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There was also substantial variation in the genomic classification of the 100% histologically normal tissue.
In general, the genomic classification of the 24 lines was consistent with the proteomic classification of the 24 lines.
More detailed pangenomic analyses with higher resolution are required to perform a better genomic classification of tumours, to advance in the classification of atypical profiles, and to determine a common nomenclature.
TP53 was the most commonly mutated gene in a recent genomic classification of lung cancer and found in both small cell and non-small cell lung cancers (The Clinical Lung Cancer Genome Project (CLCGP) and Network Genomic Medicine (NGM), 2013).
miRIAD contains the genomic classification of all miRNAs (inter- and intragenic), as well as classification of all protein-coding genes into host or non-host genes (depending on whether they contain an intragenic miRNA or not).
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To assess the performance characteristics of genomic classification to systematic error from normal contamination, we collected 55 tumor samples and paired tumor-adjacent normal tissue.
In the near future, the knowledge gained by the ongoing efforts of genomic classification from complete genome sequencing of patient tumors and PDX is expected to drive the next generation of preclinical clinical trials aimed at personalizing cancer therapy.
We establish a framework for genomic classification into one of four subtypes based on the pattern of the most prevalent significantly mutated genes: mutant BRAF, mutant RAS, mutant NF1, and Triple-WT (wild-type).
Finally, in order to assess the therapeutic relevance of genomic classification, we used computational models to determine the activation status of oncogenic pathways, for which specific targeted inhibitors are in clinical development in sarcoma, and studied the association of pathway activation with histologic subtype and chemoresponse.
Owing to the prevalence of feature-selection in genomic classification, we also consider gene-expression-based classification of breast-cancer patient prognosis.
This set was used for genomic classification (Table 3) The aim of cDNA nebulization was to maximize the sampling of sequence length.
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