Data from: Extreme heterogeneity of influenza virus infection in single cells

Viral infection can dramatically alter a cell's transcriptome.
However, these changes have mostly been studied by bulk measurements on
many cells. Here we use single-cell mRNA sequencing to examine the
transcriptional consequences of influenza virus infection. We find
extremely wide cell-to-cell variation in the productivity of viral
transcription - viral transcripts comprise less than a percent of total
mRNA in many infected cells, but a few cells derive over half their mRNA
from virus. Some infected cells fail to express at least one viral gene,
but this gene absence only partially explains variation in viral
transcriptional load. Despite variation in viral load, the relative
abundances of viral mRNAs are fairly consistent across infected cells.
Activation of innate immune pathways is rare, but some cellular genes
co-vary in abundance with the amount of viral mRNA. Overall, our results
highlight the complexity of viral infection at the level of single cells.