Additional file 1: of FLIPL is critical for aerobic glycolysis in hepatocellular carcinoma

Table S1. Statistical results for FLIPL expression in the adjacent normal specimens of 79 HCC. Table S2. Statistical results of SGLT1 expression in the adjacent normal specimens of 79 HCC. (DOCX 17 kb

Summary of SGA analysis of envelope sequences.

<p>Summary of SGA analysis of envelope sequences.</p

Plasma virus loads (PVLs) in immunized and control rhesus macaques challenged with SIVsmE660.

<p>The PVLs were assayed from serial plasma samples collected from rhesus vaccinated with vesicular stomatitis-semliki forest virus vectors and challenged with SIVsmE660. The graphs depict the PVLs in Log₁₀ scale. (A) In SIVe660 gag-env immunized group (Group I). (B) SIVe660 gag-env immunized plus GM-CSF group (Group II) and (C) the Influenza HA control group (Group III).</p

Phylogenetic analysis of full-length env sequences from Gag-Env-GM-CSF group (Group II)) macaques.

<p>All the macaques in this group were vaccinated and challenged with SIVsmE660. The full-length envelope sequences were compared to a derived consensus sequence from each animal (A) EA28 (B) EF23 (C) EF28 and (D) EJ74. Multiple lineages of T/F viruses infecting the same macaque were shown in different colors.</p

Phylogeny and Poisson-Fitter analysis of DG21 macaque env sequences.

<p>We analyzed 19 full-length envelope sequences from SIVsmE660 infected DG21 macaque. (A) phylogenetic comparison of DG21 env sequences to the generated consensus DG21 envelope sequence. (B) Highlighter plot exhibiting the nucleotide differences in DG21 env sequences compared to DG21 consensus sequence. (C) Poisson-Fitter plots of DG21 env sequences including APOBEC mutations. (D) Poisson-Fitter plots of DG21 env sequences excluding the APOBEC mutations.</p

Phylogenetic and Poisson-Fitter analysis of DF38 macaque env sequences.

<p>In total 21 full-length env sequences were analyzed to identify the T/F virus from DF38. (A) Phylogenetic tree of DF38 full-length envelope sequences compared to derived DF38 consensus sequence. (B) Highlighter plot showing variations in nucleotides and APOBEC mutations in individual nucleotide sequences in comparison to DF38 consensus sequence. (C) Poisson-Fitter plots of DF38 env sequences including APOBEC mutations. (D) Poisson-Fitter plots of DF38 env sequences excluding the APOBEC mutations.</p

Comparison of T/F env sequences to SIVsmE660 stock sequence and to T/F env sequences from different infected macaques.

<p>We phylogenetically compared the T/F env sequences obtained from all the infected macaques to the sequences obtained from challenge virus from groups (A) Gag-Env (B) Gag-Env-GM-CSF and (C) VSV-HA macaques. (D) Representative env sequences (5) from each infected macaque from each lineage of T/F viruses from all of the infected animals were compared to each other.</p

Comparison of E660 viral swarm sequences in the challenge stock to the E660 vaccine construct.

<p>The full-length E660 sequences were trimmed to match the vaccine construct sequence. (A) Neighbor-joining phylogenetic tree with all 58 env sequences compared against the vaccine construct. (B) Highlighter plot showing the silent (green) and non-silent (red) changes in all 58 trimmed envelope sequences compared to the E660-vaccine construct.</p

Phylogenetic analysis and highlighter plots of the SIVsmE660 challenge stock.

<p>A total of 58 full-length envelope sequences were analyzed from the SIVsmE660 stock viral swarm and were compared to the derived consensus E660 sequence for silent and non-silent mutations. (A) Neighbor-joining phylogenetic tree with all the 58 env sequences compared to consensus sequence derived from SIVsmE660 inoculum. (B) Highlighter plot showing the silent (green)/non-silent (red) mutations among different full-length envelope sequences as compared to the consensus SIVsmE660 sequence.</p

Immunization and Challenge Schedule of Rhesus Macaques.

<p>*6 adult rhesus macaques in each group; i.m  =  intra-muscular; i.n  =  intra-nasal; i.r  =  intra-rectal.</p><p>NJ  =  New Jersey strain; I =  Indiana strain.</p><p>Immunization and Challenge Schedule of Rhesus Macaques.</p