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Most importantly, as predicted by our data set, AMLs with NPM1 mutations were characterized by significantly higher expression of HOTAIRM1 compared to NPM1-wild type samples in both AML cohorts (P Welsh's < 10−7 and P Welsh's < 10−15; Supplementary Fig. 3c, d).
Surprisingly, this analysis revealed that patients carrying B-RAF mutations had an impaired survival, whereas patients with N-RAS mutations were characterized by a favorable prognosis, each in comparison with the wildtype gene status.
Unknown mutations were characterized by direct sequencing of the PCR-amplified product of α2- and α1-globin genes.
ARID1A mutations were identified by exome sequencing, and PIK3CA mutations were characterized by MALDI-TOF mass spectrometry.
Finally, genes showing lineage-specific patterns of differential expression not linked directly to primary mutations were characterized by a striking overrepresentation of toxin antitoxin pairs.
Considering the report by Garbern et al. (2010) that human SLC9A6 mutations were characterized by tau deposition in brain, western blots were performed to determine whether changes could be detected in phosphorylated tau in brains of Slc9a6 mutants.
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This stems from the 'long-tail phenomenon' which states that cancer mutations are characterized by a small number of frequently mutated genes and a large number of infrequently mutated genes [ 18, 19].
In particular, MCP mutations are characterized by a high rate of incomplete penetrance, appearing to be a predisposing factor for TMA development, rather than causative of TMA.
The time dynamics of the detected mutations was characterized by isolating 24 colonies every 200 generations over the course of the experiment and amplifying a ~700-bp PCR product containing the putative single nucleotide polymorphism (SNP) from each isolate.
The brains of patients with progranulin mutations are characterized by nuclear and cytoplasmic inclusions that contain TDP-43 that is aberrantly cleaved, phosphorylated and ubiquitinated [11], [12].
Phenotypically, the asymptomatic heterozygous carriers of FMF mutations are characterized by the elevated levels of markers of inflammation such as CRP, SAA, and INF-γ [53], [54] and by specific glycosylation of AGP [55].
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