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To further confirm that the increased amount of coding mutations in MSI cancers can be generalized and is not due to the technology used ('array' enrichment and 454 sequencing) we sequenced the exomes of four additional colorectal cancers, each with matching normal tissues.
For this purpose, additional frozen tissues of pancreatic cancers were collected without matching normal tissues.
There were 65 tumors with matching normal tissues adjacent to the tumors.
Genome-wide transcriptomic profiles were obtained for 53 primary OTSCCs and 22 matching normal tissues.
Consequently, even though many gene promoters become hypermethylated, overall cancers are hypomethylated compared with matching normal tissues.
The high prevalence and specificity of this cancer glycophenotype is remarkable, with matching normal tissues and benign tumours expressing much lower levels.
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Finally, matching normal tissue is not necessary for methylation assays, in contrast to LOH.
Tumour and matching normal tissue was available from 48 NSCLC patients in the independent series.
When matching normal tissue was not available, a DNA mixture from several normal breast tissues was used as a control.
We isolated a differentially expressed sequence (F1. 4) in a DD analysis of RNA from HNSCC and matching normal tissue.
The cancer tissues and matched normal tissues were procured from Tissue Procurement Core at Washington University Siteman Cancer Center (St .Louis, Missouri, United States).
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com