Using a stringent filtering method, we identified 3.1 million SNPs, 193 thousand INDELs, and 282 CNVs.
A total of 892,803 SNP polymorphisms were identified among the ten accessions of B. napus, using a stringent filtering approach favouring high quality SNPs over exhaustive SNP sampling to provide a resource of immediate value for crop improvement.
Using a stringent filtering process we identified 136 genes, including the well-studied detoxification enzymes (p450 monoxygenases and esterases) and non-detoxification genes (e.g. cell transporters and cuticular components), associated with pyrethroid resistance, whose basal expression level increased during the timeframe of the study.
Using a stringent filter, we identified ∼7.6 million single-nucleotide polymorphisms (SNPs) and 8,839 copy number variations (CNVs) in the mapped regions; 42% of the SNPs have not found in other chickens before.
Regions of differential copy number alteration between SCLC and NSCLC genomes were identified using a stringent multistep filtering process.
BDTPs in sorghum, rice, and Arabidopsis were functionally associated with mitochondria using a stringent score filter value, and were associated with the nucleus in all five species using a non-stringent score filter value.
Using a stringent bioinformatic filter, Thiagarajan et al. (Thiagarajan et al., 2011) selected ~250 putative anchor genes, which are defined as genes with expression restricted to one of 11 subcompartments within the developing mouse kidney.
Using a stringent set of filters in conjunction with the potato reference genome, we identified 69,011 high confidence SNPs from these six cultivars for use in genotyping with the Infinium platform.
Using a stringent set of filters to address intron/exon boundaries, paralogs, non-biallelic SNPs and Illumina design specifications, we were able to identify 69,011 high confidence SNPs from Atlantic, Bintje, Kennebec, Premier Russet, Shepody, and Snowden that could be used on a SNP genotyping platform (Additional File 2).
To minimize false discovery, single-peptide hits among the 1520 provisional proteins were filtered using a stringent multistep cross-validation process as outlined in Methods S1.
The primary DAVID output was filtered using a stringent EASE score of 0.001 and demanding that the retrieved GO gene set is covered by more than 10 genes within the analyzed data set, equivalent to a coverage of at least 2.6% (11/420) and 1.5% (11/746) of the differentially expressed genes.
