Pairwise comparisons between cell fractions from adipose tissue

Annotated pairwise comparisons between all FACS-sorted fractions from adipose tissue. <div>Usage note:</div><div>Columns are separed with ; (not tab or comma)</div

Pairwise comparisons between cell fractions from adipose tissue

Annotated pairwise comparisons between all FACS-sorted fractions from adipose tissue. <div>Usage note:</div><div>Columns are separed with ; (not tab or comma)</div

R markdown file for enrichment analysis

R code with comments in markdown format. Code used to generate gene enrichment for the different FACS-sorted cell fractions from adipose tissu

Differential expression in obese vs non-obese adipocyte progenitors - nominal significance.

Comparison of gene expression in adipocyte progenitors from non-obese (n=10) and obese (n=9). Microarray data was RMA normalized, filtered so only probes with an associated gene symbols were kept, and then analyzed in limma to identify differentially expresssed genes. No significant genes were found after correction for multiple hypothesis testing. Genes were then filtered on nominal significance (uncorrected p-value < 0.05) and log fold change > |0.585|

Differential expression in obese vs non-obese adipocyte - nominal significance

DIfferential expression of lean_obese adipocytes from adipose tissue. PLEASE NOTE: nominal significance, as all adjusted p-values > 0.05. Reported genes have log fold change > 0.585<br

Tables of human adipose tissue cell type-specific genes

The data set includes:<div>1) "Celltype_enriched.txt" files separated by ";" that contain genes significantly enriched in one cell type compared to other three analyzed hWAT cell types according to the analysis described in R markdown file:</div><div>http://figshare.com/s/509ea9441af442a735ac</div><div>Adjusted p-value <0.05 for all pairwise comparisons, moderated F-statistics p-value <0.05 (from R package/bioconductor package Limma).</div><div><br></div><div>2) "Celltype_enriched_collected.txt" files separated by ";". These files contain tables that include mean expression of the gene in a fraction where it is enriched, log fold change (logFC) and adjusted P values (adj.P.val) compared to each of other fractions. Minimal logFC and maximal adj.P.Val against other fractions are included as separate columns to enable easy sorting of the data in search for best expressed, best enriched or most specific genes. </div><div><br></div><div>3) R-code used to generate "Celltype_enriched_collected.txt" tables is provided.</div><div><br></div><div>4) In addition, a table with 100 highest-ranked genes from each fraction (based on highest logFC_min and lowest adj.P.val_max) is also included ("Selected_enriched_genes_all_fractions" - separated by tab).</div><p></p