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Table 2 List of top 30 cellular factors involved in SAHA, prostratin or TNF-α induced latent HIV-1 reactivation in ACH-2 cells

From: Temporal transcriptional response to latency reversing agents identifies specific factors regulating HIV-1 viral transcriptional switch

SAHA Prostratin TNF-α
UBC UBC UBC
CREBBP TP53 TP53
JUN AKT1 TRAF2
TP53 CREBBP BRCA1
RB1 BRCA1 JUN
RELA JUN HSP90AA1
BRCA1 NR3C1 RELA
NR3C1 SMAD3 CEBPB
CTNNB1 RELA HDAC1
SMAD3 MYC SMAD3
CEBPB HDAC1 IKBKB
MYC IKBKB STAT3
TBP CTNNB1 CREBBP
ATF2 STAT3 NR3C1
STAT3 CHUK CHUK
ATF3 HSP90AA1 ETS1
HIF1A CEBPB NFKB1
TP63 SRC MYC
FOXO1 SMAD2 STAT1
RXRA ETS1 RUNX2
STAT2 SMAD4 SUMO1
FOXO4 NFKB1 STAT5A
NFATC1 STAT1 STAT6
RUNX2 GSK3B GTF2I
E2F1 MAPK1 SP3
STAT1 STAT5A ATM
AKT1 MAX TRAF6
NFKB2 ATM RUNX1
TCF7L2 RB1 UBE2I
DAXX LEF1 GATA3
  1. Proteins are ranked based on the “path flow” going through a protein. The path flow \(f\) through a protein \(n\) is defined as follows—\(f\left( n \right) = \mathop \sum \nolimits_{p \in P} I\left( p \right) \cdot h_{p}\) where \(P\) is the set of signaling pathways predicted by SDREM that contain the protein \(n\) and \(h_{p}\) is the confidence in the existence of path \(p\) which is a product of the confidence in each individual edge of the path (The confidence is a number between 0 and 1). The proteins are ranked in descending order of the path flow going through them