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Figure 4 | BMC Research Notes

Figure 4

From: Recent developments in StemBase: a tool to study gene expression in human and murine stem cells

Figure 4

Genomic viewer. (A) Genomic view of SAGE data. Sample S332 is a SAGE library obtained from differentiated neural stem cells. The view using the UCSC Genome Browser displays three SAGE tags (grey) whose identifiers indicate their chromosome and start position (in the Mouse Genome assembly from February 2006, version mm8) followed by sense, number of mapping locations, and tag counts in the library. The RefSeq Genes track shows only one gene (of uncharacterized function) in the region. Two SAGE tags overlap with the 3'UTR of the gene suggesting the expression of this gene and of an anti-sense transcript to this gene, respectively. The leftmost tag suggests the expression of a second transcript downstream this gene consistent with the data shown in the spliced ESTs track. (B) Combined view of SAGE and microarray data. The view shows another region of murine chromosome 6, which encodes the three genes analyzed in Figure 1, indicated by the RefSeq genes track (blue): Klrg1, M6pr and Phc1. In addition to the data from the SAGE library displayed in part A of the figure, additional tracks show data from another two samples. Those are its counterpart SAGE library (S331, neural stem cells) and a sample of DNA microarray of embryonic stem cells undergoing differentiation (S127). All three samples suggest lack of expression of the Klrg1 gene in these tissues: no SAGE tags overlapping with it and probe set 1420788_at for a transcript of this gene indicates no gene expression (green). The other two genes are expressed in the conditions represented.

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