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Number of anchored sequences (anchor_type_1, anchor_type_2 and anchor_type_3) and not anchored sequences was compared among individual covered region values representing different stringency of analysis.
Author's response: Probably, there are some theories of punctuational evolution based on different rate of mutations or different stringency of reparation processes during evolutionary stasis and during phase of accelerated evolution.
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ScanSite provides different stringencies of predictions.
We defined concordant infections with different stringencies of at least one and up to six HPV types present in two or three different specimens of one patient.
We explored three separate data sets with different stringencies of this filtering method, discarding contigs that had expression levels below 2, 3, and 4 FPKM in at least four groups.
The lists of the ORFs considered for each of the metabolic functions, for different stringencies of the criteria (i.e. cut-off in E-values) is presented in Additional file 2, whereas the data presented in Additional file 1 refer to a cut-off E-values of 1E-50.
Phylogenetic footprinting was applied at different stringency, to allow the following optimization of the protocol (below).
Genes consistently regulated by EWS-FLI1 in cell line models and primary tumors were identified by applying thresholds of different stringencies to the two gene lists (adjusted P-value cutoffs: 0.1 and 0.25, gene sets "GS1" and "GS2", respectively. For details, see Materials and Methods section).
The hybridization mix was washed with wash buffers of different stringency in the presence of magnetic beads (Streptavidin Dynabeads, Life Technologies) at 47°C and the eluate was post-capture PCR amplified (18 cycles) with Illumina PCR primers appropriate to the kit used.
We examined dosage compensation using two methods of filtering and several different stringencies for filtering contigs with low expression levels.
Attribution of each NP event is determined centrally using two composite attribution rules of different stringency.
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com