Table A3: RNA-seq Data for siRNA PRLR vs siRNA NTC in MCF-7
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Table A3: RNA-seq Data for siRNA PRLR vs siRNA NTC in MCF-7
A) Excel Workbooks for RNA seq analysis showing the differential expression results for siRNA PRLR vs siRNA NTC for 3 samples each in MCF-7.
Samples G01_4 to G01_6 represent siRNA NTC MCF-7 and G01_7 to G01_9 represent siRNA PRLR in MCF-7.
Sheet 1: statistically significant up-regulated genes with log2fold change of >= 1 (sorted by fold change).
Sheet 2: statistically significant down-regulated genes with log2fold change of <= -1 (sorted by fold change)
Sheet 3: Statistically significant differentially expressed (DE) genes (p value =< 0.05 and p adj =< 0.05) including normalised counts for each sample (rounded values)
Sheet 4: Differential expression analysis results (raw) including normalised counts for each sample.
Sheet 5: Raw counts for the six samples (three replicates MCF-7 siRNA NTC and three replicates MCF-7 siRNA PRLR.
Sheet 6: Filtered normalised counts (all genes with row Sum less than one were removed)
The data presented log2 fold change, lfcSE = standard error of the log2 Fold Change estimate, stat = Wald statistic and fold change are included.
B) List of genes in the top up-regulated and down-regulated hallmark pathways which were affected by PRLR knockdown in MCF-7 cells.
Sheet 1: list of all (raw) hallmark pathways affected by knocking down PRLR generated by set enrichment analysis (GSEA) in R using the Bioconductor package fgsea.
Sheet 2: list of significantly affected pathways with (p value =< 0.05 and p adj =< 0.05)
Sheet 3: list of genes in Oestrogen response early pathway
Sheet 4: list of genes in Oestrogen response late pathway
Sheet 5: list of genes in MYC targets V1 pathway
The data presented NES= normalised enrichment score, NE= enrichment score, n More Extreme= number of times a random gene set had a more extreme enrichment score value, log2 fold change, lfcSE = standard error of the log2 Fold Change estimate, stat = Wald statistic , fold change, p value,p adj and read count are included.
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