Although the presumed zebrafish ngn3 ortholog appears not to be functionally equivalent to the mouse gene based on timing and localization of expression [ 6, 23], NeuroD is expressed in early precursors that give rise to all endocrine cells in both mouse and zebrafish [ 24- 27].
Here we report an extensive survey of human and mouse homeobox genes based on their most recent genome assemblies, providing the first comprehensive analysis of mouse homeobox genes and updating an earlier survey of human homeobox genes.
The sequences of experimentally verified transcripts with known protein products of one-to-one human-mouse orthologous genes, based on the Ensembl release 54 http://www.ensembl.org, were retrieved through BioMart [ 35].
Additional assignment of orthology between fly and mouse genes was based on experimental data.
For (f), lists of mouse genes were converted to human genes based upon a mapping of human-mouse orthologues.
Hspa13, Fkbp9 and Actr10 were identified in a mouse differential expression study that selected genes based on the correlation between mRNA expression level and incubation time across a range of inbred mice (11).
Expression data [8] for the three mouse cells were employed to stratify genes based on expression level.
We mapped either mouse genes or Drosophila genes to human genes based on HomoloGene (release number 67, NCBI).
Similarly, Table S5a[ 39] the mouse DISEASE/PHENOTYPE-to-Gene list is used as a source for gene sets for mouse phenotypes (MP gene sets) comprised of unique gene based mouse genetic models.
