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In the current study, we performed an integrated data analysis, combining gene expression profiles from our collected paired stage II CRC patient's samples, with genomic alteration data of 195 CRC samples, previously published by the Cancer Genome Atlas (TCGA) project, along with extracted results from more than 50 previously published microarray studies.
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(1) More alteration data: the next phase of the TCGA GBM project will be sequencing over 6,000 gene and microRNA targets in several hundred additional GBM cases, as well as a number of tumor and paired normal complete genome sequences.
This app is intended to help users easily investigate genomic alteration data in the context of biological networks.
However, hematoxylin/eosin staining of liver sections showed no macroscopic signs of tissue alteration (data not shown).
For patients in each subgroup, we identified significantly altered genes against the remaining samples based on the network-smoothed alteration data by SAM (SAM significance analysis of microarrays was originally designed for identifying differentially expressed genes) [ 47].
We were not able to detect any significant differences in gene expression patterns between the NaCl, NMDG-Cl or sucrose methods of tonicity alteration (data not shown).
By classifying patients into more homogeneous tumor groups, genomic alteration data also might allow the enrichment of patient subpopulations with genetic targets that are more likely to respond to specific molecularly targeted therapy.
Analysis of the M10 cells-derived metastatic MT10 and MG10 cells revealed the presence of identical gene alterations (data not shown).
The authors only once mention the important issue of need for restrictions on alteration of data, and only in the Box 1. Perhaps some mention of this issue would be helpful in the text as well.
As for NOAA's alteration of data, Smith again misunderstands the science.
Alteration of data is strictly controlled.
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