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Pederson et al. developed phylogenetics stochastic context-free grammar (phylo-SCFG), and identified 48,479 candidate RNA structures using the same genome alignments.
To better compare the two studies, we re-analyzed the Catalán et al. (2012) RNA-seq data using the same genome annotation, mapping software, and statistical methods that we applied to the Malpighian tubule data (see Materials and Methods).
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In each pair of matched cases and controls, all subjects are genotyped using the same genome-wide platform.
To overcome this limitation, we identified peaks from both ChIP-chip and ChIP-seq profiles using the same genome-scanning heuristic (see the Methods section).
SynapDx uses the same genome sequencers from companies like Illumina that many other genomic data startups are using.
In a previous study we used the same genome wide tools to identify the mechanisms of Gemcitabine resistance [ 32].
While both databases use the same genome context methods to derive functional linkages they both differ in the statistical procedures and scoring systems they use to provide high quality interactions.
We have used the same genomes and libraries as Salzber et al. [ 24] (the Staphylococus aureus genome and the human chromosome 14) and Deshpande et al. [ 6] (the Escherichia coli genome).
To quantify VLPs, Reverse transcriptase activity was determined and compared to that of PBj vectors of known infectivity on HT1080 cells, assuming that RT activity is equal for infectious and non-infectious particles generated using the same vector genome.
using the same primary genome sequence.
Table 3 shows several contiguity, coverage and quality metrics computed using the same reference genome and QUAST command-line for the three assemblies.
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