Author: Hölzer, Martin; Schoen, Andreas; Wulle, Julia; Müller, Marcel A.; Drosten, Christian; Marz, Manja; Weber, Friedemann
Title: Virus- and Interferon Alpha-Induced Transcriptomes of Cells from the Microbat Myotis daubentonii Document date: 2019_8_10
ID: 0co6m9af_60
Snippet: The read counts were passed to DESeq2 (v1.16.1) (Love et al., 2014) to call significantly (adjusted p ï‚£ where ci is the raw read count of gene i, li is the cumulative exon length of gene i and N is the number of all genes in the given annotation. For each gene, we calculated six mean TPM values (TPMM), based on the three biological replicates corresponding to the mock, IFN and Clone 13-infected samples at the two time points. If a protein-codin.....
Document: The read counts were passed to DESeq2 (v1.16.1) (Love et al., 2014) to call significantly (adjusted p ï‚£ where ci is the raw read count of gene i, li is the cumulative exon length of gene i and N is the number of all genes in the given annotation. For each gene, we calculated six mean TPM values (TPMM), based on the three biological replicates corresponding to the mock, IFN and Clone 13-infected samples at the two time points. If a protein-coding gene showed a TPMM > 1 in at least one of the six conditions, it was considered as expressed and used for further analyses. Genes that did not show a TPMM > 1 in at least one condition were marked and discarded from further analyses.
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