SSTF Genes (1691 genes; 3574 probe sets) Repressed by Lbx1 in the Neural Tube (4%)

aCategories and classes according to TRANSFAC (Braunschweig, Germany)
bBold indicates known nodes or predicted active nodes that behave like known nodes (Kioussi et al., 2006). Underline indicates other predicted active nodes with greater than 1.3 fold partitioning.
cNames according to Mouse Genome Informatics (MGI). Bold indicates SSTFs of the known set (Kioussi et al., 2006).
dEstimated regional expression in the developing neural tube. Estimates are based on expression data linked to the SSTF's MGI website. Expression was observed somewhere between E9.5 and E13.5. Accurate RNA in situ data at E12.5 and double-labeling immunohistochemical data are often not available. Codesare as follows: “+”, region specific expression observed; vz, ventricular zone; pm, postmitotic layer or mantle zone; svz, subventricular zone between vz and pm; d, dorsal; v, ventral; dc, dorsalcommissural; da; dorsal association; ns, not seen; nd, no data available.
eSandelin et al., 2004 lists the 150 largest clusters of ultra conserved regions (non-coding) in the entire mammalian genome (1 is the largest ,150 is the smallest on their list). The number shown indicates the position of this SSTF on their list. “+” indicates that the UCR cluster is enriched in Sox, Pou and homeodomain binding sites (Bailey et al., 2006).
fValues are the average and standard deviation from three microarray values. Data shown is from the probe set with the highest average signal, in all 12 arrays, of those that passed the t-test, or, if none passed t-test, of all.
gProbe sets that passed the 1.3 fold threshold 35 to 84 possible permutations of three pairwise, logical AND comparisons (bold) were selected to establish the initial SSTF gene list. All other probe sets corresponding to these genes were identified in the UCSC genome browser and were added to the table (plain text). Multiple probe sets for a given gene were ranked by their average signal in all 12 arrays an their fold change listed. Asterisk (*) indicates that a probe set failed the t-test at the 95% confidence interval. Dagger (†) indicates that the average signal intensity of the probe set was below 30 (or <0.1% of maximum).