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To search for potential cooperating mutations, we performed Ion Torrent deep sequencing of recurrently mutated genes in AML [ 8].
To investigate a structural hypothesis for the effects of these mutations, we performed homology modeling of the pore region of wild-type and mutant KCNQ3 channels, using KvAP as a template.
To identify the corresponding genes of the new Stu mutations, we performed snip-SNP mapping (see Materials and Methods) [32].
To isolate such mutations, we performed a forward genetic selection for extragenic suppressors of the sec9-4 temperature-sensitive phenotype [27].
To confirm the pathogenicity of the newly identified mutations, we performed a series of in silico and expression level studies.
Because no database is available for such mutations, we performed a literature search and identified a number of cases.
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For quantitative analysis of the allele burden of the JAK2V617F mutation, we performed RQ-PCR using JAK2 MutaQuant™ (Ipsogen Inc., New Haven, CT, USA).
To further support the notion that Cav3.2/calnexin interaction is altered by the GAERS mutation, we performed co-immunoprecipitation experiments of Cav3.2 with calnexin from GAERS brain compared to its non-epileptic control (NEC) strain.
To determine whether CHO PR328 cells have this mutation, we performed RT-PCR and restriction digestion with MboII.
To confirm the presence of the tax-4 mutation, we performed a soluble compound chemotaxis assay, as described elsewhere [51].
In an attempt to gain insight into the ancestral origin and spread of the SCA10 mutation, we performed an extensive haplotype study using two closely linked STRs and four intragenic SNPs, in families from Brazil and Mexico.
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