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>