The RNA sequencing and hepatic protein quantification were previously described in detail [23 (link)]. Illumina A TruSeq Stranded mRNA kit (Illumina, Inc., San Diego, CA, USA) was used to prepare RNA sequencing libraries. Sequencing was carried by using the Illumina NextSeq 500 platform (Illumina, Inc., San Diego, CA, USA). Raw sequencing data can be downloaded from the ArrayExpress database (http://www.ebi.ac.uk/arrayexpress ; last accessed 26 May 2022), accession number E-MTAB-8032. EdgeR was used to perform pairwise gene comparisons, with all genes with a count per million value of more than one in six. After removing low-count genes, there were 15,134 genes for analysis. The p-values were adjusted by using the Benjamini–Hochberg method [37 (link)], with a false discovery rate (FDR) set at q < 0.05.
A Q Exactive Plus hybrid quadrupole Orbitrap mass spectrometer fitted with an EASY-Spray nano-ESI source (Thermo Fisher Scientific, Wilmington, DE, USA) was used to identify and quantify hepatic proteins. Limma was used to perform pairwise protein comparisons for those proteins that yielded normalised intensities in at least 75% of the compared samples. The p-values were adjusted by using the Benjamini–Hochberg method. Mass spectrometry proteomics data were added to the ProteomeXchange Consortium via the PRIDE140 partner repository, with the dataset identifier PXD014050.
A Q Exactive Plus hybrid quadrupole Orbitrap mass spectrometer fitted with an EASY-Spray nano-ESI source (Thermo Fisher Scientific, Wilmington, DE, USA) was used to identify and quantify hepatic proteins. Limma was used to perform pairwise protein comparisons for those proteins that yielded normalised intensities in at least 75% of the compared samples. The p-values were adjusted by using the Benjamini–Hochberg method. Mass spectrometry proteomics data were added to the ProteomeXchange Consortium via the PRIDE140 partner repository, with the dataset identifier PXD014050.
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