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Because rat genes are not as well annotated as human genes, the rat gene identities were mapped to human locuslink numbers of orthologues genes.
Like the mouse Mup genes, these rat genes are under multi-hormone regulation, are transcribed in the adult male liver and robustly expressed in urine, but are absent or barely detectable in the female and juvenile liver [28], [38].
The rat genes are also functionally annotated to the appropriate GO terms based on the rat experimental literature.
The rat genome is not complete, but homologous rat genes are located on chromosomes 2, 13 and 18.
Human and mouse orthologs of the rat genes are related to the dystrophin complex (p = 0.00311) which plays a role in development of skeletal muscle.
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About 11% of rat genes were juxtaposed to LAIR (designated LAIR proximal).
Rat genes were converted into orthologous human genes by using a mapping table provided by the Jackson laboratory (http://www.informatics.jax.org/).org/
The number of MREs for miR-29 and miR-15 family miRNAs in the rat genes is based on the sequences NM_012722 (Eln), NM_053304 (Col1and, aNM_053356356 (Col1a2).
Real-time PCR analysis of rat genes was performed by use of SYBR Green-based assays with the ABI 7300 Real-Time PCR System (Applied Biosystems, Foster City, CA) [29].
Overlapping transcription units with the same gene name, genomic position, and the direction of transcription were unified into a longest hypothetical transcript and the resulting compilation of 17,799 rat genes was named "exRefSeq" that designates "extended RefSeq".
Human, mouse and rat genes were included.
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