Chromosomal loci of putative non-coding RNAs.

<p>The chromosomal loci of the clone Nos. 42 (A), 61 (B), and 74 (C) of <a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0079236#pone-0079236-t001" target="_blank">Table 1</a> are shown. The span and direction of the RNAs are shown by red arrows below the screen shots from the UCSC Genome Browser on Mouse July 2007 (NCBI37/mm9) Assembly.</p

Genes activated by LPS and IFNγ.

a<p>Genes obtained by subtractive cloning are marked “S”.</p

Subtraction efficiency evaluated by cDNA microarray analysis.

<p>An in-house microarray containing cDNA clones derived from the control cells (gray bars, 97 spots in total), LPS/IFNγ-stimulated cells (white bars, 105 spots), and subtracted products (black bars, 124 spots) was prepared, and analyzed for changes in the mRNA levels in response to LPS and IFNγ. The percentages of the clones that had altered mRNA levels indicated in the horizontal axis are plotted for each clone group.</p

Monitoring subtraction processes.

<p>PCR-amplified cDNA mixtures (0.2 µg) derived from the control cells (C), cells stimulated by LPS and IFNγ (L/I), first-round subtracted products (S1), and second-round subtracted products (S2) were electrophoresed, stained (top panel), and subjected to Southern analysis to detect the cDNAs of interferon gamma inducible protein 47 (IFI47) and glyceraldehyde-3-phosphate dehydrogenase (GAPDH).</p

Schematic illustration of cDNA amplification (A) and subsequent subtraction (B).

<p>See the text for explanation.</p

Time course of changes in mRNA levels of several genes in response to LPS and IFNγ.

<p>Total RNAs were prepared from primary-cultured neuronal/glial cells stimulated by IFNγ (I), LPS (L), or both (I/L) for indicated periods. RNAs (0.5 µg per lane) were electrophoresed and subjected to Northern analysis for the indicated mRNAs and for GAPDH mRNA as a control. Below the chemiluminogram, the densitometrically quantified band intensities are shown. “−” indicates that the band intensity was below the detectable level.</p