Additional file 1: of AlignStat: a web-tool and R package for statistical comparison of alternative multiple sequence alignments

Supplementary methods and figures. Worked example of full mathematical implementation for a 6x4 MSA. Supplementary Figures S1–S8. on comparison of scores and additional S1 protease family example. (PDF 1300 kb

Additional file 3: of Liver proteome response of pre-harvest Atlantic salmon following exposure to elevated temperature

Total number of quantifiable proteins. Proteins identified on the basis of two or more unique matching peptide sequences and presence in at least six of the nine biological replicates in either treatment group (XLSX 160 kb

Additional file 5: of Liver proteome response of pre-harvest Atlantic salmon following exposure to elevated temperature

Components of the top five toxicity pathways as determined by temperature-regulated proteins and predicted by IPA analysis. Exp fold change and Exp p-value correspond with the fold change value and the adjusted p-value (using Benjamini Hochberg correction), respectively, reported in Additional file 3. (XLSX 52 kb

Additional file 2: of Liver proteome response of pre-harvest Atlantic salmon following exposure to elevated temperature

MaxQuant output files of the complete protein-level mass spectrometry. A total of nine biological replicates (fish) per temperature treatment were analysed. (XLSX 2354 kb

Additional file 4: of Liver proteome response of pre-harvest Atlantic salmon following exposure to elevated temperature

Full list of canonical pathways as determined by temperature-regulated proteins and predicted by IPA analysis. The significance of the association between the data set and the pathway is based on the p-value, which determines the probability that the association between the data set genes and the pathway is explained only by chance, and on the ratio value, representing the number of genes from the data found in each pathway over the total number of genes in that pathway. (XLSX 56 kb

Additional file 1: of Liver proteome response of pre-harvest Atlantic salmon following exposure to elevated temperature

MaxQuant output files of the complete peptide-level mass spectrometry. A total of nine biological replicates (fish) per temperature treatment were analysed. (XLSX 5578 kb

Absolute content of total n-3 PUFA in white dorsal muscle of Atlantic salmon smolt fed FO, FOCF and TOFX feeds over a 89 day period.

<p>Data expressed as mg per 100g (dry weight) of tissue. Values are means ± SEM (n = 4). Different letters denote significant differences (p < 0.05) among treatment means.</p

Net intake (μmol fish^-1) and metabolic fate (μmol fish^-1 and % total net intake) of ALA in whole carcasses of Atlantic salmon smolt fed FO, FOPO and TOFX feeds over a 89 day period.

<p>Net intake (μmol fish^-1) and metabolic fate (μmol fish^-1 and % total net intake) of ALA in whole carcasses of Atlantic salmon smolt fed FO, FOPO and TOFX feeds over a 89 day period.</p

Ingredient and proximate composition of experimental feeds.

<p>Ingredient and proximate composition of experimental feeds.</p

Difference in dietary and tissue (white dorsal muscle and liver) concentrations of EPA, DHA, total n-3 LC-PUFA and ALA.

<p>Data expressed as % difference in relation to dietary concentration. Values are means ± SEM (n = 4). Different letters denote significant differences (p < 0.05) among treatment means.</p