Docking results of PEGylated Saks with micro-Plasminogen.

<p>Docking results of PEGylated Saks with micro-Plasminogen.</p

Subclasses of enriched KEGG pathways.

<p>The number of pathways belong to each subclass is shown in parentheses. Pathways mentioned in section 3.2 are labeled. ^a: Benjamini and Hochberg adjusted p-value; ^b and ^c: Number and percentage of associated genes in each pathway. Percentage represents the proportion of associated genes in all known genes involved in a pathway.</p

SASAs of the PEGylated Saks.

<p>Solvent accessible surface areas (SASA) were calculated by g_sas, a tool in GROMACS package. (A) Total SASAs of PEGylated products. (B) SASAs of the eight amino acids at Sak binding domain.</p

Hierarchical clustering of the enriched pathways.

<p>Each cluster is encircled by a rectangle and numbered. Clustering coefficient of common module in each cluster is shown in parentheses. None: represent the fact that there are no common associated genes within the corresponding cluster.</p

Structural characterization of the PEGylated Saks.

<p>Circular dichroism analysis was carried out for the two C-terminally PEGylated Saks (A) and the two N-terminally PEGylated Saks (B). Intrinsic fluorescence analysis was performed for the two C-terminally PEGylated Saks (C) and the two N-terminally PEGylated Saks (D).</p

Schematic presentation of the PEGylated reaction.

<p>(A) PEGylation at N-terminus of Sak. (B) PEGylation at C-terminus of Sak.</p

Workflow for identification of shared pathways and common modules among AD, PD and HD.

<p>In the first step, AD, PD and HD susceptibility gene (sg) sets were collected and their intersection were defined as common sg. Meanwhile, common sg's first neighbors in the human protein-protein interaction network (hPPIN) was extracted to construct common gene first neighbor network (CFNN). Then, KEGG pathway enrichment analysis was applied to the nodes in CFNN to get shared pathways of AD, PD and HD, following by gene expression analysis to evaluate the found pathways. Finally, hierarchal clustering was applied to cluster the enriched pathways and indentify common modules in CFNN. RWR: random walk with restart.</p

Characterization of the four PEGylated Saks.

<p>(A) SEC analysis was carried out on a Superdex 200 column (1 cm ×30 cm). The column was equilibrated and eluted with 20 mM sodium phosphate buffer (pH 7.2) at a flow rate of 0.5 mL/min. (B) SDS-PAGE analysis of the samples. Lanes 1–6 were standard protein marker, Sak, Sak-mal5k, Sak-ald5k, Sak-mal20k and Sak-ald20k, respectively.</p

List of selected gene expression data sets.

<p>^a: The number of significantly differentially expressed genes.</p><p>List of selected gene expression data sets.</p

Sedimentation velocity coefficients of the PEGylated Saks.

a<p>The sedimentation coefficient <i>S</i> (10⁻¹³s) in a standard state of water at 20°C.</p>b<p>The ratio of frictional coefficient.</p