Identification of Entry Factors Involved in Hepatitis C Virus Infection Based on Host-Mimicking Short Linear Motifs
Fig 3
Relationships between SLiMs, R6 VIPs, and network modules.
Of the 19 SLiMs identified for HCV E1 and E2 in Fig 1C, 13 (including six grouped in the MOD_family; top row) are directly connected to one or more of the 22 R6 VIPsdirect (middle row) in the virus-host PPI network (Fig 2). The MOD_family contains MOD_CK1_1, MOD_CK2_1, MOD_GSK3_1, MOD_NEK2_1, MOD_NEK2_2, and MOD_ProDKin_1; all are targets of a kinase. An R6 VIPdirect and a module(s) (bottom, boxed in black) are considered to be connected if more than 10% of the interacting partners of the VIPdirect belong to the module. Based on this criterion, module 2 is not connected to an R6 VIPdirect and, therefore, is not included in the figure. The validity of the connections displayed as solid dark lines is supported by published experimental evidence. The corresponding reference number(s) (indicated by an asterisk) are provided in S3 Table. The dark and light horizontal bars at the bottom of the figure identify modules with the functionality of entry and/or carcinogenesis, respectively.