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The database was also populated with Entrez Gene data and Gene Reference Into Function (RIF) files available at NCBI's FTP site (ftp://ftp.ncbi.nlm.nih.gov/gene/; data was retrieved from NCBI on April 26 , 2007, which we filtered on their taxonomic ID for mouse entries; Gene RIF interaction data are used in constructing graphs of known interactions in StarNet.
Robustness is achieved through bootstrapping all candidate reference gene data and obtaining the bootstrap upper confidence limits for the variances of the log-transformed normalizing factors.
Gene data and annotations were stored in the GeoSoft database.
To retrieve gene data and non-coding sequence, some programs and web-tools are available.
Again, there is a good overall correspondence between the profiles obtained from the reporter gene data and the direct measurements.
We first conducted a recombination test for the nuclear gene data and did not detect any recombination event at both global and pairwise levels.
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We developed a novel approach for granular, cross-study analysis of gene-by-gene data and their relationships with established prognostic features and patient outcome.
Pearson' s (parametric) correlations (r) were calculated on single genes data and graphs were drawn binning by expression (bin = 5% of the dataset).
Third, in the GEICAM/9906 and CALGB/9741 cohorts, we only had PAM50 50-gene data, and thus we were not able to test whether further identification of the claudin-low subtype (and other TNBC signatures) might have improved the survival predictions.
LWM participated in pathogenicity gene data interpretation and final manuscript elaboration.
It is based on gene expression data and gene function (gene ontology [ 17]) data and their algorithm does not directly consider a phylogeny, but evolutionary conservation is used.
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