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Table 1 RNA-seq data used for the blood transcriptome assembly

From: A high-quality annotated transcriptome of swine peripheral blood

Study accession Sample description Read length Layout Total raw read count Breed Source Run accession Reference
PRJEB5250 16 pigs (7 weeks old) were infected with Salmonella enterica serovar Typhimurium. Whole blood was sampled before infection (day 0) and day 2 post infection. Globin was depleted from the total RNA. 51 SE 1,611,707,563 Yorkshire crossbred ENA ERR413315 - ERR413346 [35]
PRJNA189967 Whole blood from 3 individual healthy pigs 51 SE 106,157,368 unknown ENA SRR747924-SRR747926 [36]
Swine Genome Sequencing Consortium Whole blood from one healthy pig 83 SE 48,973,230 Duroc ENSEMBL(ftp://ftp.ensembl.org/pub/release-83/bamcov/sus_scrofa/genebuild/whole_blood_merged_sorted.bam) Unknown http://www.ensembl.org/info/genome/genebuild/2012_04_sus_scrofa_genebuild.pdf
PRJEB12300 Whole blood was sampled from 31 post-weaning (5 ~ 6 weeks old) pigs from lines divergently selected for residual feed intake. Globin was depleted from the total RNA. 100 PE 2 × 632,557,790 Yorkshire ENA ERR1199492-ERR1199522 [34]
PRJEB20136 28 pigs (~ 63 kg of body weight) from lines divergently selected for residual feed intake were muscularly injected with E. coli LPS or saline at time 0, and 48, 96 h and 144 h post the first injection. Whole blood was sampled immediately before first injection and 2, 6, 24 and 168 h post first injection. Globin was depleted from the total RNA. 49 PE 2 × 1,509,173,972 Yorkshire ENA ERR1898446-ERR1898477 H. Liu, K. Feye et al., unpublished