Transcriptional response to West Nile virus infection in the zebra finch (Taeniopygia guttata), a songbird model for immune function: Data
May 31, 2017
The data set contains paired-end, 100 nucleotide long RNA sequencing reads for each sample. Raw sequencing reads ranged from 18-30million reads per sample. Quality trimmed reads were mapped to the Zebra Finch reference genome with an average of 79.0-80.8% mapping rate, corresponding to 18,618 Ensembl gene IDs. Of these, 14,114 genes averaged at least 5 mapped reads across all samples and were utilized for differential expression (DE) analyses. DE analyzed two ways: as pairwise comparisons between treatments to identify specific genes with DEseq2 and as a time course grouping genes into expression paths with EBSeqHMM.
Citation Information
Publication Year | 2017 |
---|---|
Title | Transcriptional response to West Nile virus infection in the zebra finch (Taeniopygia guttata), a songbird model for immune function: Data |
DOI | 10.5066/F7G44NHF |
Authors | Erik K Hofmeister, Christopher N. Balakrishnan, Daniel J. Newhouse |
Product Type | Data Release |
Record Source | USGS Asset Identifier Service (AIS) |
USGS Organization | National Wildlife Health Center |
Rights | This work is marked with CC0 1.0 Universal |
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Transcriptional response to West Nile virus infection in the zebra finch (Taeniopygia guttata)
West Nile virus (WNV) is a widespread arbovirus that imposes a significant cost to both human and wildlife health. WNV exists in a bird-mosquito transmission cycle in which passerine birds act as the primary reservoir host. As a public health concern, the mammalian immune response to WNV has been studied in detail. Little, however, is known about the avian immune response to WNV. Avian...
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Daniel J. Newhouse, Erik K. Hofmeister, Christopher N. Balakrishnan
Related
Transcriptional response to West Nile virus infection in the zebra finch (Taeniopygia guttata)
West Nile virus (WNV) is a widespread arbovirus that imposes a significant cost to both human and wildlife health. WNV exists in a bird-mosquito transmission cycle in which passerine birds act as the primary reservoir host. As a public health concern, the mammalian immune response to WNV has been studied in detail. Little, however, is known about the avian immune response to WNV. Avian...
Authors
Daniel J. Newhouse, Erik K. Hofmeister, Christopher N. Balakrishnan