to the RNA-Seq results. What I'm wondering is if I can reasonably estimate the relationship by counting DpnII cut sites and scaling RNA-Seq counts by gene length or whether there are some further effects I'm missing.
Thanks for any insight you can offer!
Andrea
Does anyone know of any papers directly comparing RNA-Seq to Tag-Seq results? (Ideally, DpnII digital expression count data in yeast, but I'd take what I could get.)
The situation: We have some old data using DpnII tag profiling to compare our homemade microarrays with Illumina digital gene expression counts. Its a rich dataset using two different priming methods to compare across platforms (microarrays vs digital Tag-Seq). Now, I have an additional RNA-seq dataset prepared with random fragmentation, not restriction endonuclease-generated tags. I'd love to be able to use the work we've already done to robustly compare my new RNA-Seq data to the same microarrays, but I'm aware that the Tag-Seq results are not directly comparable to the RNA-Seq results. What I'm wondering is if I can reasonably estimate the relationship by counting DpnII cut sites and scaling RNA-Seq counts by gene length or whether there are some further effects I'm missing.
Thanks for any insight you can offer!
Andrea
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