Transcriptional response to West Nile virus infection in the zebra finch (Taeniopygia guttata), a songbird model for immune function
Description
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.
Resources
| Name |
Format |
Description |
Link |
|
55 |
The metadata original format |
https://data.usgs.gov/datacatalog/metadata/USGS.592ee3ade4b092b266f13e74.xml |
|
55 |
Landing page for access to the data |
https://dx.doi.org/10.5066/F7G44NHF |
Tags
- west-nile-virus
- usgs-592ee3ade4b092b266f13e74
- rnaseq
- virus
- transcriptome