Pelagomonas calceolata gene expression levels in different nitrogen conditions and differential expression analysis.

<p>These files contains the expression levels and DESeq2 results of <em>Pelagomonas calceolata</em> genes cultivated with different nitrate conditions. Two strains of <em>P. calceolata </em>(RCC100 and RCC697)&nbsp; were cultivated and their RNAs reads were aligned on the predicted genes of <em>P. calceolata</em> RCC100 genome: <a href="https://www.ncbi.nlm.nih.gov/Traces/wgs/CAKKNE01?display=download" rel="nofollow">https://www.ncbi.nlm.nih.gov/Traces/wgs/CAKKNE01?display=download</a></p> <p>The following culture conditions were analysed :</p> <p>882 &micro;M of Nitrate (RCC100 and RCC697)&nbsp;</p> <p>441 &micro;M of Nitrate (RCC100)</p> <p>220 &micro;M of Nitrate (RCC100 and RCC697)</p> <p>50 &micro;M of Nitrate (RCC697)</p> <p>882 &micro;M Cyanate (RCC100)</p> <p>882 &micro;M Ammonia (RCC100)</p> <p>441 &micro;M Urea (RCC100)</p> <p><a href="../api/records/12582059/draft/files/20230427_RCC100-Nitrate_transcriptomes_rawcounts.tsv/content" target="_blank" rel="noopener noreferrer">20230427_RCC100-Nitrate_transcriptomes_rawcounts.tsv</a> : the file contains the raw read counts of RCC100 in 6 culture conditions in triplicate + the gene names = 19 columns.</p> <p><a href="../api/records/12582059/draft/files/20230427_RCC100-Nitrate_transcriptomes_TPM.tsv/content" target="_blank" rel="noopener noreferrer">20230427_RCC100-Nitrate_transcriptomes_TPM.tsv</a> : same data normalized in transcript per kb per million mapped reads (TPM).</p> <p><a href="../api/records/12582059/draft/files/20230427_RCC100-Nitrate_transcriptomes_rawcounts.tsv/content" target="_blank" rel="noopener noreferrer">20230427_RCC697-Nitrate_transcriptomes_rawcounts.tsv</a> : the file contains the raw read counts of RCC697 of 3 culture conditions in triplicate + the gene names = 10 columns.</p> <p><a href="../api/records/12582059/draft/files/20230427_RCC100-Nitrate_transcriptomes_TPM.tsv/content" target="_blank" rel="noopener noreferrer">20230427_RCC697-Nitrate_transcriptomes_TPM.tsv</a> : same data normalized in transcript per kb per million mapped reads (TPM).</p> <p><span>Differential expression analysis (DESeq2) was performed by pairwise comparisons between the standard condition (882 &micro;M nitrate) and low-nitrate conditions (50, 220 or 441 &micro;M nitrate) or changing nitrogen sources (882 &micro;M ammonium, 882 &micro;M cyanate and 441 &micro;M urea). Each DESeq-results_RCCxxx_xxx.tsv file contains 6 columns :&nbsp;<em>P.calceolata </em>gene name, base Mean, log2 Fold Change, standard error value (lfcSE), pvalue and adjusted pvalue (padj).<br></span></p>