Visualization of the networks of genes differentially expressed between microglia and macrophages in wild type mice.

<p>Red (green) nodes denote genes over- (under-) expressed in microglia relative to macrophages. Node size denotes the P-value (large nodes indicate a more extreme nominal P-value < 0.0001 and small nodes indicate P-values between 0.05 and 0.0001). Edges denote known relationships between genes and framed genes (red square) are discussed.</p

Differentially expressed genes (FDR-adjusted P-value < 0.001) between wild type (WT) and IDO1-knockout (IDO1-KO) mice within cell type, including log₂(fold ratio) and supporting literature review reference.

<p>Differentially expressed genes (FDR-adjusted P-value < 0.001) between wild type (WT) and IDO1-knockout (IDO1-KO) mice within cell type, including log₂(fold ratio) and supporting literature review reference.</p

Visualization of the networks of genes differentially expressed between IDO1-knock out (IDO1-KO) and wild type (WT) mice in macrophages.

<p>Red (green) nodes indicate genes over- (under-) expressed in IDO1-KO relative to wild type. Node size indicate the P-value (large nodes indicate a more extreme nominal P-value < 0.0001 and small nodes indicate a P-value between 0.05 and 0.0001). Edges denote known relationships between genes and framed genes (red square) are discussed.</p

Most extreme differentially expressed genes (|log₂(fold change)| > 6, FDR-adjusted P-value < 5.0 x 10⁻⁵) between microglia and macrophages in wild type mice.

<p>Most extreme differentially expressed genes (|log₂(fold change)| > 6, FDR-adjusted P-value < 5.0 x 10⁻⁵) between microglia and macrophages in wild type mice.</p

Network of genes under-expressed in microglia relative to macrophages in wild type mice (|log2(fold change)| >|6, FDR-adjusted P-value < 5.0 x 10⁻⁵) visualized using STRING.

<p>Edges represented by thicker lines denote stronger associations than thinner lines. Node size reflects the structural information associated with the protein coded by the gene. The node color facilitates visualization. Framed genes (red square) are discussed.</p

Enriched Gene Set Enrichment Analysis categories (FDR-adjusted P-value < 0.01and > 10 transcript isoforms within category) encompassing transcript isoforms under-expressed in microglia relative to macrophages.

<p>Enriched Gene Set Enrichment Analysis categories (FDR-adjusted P-value < 0.01and > 10 transcript isoforms within category) encompassing transcript isoforms under-expressed in microglia relative to macrophages.</p

Number of genes and transcript isoforms analyzed and differentially expressed between microglia and macrophages within and between IDO1-knockout (KO) and wild type (WT) mice.

<p>Number of genes and transcript isoforms analyzed and differentially expressed between microglia and macrophages within and between IDO1-knockout (KO) and wild type (WT) mice.</p

Relative location of the PHD finger protein 11 d (Phf11d) transcript isoforms associated with an alternative splicing event between microglia and macrophages (Ensembl, http://www.ensembl.org).

<p>Red denotes Ensembl protein coding, orange denotes merged Ensembl/Havana protein coding, and blue denotes processed transcript non-protein coding.</p

Enriched (DAVID Enrichment score ES > 2) functional cluster of categories encompassing transcript isoforms differentially expressed between IDO1-knockout and wild type mice within cell type.

<p>Enriched (DAVID Enrichment score ES > 2) functional cluster of categories encompassing transcript isoforms differentially expressed between IDO1-knockout and wild type mice within cell type.</p

Relative location of the H2A histone family, member Y (H2afy) transcript isoforms associated with an alternative splicing event between microglia and macrophages (Ensembl, http://www.ensembl.org).

<p>Red denotes Ensembl protein coding, orange denotes merged Ensembl/Havana protein coding, and blue denotes processed transcript non-protein coding.</p