Number of Significant pathways.

<p>Number of Significant pathways.</p

Simulation Scenarios and parameters^*.

<p>Simulation Scenarios and parameters^{<a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0152667#t001fn001" target="_blank">*</a>}.</p

Comparison of pathway analysis p-values.

<p>Comparison of pathway analysis p-values.</p

Comparison of type I error and power among competing methods.

<p>Comparison of type I error and power among competing methods.</p

Q-Q plots investigating global null hypothesis type-I errors for the SKAT-Lancaster procedure under Simulation Scenario 1 (<i>λ</i> is the inflation factor for the Type I error rate).

<p>The type I error inflation factor (<i>λ</i>) is the ratio between the area under the curve and the area under the diagonal reference line.</p

Venn Diagrams for Significant Pathways (FDR < 0.05).

<p>Venn Diagrams for Significant Pathways (FDR < 0.05).</p

Additional file 1 of MiRKAT-S: a community-level test of association between the microbiota and survival times

PDF file includes supplemental tables (Tables S1–S3) and figures (Figures S1–S2). (PDF 933 kb

Tissue microarray data.

<p>Values are pathologist's scoring of number of cells stained (0–3) and intensity of staining (0–3) multiplied together. A) Representative tumor section stained for plectin. Note the membrane staining. B) Pathologist's scoring of human cancer biopsy specimens stained for plectin. C) Representative PDAC tumor biopsy section stained for pyruvate kinase M2. D) Pathologist's scoring of pyruvate kinase M2 stained human cancer biopsy tissue sections.</p

Validation of affinity partner for phage clones.

<p>A) Western blot of the protein that binds to clone 8, probed using anti-pyruvate kinase M2 antibody. B) ELISA of clone 8 incubated with purified pyruvate kinase M2, or with BSA or recombinant annexin A2 as negative controls. C) Western blot of cell fractionation using anti-pyruvate kinase M2 antibody D) ELISA on intact, non-permeabilized L3.6pl cells with anti-pyruvate kinase M2 antibody. E) Western blot of clone 15 associated protein probed with anti annexin A2 antibody. E) ELISA showing binding of clone 15 to annexin A2 protein. F) Western blot of cell fractionation using anti annexin A2 antibody. G) ELISA on intact, non-permeabilized L3.6pl cells with anti-Annexin A2 antibody.</p

Pulldown and mass spectroscopic analysis.

<p>Elution sample from Panc 8 (A) and Panc 15 (C) were run on SDS/PAGE then stained with coomassie. Sequence of pyruvate kinase M2 (B) and Annexin A2 (D), with peptides recovered from tryptic digest of the band from (A) and (C) in red.</p