10.1371/journal.pcbi.1007684.g004 Joël R. Pradines Joël R. Pradines Victor Farutin Victor Farutin Nicholas A. Cilfone Nicholas A. Cilfone Abouzar Ghavami Abouzar Ghavami Elma Kurtagic Elma Kurtagic Jamey Guess Jamey Guess Anthony M. Manning Anthony M. Manning Ishan Capila Ishan Capila Reproducibility of WAPs and DEGs among four SSc data sets. Public Library of Science 2020 concept data sets precision medicine studies protein interaction networks gene expression data prioritize novel targets DEG gene expression analysis discovery rate estimation well-associated protein Identification WAP genome-wide transcriptional studies reproducibility drug target selection 2020-02-14 18:33:28 Figure https://plos.figshare.com/articles/figure/Reproducibility_of_WAPs_and_DEGs_among_four_SSc_data_sets_/11857392 <p>Four gene expression data sets comparing skin samples between SSc patients and non-SSc subjects—GSE58095 (1), GS32413 (2), GSE9285 (3) and GSE45485 (4)—are used to obtain WAP and DEG scores. Blue and green colors represent overlaps between top scoring WAPs and DEGs respectively. A-B: Overlap profiles for two pairs of data sets. Solid profiles correspond to genes ordered by a two-sided t-test and dashed profiles—to ordering which further accounts for fold change (a gene rank is the average of its t-statistic and fold-change ranks). Brown profiles display results for ten randomly rewired protein networks. C-D: Overlap statistics maxR and AUC for all six data set pairs, when genes are ordered by a two-sided t-test. For randomly rewired networks, displayed values are averages.</p>