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We will refer to this as a "gap gene" based model.
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Recently, Bolshoy et al. introduced a "gene-length based" model [ 14, 15], representing genomes as vectors of genes.
An Affymetrix GeneChip whole genome tiling array was designed, and analyzed at the gene and exon level analysis with a total of 524,909 sense strand probes (average of 16 probes per gene), based on gene model predicted transcripts for T. pseudonana, version 3.0 (http://genome.jgi-psf.org/Thaps3/Thaps3.home.html).html
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.
In our analysis we found an optimal distance between a modification to a target gene based on optimizing the model's performance.
In silico predictions of lethality can be made at the level of genes or reactions using constraint based models.
A statistical significant level was computed for each gene based on univariate proportional hazards models.
To address this question, we assigned PANTHER classification terms to the set of annotated X. tropicalis genes based on HHM models [ 33].
Only genes with CNA can be cancer driver genes based on the EPoC model.
Briefly, we defined nuclear genes based on the gene model coordinates defined in SpBase Build 6 based on the Spur v3.1 genome assembly (SpBase.org).org
The influence of any phenotype on methylation was done by identifying the differentiated genes based on the linear model "lm" in R.
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