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CAI was calculated using the webpage http://www.cbib.u-bordeaux2.fr/pise/cai.html.html
From the homepage, users can access pages to search annotations, search GO terms, view a list of currently annotated genomes, and access quick help about using the webpage.
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However, a website can capture much more — we can know how many people used the webpage, how much time they spent, when they visited, where they moved their mouse, what part of the world they are visiting from and maybe even who they are.
Use the webpage search function.
It should be noted that among these results (individual or the combined approach), the webpages would be extracted using the known webpage structure and, as discussed in section 5.2, may contain some additional content besides the song lyrics (such as some type of advertisement).
For these nine genomes, a CRISPR region was searched by using the CRISPRFinder webpage (Grissa et al. 2007).
HGT predictions based on the SIGI-HMM method were downloaded and computed using the Islandviewer webpage [ 49– 51].
Using the FlyMine webpage (Lyne et al. 2007), we found 535 genes with the gene ontology (GO) designation mitochondria in the D. melanogaster genome.
Potential splice variants were filtered a second time by blasting them against the stickleback (Gasterosteus aculeatus) genome where possible, or otherwise the green puffer fish (Tetraodon nigroviridis) genome using the Ensembl webpage BLAT algorithm [ 62].
The siRNA used to silence Raf-1 was designed using the siDESIGN webpage (Thermo Fischer Scientific), and targets the nucleotide in position 414 of the open reading frame of rat Raf-1 (NCBI accession number NM_012639.2). shRNA lentiviral infection was performed when required, in order to assess the effects of FLIP-L knockdown by knockdown strategy or to overexpress FLIP-L.
There were two waves of think aloud studies: the first 4 used draft webpages still on paper or PowerPoint slide, the latter 6 were undertaken completely using the prototype webpages on LifeGuide.
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com