Host Cell Factors in HIV Replication: Meta-Analysis of Genome-Wide Studies (original) (raw)
Figure 3
Gene Clusters, Generated Using PPI and MCODE Analysis, Derived from the Full Set of Genes Implicated in HIV Infection (Lists 1–10).
The size of each node is proportional to the number of screens in which the host cell gene was called. Gene identifiers are in Table S1. Diamonds indicate genes from the NCBI HIV interactions database. Color code: red = König et al., green = Brass et al., blue = Zhou et al., cyan = Fellay et al., magenta = Frankel interaction screens (unpublished data), yellow = HIV particle associated, and grey = Studamire and Goff integrase interactions. For genes that were called in multiple screens (larger symbols), a color was chosen arbitrarily from among the screens positive for that gene. Default parameters were used, specifically— Degree Cutoff: 2. Node Score Cutoff: 0.0. Haircut: true. Fluff: false. K-Core: 2. Maximum Depth From Seed: 100. (A) Proteasome; (B) Transcription/RNA Pol; (C) Mediator Complex; (D) Tat activation/Transcriptional elongation; (E) Immune response; (F) RNA Binding/Splicing; (G) H5PA5/BiP Chaperone; (H) CCT Chaperone; (I) t-RNA Synthase; (J) Transport; (K) Unknown.